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7531 publications

PubMed DOI Crossref
Intrinsic deletion at 10q23.31, including the PTEN gene locus, is aggravated upon CRISPR-Cas9-mediated genome engineering in HAP1 cells mimicking cancer profiles.
Geng K, Merino LG, Veiga RG, ..., Brinkman EK, Kutter C
Life Sci. Alliance 7 (2) - [2024-02-00; online 2023-11-20]
Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
DOI Crossref
Using guaiacol as a capping agent in the hydrothermal depolymerisation of kraft lignin
Ahlbom A, Maschietti M, Nielsen R, Hasani M, Theliander H
- 38 (4) 619-631 [2023-12-15; online 2023-09-26]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Effect of anode material and dispersal limitation on the performance and biofilm community in microbial electrolysis cells.
Abadikhah M, Liu M, Persson F, ..., Sun J, Modin O
Biofilm 6 (-) 100161 [2023-12-15; online 2023-10-10]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Balanced chromosomal rearrangements implicate YIPF5 and SPATC1L in non-obstructive oligoasthenozoospermia and oligozoospermia and of a derivative chromosome 22 in recurrent miscarriage.
David D, Fino J, Oliveira R, Dória S, Morton CC
Gene 887 (-) 147737 [2023-12-15; online 2023-08-23]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial transcriptomics of B cell and T cell receptors reveals lymphocyte clonal dynamics.
Engblom C, Thrane K, Lin Q, ..., Lundeberg J, Frisén J
Science 382 (6675) eadf8486 [2023-12-08; online 2023-12-08]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Gut bacteria at 6 months of age are associated with immune cell status in 1‐year‐old children
Nilsen M, Nygaard UC, Brodin P, ..., Vettukattil R, Rudi K
Scand J Immunol - (-) - [2023-12-07; online 2023-12-07]
Cellular Immunomonitoring [Collaborative]
PubMed DOI Crossref
Three-dimensional reconstruction of interstitial extracellular vesicles in human liver as determined by electron tomography.
Olofsson Bagge R, Berndtsson J, Urzì O, ..., Micaroni M, Crescitelli R
J Extracell Vesicles 12 (12) e12380 [2023-12-00; online 2023-11-27]
Integrated Microscopy Technologies Gothenburg [Collaborative]
PubMed DOI Crossref
The impact of AI-based modeling on the accuracy of protein assembly prediction: Insights from CASP15.
Ozden B, Kryshtafovych A, Karaca E
Proteins 91 (12) 1636-1657 [2023-12-00; online 2023-10-20]
Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Tertiary structure assessment at CASP15.
Simpkin AJ, Mesdaghi S, Sánchez Rodríguez F, ..., Keegan RM, Rigden DJ
Proteins 91 (12) 1616-1635 [2023-12-00; online 2023-09-25]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Patterns of phylogenetic diversification in the Dollarbird (Eurystomus orientalis) and Azure Roller (Eurystomus azureus) complex.
Johansson US, Irestedt M, Ericson PGP
Mol. Phylogenet. Evol. 189 (-) 107909 [2023-12-00; online 2023-08-22]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Lipid- and substrate-induced conformational and dynamic changes in a glycosyltransferase involved in E. coli LPS synthesis revealed by 19F and 31P NMR.
Patrick J, Pettersson P, Mäler L
Biochimica et Biophysica Acta (BBA) - Biomembranes 1865 (8) 184209 [2023-12-00; online 2023-08-07]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Genome-scale phylogeny and comparative genomics of the fungal order Sordariales.
Hensen N, Bonometti L, Westerberg I, ..., Hiltunen Thorén M, Johannesson H
Mol. Phylogenet. Evol. 189 (-) 107938 [2023-12-00; online 2023-10-10]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Flexure wood formation via growth reprogramming in hybrid aspen involves jasmonates and polyamines and transcriptional changes resembling tension wood development.
Urbancsok J, Donev EN, Sivan P, ..., Street NR, Mellerowicz EJ
New Phytol. 240 (6) 2312-2334 [2023-12-00; online 2023-10-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Defective Uterine Spiral Artery Remodeling and Placental Senescence in a Pregnant Rat Model of Polycystic Ovary Syndrome.
Hu M, Zhang Y, Zhang X, ..., Shao LR, Billig H
Am. J. Pathol. 193 (12) 1916-1935 [2023-12-00; online 2023-09-07]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
An epigenome-wide analysis of sex hormone levels and DNA methylation in male blood samples.
Harbs J, Rinaldi S, Keski-Rahkonen P, ..., Van Guelpen B, Harlid S
Epigenetics 18 (1) 2196759 [2023-12-00; online 2023-03-31]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
An enriched maternal environment and stereotypies of sows differentially affect the neuro-epigenome of brain regions related to emotionality in their piglets.
Tatemoto P, Pértille F, Bernardino T, ..., Guerrero-Bosagna C, Zanella AJ
Epigenetics 18 (1) 2196656 [2023-12-00; online 2023-05-16]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Advanced optical imaging reveals preferred spatial orientation of podocyte processes along the axis of glomerular capillaries.
Unnersjö-Jess D, Ramdedovic A, Butt L, ..., Schermer B, Benzing T
Kidney Int. 104 (6) 1164-1169 [2023-12-00; online 2023-09-27]
Integrated Microscopy Technologies Stockholm [Collaborative]
PubMed DOI Crossref
The genetic legacy of the expansion of Bantu-speaking peoples in Africa.
Fortes-Lima CA, Burgarella C, Hammarén R, ..., Bostoen K, Schlebusch CM
Nature - (-) - [2023-11-29; online 2023-11-29]
NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pathogenic DDX41 variants, possible response predictors to low-dose melphalan in hypo- and normocellular MDS and AML.
Nyquist OE, Dalgaard J, Spetalen S, ..., Baliakas P, Dybedal I
Br. J. Haematol. - (-) - [2023-11-28; online 2023-11-28]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Calmodulin regulates protease versus co-chaperone activity of a metacaspase.
Eisele-Bürger AM, Eisele F, Malmgren Hill S, ..., Bozhkov PV, Nyström T
Cell Rep 42 (11) 113372 [2023-11-28; online 2023-11-08]
Glycoproteomics [Service]
PubMed DOI Crossref
Ultralight Ultrafast Enzymes.
Zhang X, Meng Z, Beusch C, ..., Gaetani M, Zubarev R
Angew. Chem. Int. Ed. Engl. - (-) e202316488 [2023-11-27; online 2023-11-27]
Chemical Proteomics [Technology development]
PubMed DOI Crossref
Metabolomic profiles of intact tissues reflect clinically relevant prostate cancer subtypes.
Dudka I, Lundquist K, Wikström P, Bergh A, Gröbner G
J Transl Med 21 (1) 860 [2023-11-27; online 2023-11-27]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Infants' looking preferences for social versus non-social objects reflect genetic variation.
Portugal AM, Viktorsson C, Taylor MJ, ..., Ronald A, Falck-Ytter T
Nat Hum Behav - (-) - [2023-11-27; online 2023-11-27]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
DNA elements tether canonical Polycomb Repressive Complex 1 to human genes.
Barrasa JI, Kahn TG, Lundkvist MJ, Schwartz YB
Nucleic Acids Res. 51 (21) 11613-11633 [2023-11-27; online 2023-10-19]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Evaluation of circulating plasma proteins in breast cancer using Mendelian randomisation.
Mälarstig A, Grassmann F, Dahl L, ..., Czene K, Hedman ÅK
Nat Commun 14 (1) 7680 [2023-11-24; online 2023-11-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Combined NMR and molecular dynamics conformational filter identifies unambiguously dynamic ensembles of Dengue protease NS2B/NS3pro.
Agback T, Lesovoy D, Han X, ..., Achour A, Agback P
Commun Biol 6 (1) 1193 [2023-11-24; online 2023-11-24]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
The heat shock protein LarA activates the Lon protease in response to proteotoxic stress.
Omnus DJ, Fink MJ, Kallazhi A, ..., Landreh M, Jonas K
Nat Commun 14 (1) 7636 [2023-11-22; online 2023-11-22]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Covid-19 vaccine effectiveness against post-covid-19 condition among 589 722 individuals in Sweden: population based cohort study.
Lundberg-Morris L, Leach S, Xu Y, ..., Nyberg F, Bygdell M
BMJ 383 (-) e076990 [2023-11-22; online 2023-11-22]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Clinical, genetic and structural delineation of RPL13-related spondyloepimetaphyseal dysplasia suggest extra-ribosomal functions of eL13.
Jacob P, Lindelöf H, Rustad CF, ..., Girisha KM, Grigelioniene G
npj Genom. Med. 8 (1) 39 [2023-11-22; online 2023-11-22]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Changes in cell wall composition due to a pectin biosynthesis enzyme GAUT10 impact root growth.
Dash L, Swaminathan S, Šimura J, ..., Zabotina OA, Kelley DR
Plant Physiol. 193 (4) 2480-2497 [2023-11-22; online 2023-08-22]
Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
FAIR+E pathogen data for surveillance and research: lessons from COVID-19
Neves A, Cuesta I, Hjerde E, ..., Waheed Z, Blomberg N
Front Public Health 11 (-) - [2023-11-21; online 2023-11-21]
Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Elucidation of the Binding Orientation in α2,3- and α2,6-Linked Neu5Ac-Gal Epitopes toward a Hydrophilic Molecularly Imprinted Monolith.
Huynh CM, Mavliutova L, Sparrman T, Sellergren B, Irgum K
ACS Omega 8 (46) 44238-44249 [2023-11-21; online 2023-11-06]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Complex norovirus transmission dynamics at hospital wards revealed by deep sequencing.
Widström J, Andersson ME, Westin J, ..., Lindh M, Rydell GE
J. Clin. Microbiol. 61 (11) e0060823 [2023-11-21; online 2023-10-27]
Clinical Genomics Gothenburg [Service]
DOI Crossref
Structures of theStaphylococcus aureusribosome inhibited by fusidic acid and fusidic acid cyclopentane
González-López A, Larsson DSD, Koripella RK, ..., Sanyal S, Selmer M
- - (-) - [2023-11-20; online 2023-11-20]
Cryo-EM [Service]
PubMed DOI Crossref
Molecular view of ER membrane remodeling by the Sec61/TRAP translocon.
Karki S, Javanainen M, Rehan S, ..., Happonen L, Paavilainen V
EMBO Rep. - (-) e57910 [2023-11-20; online 2023-11-20]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Glycan complexity and heterogeneity of glycoproteins in somatic extracts and secretome of the infective stage of the helminth Fasciola hepatica.
De Marco Verissimo C, Cwiklinski K, Nilsson J, ..., Karlsson NG, Dalton JP
Mol. Cell Proteomics - (-) 100684 [2023-11-20; online 2023-11-20]
Glycoproteomics [Service]
PubMed DOI Crossref
Dysregulations in hemostasis, metabolism, immune response, and angiogenesis in post-acute COVID-19 syndrome with and without postural orthostatic tachycardia syndrome: a multi-omic profiling study.
Mahdi A, Zhao A, Fredengren E, ..., Pernow J, Ståhlberg M
Sci Rep 13 (1) 20230 [2023-11-19; online 2023-11-19]
Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serum DHEA and Testosterone Levels Associate Inversely With Coronary Artery Calcification in Elderly Men.
Ohlsson C, Nethander M, Norlén A, ..., Gudnason V, Tivesten Å
J. Clin. Endocrinol. Metab. 108 (12) 3272-3279 [2023-11-17; online 2023-07-01]
Clinical Genomics Gothenburg [Collaborative]
Patient-derived xenografts and single-cell sequencing identifies three subtypes of tumor-reactive lymphocytes in uveal melanoma metastases
Karlsson J, Sah VR, Olofsson R, ..., Nilsson LM, Nilsson JA
eLife - (-) - [2023-11-16]
Spatial Proteomics [Service]
PubMed DOI Crossref
Structure and function of the S. pombe III-IV-cyt c supercomplex.
Moe A, Dimogkioka AR, Rapaport D, Öjemyr LN, Brzezinski P
Proc. Natl. Acad. Sci. U.S.A. 120 (46) e2307697120 [2023-11-14; online 2023-11-08]
Cryo-EM [Service]
Following the herd: Population genetics of European sheep in time and space
Morell Miranda P
Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology - (-) - [2023-11-14; online 2023-11-14]
Ancient DNA [Service]
PubMed DOI Crossref
Development and validation of a quantitative Proximity Extension Assay instrument with 21 proteins associated with cardiovascular risk (CVD-21).
Siegbahn A, Eriksson N, Assarsson E, ..., Åberg M, Wallentin L
PLoS ONE 18 (11) e0293465 [2023-11-14; online 2023-11-14]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Demonstration of reduced efficacy against cyathostomins without change in species composition after pyrantel embonate treatment in Swedish equine establishments.
Hedberg Alm Y, Halvarsson P, Martin F, ..., Törngren V, Tydén E
International Journal for Parasitology: Drugs and Drug Resistance 23 (-) 78-86 [2023-11-14; online 2023-11-14]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Whole-genome resequencing facilitates the development of a 50K single nucleotide polymorphism genotyping array for Scots pine (Pinus sylvestris L.) and its transferability to other pine species.
Estravis Barcala M, van der Valk T, Chen Z, ..., Nilsson O, Wu HX
Plant J. - (-) - [2023-11-10; online 2023-11-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Collaborative] NGI Stockholm (Genomics Production) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Improving diagnostic precision in primary ovarian insufficiency using comprehensive genetic and autoantibody testing.
Vogt EC, Bratland E, Berland S, ..., Husebye E, Øksnes M
Hum. Reprod. - (-) - [2023-11-09; online 2023-11-09]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service]
DOI Crossref
Dissecting the properties of circulating IgG against Group A Streptococcus through a combined systems antigenomics-serology workflow
Chowdhury S, Gomez Toledo A, Hjortswang E, ..., Rasmussen M, Malmström J
- - (-) - [2023-11-09; online 2023-11-09]
Structural Proteomics [Collaborative]
PubMed DOI Crossref
Single-cell transcriptomics of human traumatic brain injury reveals activation of endogenous retroviruses in oligodendroglia.
Garza R, Sharma Y, Atacho DAM, ..., Jakobsson J, Marklund N
Cell Rep - (-) 113395 [2023-11-08; online 2023-11-08]
Clinical Genomics Lund [Service]
DOI Crossref
Retrieval of long DNA reads from herbarium specimens
Quatela AS, Cangren P, Jafari F, ..., de Boer H, Oxelman B
AoB Plants - (-) - [2023-11-08; online 2023-11-08]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Autoantibodies against type I IFNs in humans with alternative NF-κB pathway deficiency.
Le Voyer T, Parent AV, Liu X, ..., Casanova JL, Puel A
Nature - (-) - [2023-11-08; online 2023-11-08]
Autoimmunity and Serology Profiling [Service]
DOI Crossref
Activity and Stability of Nanoconfined Alpha-Amylase in Mesoporous Silica
Iqbal MN, Jaworski A, Pinon AC, Bengtsson T, Hedin N
ACS Mater. Au 3 (6) 659-668 [2023-11-08; online 2023-08-04]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
TGF-β induces matrisome pathological alterations and EMT in patient-derived prostate cancer tumoroids.
Fernandes S, Cruz JO, Morazzo S, ..., Filipensky P, Forte G
Matrix Biol. - (-) - [2023-11-07; online 2023-11-07]
Glycoproteomics [Service]
PubMed DOI Crossref
The genomics and evolution of inter-sexual mimicry and female-limited polymorphisms in damselflies.
Willink B, Tunström K, Nilén S, ..., Svensson EI, Wheat CW
Nat Ecol Evol - (-) - [2023-11-06; online 2023-11-06]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Regulation of the general stress response sigma factor σT by Lon-mediated proteolysis.
Akar R, Fink MJ, Omnus DJ, Jonas K
J. Bacteriol. 205 (11) e0022823 [2023-11-06; online 2023-11-06]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
On the Conformation of Dimeric Acceptors and Their Polymer Solar Cells with Efficiency over 18 .
Wu J, Ling Z, Franco LR, ..., Anthopoulos TD, Wang E
Angew. Chem. Int. Ed. Engl. 62 (45) e202302888 [2023-11-06; online 2023-07-18]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
BLR: a flexible pipeline for haplotype analysis of multiple linked-read technologies.
Höjer P, Frick T, Siga H, ..., Martin M, Ahmadian A
Nucleic Acids Res. - (-) - [2023-11-06; online 2023-11-06]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service]
PubMed DOI Crossref
Antigen-presenting autoreactive B cells activate regulatory T cells and suppress autoimmune arthritis in mice.
Aoun M, Coelho A, Krämer A, ..., Burkhardt H, Holmdahl R
J. Exp. Med. 220 (11) - [2023-11-06; online 2023-09-11]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
LINE-1 retrotransposons drive human neuronal transcriptome complexity and functional diversification.
Garza R, Atacho DAM, Adami A, ..., Douse CH, Jakobsson J
Sci Adv 9 (44) eadh9543 [2023-11-03; online 2023-11-01]
Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Development of mesothelioma-specific oncolytic immunotherapy enabled by immunopeptidomics of murine and human mesothelioma tumors.
Chiaro J, Antignani G, Feola S, ..., Lehtiö J, Cerullo V
Nat Commun 14 (1) 7056 [2023-11-03; online 2023-11-03]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
UROSCAN and UROSCANSEQ: a large-scale multicenter effort towards translation of molecular bladder cancer subtypes into clinical practice – from biobank to RNA-sequencing in real time
Liedberg F, Abrahamsson J, Bernardo C, ..., Sjödahl G, Eriksson P
Scandinavian Journal of Urology 57 (1-6) 2-9 [2023-11-02; online 2022-12-20]
Clinical Genomics Lund [Collaborative]
DOI Crossref
The development of foliar fungal communities of nursery-grown Pinus sylvestris seedlings
Larsson R, Menkis A, Skogström O, ..., Larsson M, Olson Å
Scandinavian Journal of Forest Research - (-) 1-16 [2023-11-02; online 2023-11-02]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel PNKP mutations associated with reduced DNA single-strand break repair and severe microcephaly, seizures, and developmental delay.
Thuresson AC, Brazina J, Akram T, ..., Soussi Zander C, Caldecott KW
Mol Genet Genomic Med - (-) e2295 [2023-11-02; online 2023-11-02]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
High-resolution comparative atomic structures of two Giardiavirus prototypes infectingG. duodenalisparasite
Wang H, Gianluca M, Munke A, ..., Lalle M, Okamoto K
- - (-) - [2023-11-02; online 2023-11-02]
Cryo-EM [Service]
PubMed DOI Crossref
Structure and dynamics of differential ligand binding in the human ρ-type GABAA receptor.
Cowgill J, Fan C, Haloi N, ..., Howard RJ, Lindahl E
Neuron 111 (21) 3450-3464.e5 [2023-11-01; online 2023-09-01]
Cryo-EM [Service]
PubMed DOI Crossref
Exploring different methodological approaches to unlock paleobiodiversity in peat profiles using ancient DNA.
Fracasso I, Zaccone C, Oskolkov N, ..., Ventura M, Borruso L
Sci. Total Environ. 908 (-) 168159 [2023-11-01; online 2023-11-01]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Evidence of Site-Specific and Male-Biased Germline Mutation Rate in a Wild Songbird.
Zhang H, Lundberg M, Tarka M, Hasselquist D, Hansson B
Genome Biol Evol 15 (11) - [2023-11-01; online 2023-10-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The intracellular helical bundle of human glucose transporter GLUT4 is important for complex formation with ASPL.
Huang P, Åbacka H, Varela D, ..., André I, Lindkvist-Petersson K
FEBS Open Bio 13 (11) 2094-2107 [2023-11-00; online 2023-09-28]
Structural Proteomics [Collaborative]
DOI Crossref
Targeting oxidation sites on boreal acid sulfate soil macropore surfaces mitigates acid and metal release to recipient water streams
Högfors-Rönnholm E, Stén P, Christel S, ..., Dopson M, Engblom S
Applied Geochemistry 158 (-) 105779 [2023-11-00; online 2023-11-00]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Structure and electromechanical coupling of a voltage-gated Na+/H+ exchanger.
Yeo H, Mehta V, Gulati A, Drew D
Nature 623 (7985) 193-201 [2023-11-00; online 2023-10-25]
Cryo-EM [Service]
PubMed DOI Crossref
Smoking affects epigenetic ageing of lung bronchoalveolar lavage cells in Multiple Sclerosis.
Klose D, Needhamsen M, Ringh MV, ..., Jagodic M, Kular L
Mult Scler Relat Disord 79 (-) 104991 [2023-11-00; online 2023-09-09]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Sensitivity of the SARS-CoV-2 BA.2.86 variant to prevailing neutralising antibody responses.
Sheward DJ, Yang Y, Westerberg M, ..., Albert J, Murrell B
Lancet Infect Dis 23 (11) e462-e463 [2023-11-00; online 2023-09-27]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Protein profiling in plasma for biomarkers of seizure.
Akel S, Banote RK, Asztely F, Zelano J
Epilepsy Res 197 (-) 107241 [2023-11-00; online 2023-10-11]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Preanalytic handling of clinical blood samples in assessing immunological proteins - Role of storage duration.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 114 (-) 163-164 [2023-11-00; online 2023-08-16]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Physical activity in childhood and later risk of inflammatory bowel disease: A Scandinavian birth cohort study.
Lerchova T, Östensson M, Sigvardsson I, ..., Mårild K, Ludvigsson J
United European Gastroenterol J 11 (9) 874-883 [2023-11-00; online 2023-10-04]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Nutrient availability and grazing influence the strength of priority effects during freshwater bacterial community coalescence.
Lumpi T, Guo X, Lindström ES
Environ. Microbiol. 25 (11) 2289-2302 [2023-11-00; online 2023-06-28]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Long-Term Pollution Does Not Inhibit Denitrification and DNRA by Adapted Benthic Microbial Communities.
Broman E, Abdelgadir M, Bonaglia S, ..., Nascimento FJA, Sjöling S
Microb. Ecol. 86 (4) 2357-2372 [2023-11-00; online 2023-05-24]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Intramammary infections and risk factors in freshly calved heifers in Swedish dairy herds.
Persson Waller K, Lundberg Å, Börjesson S, Nyman AK
J Dairy Sci 106 (11) 7893-7907 [2023-11-00; online 2023-05-18]
Clinical Genomics Stockholm [Service]
DOI Crossref
Influenza A mediated pre-existing immunity levels to SARS-CoV-2 could predict early COVID-19 outbreak dynamics
Almazán NM, Rahbar A, Carlsson M, ..., Sörensen B, Söderberg-Nauclér C
iScience - (-) 108441 [2023-11-00; online 2023-11-00]
Drug Discovery and Development (DDD) [Service]
PubMed DOI Crossref
Inclusion body myositis with early onset: a population-based study.
Lindgren U, Hedberg-Oldfors C, Pullerits R, Lindberg C, Oldfors A
J. Neurol. 270 (11) 5483-5492 [2023-11-00; online 2023-07-27]
Clinical Genomics Gothenburg [Service]
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Host Phylogeny Structures the Gut Bacterial Community Within Galerucella Leaf Beetles.
An Y, Braga MP, Garcia SL, Grudzinska-Sterno M, Hambäck PA
Microb. Ecol. 86 (4) 2477-2487 [2023-11-00; online 2023-06-14]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Graphene Oxide Attenuates Toxicity of Amyloid‐β Aggregates in Yeast by Promoting Disassembly and Boosting Cellular Stress Response
Chen X, Pandit S, Shi L, ..., Petranovic D, Mijakovic I
Adv Funct Materials 33 (45) - [2023-11-00; online 2023-07-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Global blood miRNA profiling unravels early signatures of immunogenicity of Ebola vaccine rVSVΔG-ZEBOV-GP
Vianello E, Persson J, Andersson B, ..., Ottenhoff THM, Harandi AM
iScience - (-) 108574 [2023-11-00; online 2023-11-00]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Genotypic characterization of Staphylococcus chromogenes and Staphylococcus simulans from Swedish cases of bovine subclinical mastitis.
Persson Waller K, Myrenås M, Börjesson S, ..., Östlund E, Cha W
J Dairy Sci 106 (11) 7991-8004 [2023-11-00; online 2023-08-23]
Clinical Genomics Stockholm [Service]
DOI Crossref
Exonic trinucleotide repeat expansions in ZFHX3 cause spinocerebellar ataxia type 4: A poly-glycine disease
Wallenius J, Kafantari E, Jhaveri E, ..., Ehrencrona H, Puschmann A
The American Journal of Human Genetics - (-) - [2023-11-00; online 2023-11-00]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Comprehensive analyses of circulating cardiometabolic proteins and objective measures of fat mass.
Titova OE, Brunius C, Warensjö Lemming E, ..., Michaëlsson K, Larsson SC
Int J Obes (Lond) 47 (11) 1043-1049 [2023-11-00; online 2023-08-07]
Affinity Proteomics Uppsala [Service]
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CGG toolkit: Software components for computational genomics.
Vasileiou D, Karapiperis C, Baltsavia I, ..., Enright AJ, Ouzounis CA
PLoS Comput. Biol. 19 (11) e1011498 [2023-11-00; online 2023-11-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Body Mass Index and the Risk of Rheumatic Disease: Linear and Nonlinear Mendelian Randomization Analyses.
Karlsson T, Hadizadeh F, Rask-Andersen M, Johansson Å, Ek WE
Arthritis & rheumatology (Hoboken, N.J.) 75 (11) 2027-2035 [2023-11-00; online 2023-09-28]
Bioinformatics Compute and Storage [Service]
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An atlas of genetic determinants of forearm fracture.
Nethander M, Movérare-Skrtic S, Kämpe A, ..., Richards JB, Ohlsson C
Nat. Genet. 55 (11) 1820-1830 [2023-11-00; online 2023-11-02]
Clinical Genomics Gothenburg [Collaborative]
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In-depth immune profiling reveals advanced B- and T-cell differentiation to be associated with Th1-driven immune dysregulation in common variable immunodeficiency.
Hultberg J, Blixt E, Göransson R, ..., Ernerudh J, Nyström S
Clin. Immunol. 257 (-) 109816 [2023-10-31; online 2023-10-31]
Affinity Proteomics Uppsala [Service]
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Early-Life Hygiene-Related Factors and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Guo A, Östensson M, Størdal K, Ludvigsson J, Mårild K
Inflamm Bowel Dis - (-) - [2023-10-31; online 2023-10-31]
Clinical Genomics Gothenburg [Collaborative]
DOI Crossref
Synthesis of Metal–Organic Frameworks through Enzymatically Recycled Polyethylene Terephthalate
Cao Z, Fu X, Li H, ..., Zelezniak A, Mijakovic I
ACS Sustainable Chem. Eng. 11 (43) 15506-15512 [2023-10-30; online 2023-09-21]
Swedish NMR Centre (SNC) [Service]
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Structural and biophysical analysis of a Haemophilus influenzae tripartite ATP-independent periplasmic (TRAP) transporter
Currie MJ, Davies JS, Scalise M, ..., Dobson RCJ, North RA
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Cryo-EM [Service]
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Proteomics reveal biomarkers for diagnosis, disease activity and long-term disability outcomes in multiple sclerosis.
Åkesson J, Hojjati S, Hellberg S, ..., Ernerudh J, Gustafsson M
Nat Commun 14 (1) 6903 [2023-10-30; online 2023-10-30]
Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Effects of Wholegrain Compared to Refined Grain Intake on Cardiometabolic Risk Markers, Gut Microbiota, and Gastrointestinal Symptoms in Children: A Randomized Crossover Trial.
Madsen MTB, Landberg R, Nielsen DS, ..., Lauritzen L, Damsgaard CT
Am. J. Clin. Nutr. - (-) - [2023-10-28; online 2023-10-28]
Chalmers Mass Spectrometry Infrastructure [Service]
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Reduction of body weight by increased loading is associated with activation of norepinephrine neurones in the medial nucleus of the solitary tract.
Zlatkovic J, Dalmau Gasull A, Hägg D, ..., Anesten F, Jansson JO
J Neuroendocrinol - (-) e13352 [2023-10-26; online 2023-10-26]
Integrated Microscopy Technologies Gothenburg [Service]
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Mucosal and Serum Antibodies 3 Weeks after Symptomatic BA.2.86 Infection.
Bladh O, Greilert-Norin N, Havervall S, ..., Klingström J, Thålin C
N. Engl. J. Med. 389 (17) 1626-1628 [2023-10-26; online 2023-10-27]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Translatome analysis of tuberous sclerosis complex 1 patient-derived neural progenitor cells reveals rapamycin-dependent and independent alterations.
Aksoylu IS, Martin P, Robert F, ..., Larsson O, Ramesh V
Mol Autism 14 (1) 39 [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The Release and Spread of Basidiospores of Red-Listed Wood-Decay Fungus Fistulina hepatica in Oak Stands
Marčiulynas A, Menkis A
Diversity 15 (11) 1110 [2023-10-25; online 2023-10-25]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Complete Mitochondrial DNA Genome Variation in the Swedish Population.
Sturk-Andreaggi K, Bodner M, Ring JD, ..., Marshall C, Allen M
Genes 14 (11) - [2023-10-25; online 2023-10-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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aMeta: an accurate and memory-efficient ancient metagenomic profiling workflow.
Pochon Z, Bergfeldt N, Kırdök E, ..., Unneberg P, Oskolkov N
Genome Biol. 24 (1) 242 [2023-10-23; online 2023-10-23]
Ancient DNA [Technology development] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Polymorphic parasitic larvae cooperate to build swimming colonies luring hosts.
Krupenko D, Miroliubov A, Kryukov E, ..., Kastriti ME, Adameyko I
Curr. Biol. 33 (20) 4524-4531.e4 [2023-10-23; online 2023-09-22]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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LPMO-supported saccharification of biomass: effects of continuous aeration of reaction mixtures with variable fractions of water-insoluble solids and cellulolytic enzymes.
Tang C, Gandla ML, Jönsson LJ
Biotechnol Biofuels Bioprod 16 (1) 156 [2023-10-21; online 2023-10-21]
Integrated Microscopy Technologies Umeå [Service] Swedish NMR Centre (SNC) [Service]
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Screening for atypical porcine pestivirus in Swedish boar semen used for artificial insemination and a characterisation of the seminal RNA microbiome including the virome.
Stenberg H, Malmberg M, Hayer J
BMC Vet Res 19 (1) 219 [2023-10-20; online 2023-10-20]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Synergistic metabolism of salivary MUC5B in oral commensal bacteria during early biofilm formation.
Robertsson C, Svensäter G, Davies JR, ..., Malmodin D, Wickström C
Microbiol Spectr - (-) e0270423 [2023-10-19; online 2023-10-19]
Swedish NMR Centre (SNC) [Collaborative]
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FBXL12 degrades FANCD2 to regulate replication recovery and promote cancer cell survival under conditions of replication stress.
Brunner A, Li Q, Fisicaro S, ..., Orre LM, Sangfelt O
Mol. Cell 83 (20) 3720-3739.e8 [2023-10-19; online 2023-08-16]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Low Circulating Valine Associate With High Risk of Hip Fractures.
Grahnemo L, Eriksson AL, Nethander M, ..., Pettersson-Kymmer U, Ohlsson C
J. Clin. Endocrinol. Metab. 108 (11) e1384-e1393 [2023-10-18; online 2023-05-14]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Untargeted plasma metabolomics and risk of colorectal cancer-an analysis nested within a large-scale prospective cohort.
Vidman L, Zheng R, Bodén S, ..., Brunius C, Van Guelpen B
Cancer Metab 11 (1) 17 [2023-10-17; online 2023-10-17]
Chalmers Mass Spectrometry Infrastructure [Service]
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Range-wide and temporal genomic analyses reveal the consequences of near-extinction in Swedish moose.
Dussex N, Kurland S, Olsen RA, ..., Dalén L, Laikre L
Commun Biol 6 (1) 1035 [2023-10-17; online 2023-10-17]
Bioinformatics Compute and Storage [Service] NGI Other [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Collaborative] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Fungi Inhabiting Stem Wounds of Quercus robur following Bark Stripping by Deer Animals
Marčiulynas A, Sirgedaitė-Šėžienė V, Menkis A
Forests 14 (10) 2077 [2023-10-17; online 2023-10-17]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Modified N-acyl-L-homoserine lactone compounds abrogate Las-dependent quorum-sensing response in human pathogen Pseudomonas aeruginosa.
Ballante F, Turkina MV, Ntzouni M, Magnusson KE, Vikström E
Front Mol Biosci 10 (-) 1264773 [2023-10-16; online 2023-10-16]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Endothelial VEGFR2-PLCγ signaling regulates vascular permeability and antitumor immunity through eNOS/Src.
Sjöberg E, Melssen M, Richards M, ..., Dimberg A, Claesson-Welsh L
J. Clin. Invest. 133 (20) - [2023-10-16; online 2023-10-16]
Global Proteomics and Proteogenomics [Service]
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Design, structure and plasma binding of ancestral β-CoV scaffold antigens.
Hueting D, Schriever K, Sun R, ..., Andréll J, Syrén PO
Nat Commun 14 (1) 6527 [2023-10-16; online 2023-10-16]
Cryo-EM [Service] Drug Discovery and Development (DDD) [Service]
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Associations between the Bacterial Composition of Farm Bulk Milk and the Microbiota in the Resulting Swedish Long-Ripened Cheese.
Sun L, Höjer A, Johansson M, ..., Dicksved J, Lundh Å
Foods 12 (20) - [2023-10-16; online 2023-10-16]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Deficiency of the Heterogeneous Nuclear Ribonucleoprotein U locus leads to delayed hindbrain neurogenesis.
Mastropasqua F, Oksanen M, Soldini C, ..., Bölte S, Tammimies K
Biol Open 12 (10) - [2023-10-15; online 2023-10-10]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Single-Cell RNA Analysis Reveals Cell-Intrinsic Functions of CAR T Cells Correlating with Response in a Phase II Study of Lymphoma Patients.
Sarén T, Ramachandran M, Gammelgård G, ..., Enblad G, Essand M
Clin. Cancer Res. 29 (20) 4139-4152 [2023-10-13; online 2023-08-04]
Affinity Proteomics Uppsala [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Rewiring of the promoter-enhancer interactome and regulatory landscape in glioblastoma orchestrates gene expression underlying neurogliomal synaptic communication.
Chakraborty C, Nissen I, Vincent CA, ..., Hörnblad A, Remeseiro S
Nat Commun 14 (1) 6446 [2023-10-13; online 2023-10-13]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Integrated Genomic and Transcriptomic Analysis Improves Disease Classification and Risk Stratification of MDS with Ring Sideroblasts.
Todisco G, Creignou M, Bernard E, ..., Papaemmanuil E, Hellström-Lindberg E
Clin. Cancer Res. 29 (20) 4256-4267 [2023-10-13; online 2023-07-27]
Bioinformatics Compute and Storage [Service] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Genome-wide DNA methylation profiling in Lyme neuroborreliosis reveals altered methylation patterns of HLA genes.
Henningsson AJ, Hellberg S, Lerm M, Sayyab S
J. Infect. Dis. - (-) - [2023-10-12; online 2023-10-12]
Clinical Genomics Linköping [Service]
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Open-source, high-throughput targeted in-situ transcriptomics for developmental biologists
Lee H, Langseth CM, Salas SM, ..., Grillo M, Nilsson M
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In Situ Sequencing (ISS) [Technology development]
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Multivalent antigen display on nanoparticle immunogens increases B cell clonotype diversity and neutralization breadth to pneumoviruses.
Ols S, Lenart K, Arcoverde Cerveira R, ..., King NP, Loré K
Immunity 56 (10) 2425-2441.e14 [2023-10-10; online 2023-09-08]
Bioinformatics Support, Infrastructure and Training [Service]
PubMed DOI Crossref
Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH.
Lysenkova Wiklander M, Övernäs E, Lagensjö J, ..., Liljedahl U, Nordlund J
BMC Res Notes 16 (1) 265 [2023-10-10; online 2023-10-10]
Bioinformatics Compute and Storage [Service] NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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BirthSeq, a new method to isolate and analyze dated cells from any tissue in vertebrates
Rueda-Alaña E, Grillo M, Vazquez E, ..., Nilsson M, García-Moreno F
- - (-) - [2023-10-10; online 2023-10-10]
In Situ Sequencing (ISS) [Service]
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An end-to-end workflow for multiplexed image processing and analysis.
Windhager J, Zanotelli VRT, Schulz D, ..., Bodenmiller B, Eling N
Nat Protoc - (-) - [2023-10-10; online 2023-10-10]
BioImage Informatics [Service]
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Transfer of cetirizine/levocetirizine into human breast milk and estimation of drug exposure to infants through breastfeeding - a human lactation study from the ConcePTION project.
Nordeng H, Wegler C, Lindqvist A, ..., Baranczewski P, Spigset O
Basic Clin Pharmacol Toxicol - (-) - [2023-10-09; online 2023-10-09]
Drug Discovery and Development (DDD) [Collaborative]
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Exploring the differences in serum metabolite profiles after intake of red meat in women with rheumatoid arthritis and a matched control group.
Lindqvist HM, Gjertsson I, Hulander E, Bärebring L, Winkvist A
Eur J Nutr - (-) - [2023-10-09; online 2023-10-09]
Swedish NMR Centre (SNC) [Service]
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Low mutation load in a supergene underpinning alternative male mating strategies in ruff (Calidris pugnax).
Hill J, Enbody ED, Bi H, ..., Widemo F, Andersson L
Mol. Biol. Evol. - (-) - [2023-10-06; online 2023-10-06]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Introgression underlies phylogenetic uncertainty but not parallel plumage evolution in a recent songbird radiation.
Rancilhac L, Enbody ED, Harris R, ..., Andersson L, Alström P
Syst. Biol. - (-) - [2023-10-06; online 2023-10-06]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Mitochondrial heteroplasmic shifts reveal a positive selection of breast cancer.
Li Y, Sundquist K, Vats S, ..., Sundquist J, Memon AA
J Transl Med 21 (1) 696 [2023-10-05; online 2023-10-05]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Proteomic profiling identifies novel inflammation-related plasma proteins associated with ischemic stroke outcome.
Angerfors A, Brännmark C, Lagging C, ..., Jern C, Stanne TM
J Neuroinflammation 20 (1) 224 [2023-10-04; online 2023-10-04]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Metabolomic and transcriptomic analyses identify external conditions and key genes underlying high levels of toxic glycoalkaloids in tubers of stress-sensitive potato cultivars.
Merino I, Guasca AO, Krmela A, ..., Schulzova V, Sitbon F
Front Plant Sci 14 (-) 1210850 [2023-10-04; online 2023-10-04]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Copy number variations and their effect on the plasma proteome.
Schmitz D, Li Z, Lo Faro V, ..., Rafati N, Johansson Å
Genetics - (-) - [2023-10-04; online 2023-10-04]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Spatial transcriptomic analysis of virtual prostate biopsy reveals confounding effect of tissue heterogeneity on genomic signatures.
Figiel S, Yin W, Doultsinos D, ..., Cussenot O, Lamb AD
Mol. Cancer 22 (1) 162 [2023-10-03; online 2023-10-03]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Photo-physical characterization of high triplet yield brominated fluoresceins by transient state (TRAST) spectroscopy.
Demirbay B, Baryshnikov G, Haraldsson M, ..., Ågren H, Widengren J
Methods Appl. Fluoresc. 11 (4) - [2023-10-03; online 2023-10-03]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Clinical and genetic analyses of a Swedish patient series diagnosed with ataxia.
Gorcenco S, Kafantari E, Wallenius J, ..., Karrman K, Puschmann A
J. Neurol. - (-) - [2023-10-03; online 2023-10-03]
Clinical Genomics Lund [Service]
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The long non-coding RNA LINC00707 interacts with Smad proteins to regulate TGFβ signaling and cancer cell invasion.
Gélabert C, Papoutsoglou P, Golán I, ..., Caja L, Moustakas A
Cell Commun Signal 21 (1) 271 [2023-10-02; online 2023-10-02]
NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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A T cell receptor targeting a recurrent driver mutation in FLT3 mediates elimination of primary human acute myeloid leukemia in vivo.
Giannakopoulou E, Lehander M, Virding Culleton S, ..., Woll PS, Olweus J
Nat Cancer - (-) - [2023-10-02; online 2023-10-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Elevated Adipocyte Membrane Phospholipid Saturation Does Not Compromise Insulin Signaling.
Palmgren H, Petkevicius K, Bartesaghi S, ..., Peng XR, Pilon M
Diabetes 72 (10) 1350-1363 [2023-10-01; online 2022-12-30]
Integrated Microscopy Technologies Gothenburg [Service]
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The dynamics of touch-responsive gene expression in cereals.
Darwish E, Ghosh R, Bentzer J, ..., Sirijovski N, Van Aken O
Plant J. 116 (1) 282-302 [2023-10-00; online 2023-06-08]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
The disease-causing mutation p.F907I reveals a novel pathogenic mechanism for POLγ-related diseases.
Erdinc D, Macao B, Valenzuela S, ..., Wredenberg A, Falkenberg M
Biochim Biophys Acta Mol Basis Dis 1869 (7) 166786 [2023-10-00; online 2023-06-10]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Similarity in milk microbiota in replicates.
Dahlberg J, Pelve E, Dicksved J
Microbiologyopen 12 (5) e1383 [2023-10-00; online 2023-10-25]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
SARS-CoV-2-related mortality decrease in nursing home residents given multiple COVID-19 boosters.
Blom K, Fjällström P, Molnár C, ..., Forsell MNE, Johansson AF
Lancet Infect Dis 23 (10) e393-e394 [2023-10-00; online 2023-09-13]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Quantification of proteomic profile changes in the hemolymph of crayfish during in vitro coagulation.
Mengal K, Kor G, Siino V, ..., Levander F, Niksirat H
Dev. Comp. Immunol. 147 (-) 104760 [2023-10-00; online 2023-06-16]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Precision medicine in rare diseases: What is next?
Tesi B, Boileau C, Boycott KM, ..., Nordgren A, Lindstrand A
J. Intern. Med. 294 (4) 397-412 [2023-10-00; online 2023-06-01]
Clinical Genomics Stockholm [Collaborative]
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Precision cancer medicine: Concepts, current practice, and future developments.
Edsjö A, Holmquist L, Geoerger B, ..., Siu LL, Stenzinger A
J. Intern. Med. 294 (4) 455-481 [2023-10-00; online 2023-08-28]
Global Proteomics and Proteogenomics [Technology development]
PubMed DOI Crossref
Origin matters: Using a local reference genome improves measures in population genomics.
Thorburn DJ, Sagonas K, Binzer-Panchal M, ..., Lenz TL, Eizaguirre C
Mol Ecol Resour 23 (7) 1706-1723 [2023-10-00; online 2023-07-25]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Lowering of Circulating Sclerostin May Increase Risk of Atherosclerosis and Its Risk Factors: Evidence From a Genome-Wide Association Meta-Analysis Followed by Mendelian Randomization.
Zheng J, Wheeler E, Pietzner M, ..., Davey Smith G, Tobias JH
Arthritis & rheumatology (Hoboken, N.J.) 75 (10) 1781-1792 [2023-10-00; online 2023-08-03]
Clinical Genomics Gothenburg [Service]
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Increased MYB alternative promoter usage is associated with relapse in acute lymphoblastic leukemia.
Fehr A, Arvidsson G, Nordlund J, ..., Stenman G, Andersson MK
Genes Chromosomes Cancer 62 (10) 597-606 [2023-10-00; online 2023-05-23]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Durability of antireflective SiO2 coatings with closed pore structure
Zäll E, Karlsson S, Järn M, ..., Lundberg P, Wågberg T
Solar Energy Materials and Solar Cells 261 (-) 112521 [2023-10-00; online 2023-10-00]
Integrated Microscopy Technologies Umeå [Service]
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Decontamination of biofilm-contaminated implant surfaces: An in vitro evaluation.
Ichioka Y, Virto L, Nuevo P, ..., Sanz M, Berglundh T
Clin Oral Implants Res 34 (10) 1058-1072 [2023-10-00; online 2023-07-20]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Circulating soluble IL-6 receptor associates with plaque inflammation but not with atherosclerosis severity and cardiovascular risk.
Edsfeldt A, Gonçalves I, Vigren I, ..., Khan F, Nilsson J
Vascul Pharmacol 152 (-) 107214 [2023-10-00; online 2023-08-25]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
B cell polygenic risk scores associate with anti-dsDNA antibodies and nephritis in systemic lupus erythematosus.
Hedenstedt A, Reid S, Sayadi A, ..., Sandling JK, Leonard D
Lupus Sci Med 10 (2) - [2023-10-00; online 2023-10-17]
NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Alterations in the Serum Proteome Following Electroconvulsive Therapy for a Major Depressive Episode: A Longitudinal Multicenter Study.
Göteson A, Clements CC, Juréus A, ..., Pålsson E, Landén M
Biol Psychiatry Glob Open Sci 3 (4) 884-892 [2023-10-00; online 2022-12-12]
Affinity Proteomics Uppsala [Service]
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APP-BACE1 Interaction and Intracellular Localization Regulate Aβ Production in iPSC-Derived Cortical Neurons.
Roselli S, Satir TM, Camacho R, ..., Zetterberg H, Agholme L
Cell Mol Neurobiol 43 (7) 3653-3668 [2023-10-00; online 2023-06-24]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
A glycomic workflow for LC-MS/MS analysis of urine glycosaminoglycan biomarkers in mucopolysaccharidoses.
Nilsson J, Persson A, Vorontsov E, ..., Larson G, Blomqvist M
Glycoconj J 40 (5) 523-540 [2023-10-00; online 2023-07-18]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
Whole genome sequence of the deep-sea sponge Geodia barretti (Metazoa, Porifera, Demospongiae).
Steffen K, Proux-Wéra E, Soler L, ..., Sundh J, Cárdenas P
G3 (Bethesda) 13 (10) - [2023-09-30; online 2023-08-25]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Inflammatory Gene Profile and Particle Presence in Peri-Implant Mucosa: a Pilot Study on 9 Patients.
Olander J, Barkarmo S, Hammarström Johansson P, Wennerberg A, Stenport VF
J Oral Maxillofac Res 14 (3) e2 [2023-09-30; online 2023-09-30]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Targeting Toll-like receptor-driven systemic inflammation by engineering an innate structural fold into drugs.
Petruk G, Puthia M, Samsudin F, ..., Lindstedt S, Schmidtchen A
Nat Commun 14 (1) 6097 [2023-09-29; online 2023-09-29]
Clinical Genomics Lund [Service] Structural Proteomics [Collaborative]
PubMed DOI Crossref
Community-wide genome sequencing reveals 30 years of Darwin's finch evolution.
Enbody ED, Sendell-Price AT, Sprehn CG, ..., Grant PR, Andersson L
Science 381 (6665) eadf6218 [2023-09-29; online 2023-09-29]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Oral fungal profiling and risk of nasopharyngeal carcinoma: a population-based case-control study.
Chen Y, Li W, Chang ET, ..., Zhang Z, Ye W
EBioMedicine 96 (-) 104813 [2023-09-28; online 2023-09-28]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
The relative impact of parental and current environment on plant transcriptomes depends on type of stress and genotype.
Earley TS, Feiner N, Alvarez MF, Coolon JD, Sultan SE
Proc. Biol. Sci. 290 (2007) 20230824 [2023-09-27; online 2023-09-27]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Single-cell transcriptomics delineates the immune cell landscape in equine lower airways and reveals upregulation of FKBP5 in horses with asthma.
Riihimäki M, Fegraeus K, Nordlund J, ..., Hellman L, Raine A
Sci Rep 13 (1) 16261 [2023-09-27; online 2023-09-27]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prevalence of SARS-CoV-2 Omicron Sublineages and Spike Protein Mutations Conferring Resistance against Monoclonal Antibodies in a Swedish Cohort during 2022-2023.
Haars J, Palanisamy N, Wallin F, ..., Kaden R, Lennerstrand J
Microorganisms 11 (10) - [2023-09-27; online 2023-09-27]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Exploiting solid-state dynamic nuclear polarization NMR spectroscopy to establish the spatial distribution of polymorphic phases in a solid material.
Cousin SF, Hughes CE, Ziarelli F, ..., Pinon AC, Thureau P
Chem. Sci. 14 (37) 10121-10128 [2023-09-27; online 2023-06-23]
Swedish NMR Centre (SNC) [Technology development]
PubMed DOI Crossref
CO2 Mineralization by MgO Nanocubes in Nanometric Water Films.
Luong NT, Veyret N, Boily JF
ACS Appl Mater Interfaces 15 (38) 45055-45063 [2023-09-27; online 2023-09-14]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
The draft genome of the microscopic Nemertoderma westbladi sheds light on the evolution of Acoelomorpha genomes.
Abalde S, Tellgren-Roth C, Heintz J, Vinnere Pettersson O, Jondelius U
Front Genet 14 (-) 1244493 [2023-09-26; online 2023-09-26]
Bioinformatics Compute and Storage [Service] NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Single-cell multiomics of human fetal hematopoiesis define a developmental-specific population and a fetal signature.
Sommarin MNE, Olofzon R, Palo S, ..., Karlsson G, Böiers C
Blood Adv 7 (18) 5325-5340 [2023-09-26; online 2023-06-28]
Clinical Genomics Lund [Service]
DOI Crossref
Equine enteroid-derived monolayers recapitulate key features of parasitic intestinal nematode infection
Hellman S, Martin F, Tydén E, ..., Svedberg P, Fossum C
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Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
The cryo-EM structure of the BoNT/Wo-NTNH complex reveals two immunoglobulin-like domains.
Košenina S, Škerlová J, Zhang S, Dong M, Stenmark P
FEBS J. - (-) - [2023-09-25; online 2023-09-25]
Cryo-EM [Service]
PubMed DOI Crossref
Molecular anatomy of adult mouse leptomeninges.
Pietilä R, Del Gaudio F, He L, ..., Andrae J, Betsholtz C
Neuron - (-) - [2023-09-25; online 2023-09-25]
Bioinformatics Compute and Storage [Service]
DOI Crossref
Unmasking AlphaFold: integration of experiments and predictions in multimeric complexes
Mirabello C, Wallner B, Nystedt B, Azinas S, Carroni M
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Cryo-EM [Technology development]
PubMed DOI Crossref
Fast and sensitive validation of fusion transcripts in whole-genome sequencing data.
Hafstað V, Häkkinen J, Persson H
BMC Bioinformatics 24 (1) 359 [2023-09-23; online 2023-09-23]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
The microbial biodiversity at the archeological site of Tel Megiddo (Israel).
Zhang Y, Ruff SE, Oskolkov N, ..., Mason CE, Elhaik E
Front Microbiol 14 (-) 1253371 [2023-09-22; online 2023-09-22]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Multivalent design of the monoclonal SynO2 antibody improves binding strength to soluble α-Synuclein aggregates.
Petersen I, Ali MI, Petrovic A, ..., Bondza S, Hultqvist G
MAbs 15 (1) 2256668 [2023-09-22; online 2023-09-22]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Comprehensive proteomics and meta-analysis of COVID-19 host response.
Babačić H, Christ W, Araújo JE, ..., Klingström J, Pernemalm M
Nat Commun 14 (1) 5921 [2023-09-22; online 2023-09-22]
Global Proteomics and Proteogenomics [Collaborative]
PubMed DOI Crossref
Childhood Socioeconomic Characteristics and Risk of Inflammatory Bowel Disease: A Scandinavian Birth Cohort Study.
Sigvardsson I, Størdal K, Östensson M, ..., Ludvigsson J, Mårild K
Inflamm Bowel Dis - (-) - [2023-09-22; online 2023-09-22]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Selected β-glucans act as immune-training agents by improving anti-mycobacterial activity in human macrophages - a pilot study.
Braian C, Karlsson L, Das J, Lerm M
J Innate Immun 15 (1) 751-764 [2023-09-21; online 2023-09-21]
Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Non-classical HLA-E restricted CMV 15-mer peptides are recognized by adaptive NK cells and induce memory responses.
Martín Almazán N, Sala BM, Sandalova T, ..., Achour A, Sarhan D
Front Immunol 14 (-) 1230718 [2023-09-21; online 2023-09-21]
Global Proteomics and Proteogenomics [Service]
PubMed DOI Crossref
Detection of transcriptome-wide microRNA-target interactions in single cells with agoTRIBE.
Sekar V, Mármol-Sánchez E, Kalogeropoulos P, ..., Biryukova I, Friedländer MR
Nat. Biotechnol. - (-) - [2023-09-21; online 2023-09-21]
Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Strict self-isolation did not protect Swedish cancer patients on active treatment from the risk of becoming seropositive for SARS-CoV-2.
Ginman B, Pahnke S, Freyhult E, ..., Enblad G, Glimelius I
Acta Oncol - (-) 1-9 [2023-09-20; online 2023-09-20]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Identification of Novel Glycans in the Mucus Layer of Shark and Skate Skin.
Bachar-Wikstrom E, Thomsson KA, Sihlbom C, ..., Lindén SK, Wikstrom JD
Int J Mol Sci 24 (18) - [2023-09-20; online 2023-09-20]
Glycoproteomics [Service]
PubMed DOI Crossref
Single-cell sequencing of tumor-associated macrophages in a Drosophila model.
Khalili D, Mohammed M, Kunc M, ..., Ankarklev J, Theopold U
Front Immunol 14 (-) 1243797 [2023-09-19; online 2023-09-19]
Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Prosaposin maintains lipid homeostasis in dopamine neurons and counteracts experimental parkinsonism in rodents.
He Y, Kaya I, Shariatgorji R, ..., Andren PE, Svenningsson P
Nat Commun 14 (1) 5804 [2023-09-19; online 2023-09-19]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Self-Assembly of RGD-Functionalized Recombinant Spider Silk Protein into Microspheres in Physiological Buffer and in the Presence of Hyaluronic Acid.
Ornithopoulou E, Åstrand C, Gustafsson L, Crouzier T, Hedhammar M
ACS Appl Bio Mater 6 (9) 3696-3705 [2023-09-18; online 2023-08-14]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Ecogenomics and cultivation reveal distinctive viral-bacterial communities in the surface microlayer of a Baltic Sea slick.
Rahlff J, Wietz M, Giebel HA, ..., Antson A, Holmfeldt K
ISME COMMUN. 3 (1) 97 [2023-09-18; online 2023-09-18]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Novel pathological variants of NHP2 affect N-terminal domain flexibility, protein stability, H/ACA Ribonucleoprotein (RNP) complex formation and telomerase activity.
Maliński B, Vertemara J, Faustini E, ..., Cammenga J, Lottersberger F
Hum. Mol. Genet. 32 (19) 2901-2912 [2023-09-16; online 2023-07-13]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Plasma type I collagen α1 chain in relation to coronary artery disease: findings from a prospective population-based cohort and an acute myocardial infarction prospective cohort in Sweden.
Hammaréus F, Nilsson L, Ong KL, ..., Holm Nielsen S, Jonasson L
BMJ Open 13 (9) e073561 [2023-09-15; online 2023-09-15]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Ki67 and prostate specific antigen are prognostic in metastatic hormone naïve prostate cancer.
Spyratou V, Freyhult E, Bergh A, ..., Welén K, Josefsson A
Acta Oncol - (-) 1-9 [2023-09-15; online 2023-09-15]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Multiplexed experimental strategies for fragment library screening against challenging drug targets using SPR biosensors.
FitzGerald EA, Vagrys D, Opassi G, ..., de Esch IJP, Danielson UH
SLAS DISCOVERY: Advancing Life Sciences R&D - (-) - [2023-09-14; online 2023-09-14]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
In vivo gene expression profile of Haemophilus influenzae during human pneumonia.
Polland L, Rydén H, Su Y, Paulsson M
Microbiol Spectr 11 (5) e0163923 [2023-09-14; online 2023-09-14]
Bioinformatics Compute and Storage [Service] Clinical Genomics Lund [Service]
PubMed DOI Crossref
Genetic atlas of hygro-and thermosensory cells in the vinegar fly Drosophila melanogaster.
Corthals K, Andersson V, Churcher A, Reimegård J, Enjin A
Sci Rep 13 (1) 15202 [2023-09-14; online 2023-09-14]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Dissecting the genetic basis of drought responses in common bean using natural variation.
Labastida D, Ingvarsson PK, Rendón-Anaya M
Front Plant Sci 14 (-) 1143873 [2023-09-14; online 2023-09-14]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Community-developed checklists for publishing images and image analyses.
Schmied C, Nelson MS, Avilov S, ..., Tischer C, Jambor HK
Nat. Methods - (-) - [2023-09-14; online 2023-09-14]
Integrated Microscopy Technologies Gothenburg [Collaborative]
PubMed DOI Crossref
Identification of motif-based interactions between SARS-CoV-2 protein domains and human peptide ligands pinpoint antiviral targets.
Mihalič F, Benz C, Kassa E, ..., Jemth P, Ivarsson Y
Nat Commun 14 (1) 5636 [2023-09-13; online 2023-09-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cerebrospinal Fluid Metabolomics Identified Ongoing Analgesic Medication in Neuropathic Pain Patients.
Bäckryd E, Thordeman K, Gerdle B, Ghafouri B
Biomedicines 11 (9) - [2023-09-13; online 2023-09-13]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Sustained and intermittent hypoxia differentially modulate primary monocyte immunothrombotic responses to IL-1β stimulation.
Wahlund CJE, Çaglayan S, Czarnewski P, Hansen JB, Snir O
Front Immunol 14 (-) 1240597 [2023-09-11; online 2023-09-11]
Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of estrogen on IgG glycosylation and serum protein glycosylation in a murine model of healthy postmenopause.
Gupta P, Sághy T, Nordqvist J, ..., Henning P, Engdahl C
Front Endocrinol (Lausanne) 14 (-) 1243942 [2023-09-11; online 2023-09-11]
Glycoproteomics [Service]
PubMed DOI Crossref
Ectomycorrhizal fungi integrate nitrogen mobilisation and mineral weathering in boreal forest soil.
Mahmood S, Fahad Z, Bolou-Bi EB, ..., Ekblad A, Finlay RD
New Phytol. - (-) - [2023-09-11; online 2023-09-11]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A novel kleptoplastidic symbiosis revealed in the marine centrohelid Meringosphaera with evidence of genetic integration.
Sørensen MES, Zlatogursky VV, Onuţ-Brännström I, ..., Foster RA, Burki F
Curr. Biol. 33 (17) 3571-3584.e6 [2023-09-11; online 2023-08-02]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pyrroloquinoline quinone drives ATP synthesis in vitro and in vivo and provides retinal ganglion cell neuroprotection.
Canovai A, Tribble JR, Jöe M, ..., Dal Monte M, Williams PA
Acta Neuropathol Commun 11 (1) 146 [2023-09-08; online 2023-09-08]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
PLK1 as a cooperating partner for BCL2-mediated antiapoptotic program in leukemia.
Shah K, Nasimian A, Ahmed M, ..., Lock RB, Kazi JU
Blood Cancer J 13 (1) 139 [2023-09-07; online 2023-09-07]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Epigenetic modifications appear in the human placenta following anxiety and depression during pregnancy.
Martinez CA, Marteinsdottir I, Josefsson A, ..., Theodorsson E, Rodriguez-Martinez H
Placenta 140 (-) 72-79 [2023-09-07; online 2023-08-01]
Clinical Genomics Linköping [Service]
PubMed DOI Crossref
Transforming growth factor-β2 is associated with atherosclerotic plaque stability and lower risk for cardiovascular events.
Edsfeldt A, Singh P, Matthes F, ..., Sun J, Gonçalves I
Cardiovasc. Res. 119 (11) 2061-2073 [2023-09-05; online 2023-05-18]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Placental growth factor exerts a dual function for cardiomyogenesis and vasculogenesis during heart development.
Witman N, Zhou C, Häneke T, ..., Chien KR, Sahara M
Nat Commun 14 (1) 5435 [2023-09-05; online 2023-09-05]
Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Spatial multimodal analysis of transcriptomes and metabolomes in tissues.
Vicari M, Mirzazadeh R, Nilsson A, ..., Andrén PE, Lundeberg J
Nat. Biotechnol. - (-) - [2023-09-04; online 2023-09-04]
In Situ Sequencing (ISS) [Collaborative] Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Seasonal and age-related changes in sperm quality of farmed arctic charr (Salvelinus alpinus).
Kurta K, Jeuthe H, Naboulsi R, de Koning DJ, Palaiokostas C
BMC Genomics 24 (1) 519 [2023-09-04; online 2023-09-04]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Large-scale proximity extension assay reveals CSF midkine and DOPA decarboxylase as supportive diagnostic biomarkers for Parkinson's disease.
Paslawski W, Khosousi S, Hertz E, ..., Boxer A, Svenningsson P
Transl Neurodegener 12 (1) 42 [2023-09-04; online 2023-09-04]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
The interplay between dietary fatty acids and gut microbiota influences host metabolism and hepatic steatosis.
Schoeler M, Ellero-Simatos S, Birkner T, ..., Burcelin R, Caesar R
Nat Commun 14 (1) 5329 [2023-09-01; online 2023-09-01]
Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
The Genomic Basis of Adaptation to High Elevations in Africanized Honey Bees.
Everitt T, Wallberg A, Christmas MJ, ..., Neumann P, Webster MT
Genome Biol Evol 15 (9) - [2023-09-01; online 2023-08-26]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Stratified genetic analysis reveals sex differences in MPO-ANCA-associated vasculitis.
Ekman D, Sennblad B, Knight A, ..., Lindblad-Toh K, Dahlqvist J
Rheumatology (Oxford) 62 (9) 3213-3218 [2023-09-01; online 2023-04-03]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI SNP genotyping [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Pseudomonas ability to utilize different carbon substrates and adaptation influenced by protozoan grazing.
Ramasamy KP, Brugel S, Eriksson KIA, Andersson A
Environ. Res. 232 (-) 116419 [2023-09-01; online 2023-06-14]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Inhibiting metabotropic glutamate receptor 5 after stroke restores brain function and connectivity.
Hakon J, Quattromani MJ, Sjölund C, ..., Bauer AQ, Wieloch T
Brain - (-) - [2023-09-01; online 2023-09-01]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
IBS randomized study: FODMAPs alter bile acids, phenolic- and tryptophan metabolites, while gluten modifies lipids.
Nordin E, Hellström PM, Vuong E, ..., Brunius C, Landberg R
Am. J. Physiol. Regul. Integr. Comp. Physiol. 325 (3) R248-R259 [2023-09-01; online 2023-07-03]
Bioinformatics Compute and Storage [Service] Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Verticillium longisporum phospholipase VlsPLA2 is a virulence factor that targets host nuclei and modulates plant immunity.
Rafiei V, Vélëz H, Piombo E, Dubey M, Tzelepis G
Mol. Plant Pathol. 24 (9) 1078-1092 [2023-09-00; online 2023-05-12]
Global Proteomics and Proteogenomics [Service] Swedish Metabolomics Centre (SMC) [Service]
DOI Crossref
Tuning of lattice thermal conductivity of amorphous Fe0.85Zr0.15 by nanostructured voids, pressure and temperature
Gürbüz E, Sanyal B
Journal of Non-Crystalline Solids 616 (-) 122430 [2023-09-00; online 2023-09-00]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Trends in invasive bacterial diseases during the first 2 years of the COVID-19 pandemic: analyses of prospective surveillance data from 30 countries and territories in the IRIS Consortium.
Shaw D, Abad R, Amin-Chowdhury Z, ..., Zhou F, Brueggemann AB
Lancet Digit Health 5 (9) e582-e593 [2023-09-00; online 2023-07-27]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Transcriptome network analysis links perinatal Staphylococcus epidermidis infection to microglia reprogramming in the immature hippocampus.
Gravina G, Ardalan M, Chumak T, ..., Ek CJ, Mallard C
Glia 71 (9) 2234-2249 [2023-09-00; online 2023-05-29]
Clinical Genomics Gothenburg [Service]
PubMed DOI Crossref
The role of NLRP3 in regulating gingival epithelial cell responses evoked by Aggregatibacter actinomycetemcomitans.
Jayaprakash Demirel K, Wu R, Neves Guimaraes A, Demirel I
Cytokine 169 (-) 156316 [2023-09-00; online 2023-08-02]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Structure and dynamics of the mitochondrial DNA-compaction factor Abf2 from S. cerevisiae.
Lidman J, Sallova Y, Matečko-Burmann I, Burmann BM
J. Struct. Biol. 215 (3) 108008 [2023-09-00; online 2023-08-03]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Quantification of chondroitin sulfate, hyaluronic acid and N-glycans in synovial fluid - A technical performance study.
Andersson E, Tykesson E, Lohmander LS, ..., Swärd P, Struglics A
Osteoarthr Cartil Open 5 (3) 100380 [2023-09-00; online 2023-06-10]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
Mosaic Loss of Chromosome Y Is Associated With Functional Outcome After Ischemic Stroke.
Dorvall M, Pedersen A, Dumanski JP, ..., Stanne TM, Jern C
Stroke 54 (9) 2434-2437 [2023-09-00; online 2023-07-19]
Clinical Genomics Gothenburg [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Milder Autumns May Increase Risk for Infection of Crops with Turnip Yellows Virus.
Puthanveed V, Singh K, Poimenopoulou E, ..., Siddique AB, Kvarnheden A
Phytopathology 113 (9) 1788-1798 [2023-09-00; online 2023-11-01]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Methane Producing and Oxidizing Microorganisms Display a High Resilience to Drought in a Swedish Hemi‐Boreal Mire
White JD, Ahrén D, Ström L, ..., Keane B, Parmentier FJW
JGR Biogeosciences 128 (9) - [2023-09-00; online 2023-09-08]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Increased plasma levels of soluble programmed death ligand 1 (sPD-L1) and fibroblast growth factor 23 (FGF-23) in patients with Graves' ophthalmopathy in comparison to hyperthyroid patients without Graves' ophthalmopathy.
Khamisi S, Anders Karlsson F, Ljunggren Ö, Thulin M, Larsson A
Cytokine 169 (-) 156269 [2023-09-00; online 2023-06-10]
Affinity Proteomics Uppsala [Service]
DOI Crossref
Distinct molecular targets of ProEGCG from EGCG and superior inhibition of angiogenesis signaling pathways for treatment of endometriosis
Hung SW, Gaetani M, Li Y, ..., Zubarev RA, Wang CC
Journal of Pharmaceutical Analysis - (-) - [2023-09-00; online 2023-09-00]
Chemical Proteomics [Service]
PubMed DOI Crossref
Contrasting genomic consequences of anthropogenic reintroduction and natural recolonization in high-arctic wild reindeer.
Burnett HA, Bieker VC, Le Moullec M, ..., Hansen BB, Martin MD
Evol Appl 16 (9) 1531-1548 [2023-09-00; online 2023-08-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Chromatin accessibility, not 5mC methylation covaries with partial dosage compensation in crows.
Catalán A, Merondun J, Knief U, Wolf JBW
PLoS Genet. 19 (9) e1010901 [2023-09-00; online 2023-09-25]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Breast Milk Oligosaccharides Contain Immunomodulatory Glucuronic Acid and LacdiNAc.
Jin C, Lundstrøm J, Korhonen E, Luis AS, Bojar D
Mol. Cell Proteomics 22 (9) 100635 [2023-09-00; online 2023-08-18]
Glycoproteomics [Collaborative]
PubMed DOI Crossref
An mTRAN-mRNA interaction mediates mitochondrial translation initiation in plants.
Tran HC, Schmitt V, Lama S, ..., Delannoy E, Van Aken O
Science 381 (6661) eadg0995 [2023-09-00; online 2023-09-01]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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A metabarcoding analysis of the wrackbed microbiome indicates a phylogeographic break along the North Sea-Baltic Sea transition zone.
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Fredlund E, Andersson S, Ferreira M, Mohlin S
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The Chlamydia effector CpoS modulates the inclusion microenvironment and restricts the interferon response by acting on Rab35.
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MBio 14 (4) e0319022 [2023-08-31; online 2023-08-02]
Chemical Biology Consortium Sweden (CBCS) [Service]
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Systemic and mucosal adaptive immunity to SARS-CoV-2 during the Omicron wave in patients with chronic lymphocytic leukemia.
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BMC Cancer 23 (1) 814 [2023-08-30; online 2023-08-30]
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Seeger C, Dyrhage K, Näslund K, Andersson SGE
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Babazadeh R, Schneider KL, Fischbach A, ..., Liu B, Nystrom T
Sci Rep 13 (1) 14068 [2023-08-28; online 2023-08-28]
Integrated Microscopy Technologies Gothenburg [Service]
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Swedish NMR Centre (SNC) [Service]
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Cui W, Subramani A, Fonseca P, ..., Lundqvist A, Holmgren L
Cells 12 (17) - [2023-08-28; online 2023-08-28]
Global Proteomics and Proteogenomics [Service]
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Norlin S, Axelsson J, Ericsson M, Edlund H
Commun Biol 6 (1) 877 [2023-08-25; online 2023-08-25]
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Long-read whole-genome analysis of human single cells.
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Nat Commun 14 (1) 5164 [2023-08-24; online 2023-08-24]
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Multi-modal single cell sequencing of B cells in primary Sjögren's Syndrome.
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Nat Commun 14 (1) 5138 [2023-08-23; online 2023-08-23]
Swedish NMR Centre (SNC) [Collaborative]
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Swedish NMR Centre (SNC) [Service]
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Inhibition of high level E2F in a RB1 proficient MYCN overexpressing chicken retinoblastoma model normalizes neoplastic behaviour.
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Contrasting response of microeukaryotic and bacterial communities to the interplay of seasonality and local stressors in shallow soda lakes.
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Insights into cellular behavior and micromolecular communication in urothelial micrografts.
Juul N, Willacy O, Mamand DR, ..., Chamorro CI, Fossum M
Sci Rep 13 (1) 13589 [2023-08-21; online 2023-08-21]
Global Proteomics and Proteogenomics [Service]
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The acute effect of different NAD+ precursors included in the combined metabolic activators.
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Expanding the genetic toolbox of Rhodotorula toruloides by identification and validation of six novel promoters induced or repressed under nitrogen starvation.
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NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Gianecini RA, Poklepovich T, Golparian D, ..., Campos J, Galarza P
Microbiol Spectr 11 (4) e0097023 [2023-08-17; online 2023-06-20]
Clinical Genomics Örebro [Collaborative]
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Horvath I, Mohamed KA, Kumar R, Wittung-Stafshede P
Int J Mol Sci 24 (16) - [2023-08-16; online 2023-08-16]
Swedish Metabolomics Centre (SMC) [Service]
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Rezayee F, Eisfeldt J, Skaftason A, ..., Rosenquist R, Barbany G
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Andriianov A, Trigüis S, Drobiazko A, ..., Severinov K, Isaev A
Cell Rep 42 (8) 112972 [2023-08-13; online 2023-08-13]
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Dev. Cell - (-) - [2023-08-13; online 2023-08-13]
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Doimo M, Chaudhari N, Abrahamsson S, ..., Chorell E, Wanrooij S
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Clinical Genomics Gothenburg [Collaborative]
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Sarén T, Saronio G, Marti Torrell P, ..., Yu D, Essand M
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Commun Biol 6 (1) 793 [2023-08-09; online 2023-08-09]
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Langmuir 39 (31) 11090-11098 [2023-08-08; online 2023-07-24]
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Graded expression of the chemokine receptor CX3CR1 marks differentiation states of human and murine T cells and enables cross-species interpretation.
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Immunity 56 (8) 1955-1974.e10 [2023-08-08; online 2023-07-24]
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DNA Methylation Signatures of Multiple Sclerosis Occur Independently of Known Genetic Risk and Are Primarily Attributed to B Cells and Monocytes.
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Sci Rep 13 (1) 12856 [2023-08-08; online 2023-08-08]
NGI Long read [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
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Megafaunal extinctions, not climate change, may explain Holocene genetic diversity declines in Numenius shorebirds.
Tan HZ, Jansen JJFJ, Allport GA, ..., Gwee CY, Rheindt FE
Elife 12 (-) - [2023-08-07; online 2023-08-07]
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Mishcherikova V, Lynikienė J, Marčiulynas A, ..., Marčiulynienė D, Menkis A
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Almamoun R, Pierozan P, Manoharan L, Karlsson O
Ecotoxicol Environ Saf 262 (-) 115321 [2023-08-05; online 2023-08-05]
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Anastasina M, Füzik T, Domanska A, ..., Plevka P, Butcher SJ
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Y-Linked Copy Number Polymorphism of Target of Rapamycin Is Associated with Sexual Size Dimorphism in Seed Beetles.
Kaufmann P, Wiberg RAW, Papachristos K, ..., Tellgren-Roth C, Immonen E
Mol. Biol. Evol. 40 (8) - [2023-08-03; online 2023-07-22]
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Boussardon C, Carrie C, Keech O
J. Exp. Bot. 74 (14) 4110-4124 [2023-08-03; online 2023-04-08]
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The development of blood protein profiles in extremely preterm infants follows a stereotypic evolution pattern.
Zhong W, Danielsson H, Brusselaers N, ..., Uhlén M, Hellström A
Commun Med (Lond) 3 (1) 107 [2023-08-02; online 2023-08-02]
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Relation between HLA and copy number variation of steroid 21-hydroxylase in a Swedish cohort of patients with autoimmune Addison's disease.
Lundtoft C, Eriksson D, Bianchi M, ..., Rönnblom L, Kämpe O
Eur. J. Endocrinol. 189 (2) 235-241 [2023-08-02; online 2023-08-09]
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Nilsson JR, Benitez-Martin C, Sansom HG, ..., Magennis SW, Wilhelmsson LM
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Genomic surveillance and antimicrobial resistance determinants in Neisseria gonorrhoeae isolates from Uganda, Malawi and South Africa, 2015-20.
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Clinical Genomics Gothenburg [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Alternating L4 loop architecture of the bacterial polysaccharide co-polymerase WzzE.
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Nat Commun 14 (1) 4395 [2023-08-01; online 2023-08-01]
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Insights into Enzymatic Catalysis from Binding and Hydrolysis of Diadenosine Tetraphosphate by E. coli Adenylate Kinase.
Tischlik S, Oelker M, Rogne P, ..., Drescher M, Wolf-Watz M
Biochemistry 62 (15) 2238-2243 [2023-08-01; online 2023-07-07]
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Base Composition, Codon Usage, and Patterns of Gene Sequence Evolution in Butterflies.
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Two different isoforms of osteopontin modulate myelination and axonal integrity.
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FASEB Bioadv 5 (8) 336-353 [2023-08-00; online 2023-06-17]
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Synergy and oxygen adaptation for development of next-generation probiotics.
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Surface decontamination of explanted peri-implantitis-affected implants.
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STE20-type kinases MST3 and MST4 promote the progression of hepatocellular carcinoma: Evidence from human cell culture and expression profiling of liver biopsies.
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SARS-CoV-2 Antibodies in Commercial Immunoglobulin Products Show Markedly Reduced Cross-reactivities Against Omicron Variants.
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Ribonuclease inhibitor 1 (RNH1) deficiency cause congenital cataracts and global developmental delay with infection-induced psychomotor regression and anemia.
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Real-world assessment of immunogenicity in immunocompromised individuals following SARS-CoV-2 mRNA vaccination: a one-year follow-up of the prospective clinical trial COVAXID.
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Nascent evolution of recombination rate differences as a consequence of chromosomal rearrangements.
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N-terminal proteoforms may engage in different protein complexes.
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Spatial Proteomics [Collaborative]
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Mucosal IgA protects against BQ.1 and BQ.1.1 infection.
Marking U, Bladh O, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 23 (8) e272-e273 [2023-08-00; online 2023-07-12]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Methylation of lysine 36 on histone H3 is required to control transposon activities in somatic cells.
Lindehell H, Schwartz YB, Larsson J
Life Sci. Alliance 6 (8) - [2023-08-00; online 2023-05-11]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Mapping the Human Chondroitin Sulfate Glycoproteome Reveals an Unexpected Correlation Between Glycan Sulfation and Attachment Site Characteristics.
Noborn F, Nilsson J, Sihlbom C, ..., Kjellén L, Larson G
Mol. Cell Proteomics 22 (8) 100617 [2023-08-00; online 2023-07-14]
Glycoproteomics [Collaborative]
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Low-grade intestinal inflammation two decades after pelvic radiotherapy.
Devarakonda S, Thorsell A, Hedenström P, ..., Steineck G, Bull C
EBioMedicine 94 (-) 104691 [2023-08-00; online 2023-07-20]
Clinical Genomics Gothenburg [Service] Glycoproteomics [Collaborative]
PubMed DOI Crossref
Local and Systemic Immunity During Five Vaccinations Against SARS-CoV-2 in Zanubrutinib-Treated Patients With Chronic Lymphocytic Leukemia.
Andersson M, Wu J, Wullimann D, ..., Ingelman-Sundberg HM, Osterborg A
J Hematol 12 (4) 170-175 [2023-08-00; online 2023-08-08]
Affinity Proteomics Uppsala [Service]
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Large-scale benchmarking of circRNA detection tools reveals large differences in sensitivity but not in precision.
Vromman M, Anckaert J, Bortoluzzi S, ..., Vandesompele J, Volders PJ
Nat. Methods 20 (8) 1159-1169 [2023-08-00; online 2023-07-13]
Bioinformatics Long-term Support WABI [Service] Bioinformatics Support, Infrastructure and Training [Service]
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Historical RNA expression profiles from the extinct Tasmanian tiger.
Mármol-Sánchez E, Fromm B, Oskolkov N, ..., Dalén L, Friedländer MR
Genome Res. 33 (8) 1299-1316 [2023-08-00; online 2023-07-18]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Exposures to perfluoroalkyl substances and asthma phenotypes in childhood: an investigation of the COPSAC2010 cohort.
Sevelsted A, Pedersen CT, Gürdeniz G, ..., Chawes B, Bisgaard H
EBioMedicine 94 (-) 104699 [2023-08-00; online 2023-07-08]
Exposomics [Collaborative]
PubMed DOI Crossref
Examining neurodevelopmental problems in 15q11.2 (BP1-BP2) copy number variation carriers at ages 9/12 and 18 in a Swedish twin sample.
Jonsson L, Martin J, Lichtenstein P, ..., Westberg L, Tammimies K
Mol Genet Genomic Med 11 (8) e2191 [2023-08-00; online 2023-05-08]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Evaluation of genetic demultiplexing of single-cell sequencing data from model species
Cardiello JF, Joven Araus A, Giatrellis S, ..., Simon A, Leigh ND
Life Sci. Alliance 6 (8) e202301979 [2023-08-00; online 2023-05-17]
Eukaryotic Single Cell Genomics (ESCG) [Service]
DOI Crossref
Engineering of layered iron vanadate nanostructure for electrocatalysis: Simultaneous detection of methotrexate and folinic acid in blood serum
Adeniyi KO, Osmanaj B, Manavalan G, ..., Boily JF, Tesfalidet S
Electrochimica Acta 458 (-) 142538 [2023-08-00; online 2023-08-00]
Integrated Microscopy Technologies Umeå [Service]
PubMed DOI Crossref
Direct additive genetics and maternal effect contribute to the risk of Tourette disorder.
Mahjani B, Klei L, Buxbaum Grice AS, ..., Buxbaum JD, Grice DE
J Neurol Neurosurg Psychiatry 94 (8) 638-642 [2023-08-00; online 2023-04-26]
Bioinformatics Compute and Storage [Service]
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Differential DNA Methylation of MicroRNA-Encoding Genes in Psoriatic Epidermis Highlights the Wnt Pathway.
Verma D, Kasic NK, Jeppsson F, ..., Das J, Enerbäck C
J. Invest. Dermatol. 143 (8) 1594-1597.e14 [2023-08-00; online 2023-02-27]
Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Clones on the run: The genomics of a recently expanded partially clonal species.
Pereyra RT, Rafajlović M, De Wit P, ..., Töpel M, Johannesson K
Mol. Ecol. 32 (15) 4209-4223 [2023-08-00; online 2023-05-18]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Characterisation of a low methane emission rice cultivar suitable for cultivation in high latitude light and temperature conditions.
Hu J, Bettembourg M, Moreno S, ..., Sundström J, Jin Y
Environ Sci Pollut Res 30 (40) 92950-92962 [2023-08-00; online 2023-07-27]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
DOI Crossref
A genomic platform for surveillance and antigen discovery in Plasmodium spp. using long-read amplicon sequencing
Plaza DF, Zerebinski J, Broumou I, ..., Sundling C, Färnert A
Cell Reports Methods - (-) 100574 [2023-08-00; online 2023-08-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
DOI Crossref
Observation of defect density dependent elastic modulus of graphene
Li H, Gürbüz E, Haldar S, ..., Sanyal B, Leifer K
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Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Transposable element insertions in 1000 Swedish individuals.
Bilgrav Saether K, Nilsson D, Thonberg H, ..., Eisfeldt J, Lindstrand A
PLoS ONE 18 (7) e0289346 [2023-07-28; online 2023-07-28]
Bioinformatics Compute and Storage [Service] Clinical Genomics Stockholm [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Register-based and genetic studies of Prader-Willi syndrome show a high frequency of gonadal tumors and a possible mechanism for tumorigenesis through imprinting relaxation.
Maya-González C, Wessman S, Lagerstedt-Robinson K, ..., Skarin Nordenvall A, Nordgren A
Front Med (Lausanne) 10 (-) 1172565 [2023-07-28; online 2023-07-28]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Combined GLUT1 and OXPHOS inhibition eliminates acute myeloid leukemia cells by restraining their metabolic plasticity.
Rodriguez-Zabala M, Ramakrishnan R, Reinbach K, ..., Woods NB, Järås M
Blood Adv - (-) - [2023-07-28; online 2023-07-28]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
scDual-Seq of Toxoplasma gondii-infected mouse BMDCs reveals heterogeneity and differential infection dynamics.
Hildebrandt F, Mohammed M, Dziedziech A, ..., Henriksson J, Ankarklev J
Front Immunol 14 (-) 1224591 [2023-07-27; online 2023-07-27]
Bioinformatics Compute and Storage [Service] Microbial Single Cell Genomics [Technology development] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
PVT1 interacts with polycomb repressive complex 2 to suppress genomic regions with pro-apoptotic and tumour suppressor functions in multiple myeloma.
Nylund P, Garrido-Zabala B, Párraga AA, ..., Kalushkova A, Wiklund HJ
Haematologica - (-) - [2023-07-27; online 2023-07-27]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Spatial lipidomics reveals brain region-specific changes of sulfatides in an experimental MPTP Parkinson's disease primate model.
Kaya I, Nilsson A, Luptáková D, ..., Bezard E, Andrén PE
NPJ Parkinsons Dis 9 (1) 118 [2023-07-26; online 2023-07-26]
Spatial Mass Spectrometry [Technology development]
PubMed DOI Crossref
Cutaneous squamous cell carcinoma-derived extracellular vesicles exert an oncogenic role by activating cancer-associated fibroblasts.
Li C, Sun C, Lohcharoenkal W, ..., Sonkoly E, Pivarcsi A
Cell Death Discov 9 (1) 260 [2023-07-26; online 2023-07-26]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Ciclopirox Ethanolamine Preserves the Immature State of Human HSCs by Mediating Intracellular Iron Content.
Safaee Talkhoncheh M, Baudet A, Ek F, ..., Will B, Larsson J
Blood Adv - (-) - [2023-07-24; online 2023-07-24]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
An Okinawan-Based Nordic Diet Leads to Profound Effects on Gut Microbiota and Plasma Metabolites Linked to Glucose and Lipid Metabolism.
Manoharan L, Roth B, Bang C, Stenlund H, Ohlsson B
Nutrients 15 (14) - [2023-07-24; online 2023-07-24]
Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Multiyear analysis uncovers coordinated seasonality in stocks and composition of the planktonic food web in the Baltic Sea proper.
Fridolfsson E, Bunse C, Lindehoff E, ..., Legrand C, Hylander S
Sci Rep 13 (1) 11865 [2023-07-22; online 2023-07-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Vegetation, topography, and soil depth drive microbial community structure in two Swedish grasslands.
Guasconi D, Juhanson J, Clemmensen KE, ..., Roth N, Fransson P
FEMS Microbiol. Ecol. 99 (8) - [2023-07-21; online 2023-07-21]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Transplantation of gut microbiota from old mice into young healthy mice reduces lean mass but not bone mass.
Lawenius L, Cowardin C, Grahnemo L, ..., Sjögren K, Ohlsson C
Gut Microbes 15 (1) 2236755 [2023-07-21; online 2023-07-21]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Thumb-domain dynamics modulate the functional repertoire of DNA-Polymerase IV (DinB).
Okeke DC, Lidman J, Matečko-Burmann I, Burmann BM
Nucleic Acids Res. 51 (13) 7036-7052 [2023-07-21; online 2023-06-01]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Survivin prevents the polycomb repressor complex 2 from methylating histone 3 lysine 27.
Jensen M, Chandrasekaran V, García-Bonete MJ, ..., Bokarewa I M, Katona G
iScience 26 (7) 106976 [2023-07-21; online 2023-05-29]
Swedish NMR Centre (SNC) [Collaborative]
PubMed DOI Crossref
Proteomics identifies lipocalin-2 in neonatal inflammation associated with cerebrovascular alteration in mice and preterm infants.
Gravina G, Ardalan M, Chumak T, ..., Hellström A, Mallard C
iScience 26 (7) 107217 [2023-07-21; online 2023-06-27]
Glycoproteomics [Service]
PubMed DOI Crossref
Iron age genomic data from Althiburos - Tunisia renew the debate on the origins of African taurine cattle.
Ginja C, Guimarães S, da Fonseca RR, ..., Pires AE, Valenzuela-Lamas S
iScience 26 (7) 107196 [2023-07-21; online 2023-06-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
A machine learning based approach to identify carotid subclinical atherosclerosis endotypes.
Chen QS, Bergman O, Ziegler L, ..., Gigante B, IMPROVE study group
Cardiovasc. Res. - (-) - [2023-07-21; online 2023-07-21]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
FAVIS: Fast and versatile protocol for non-destructive metabarcoding of bulk insect samples.
Iwaszkiewicz-Eggebrecht E, Łukasik P, Buczek M, ..., Ronquist F, Miraldo A
PLoS ONE 18 (7) e0286272 [2023-07-19; online 2023-07-19]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Endophytic Beauveria bassiana induces biosynthesis of flavonoids in oilseed rape following both seed inoculation and natural colonization.
Muola A, Birge T, Helander M, ..., Saikkonen K, Fuchs B
Pest Manag Sci - (-) - [2023-07-19; online 2023-07-19]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Salicylic acid metabolism and signalling coordinate senescence initiation in aspen in nature.
Lihavainen J, Šimura J, Bag P, ..., Ljung K, Jansson S
Nat Commun 14 (1) 4288 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Phospholipid Removal for Enhanced Chemical Exposomics in Human Plasma
Sdougkou K, Xie H, Papazian S, ..., Bergdahl IA, Martin JW
Environ. Sci. Technol. 57 (28) 10173-10184 [2023-07-18; online 2023-07-03]
Exposomics [Collaborative]
PubMed DOI Crossref
Next generation pan-cancer blood proteome profiling using proximity extension assay.
Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M
Nat Commun 14 (1) 4308 [2023-07-18; online 2023-07-18]
Affinity Proteomics Uppsala [Collaborative] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]
PubMed DOI Crossref
Comparative transcriptome profiling provides insights into the growth promotion activity of Pseudomonas fluorescens strain SLU99 in tomato and potato plants.
Hanifah NASB, Ghadamgahi F, Ghosh S, ..., Vetukuri RR, Kalyandurg PB
Front Plant Sci 14 (-) 1141692 [2023-07-18; online 2023-07-18]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Serum proteome profiles in patients treated with targeted temperature management after out-of-hospital cardiac arrest.
Lileikyte G, Bakochi A, Ali A, ..., Malmström J, Nielsen N
Intensive Care Med Exp 11 (1) 43 [2023-07-17; online 2023-07-17]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Impact of xylan on field productivity and wood saccharification properties in aspen.
Derba-Maceluch M, Sivan P, Donev EN, ..., Jönsson LJ, Mellerowicz EJ
Front Plant Sci 14 (-) 1218302 [2023-07-17; online 2023-07-17]
Swedish Metabolomics Centre (SMC) [Service]
PubMed DOI Crossref
Restoring tumor immunogenicity with dendritic cell reprogramming.
Zimmermannova O, Ferreira AG, Ascic E, ..., Svane IM, Pereira CF
Sci Immunol 8 (85) eadd4817 [2023-07-14; online 2023-07-07]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
Absence of gut microbiota reduces neonatal survival and exacerbates liver disease in Cyp2c70-deficient mice with a human-like bile acid composition.
Sjöland W, Wahlström A, Makki K, ..., Bäckhed F, Marschall HU
Clin Sci (Lond) 137 (13) 995-1011 [2023-07-14; online 2023-06-29]
Bioinformatics Compute and Storage [Service]
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Irradiation and lithium treatment alter the global DNA methylation pattern and gene expression underlying a shift from gliogenesis towards neurogenesis in human neural progenitors.
Neofytou C, Backlund A, Blomgren K, Hermanson O
Transl Psychiatry 13 (1) 258 [2023-07-13; online 2023-07-13]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
[Problems and prospects of kinesiotaping use in clinical practice].
Spirina MA, Vlasova TI, Sitdikova AV, Shamrova EA
Vopr Kurortol Fizioter Lech Fiz Kult 100 (3) 51-57 [2023-07-10; online 2023-07-10]
Glycoproteomics [Service]
PubMed DOI Crossref
Quantitative Nanoscale Secondary Ion Mass Spectrometry (NanoSIMS) Imaging of Individual Vesicles to Investigate the Relation between Fraction of Chemical Release and Vesicle Size.
Nguyen TDK, Rabasco S, Lork AA, Toit AD, Ewing AG
Angew. Chem. Int. Ed. Engl. 62 (28) e202304098 [2023-07-10; online 2023-06-05]
Integrated Microscopy Technologies Gothenburg [Technology development]
DOI Crossref
Giant spin-splitting and tunable spin-momentum locked transport in room temperature collinear antiferromagnetic semimetallic CrO monolayer
Chen X, Wang D, Li L, Sanyal B
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Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Autologous hematopoietic stem cell transplantation significantly alters circulating ceramides in peripheral blood of relapsing-remitting multiple sclerosis patients.
Vaivade A, Wiberg A, Khoonsari PE, ..., Burman J, Kultima K
Lipids Health Dis 22 (1) 97 [2023-07-07; online 2023-07-07]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
High-level in vitro resistance to gentamicin acquired in a stepwise manner in Neisseria gonorrhoeae.
Golparian D, Jacobsson S, Holley CL, Shafer WM, Unemo M
J. Antimicrob. Chemother. 78 (7) 1769-1778 [2023-07-05; online 2023-05-30]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Effects of FODMAPs and Gluten on Gut Microbiota and Their Association with the Metabolome in Irritable Bowel Syndrome: A Double-Blind, Randomized, Cross-Over Intervention Study.
Nordin E, Hellström PM, Dicksved J, ..., Landberg R, Brunius C
Nutrients 15 (13) - [2023-07-05; online 2023-07-05]
Bioinformatics Compute and Storage [Service] Chalmers Mass Spectrometry Infrastructure [Service]
PubMed DOI Crossref
Breeze 2.0: an interactive web-tool for visual analysis and comparison of drug response data.
Potdar S, Ianevski F, Ianevski A, ..., Aittokallio T, Saarela J
Nucleic Acids Res. 51 (W1) W57-W61 [2023-07-05; online 2023-05-14]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
A chromosome-level genome assembly for the Rock Ptarmigan (Lagopus muta).
Squires TE, Rödin-Mörch P, Formenti G, ..., Höglund J, Magnússon KP
G3 (Bethesda) 13 (7) - [2023-07-05; online 2023-05-04]
Bioinformatics Compute and Storage [Service]
PubMed DOI Crossref
Vascular endothelial growth factor-D plasma levels and VEGFD genetic variants are independently associated with outcomes in patients with cardiovascular disease.
Davidsson P, Eketjäll S, Eriksson N, ..., White H, Wallentin L
Cardiovasc. Res. 119 (7) 1596-1605 [2023-07-04; online 2023-03-05]
Affinity Proteomics Uppsala [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Cardiomyocyte-specific PCSK9 deficiency compromises mitochondrial bioenergetics and heart function.
Laudette M, Lindbom M, Arif M, ..., Levin MC, Borén J
Cardiovasc. Res. 119 (7) 1537-1552 [2023-07-04; online 2023-03-08]
Integrated Microscopy Technologies Gothenburg [Service]
PubMed DOI Crossref
Bone mineral density loci specific to the skull portray potential pleiotropic effects on craniosynostosis.
Medina-Gomez C, Mullin BH, Chesi A, ..., Kague E, Rivadeneira F
Commun Biol 6 (1) 691 [2023-07-04; online 2023-07-04]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Physical Activity, Sedentary Behavior, and Type 2 Diabetes: Mendelian Randomization Analysis.
Yuan S, Li X, Liu Q, ..., Burgess S, Larsson SC
J Endocr Soc 7 (8) bvad090 [2023-07-03; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Incidence and Characteristics in Children with Post-COVID-19 Condition in Sweden.
Bygdell M, Kindblom JM, Martikainen J, Li H, Nyberg F
JAMA Netw Open 6 (7) e2324246 [2023-07-03; online 2023-07-03]
Clinical Genomics Gothenburg [Collaborative]
PubMed DOI Crossref
Domain landscapes of somatic NF1 mutations in pheochromocytoma and paraganglioma.
Tabebi M, Frikha F, Volpe M, Gimm O, Söderkvist P
Gene 872 (-) 147432 [2023-07-01; online 2023-04-14]
Clinical Genomics Linköping [Collaborative]
PubMed DOI Crossref
Arabinoxylan supplemented bread: From extraction of fibers to effect of baking, digestion, and fermentation.
Zhang D, Rudjito RC, Pietiäinen S, ..., Vilaplana F, Jiménez-Quero A
Food Chem 413 (-) 135660 [2023-07-01; online 2023-02-10]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Whole exome sequencing of FFPE samples-expanding the horizon of forensic molecular autopsies.
Adolfsson E, Kling D, Gunnarsson C, ..., Gréen H, Gréen A
Int J Legal Med 137 (4) 1215-1234 [2023-07-00; online 2022-11-08]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Urodrill - a novel MRI-guided endoscopic biopsy technique to sample and molecularly classify muscle-invasive bladder cancer without fractionating the specimen during transurethral resection.
Eriksson P, Berg J, Bernardo C, ..., Zackrisson S, Liedberg F
Eur Urol Open Sci 53 (-) 78-82 [2023-07-00; online 2023-06-02]
Clinical Genomics Lund [Service]
PubMed DOI Crossref
The organization of double-stranded RNA in the chikungunya virus replication organelle.
Laurent T, Carlson L
PLoS Negl Trop Dis 17 (7) e0011404 [2023-07-00; online 2023-07-05]
Cryo-EM [Service]
DOI Crossref
The influence of the capping ligands on the optoelectronic performance, morphology, and ion liberation of CsPbBr3 perovskite quantum dots
Liu Y, Tang S, Gao Z, ..., Edman L, Wang J
Nano Res. 16 (7) 10626-10633 [2023-07-00; online 2023-04-19]
Integrated Microscopy Technologies Umeå [Service]
DOI Crossref
Role of the supports during phosphorus poisoning of diesel oxidation catalysts
Ho PH, Shao J, Yao D, ..., Creaser D, Olsson L
Chemical Engineering Journal 468 (-) 143548 [2023-07-00; online 2023-07-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Plasma levels of per- and polyfluoroalkyl substances (PFAS) are associated with altered levels of proteins previously linked to inflammation, metabolism and cardiovascular disease.
Dunder L, Salihovic S, Lind PM, Elmståhl S, Lind L
Environ Int 177 (-) 107979 [2023-07-00; online 2023-05-24]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Multiplex protein analysis and ensemble machine learning methods of fine needle aspirates from prostate cancer patients reveal potential diagnostic signatures associated with tumour grade.
Röbeck P, Franzén B, Cantera-Ahlman R, ..., Häggman M, Ladjevardi S
Cytopathology 34 (4) 286-294 [2023-07-00; online 2023-03-20]
Affinity Proteomics Uppsala [Service]
PubMed DOI Crossref
Mucosal immune responses following a fourth SARS-CoV-2 vaccine dose.
Bladh O, Marking U, Havervall S, ..., Klingström J, Thålin C
Lancet Microbe 4 (7) e488 [2023-07-00; online 2023-04-20]
Affinity Proteomics Uppsala [Collaborative]
PubMed DOI Crossref
Metabolic profiles reflect weight loss maintenance and the composition of diet after very-low-energy diet.
Näätänen M, Kårlund A, Mikkonen S, ..., Hanhineva K, Kolehmainen M
Clin Nutr 42 (7) 1126-1141 [2023-07-00; online 2023-05-17]
Chalmers Mass Spectrometry Infrastructure [Collaborative]
PubMed DOI Crossref
Individualised human phenotype ontology gene panels improve clinical whole exome and genome sequencing analytical efficacy in a cohort of developmental and epileptic encephalopathies.
Henry OJ, Stödberg T, Båtelson S, ..., Stranneheim H, Wedell A
Mol Genet Genomic Med 11 (7) e2167 [2023-07-00; online 2023-03-26]
Clinical Genomics Stockholm [Service]
PubMed DOI Crossref
Immunological protein profiling of first-episode psychosis patients identifies CSF and blood biomarkers correlating with disease severity.
Eren F, Schwieler L, Orhan F, ..., Engberg G, Erhardt S
Brain, Behavior, and Immunity 111 (-) 376-385 [2023-07-00; online 2023-05-04]
Affinity Proteomics Stockholm [Service]
PubMed DOI Crossref
Human resident liver myeloid cells protect against metabolic stress in obesity.
Barreby E, Strunz B, Nock S, ..., Chen P, Aouadi M
Nat Metab 5 (7) 1188-1203 [2023-07-00; online 2023-07-06]
Spatial Proteomics [Service]
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High temperature interactions between K-rich biomass ash and MgO-based refractories
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Journal of the European Ceramic Society 43 (8) 3770-3777 [2023-07-00; online 2023-07-00]
Integrated Microscopy Technologies Umeå [Service]
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Forest Fire Influence on Tomicus piniperda-Associated Fungal Communities and Phloem Nutrient Availability of Colonized Pinus sylvestris.
Kluting K, Strid Y, Six D, Rosling A
Microb. Ecol. 86 (1) 224-239 [2023-07-00; online 2022-07-13]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
PubMed DOI Crossref
Forensic prediction of sex, age, height, body mass index, hip-to-waist ratio, smoking status and lipid lowering drugs using epigenetic markers and plasma proteins.
Llobet MO, Johansson Å, Gyllensten U, Allen M, Enroth S
Forensic Sci Int Genet 65 (-) 102871 [2023-07-00; online 2023-04-07]
Bioinformatics Compute and Storage [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Expanding the phenotype of Seckel syndrome associated with biallelic loss-of-function variants in CEP63.
Pekkola Pacheco N, Pettersson M, Lindstrand A, Grigelioniene G
Am. J. Med. Genet. A 191 (7) 1929-1934 [2023-07-00; online 2023-04-05]
Clinical Genomics Stockholm [Service]
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Esr1+ hypothalamic-habenula neurons shape aversive states.
Calvigioni D, Fuzik J, Le Merre P, ..., Carlén M, Meletis K
Nat. Neurosci. 26 (7) 1245-1255 [2023-07-00; online 2023-06-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Environmental stress during larval development induces DNA methylation shifts in the migratory painted lady butterfly (Vanessa cardui).
Boman J, Zhu Y, Höök L, ..., Talavera G, Backström N
Mol. Ecol. 32 (13) 3513-3523 [2023-07-00; online 2023-04-23]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Core genome multilocus sequence typing (cgMLST) confirms systemic spread of avian pathogenic Escherichia coli (APEC) in broilers with cellulitis.
Jonare L, Östlund E, Söderlund R, ..., Aspán A, Jansson DS
Vet. Microbiol. 282 (-) 109755 [2023-07-00; online 2023-04-24]
Clinical Genomics Stockholm [Service]
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Complex life cycles drive community assembly through immigration and adaptive diversification.
Saltini M, Vasconcelos P, Rueffler C
Ecol. Lett. 26 (7) 1084-1094 [2023-07-00; online 2023-05-01]
Bioinformatics Compute and Storage [Service]
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Actionable cancer vulnerability due to translational arrest, p53 aggregation and ribosome biogenesis stress evoked by the disulfiram metabolite CuET.
Kanellis DC, Zisi A, Skrott Z, ..., Lindström MS, Bartek J
Cell Death Differ. 30 (7) 1666-1678 [2023-07-00; online 2023-05-04]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A phase I prospective, non-randomized trial of autologous dendritic cell-based cryoimmunotherapy in patients with metastatic castration-resistant prostate cancer.
Thomsen LCV, Honoré A, Reisæter LAR, ..., Kalland KH, Beisland C
Cancer Immunol. Immunother. 72 (7) 2357-2373 [2023-07-00; online 2023-03-20]
Clinical Genomics Uppsala [Service]
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A model of photosynthetic CO2 assimilation in C3 leaves accounting for respiration and energy recycling by the plastidial oxidative pentose phosphate pathway.
Wieloch T, Augusti A, Schleucher J
New Phytol. 239 (2) 518-532 [2023-07-00; online 2023-05-23]
Swedish NMR Centre (SNC) [Collaborative]
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Transport Properties of Protic Ionic Liquids Based on Triazolium and Imidazolium: Development of an Air-Free Conductivity Setup.
Morais EM, Idström A, Evenäs L, Martinelli A
Molecules 28 (13) - [2023-06-30; online 2023-06-30]
Swedish NMR Centre (SNC) [Service]
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Single cell-resolutionin situsequencing elucidates spatial dynamics of multiple sclerosis lesion and disease evolution
Langseth CM, Kukanja P, Rubio Rodríguez-Kirby LA, ..., Nilsson M, Castelo-Branco G
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Elevated levels of MMP12 sourced from macrophages are associated with poor prognosis in urothelial bladder cancer.
Kerzeli IK, Kostakis A, Türker P, ..., Lord M, Mangsbo SM
BMC Cancer 23 (1) 605 [2023-06-30; online 2023-06-30]
Affinity Proteomics Uppsala [Service]
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Screening autism-associated environmental factors in differentiating human neural progenitors with fractional factorial design-based transcriptomics.
Arora A, Becker M, Marques C, ..., Lanekoff I, Tammimies K
Sci Rep 13 (1) 10519 [2023-06-29; online 2023-06-29]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Quantification of metabolic niche occupancy dynamics in a Baltic Sea bacterial community.
Massing JC, Fahimipour AK, Bunse C, Pinhassi J, Gross T
mSystems 8 (3) e0002823 [2023-06-29; online 2023-05-31]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Genetic markers associated with bone composition in Rhode Island Red laying hens.
Sallam M, Wilson PW, Andersson B, ..., De Koning DJ, Johnsson M
Genet. Sel. Evol. 55 (1) 44 [2023-06-29; online 2023-06-29]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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BTK and PLCG2 remain unmutated in one-third of patients with CLL relapsing on ibrutinib.
Bonfiglio S, Sutton LA, Ljungström V, ..., Rosenquist R, Ghia P
Blood Adv 7 (12) 2794-2806 [2023-06-27; online 2023-01-26]
Clinical Genomics Uppsala [Collaborative]
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A Highly Substituted Ring-Fused 2-Pyridone Compound Targeting PrfA and the Efflux Regulator BrtA in Listeria monocytogenes.
Tükenmez H, Singh P, Sarkar S, ..., Almqvist F, Johansson J
MBio 14 (3) e0044923 [2023-06-27; online 2023-04-25]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Identification of potential biomarkers in active Lyme borreliosis.
Tjernberg I, Lager M, Furset Jensen G, ..., Brudin L, Henningsson AJ
PLoS ONE 18 (6) e0287586 [2023-06-26; online 2023-06-26]
Affinity Proteomics Uppsala [Service]
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Fluorometric Quantification of Total Cell-Free DNA as a Prognostic Biomarker in Non-Small-Cell Lung Cancer Patients Treated with Immune Checkpoint Blockade.
Oliver J, Onieva JL, Garrido-Barros M, ..., Rueda-Domínguez A, Barragán I
Cancers (Basel) 15 (13) - [2023-06-26; online 2023-06-26]
Bioinformatics Compute and Storage [Service]
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Ancient Sheep Genomes reveal four Millennia of North European Short-Tailed Sheep in the Baltic Sea region
Larsson MN, Miranda PM, Pan L, ..., Storå J, Günther T
bioRxiv - (-) - [2023-06-26; online 2023-06-26]
Ancient DNA [Service] Bioinformatics Compute and Storage [Service]
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MgO nanocube hydroxylation by nanometric water films.
Luong NT, Holmboe M, Boily JF
Nanoscale 15 (24) 10286-10294 [2023-06-23; online 2023-06-23]
Integrated Microscopy Technologies Umeå [Service]
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Case report: Extending the spectrum of clinical and molecular findings in FOXC1 haploinsufficiency syndrome.
Garza Flores A, Nordgren I, Pettersson M, ..., Nishimura G, Grigelioniene G
Front Genet 14 (-) 1174046 [2023-06-23; online 2023-06-23]
Clinical Genomics Stockholm [Service]
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Unmodified rabies mRNA vaccine elicits high cross-neutralizing antibody titers and diverse B cell memory responses.
Hellgren F, Cagigi A, Arcoverde Cerveira R, ..., Petsch B, Loré K
Nat Commun 14 (1) 3713 [2023-06-22; online 2023-06-22]
Bioinformatics Support, Infrastructure and Training [Service]
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Thiobacillus as a key player for biofilm formation in oligotrophic groundwaters of the Fennoscandian Shield.
Lopez-Fernandez M, Westmeijer G, Turner S, ..., Bertilsson S, Dopson M
NPJ Biofilms Microbiomes 9 (1) 41 [2023-06-22; online 2023-06-22]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Dietary biomarkers and food records indicate compliance to study diets in the ADIRA (Anti-inflammatory Diet In Rheumatoid Arthritis) trial.
Wadell AT, Bärebring L, Hulander E, ..., Lindqvist H, Winkvist A
Front Nutr 10 (-) 1209787 [2023-06-22; online 2023-06-22]
Chalmers Mass Spectrometry Infrastructure [Service]
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Expanding the stdpopsim species catalog, and lessons learned for realistic genome simulations.
Lauterbur ME, Cavassim MIA, Gladstein AL, ..., Schrider DR, Gronau I
Elife 12 (-) - [2023-06-21; online 2023-06-21]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Microbial Profiling of Amniotic Fluid, Umbilical Blood and Placenta of the Foaling Mare.
Hemberg E, Niazi A, Guo Y, ..., Morrell JM, Kútvölgyi G
Animals (Basel) 13 (12) - [2023-06-18; online 2023-06-18]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Disease phenotype prediction in multiple sclerosis.
Herman S, Arvidsson McShane S, Zjukovskaja C, ..., Spjuth O, Kultima K
iScience 26 (6) 106906 [2023-06-16; online 2023-05-19]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Investigation of cellulose dissolution in morpholinium-based solvents: impact of solvent structural features on cellulose dissolution.
Naserifar S, Koschella A, Heinze T, Bernin D, Hasani M
RSC Adv. 13 (27) 18639-18650 [2023-06-15; online 2023-06-20]
Swedish NMR Centre (SNC) [Service]
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Gene expression of S100a8/a9 predicts Staphylococcus aureus-induced septic arthritis in mice.
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Front Microbiol 14 (-) 1146694 [2023-06-15; online 2023-06-15]
Clinical Genomics Gothenburg [Service]
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Deciphering the contribution of microbial biomass to the properties of dissolved and particulate organic matter in anaerobic digestates.
Fernández-Domínguez D, Yekta SS, Hedenström M, Patureau D, Jimenez J
Sci. Total Environ. 877 (-) 162882 [2023-06-15; online 2023-03-17]
Swedish NMR Centre (SNC) [Collaborative]
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Human skin-resident CD8+ T cells require RUNX2 and RUNX3 for induction of cytotoxicity and expression of the integrin CD49a.
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Immunity 56 (6) 1285-1302.e7 [2023-06-13; online 2023-06-02]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A large-scale sORF screen identifies putative microproteins and provides insights into their interaction partners, localisation and function
Schlesinger D, Dirks C, Luzon CN, ..., Eirich J, Elsässer SJ
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Bioinformatics Compute and Storage [Service] CRISPR Functional Genomics [Service]
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A Base‐Free, Low Temperature Click and Release Reaction for the In Situ Generation of Diazomethane
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Adv. Synth. Catal. 365 (11) 1839-1845 [2023-06-13; online 2023-05-23]
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Tailoring vascular phenotype through AAV therapy promotes anti-tumor immunity in glioma.
Ramachandran M, Vaccaro A, van de Walle T, ..., Essand M, Dimberg A
Cancer Cell 41 (6) 1134-1151.e10 [2023-06-12; online 2023-05-11]
BioImage Informatics [Service]
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High-throughput measurement of the content and properties of nano-sized bioparticles with single-particle profiler.
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Nat. Biotechnol. - (-) - [2023-06-12; online 2023-06-12]
Integrated Microscopy Technologies Stockholm [Service]
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Scalablein-vitroimmunostimulation of human blood for in-depth profiling of acute immune response effects
Reitzner SM, Brodin P, Mikeš J
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Cellular Immunomonitoring [Collaborative]
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Production and Characterization of Poly(3-hydroxybutyrate) from Halomonas boliviensis LC1 Cultivated in Hydrolysates of Quinoa Stalks
Miranda DA, Marín K, Sundman O, ..., Carrasco C, Martín C
Fermentation 9 (6) 556 [2023-06-10; online 2023-06-10]
Integrated Microscopy Technologies Umeå [Service]
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Mutations in the CYP27B1 gene cause vitamin D dependent rickets in pugs.
Rohdin C, Wang C, Brander G, ..., Ljungvall I, Lindblad-Toh K
J. Vet. Intern. Med. 37 (4) 1507-1513 [2023-06-09; online 2023-06-09]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Adipokines and risk of rheumatoid arthritis: A two-sample multivariable Mendelian randomisation study.
Vasileiadis GK, Sayols S, Zhao SS, Fatima T, Maglio C
PLoS ONE 18 (6) e0286981 [2023-06-09; online 2023-06-09]
Clinical Genomics Gothenburg [Service]
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The clinical picture of ERCC6L2 disease: from bone marrow failure to acute leukemia.
Hakkarainen M, Kaaja I, Douglas SPM, ..., Kilpivaara O, Wartiovaara-Kautto U
Blood 141 (23) 2853-2866 [2023-06-08; online 2023-03-24]
Clinical Genomics Stockholm [Service]
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Molecular Pixelation: Single cell spatial proteomics by sequencing
Karlsson F, Kallas T, Thiagarajan D, ..., Barrio AM, Fredriksson S
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Cellular Immunomonitoring [Collaborative]
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Epidemiology, validation, and clinical characteristics of inflammatory bowel disease: the ABIS birth cohort study.
Östensson M, Björkqvist O, Guo A, ..., Mårild K, Ludvigsson J
BMC Gastroenterol 23 (1) 199 [2023-06-08; online 2023-06-08]
Clinical Genomics Gothenburg [Collaborative]
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Absence of changes in the milk microbiota during Escherichia coli endotoxin induced experimental bovine mastitis.
Dahlberg J, Johnzon CF, Sun L, ..., Östensson K, Dicksved J
Vet Res 54 (1) 46 [2023-06-08; online 2023-06-08]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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One, Two Three - Phosphaalkene Decoration Tailoring Solubility and Electronic Properties of Truxene-Based Electron Acceptors.
Shameem MA, Wells JAL, Gupta AK, Orthaber A
Chemistry 29 (32) e202300563 [2023-06-07; online 2023-04-25]
Bioinformatics Compute and Storage [Service]
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Mating modifies the expression of crucial oxidative-reductive transcripts in the pig oviductal sperm reservoir: is the female ensuring sperm survival?
Álvarez-Rodríguez M, Roca J, Martínez EA, Rodríguez-Martínez H
Front Endocrinol (Lausanne) 14 (-) 1042176 [2023-06-07; online 2023-06-07]
Clinical Genomics Linköping [Service]
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Transcriptomic atlas of midbrain dopamine neurons uncovers differential vulnerability in a Parkinsonism lesion model
Salmani BY, Lahti L, Gillberg L, ..., Svenningsson P, Perlmann T
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In Situ Sequencing (ISS) [Service]
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Challenges in supplying empirical proof for predictions derived from Species Distribution Models (SDMs): the case of an invasive cyanobacterium.
Meriggi C, Mehrshad M, Johnson RK, Laugen AT, Drakare S
ISME COMMUN. 3 (1) 56 [2023-06-06; online 2023-06-06]
Bioinformatics Compute and Storage [Service]
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Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes.
Younis S, Jouneau A, Larsson M, ..., Brochard V, Andersson L
Proc. Natl. Acad. Sci. U.S.A. 120 (23) e2216799120 [2023-06-06; online 2023-05-30]
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RegiSTORM: channel registration for multi-color stochastic optical reconstruction microscopy.
Øvrebø Ø, Ojansivu M, Kartasalo K, ..., Holme MN, Stevens MM
BMC Bioinformatics 24 (1) 237 [2023-06-05; online 2023-06-05]
BioImage Informatics [Collaborative]
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Gustavson syndrome is caused by an in-frame deletion in RBMX associated with potentially disturbed SH3 domain interactions.
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Eur. J. Hum. Genet. - (-) - [2023-06-05; online 2023-06-05]
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Dysregulated peripheral proteome reveals NASH-specific signatures identifying patient subgroups with distinct liver biology.
Stiglund N, Hagström H, Stål P, Cornillet M, Björkström NK
Front Immunol 14 (-) 1186097 [2023-06-05; online 2023-06-05]
Affinity Proteomics Uppsala [Service]
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Flavodiiron-mediated O2 photoreduction at photosystem I acceptor-side provides photoprotection to conifer thylakoids in early spring.
Bag P, Shutova T, Shevela D, ..., Messinger J, Jansson S
Nat Commun 14 (1) 3210 [2023-06-03; online 2023-06-03]
Swedish Metabolomics Centre (SMC) [Service]
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Small molecule-mediated disruption of ribosome biogenesis synergizes with FGFR inhibitors to suppress glioma cell growth
Zisi A, Kanellis DC, Moussaud S, ..., Bartek J, Lindström MS
Neuro-oncology 25 (6) 1058-1072 [2023-06-02; online 2022-12-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
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Creation of distinctive Bax-lipid complexes at mitochondrial membrane surfaces drives pore formation to initiate apoptosis.
Clifton LA, Wacklin-Knecht HP, Ådén J, ..., Sparrman T, Gröbner G
Sci Adv 9 (22) eadg7940 [2023-06-02; online 2023-06-02]
Swedish NMR Centre (SNC) [Collaborative]
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Role of myeloid cells in system-level immunometabolic dysregulation during prolonged successful HIV-1 treatment.
Svensson Akusjärvi S, Krishnan S, Ambikan AT, ..., Sönnerborg A, Neogi U
AIDS 37 (7) 1023-1033 [2023-06-01; online 2023-03-21]
Swedish Metabolomics Centre (SMC) [Service]
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Phenotypic and transcriptomic acclimation of the green microalga Raphidocelis subcapitata to high environmental levels of the herbicide diflufenican.
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Sci. Total Environ. 875 (-) 162604 [2023-06-01; online 2023-03-05]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Chromosome-level genome assembly of Lilford's wall lizard, Podarcis lilfordi (Günther, 1874) from the Balearic Islands (Spain).
Gomez-Garrido J, Cruz F, Alioto TS, ..., Otalora Acevedo KE, Baldo L
DNA Res. 30 (3) - [2023-06-01; online 2023-05-04]
NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca).
Peona V, Palacios-Gimenez OM, Lutgen D, ..., Suh A, Burri R
G3 (Bethesda) 13 (6) - [2023-06-01; online 2023-04-25]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Transcriptome and metabolome profiling identify factors potentially involved in pro-vitamin A accumulation in cassava landraces.
Olayide P, Alexandersson E, Tzfadia O, ..., Gisel A, Stavolone L
Plant Physiol Biochem 199 (-) 107713 [2023-06-00; online 2023-04-24]
Swedish Metabolomics Centre (SMC) [Service]
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The genomic basis and environmental correlates of local adaptation in the Atlantic horse mackerel (Trachurus trachurus).
Fuentes-Pardo AP, Farrell ED, Pettersson ME, Sprehn CG, Andersson L
Evol Appl 16 (6) 1201-1219 [2023-06-00; online 2023-06-06]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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The evolutionary maintenance of ancient recombining sex chromosomes in the ostrich.
Yazdi HP, Olito C, Kawakami T, ..., Hansson B, Cornwallis CK
PLoS Genet. 19 (6) e1010801 [2023-06-00; online 2023-06-30]
Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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The BioLymph study - implementing precision medicine approaches in lymphoma diagnostics, treatment and follow-up: feasibility and first results.
Smedby KE, Wästerlid T, Tham E, ..., Sonnevi K, Rosenquist R
Acta Oncol 62 (6) 560-564 [2023-06-00; online 2023-07-06]
Clinical Genomics Stockholm [Collaborative]
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Retention of essential fatty acids in fish differs by species, habitat use and nutritional quality of prey.
Bandara T, Brugel S, Andersson A, Lau DCP
Ecol Evol 13 (6) e10158 [2023-06-00; online 2023-06-01]
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Rehydration Post-orientation: Investigating Field-Induced Structural Changes via Computational Rehydration.
Brodmerkel MN, De Santis E, Caleman C, Marklund EG
Protein J 42 (3) 205-218 [2023-06-00; online 2023-04-08]
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Proteomic analysis reveals microvesicles containing NAMPT as mediators of radioresistance in glioma.
Panizza E, Regalado BD, Wang F, ..., Cerione RA, Antonyak MA
Life Sci. Alliance 6 (6) - [2023-06-00; online 2023-04-10]
Global Proteomics and Proteogenomics [Service]
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Persistent immunosuppressive effects of dibutyl phthalate exposure in adult male mice
Pierozan P, Källsten L, Theodoropoulou E, Almamoun R, Karlsson O
Science of The Total Environment 878 (-) 162741 [2023-06-00; online 2023-06-00]
Affinity Proteomics Stockholm [Service]
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Pathogenic antibody response to glucose-6-phosphate isomerase targets a modified epitope uniquely exposed on joint cartilage.
Li T, Ge C, Krämer A, ..., Gjertsson I, Holmdahl R
Ann. Rheum. Dis. 82 (6) 799-808 [2023-06-00; online 2023-03-01]
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Northwest African Neolithic initiated by migrants from Iberia and Levant.
Simões LG, Günther T, Martínez-Sánchez RM, ..., Valdiosera C, Jakobsson M
Nature 618 (7965) 550-556 [2023-06-00; online 2023-06-07]
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Multimodal chromatin profiling using nanobody-based single-cell CUT&Tag.
Bartosovic M, Castelo-Branco G
Nat. Biotechnol. 41 (6) 794-805 [2023-06-00; online 2022-12-19]
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High temperature interactions between coal ash and MgO-based refractories in lime kiln conditions
Wagri NK, Carlborg M, Eriksson M, ..., Broström M, Andersson BM
Fuel 342 (-) 127711 [2023-06-00; online 2023-06-00]
Integrated Microscopy Technologies Umeå [Service]
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Genome-wide association study and functional characterization identifies candidate genes for insulin-stimulated glucose uptake.
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Nat. Genet. 55 (6) 973-983 [2023-06-00; online 2023-06-08]
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Diagnostic Yield From a Nationwide Implementation of Precision Medicine for all Children With Cancer.
Wadensten E, Wessman S, Abel F, ..., Gisselsson D, Genomic Medicine Sweden Childhood Cancer Working Group
JCO Precision Oncology 7 (-) e2300039 [2023-06-00; online 2023-06-29]
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Correlative Chemical Imaging Identifies Amyloid Peptide Signatures of Neuritic Plaques and Dystrophy in Human Sporadic Alzheimer's Disease.
Koutarapu S, Ge J, Jha D, ..., Michno W, Hanrieder J
Brain Connect 13 (5) 297-306 [2023-06-00; online 2022-10-07]
Integrated Microscopy Technologies Gothenburg [Service]
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Contrasting plant-soil-microbial feedbacks stabilize vegetation types and uncouple topsoil C and N stocks across a subarctic-alpine landscape.
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Climate change-related warming reduces thermal sensitivity and modifies metabolic activity of coastal benthic bacterial communities.
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ISME J 17 (6) 855-869 [2023-06-00; online 2023-03-28]
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Atlas of mRNA translation and decay for bacteria.
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Nat Microbiol 8 (6) 1123-1136 [2023-06-00; online 2023-05-22]
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Swedish NMR Centre (SNC) [Service]
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Structural, vibrational, elastic, electronic, and piezoelectric properties of binary <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">γ<mml:mtext>−</mml:mtext><mml:mrow>GeX</mml:mrow></mml:math> and ternary <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">γ<mml:mtext>−</mml:mtext><mml:mrow><mml:msub>Ge2</mml:msub>X<mml:msup>X′</mml:msup></mml:mrow></mml:math> monolayers ( <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML">X</mml:math> , <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"><mml:msup>X′</mml:msup>=<mml:mi mathvariant="normal">S</mml:math> , Se, and Te)
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Adv Mater 35 (16) e2209113 [2023-04-00; online 2023-03-08]
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Riddell A, Hynynen J, Baena-Moreno F, ..., Parkås J, Bernin D
ACS Sustainable Chem. Eng. 11 (12) 4850-4859 [2023-03-27; online 2023-03-15]
Swedish NMR Centre (SNC) [Service]
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Deep learning-based segmentation and quantification of podocyte foot process morphology suggests differential patterns of foot process effacement across kidney pathologies.
Unnersjö-Jess D, Butt L, Höhne M, ..., Bozek K, Benzing T
Kidney Int. - (-) - [2023-03-27; online 2023-03-27]
Integrated Microscopy Technologies Stockholm [Collaborative]
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Correlative Chemical Imaging and Spatial Chemometrics Delineate Alzheimer Plaque Heterogeneity at High Spatial Resolution.
Wehrli PM, Ge J, Michno W, ..., Blennow K, Hanrieder J
JACS Au 3 (3) 762-774 [2023-03-27; online 2023-03-07]
Integrated Microscopy Technologies Gothenburg [Service]
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A small noncoding RNA links ribosome recovery and translation control to dedifferentiation during salamander limb regeneration.
Subramanian E, Elewa A, Brito G, ..., Andersson O, Simon A
Dev. Cell 58 (6) 450-460.e6 [2023-03-27; online 2023-03-08]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Simultaneous Ultra-Sensitive Detection of Structural and Single Nucleotide Variants Using Multiplex Droplet Digital PCR in Liquid Biopsies from Children with Medulloblastoma.
Arthur C, Jylhä C, de Ståhl TD, ..., Sandvik U, Tham E
Cancers (Basel) 15 (7) - [2023-03-25; online 2023-03-25]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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RNA silencing proteins and small RNAs in oomycete plant pathogens and biocontrol agents.
Piombo E, Kelbessa BG, Sundararajan P, ..., Vetukuri RR, Dubey M
Front Microbiol 14 (-) 1076522 [2023-03-24; online 2023-03-24]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Prediction model for drug response of acute myeloid leukemia patients.
Trac QT, Pawitan Y, Mou T, ..., Kallioniemi O, Vu TN
NPJ Precis Oncol 7 (1) 32 [2023-03-24; online 2023-03-24]
Bioinformatics Compute and Storage [Service]
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Intranasal trimeric sherpabody inhibits SARS-CoV-2 including recent immunoevasive Omicron subvariants.
Mäkelä AR, Uğurlu H, Hannula L, ..., Rissanen I, Saksela K
Nat Commun 14 (1) 1637 [2023-03-24; online 2023-03-24]
Cryo-EM [Service]
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New Dual Inhibitors of Bacterial Topoisomerases with Broad-Spectrum Antibacterial Activity and In Vivo Efficacy against Vancomycin-Intermediate Staphylococcus aureus.
Durcik M, Cotman AE, Toplak Ž, ..., Tomašič T, Peterlin Mašič L
J. Med. Chem. 66 (6) 3968-3994 [2023-03-23; online 2023-03-06]
Drug Discovery and Development (DDD) [Service]
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Micro-scale spatial preference and temporal cyclicity linked to foraging in harbour porpoises
Stedt J, Wahlberg M, Carlström J, ..., Oskolkov N, Carlsson P
Mar. Ecol. Prog. Ser. 708 (-) 143-161 [2023-03-23; online 2023-03-23]
Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
PubMed DOI Crossref
Exposure to nonanoic acid alters small intestinal neuroendocrine tumor phenotype.
Almobarak B, Amlani V, Inge L, ..., Arvidsson Y, Elias E
BMC Cancer 23 (1) 267 [2023-03-23; online 2023-03-23]
Clinical Genomics Gothenburg [Service]
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Evidence for a single, ancient origin of a genus-wide alternative life history strategy.
Tunström K, Woronik A, Hanly JJ, ..., Martin A, Wheat CW
Sci Adv 9 (12) eabq3713 [2023-03-22; online 2023-03-22]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Correlates of protection and viral load trajectories in omicron breakthrough infections in triple vaccinated healthcare workers.
Marking U, Havervall S, Norin NG, ..., Klingström J, Thålin C
Nat Commun 14 (1) 1577 [2023-03-22; online 2023-03-22]
Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]
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Serum immuno-oncology markers carry independent prognostic information in patients with newly diagnosed metastatic breast cancer, from a prospective observational study.
Gunnarsdottir FB, Bendahl PO, Johansson A, ..., Bergenfelz C, Larsson AM
Breast Cancer Res. 25 (1) 29 [2023-03-21; online 2023-03-21]
Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]
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Erickson A, Motta A, Kastriti ME, ..., Bonanomi D, Adameyko I
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Integrated Microscopy Technologies Stockholm [Collaborative]
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Complete Reference Genome Sequence of the Clinical Neisseria gonorrhoeae Strain H035, with Resistance to the Novel Antimicrobial Zoliflodacin, Identified in Japan in 2000.
Golparian D, Jacobsson S, Ohnishi M, Unemo M
Microbiol Resour Announc 12 (3) e0113022 [2023-03-16; online 2023-02-28]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Rapid and accurate determination of protein content in North Atlantic seaweed by NIR and FTIR spectroscopies.
Niemi C, Mortensen AM, Rautenberger R, ..., Gorzsás A, Gentili FG
Food Chem 404 (Pt B) 134700 [2023-03-15; online 2022-10-19]
Swedish Metabolomics Centre (SMC) [Service]
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Autoantibodies against PIP4K2B and AKT3 Are Associated with Skin and Lung Fibrosis in Patients with Systemic Sclerosis.
Geroldinger-Simić M, Bayati S, Pohjanen E, ..., Nilsson P, Pin E
Int J Mol Sci 24 (6) - [2023-03-15; online 2023-03-15]
Autoimmunity and Serology Profiling [Collaborative]
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An integrated single cell and spatial transcriptomic map of human white adipose tissue.
Massier L, Jalkanen J, Elmastas M, ..., Rydén M, Mejhert N
Nat Commun 14 (1) 1438 [2023-03-15; online 2023-03-15]
NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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A proinsulin-dependent interaction between ENPL-1 and ASNA-1 in neurons is required to maintain insulin secretion in C. elegans.
Podraza-Farhanieh A, Raj D, Kao G, Naredi P
Development 150 (6) - [2023-03-15; online 2023-03-20]
Clinical Genomics Gothenburg [Service] Glycoproteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]
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Tetramodal Chemical Imaging Delineates the Lipid-Amyloid Peptide Interplay at Single Plaques in Transgenic Alzheimer's Disease Models.
Ge J, Koutarapu S, Jha D, ..., Blennow K, Hanrieder J
Anal. Chem. 95 (10) 4692-4702 [2023-03-14; online 2023-03-01]
Integrated Microscopy Technologies Gothenburg [Service]
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A MITE insertion abolishes the AP3-3 self-maintenance regulatory loop in apetalous flowers of Nigella damascena.
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J. Exp. Bot. 74 (5) 1448-1459 [2023-03-13; online 2022-12-14]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization.
Amselem E, Broadwater B, Hävermark T, Johansson M, Elf J
Nat Commun 14 (1) 1336 [2023-03-11; online 2023-03-11]
Bioinformatics Compute and Storage [Service]
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Proteome integral solubility alteration high-throughput proteomics assay identifies Collectin-12 as a non-apoptotic microglial caspase-3 substrate.
Grabert K, Engskog-Vlachos P, Škandík M, ..., Joseph B, Cheray M
Cell Death Dis 14 (3) 192 [2023-03-11; online 2023-03-11]
Chemical Proteomics [Service]
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In Vitro and In Vivo Development of a β-Lactam-Metallo-β-Lactamase Inhibitor: Targeting Carbapenem-Resistant Enterobacterales.
Peters BK, Reddy N, Shungube M, ..., Naicker T, Govender T
ACS Infect Dis 9 (3) 486-496 [2023-03-10; online 2023-02-14]
Drug Discovery and Development (DDD) [Collaborative]
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Enhanced glycerol assimilation and lipid production in Rhodotorula toruloides CBS14 upon addition of hemicellulose primarily correlates with early transcription of energy-metabolism-related genes.
Martín-Hernández GC, Chmielarz M, Müller B, ..., Hölzer M, Passoth V
Biotechnol Biofuels Bioprod 16 (1) 42 [2023-03-10; online 2023-03-10]
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One Health surveillance-A cross-sectoral detection, characterization, and notification of foodborne pathogens.
Tast Lahti E, Karamehmedovic N, Riedel H, ..., Zajac M, Jernberg C
Front Public Health 11 (-) 1129083 [2023-03-08; online 2023-03-08]
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Comprehensive transcriptome analysis of different potato cultivars provides insight into early blight disease caused by Alternaria solani.
Sajeevan RS, Abdelmeguid I, Saripella GV, Lenman M, Alexandersson E
BMC Plant Biol. 23 (1) 130 [2023-03-08; online 2023-03-08]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Melatonin Prescription in Children and Adolescents in Relation to Body Weight and Age.
Kimland EE, Dahlén E, Martikainen J, Célind J, Kindblom JM
Pharmaceuticals (Basel) 16 (3) - [2023-03-06; online 2023-03-06]
Clinical Genomics Gothenburg [Collaborative]
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Identification of phenotypically, functionally, and anatomically distinct stromal niche populations in human bone marrow based on single-cell RNA sequencing.
Li H, Bräunig S, Dhapolar P, ..., Lang S, Scheding S
Elife 12 (-) - [2023-03-06; online 2023-03-06]
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Venetoclax-Resistant T-ALL Cells Display Distinct Cancer Stem Cell Signatures and Enrichment of Cytokine Signaling.
Shah K, Al Ashiri L, Nasimian A, Ahmed M, Kazi JU
Int J Mol Sci 24 (5) - [2023-03-05; online 2023-03-05]
Clinical Genomics Lund [Service]
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miRNome and Proteome Profiling of Human Keratinocytes and Adipose Derived Stem Cells Proposed miRNA-Mediated Regulations of Epidermal Growth Factor and Interleukin 1-Alpha.
Shahin H, Abdallah S, Das J, ..., Elmasry M, El-Serafi AT
Int J Mol Sci 24 (5) - [2023-03-04; online 2023-03-04]
Clinical Genomics Linköping [Collaborative]
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Short term starvation potentiates the efficacy of chemotherapy in triple negative breast cancer via metabolic reprogramming.
Pateras IS, Williams C, Gianniou DD, ..., Gilthorpe JD, Frisan T
J Transl Med 21 (1) 169 [2023-03-03; online 2023-03-03]
Swedish Metabolomics Centre (SMC) [Service]
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Rickettsia felis DNA recovered from a child who lived in southern Africa 2000 years ago.
Rifkin RF, Vikram S, Alcorta J, ..., Schlebusch CM, Lombard M
Commun Biol 6 (1) 240 [2023-03-03; online 2023-03-03]
NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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ARF suppression by MYC but not MYCN confers increased malignancy of aggressive pediatric brain tumors.
Mainwaring OJ, Weishaupt H, Zhao M, ..., Hutter S, Swartling FJ
Nat Commun 14 (1) 1221 [2023-03-03; online 2023-03-03]
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A Mitosome With Distinct Metabolism in the Uncultured Protist Parasite Paramikrocytos canceri (Rhizaria, Ascetosporea).
Onuț-Brännström I, Stairs CW, Campos KIA, ..., Bass D, Burki F
Genome Biol Evol 15 (3) - [2023-03-03; online 2023-02-16]
Bioinformatics Compute and Storage [Service]
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Genome-wide analysis identifies genetic effects on reproductive success and ongoing natural selection at the FADS locus.
Mathieson I, Day FR, Barban N, ..., Mills MC, Perry JRB
Nat Hum Behav - (-) - [2023-03-02; online 2023-03-02]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Frequent use of IGHV3-30-3 in SARS-CoV-2 neutralizing antibody responses.
Pushparaj P, Nicoletto A, Dopico XC, ..., Corcoran M, Karlsson Hedestam GB
Front Virol 3 (-) 1128253 [2023-03-01; online 2023-04-13]
Structural Proteomics [Collaborative]
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Clonal relationships of memory B cell subsets in autoimmune mice.
Aranburu A, Engström E, Gerasimcik N, ..., Grimsholm O, Mårtensson IL
Front Immunol 14 (-) 1129234 [2023-03-01; online 2023-03-01]
Clinical Genomics Gothenburg [Service]
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Subtyping of cardiac amyloidosis by mass spectrometry-based proteomics of endomyocardial biopsies.
Noborn F, Thomsen C, Vorontsov E, ..., Oldfors A, Larson G
Amyloid 30 (1) 96-108 [2023-03-00; online 2022-10-09]
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Structural basis of mitochondrial membrane bending by the I-II-III2-IV2 supercomplex.
Mühleip A, Flygaard RK, Baradaran R, ..., Sharma V, Amunts A
Nature 615 (7954) 934-938 [2023-03-00; online 2023-03-22]
Cryo-EM [Service]
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Striking membrane defects in AdipoR-deficient cells.
Ruiz M, Panagaki D, Höög JL, Pilon M
J. Lipid Res. 64 (3) 100335 [2023-03-00; online 2023-01-20]
Integrated Microscopy Technologies Gothenburg [Service]
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Serum metabolites associated with wholegrain consumption using nontargeted metabolic profiling: a discovery and reproducibility study.
Noerman S, Virtanen JK, Lehtonen M, Brunius C, Hanhineva K
Eur J Nutr 62 (2) 713-726 [2023-03-00; online 2022-10-06]
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Rapid adaptations of Legionella pneumophila to the human host.
Leenheer D, Moreno AB, Paranjape K, ..., Ginevra C, Guy L
Microb Genom 9 (3) - [2023-03-00; online 2023-03-23]
Bioinformatics Compute and Storage [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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Proteogenomic analysis of acute myeloid leukemia associates relapsed disease with reprogrammed energy metabolism both in adults and children.
Stratmann S, Vesterlund M, Umer HM, ..., Lehtiö J, Holmfeldt L
Leukemia 37 (3) 550-559 [2023-03-00; online 2022-12-26]
Bioinformatics Compute and Storage [Service] Global Proteomics and Proteogenomics [Collaborative]
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Population structure and hybridisation in a population of Hawaiian feral chickens.
Martin Cerezo ML, López S, van Dorp L, ..., Henriksen R, Wright D
Heredity (Edinb) 130 (3) 154-162 [2023-03-00; online 2023-02-01]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Occupational inhalable agents constitute major risk factors for rheumatoid arthritis, particularly in the context of genetic predisposition and smoking.
Tang B, Liu Q, Ilar A, ..., Alfredsson L, Jiang X
Ann. Rheum. Dis. 82 (3) 316-323 [2023-03-00; online 2022-12-06]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Multiple introgressions shape mitochondrial evolutionary history in Drosophila paulistorum and the Drosophila willistoni group.
Baião GC, Schneider DI, Miller WJ, Klasson L
Mol. Phylogenet. Evol. 180 (-) 107683 [2023-03-00; online 2022-12-24]
Bioinformatics Compute and Storage [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Multidrug-resistant Neisseria gonorrhoeae isolate SE690: mosaic penA-60.001 gene causing ceftriaxone resistance internationally has spread to the more antimicrobial-susceptible genomic lineage, Sweden, September 2022.
Golparian D, Vestberg N, Södersten W, ..., Bhattarai KH, Unemo M
Euro Surveill. 28 (10) - [2023-03-00; online 2023-03-10]
Clinical Genomics Örebro [Collaborative]
PubMed DOI Crossref
Multi-ancestry genome-wide association analyses improve resolution of genes and pathways influencing lung function and chronic obstructive pulmonary disease risk.
Shrine N, Izquierdo AG, Chen J, ..., Hall IP, Tobin MD
Nat. Genet. 55 (3) 410-422 [2023-03-00; online 2023-03-13]
NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]
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Stenqvist B, Ericson MB, Gregoire S, ..., Engblom J, Sparr E
Journal of Colloid and Interface Science 633 (-) 526-535 [2023-03-00; online 2023-03-00]
Integrated Microscopy Technologies Gothenburg [Service]
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Isobaric labeling-based quantitative proteomics of FACS-purified immune cells and epithelial cells from the intestine of Crohn's disease patients reveals proteome changes of potential importance in disease pathogenesis.
Alfredsson J, Fabrik I, Gorreja F, ..., Lindskog EB, Wick MJ
Proteomics 23 (5) e2200366 [2023-03-00; online 2022-12-25]
Glycoproteomics [Collaborative]
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Increasing Complexity of the N-Glycome During Caenorhabditis Development.
Wilson IBH, Yan S, Jin C, ..., Schnabel R, Paschinger K
Mol. Cell Proteomics 22 (3) 100505 [2023-03-00; online 2023-01-28]
Glycoproteomics [Service]
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Fuel 335 (-) 127059 [2023-03-00; online 2023-03-00]
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Fast three-dimensional image generation for healthy brain aging using diffeomorphic registration.
Fu J, Tzortzakakis A, Barroso J, ..., Moreno R, Alzheimer's Disease Neuroimaging Initiative
Hum Brain Mapp 44 (4) 1289-1308 [2023-03-00; online 2022-12-05]
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Ectomycorrhizal fungi with hydrophobic mycelia and rhizomorphs dominate in young pine trees surviving experimental drought stress
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Soil Biology and Biochemistry 178 (-) 108932 [2023-03-00; online 2023-03-00]
NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]
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Comprehensive characterization of complex glycosphingolipids in human pancreatic cancer tissues.
Hořejší K, Jin C, Vaňková Z, ..., Teneberg S, Holčapek M
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Glycoproteomics [Service]
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Cardiovascular disease-linked plasma proteins are mainly associated with lung volume.
Rydell A, Nerpin E, Zhou X, ..., Ärnlöv J, Malinovschi A
ERJ Open Res 9 (2) - [2023-03-00; online 2023-03-27]
Affinity Proteomics Uppsala [Service]
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NCF1-dependent production of ROS protects against lupus by regulating plasmacytoid dendritic cell development and functions.
Luo H, Urbonaviciute V, Saei AA, ..., Zubarev RA, Holmdahl R
JCI Insight - (-) - [2023-02-28; online 2023-02-28]
Chemical Proteomics [Service]
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Muc2-dependent microbial colonization of the jejunal mucus layer is diet sensitive and confers local resistance to enteric pathogen infection.
Birchenough GMH, Schroeder BO, Sharba S, ..., Bäckhed F, Hansson GC
Cell Rep 42 (2) 112084 [2023-02-28; online 2023-02-06]
Integrated Microscopy Technologies Gothenburg [Service]
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Insights into the structure-function relationship of the NorQ/NorD chaperones from Paracoccus denitrificans reveal shared principles of interacting MoxR AAA+/VWA domain proteins.
Kahle M, Appelgren S, Elofsson A, Carroni M, Ädelroth P
BMC Biol. 21 (1) 47 [2023-02-28; online 2023-02-28]
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Chitosan-Modified Polyethyleneimine Nanoparticles for Enhancing the Carboxylation Reaction and Plants' CO2 Uptake.
Routier C, Vallan L, Daguerre Y, ..., Pavlopoulou E, Stavrinidou E
ACS Nano 17 (4) 3430-3441 [2023-02-28; online 2023-02-16]
Swedish Metabolomics Centre (SMC) [Service]
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Structure and mechanism of a tripartite ATP-independent periplasmic TRAP transporter.
Davies JS, Currie MJ, North RA, ..., Mace PD, Dobson RCJ
Nat Commun 14 (1) 1120 [2023-02-27; online 2023-02-27]
Cryo-EM [Collaborative]
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Single-Cell Transcriptomics To Define Plasmodium falciparum Stage Transition in the Mosquito Midgut.
Mohammed M, Dziedziech A, Sekar V, ..., Vega-Rodriguez J, Ankarklev J
Microbiol Spectr 11 (2) e0367122 [2023-02-27; online 2023-02-27]
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Targeted plasma proteomics reveals signatures discriminating COVID-19 from sepsis with pneumonia.
Palma Medina LM, Babačić H, Dzidic M, ..., Strålin K, Norrby-Teglund A
Respir. Res. 24 (1) 62 [2023-02-24; online 2023-02-24]
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Reproducing extracellular matrix adverse remodelling of non-ST myocardial infarction in a large animal model.
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Nat Commun 14 (1) 995 [2023-02-22; online 2023-02-22]
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Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics.
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Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]
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Metagenomic and single-cell RNA-Seq survey of the Helicobacter pylori-infected stomach in asymptomatic individuals.
Sorini C, Tripathi KP, Wu S, ..., Du J, Villablanca EJ
JCI Insight 8 (4) - [2023-02-22; online 2023-02-22]
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Accelerated epigenetic aging in women with emotionally unstable personality disorder and a history of suicide attempts.
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Targeting the gut-lung axis by synbiotic feeding to infants in a randomized controlled trial.
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BMC Biol. 21 (1) 38 [2023-02-20; online 2023-02-20]
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Endosperm cellularization failure induces a dehydration-stress response leading to embryo arrest.
Xu W, Sato H, Bente H, Santos-González J, Köhler C
Plant Cell 35 (2) 874-888 [2023-02-20; online 2022-11-26]
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Multi-organ single-cell analysis reveals an on/off switch system with potential for personalized treatment of immunological diseases.
Lilja S, Li X, Smelik M, ..., Wang H, Benson M
Cell Reports Medicine - (-) 100956 [2023-02-17; online 2023-02-17]
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Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.
Li B, Zeis P, Zhang Y, ..., Steinmetz LM, Pelechano V
Nat Commun 14 (1) 910 [2023-02-17; online 2023-02-17]
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Antibiotic thermorubin tethers ribosomal subunits and impedes A-site interactions to perturb protein synthesis in bacteria.
Parajuli NP, Emmerich A, Mandava CS, Pavlov MY, Sanyal S
Nat Commun 14 (1) 918 [2023-02-17; online 2023-02-17]
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Cryo-EM structure and function of S. pombe complex IV with bound respiratory supercomplex factor.
Moe A, Ädelroth P, Brzezinski P, Näsvik Öjemyr L
Commun Chem 6 (1) 32 [2023-02-16; online 2023-02-16]
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Conformational Dynamics of Phytoglobin BvPgb1.2 from Beta vulgaris ssp. vulgaris.
Christensen S, Stenström O, Akke M, Bülow L
Int J Mol Sci 24 (4) - [2023-02-16; online 2023-02-16]
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Boron-Mediated Regioselective Aromatic C-H Functionalization via an Aryl BF2 Complex.
Shinde GH, Sundén H
Chemistry 29 (10) e202203505 [2023-02-16; online 2022-12-23]
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Prognostic importance of biomarkers associated with haemostatic, vascular and endothelial disturbances in acute coronary syndrome patients in relation to kidney function.
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Associations of DNA Methylation With Behavioral Problems, Gray Matter Volumes, and Negative Life Events Across Adolescence: Evidence From the Longitudinal IMAGEN Study.
Sun Y, Jia T, Barker ED, ..., Schumann G, Desrivières S
Biol. Psychiatry 93 (4) 342-351 [2023-02-15; online 2022-06-22]
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Hardege I, Morud J, Courtney A, Schafer WR
J. Neurosci. 43 (7) 1111-1124 [2023-02-15; online 2023-01-05]
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Methods Mol. Biol. 2628 (-) 535-553 [2023-02-14; online 2023-02-14]
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Prevalence and persistence of Neisseria meningitidis carriage in Swedish university students.
Olof S, Lorraine E, Berhane A I, ..., Paula M, Susanne J
Epidemiol. Infect. 151 (-) e25 [2023-02-13; online 2023-02-13]
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Wallander K, Haider Z, Jeggari A, ..., Lindblad M, Tham E
Cancers (Basel) 15 (4) - [2023-02-11; online 2023-02-11]
Clinical Genomics Stockholm [Collaborative]
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DNA methylation changes and increased mRNA expression of coagulation proteins, factor V and thrombomodulin in Fuchs endothelial corneal dystrophy.
Westin IM, Landfors M, Giannopoulos A, ..., Degerman S, Golovleva I
Cell. Mol. Life Sci. 80 (3) 62 [2023-02-11; online 2023-02-11]
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Genomic architecture of migration timing in a long-distance migratory songbird.
de Greef E, Suh A, Thorstensen MJ, Delmore KE, Fraser KC
Sci Rep 13 (1) 2437 [2023-02-10; online 2023-02-10]
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Bacteroidetes to Firmicutes: captivity changes the gut microbiota composition and diversity in a social subterranean rodent.
Bensch HM, Tolf C, Waldenström J, Lundin D, Zöttl M
Anim Microbiome 5 (1) 9 [2023-02-10; online 2023-02-10]
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Salvà-Serra F, Jaén-Luchoro D, Marathe NP, ..., Moore ERB, Karlsson R
Front Microbiol 13 (-) 1089140 [2023-02-09; online 2023-02-09]
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Combinatory analysis of immune cell subsets and tumor-specific genetic variants predict clinical response to PD-1 blockade in patients with non-small cell lung cancer.
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Front Oncol 12 (-) 1073457 [2023-02-09; online 2023-02-09]
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Chem. Rev. 123 (3) 1040-1102 [2023-02-08; online 2023-01-09]
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A human monoclonal antibody bivalently binding two different epitopes in streptococcal M protein mediates immune function.
Bahnan W, Happonen L, Khakzad H, ..., Malmström J, Nordenfelt P
EMBO Mol Med 15 (2) e16208 [2023-02-08; online 2022-12-12]
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Microneedle Patch for Painless Intradermal Collection of Interstitial Fluid Enabling Multi-analyte Measurement of Small Molecules, SARS-CoV-2 Antibodies, and Protein Profiling.
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Adv Healthc Mater - (-) e2202564 [2023-02-07; online 2023-02-07]
Affinity Proteomics Stockholm [Collaborative]
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Generation and analysis of context-specific genome-scale metabolic models derived from single-cell RNA-Seq data.
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Proc. Natl. Acad. Sci. U.S.A. 120 (6) e2217868120 [2023-02-07; online 2023-01-31]
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A nontuberculous mycobacterium could solve the mystery of the lady from the Franciscan church in Basel, Switzerland.
Sarhan MS, Wurst C, Tzankov A, ..., Zink A, Maixner F
BMC Biol. 21 (1) 9 [2023-02-07; online 2023-02-07]
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The anti-leprosy drug clofazimine reduces polyQ toxicity through activation of PPAR
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Plasma Concentrations of Gut Hormones Acyl Ghrelin and Peptide YY and Subsequent Risk of Colorectal Cancer and Molecular Tumor Subtypes.
Bodén S, Harbs J, Sundkvist A, ..., Harlid S, Van Guelpen B
Cancer Prev Res (Phila) 16 (2) 75-87 [2023-02-06; online 2022-11-12]
Clinical Genomics Umeå [Collaborative]
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Cohort profile: The Clinical and Multi-omic (CAMO) cohort, part of the Norwegian Women and Cancer (NOWAC) study.
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PLoS ONE 18 (2) e0281218 [2023-02-06; online 2023-02-06]
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Larval transcriptomes reflect the evolutionary history of plant-insect associations.
de la Paz Celorio-Mancera M, Steward RA, Pruisscher P, ..., Wheat CW, Nylin S
Evolution 77 (2) 519-533 [2023-02-04; online 2023-01-11]
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Cryo-EM structure supports a role of AQP7 as a junction protein.
Huang P, Venskutonytė R, Prasad RB, ..., Artner I, Lindkvist-Petersson K
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Proteomic Analysis of Mucosal and Systemic Responses to SARS-CoV-2 Antigen.
Martinson N, Gordhan B, Petkov S, ..., Kana B, Herrera C
Vaccines (Basel) 11 (2) - [2023-02-02; online 2023-02-02]
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Proteogenomics decodes the evolution of human ipsilateral breast cancer.
De Marchi T, Pyl PT, Sjöström M, ..., Malmstöm J, Niméus E
Commun Biol 6 (1) 139 [2023-02-02; online 2023-02-02]
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Matikas A, Johansson H, Grybäck P, ..., Hatschek T, Foukakis T
Clin. Cancer Res. 29 (3) 532-540 [2023-02-01; online 2022-12-01]
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Population genomics of the island thrush elucidates one of earth's great archipelagic radiations.
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Evolution Letters 7 (1) 24-36 [2023-02-01; online 2023-01-31]
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Immune-Activated B Cells Are Dominant in Prostate Cancer.
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Anaerobic mercury methylators inhabit sinking particles of oxic water columns.
Capo E, Cosio C, Gascón Díez E, ..., Franzenburg S, Bravo AG
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Boussardon C, Keech O
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Simultaneous membrane and RNA binding by tick-borne encephalitis virus capsid protein.
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Plasma levels of CCL21, but not CCL19, independently predict future coronary events in a prospective population-based cohort.
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Migratory behaviour is positively associated with genetic diversity in butterflies.
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Genes Chromosomes Cancer 62 (2) 93-100 [2023-02-00; online 2022-09-30]
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Hypercomplex Low Rank Reconstruction for NMR Spectroscopy
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Signal Processing 203 (-) 108809 [2023-02-00; online 2023-02-00]
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Distinct T cell subsets in adipose tissue are associated with obesity.
Haugstøyl ME, Cornillet M, Strand K, ..., Fernø J, Björkström NK
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Diseased thyroid tissue classification in OCT images using deep learning: Towards surgical decision support.
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Chemosphere 313 (-) 137344 [2023-02-00; online 2022-11-26]
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Carbon substrate selects for different lineages of N2O reducing communities in soils under anoxic conditions
Maheshwari A, Jones CM, Tiemann M, Hallin S
Soil Biology and Biochemistry 177 (-) 108909 [2023-02-00; online 2023-02-00]
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Arvidsson M, Rashed SK, Aits S
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An allozyme polymorphism is associated with a large chromosomal inversion in the marine snail Littorina fabalis.
Le Moan A, Panova M, De Jode A, ..., Butlin R, Johannesson K
Evol Appl 16 (2) 279-292 [2023-02-00; online 2022-06-26]
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A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung.
Sountoulidis A, Marco Salas S, Braun E, ..., Nilsson M, Samakovlis C
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7-month duration of SARS-CoV-2 mucosal immunoglobulin-A responses and protection.
Marking U, Bladh O, Havervall S, ..., Klingström J, Thålin C
Lancet Infect Dis 23 (2) 150-152 [2023-02-00; online 2023-01-11]
Affinity Proteomics Uppsala [Collaborative]
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6α-hydroxylated bile acids mediate TGR5 signalling to improve glucose metabolism upon dietary fiber supplementation in mice.
Makki K, Brolin H, Petersen N, ..., Marschall HU, Bäckhed F
Gut 72 (2) 314-324 [2023-02-00; online 2022-06-13]
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Stochastic nuclear organization and host-dependent allele contribution in Rhizophagus irregularis.
van Creij J, Auxier B, An J, ..., Pan Z, Limpens E
BMC Genomics 24 (1) 53 [2023-01-28; online 2023-01-28]
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The motor system is exceptionally vulnerable to absence of the ubiquitously expressed superoxide dismutase-1.
Park JH, Nordström U, Tsiakas K, ..., Marklund SL, Andersen PM
Brain Commun 5 (1) fcad017 [2023-01-27; online 2023-01-27]
Swedish Metabolomics Centre (SMC) [Service]
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Inversions maintain differences between migratory phenotypes of a songbird.
Lundberg M, Mackintosh A, Petri A, Bensch S
Nat Commun 14 (1) 452 [2023-01-27; online 2023-01-27]
Bioinformatics Compute and Storage [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]
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Discovery and Hit-to-Lead Optimization of Benzothiazole Scaffold-Based DNA Gyrase Inhibitors with Potent Activity against Acinetobacter baumannii and Pseudomonas aeruginosa.
Cotman AE, Durcik M, Benedetto Tiz D, ..., Sterk GJ, Kikelj D
J. Med. Chem. 66 (2) 1380-1425 [2023-01-26; online 2023-01-12]
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Starch intake, amylase gene copy number variation, plasma proteins, and risk of cardiovascular disease and mortality.
Li H, Borné Y, Wang Y, Sonestedt E
BMC Med 21 (1) 27 [2023-01-24; online 2023-01-24]
Affinity Proteomics Uppsala [Service]
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Ginsenoside Rg3 Reduces the Toxicity of Graphene Oxide Used for pH-Responsive Delivery of Doxorubicin to Liver and Breast Cancer Cells.
Rahimi S, van Leeuwen D, Roshanzamir F, ..., Esbjörner EK, Mijakovic I
Pharmaceutics 15 (2) - [2023-01-24; online 2023-01-24]
Integrated Microscopy Technologies Gothenburg [Service]
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Direct structure determination of vemurafenib polymorphism from compact spherulites using 3D electron diffraction.
Li S, Lightowler M, Ou X, ..., Xu H, Lu M
Commun Chem 6 (1) 18 [2023-01-23; online 2023-01-23]
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Metabolic modelling of the human gut microbiome in type 2 diabetes patients in response to metformin treatment.
Ezzamouri B, Rosario D, Bidkhori G, ..., Uhlen M, Shoaie S
npj Syst Biol Appl 9 (1) 2 [2023-01-21; online 2023-01-21]
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Biocontrol Effect of Clonostachys rosea on Fusarium graminearum Infection and Mycotoxin Detoxification in Oat (Avena sativa).
Khairullina A, Micic N, Jørgensen HJL, ..., Collinge DB, Jensen B
Plants (Basel) 12 (3) - [2023-01-21; online 2023-01-21]
Swedish Metabolomics Centre (SMC) [Service]
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High-density linkage maps and chromosome level genome assemblies unveil direction and frequency of extensive structural rearrangements in wood white butterflies (Leptidea spp.).
Höök L, Näsvall K, Vila R, Wiklund C, Backström N
Chromosome Res. 31 (1) 2 [2023-01-20; online 2023-01-20]
Bioinformatics Compute and Storage [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]
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