Publications 2015

Table
JSON
CSV

Publications

2019 (26)

2018 (540)

2017 (601)

2016 (632)

2015 (423)

2014 (374)

2013 (318)

2012 (243)

2011 (164)

2010 (139)

All (3460)


Facilities

Journals

423 publications

PubMed DOI Crossref
Sequence and gene expression evolution of paralogous genes in willows.
Harikrishnan SL, Pucholt P, Berlin S
pmc
Sci Rep 5 (-) 18662 [2015-12-22; online 2015-12-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling.
Habuka M, Fagerberg L, Hallström BM, ..., Yamamoto T, Uhlen M
pmc
PLoS ONE 10 (12) e0145301 [2015-12-22; online 2015-12-22]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Collaborative]
PubMed DOI Crossref
Transcriptome analysis reveals mucin 4 to be highly associated with periodontitis and identifies pleckstrin as a link to systemic diseases.
Lundmark A, Davanian H, Båge T, ..., Lundeberg J, Yucel-Lindberg T
pmc
Sci Rep 5 (-) 18475 [2015-12-21; online 2015-12-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genome-wide genetic homogeneity between sexes and populations for human height and body mass index.
Yang J, Bakshi A, Zhu Z, ..., Ingelsson E, Visscher PM
Hum. Mol. Genet. 24 (25) 7445-7449 [2015-12-20; online 2015-10-22]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
A significant risk locus on 19q13 for bipolar disorder identified using a combined genome-wide linkage and copy number variation analysis.
Lekman M, Karlsson R, Graae L, Hössjer O, Kockum I
pmc
BioData Mining 8 (-) 42 [2015-12-18; online 2015-12-18]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Exploring water as building bricks in enzyme engineering.
Hendil-Forssell P, Martinelle M, Syrén PO
Chem. Commun. (Camb.) 51 (97) 17221-17224 [2015-12-18; online 2015-10-02]
Protein Science Facility (PSF)
PubMed DOI Crossref
Metagenome-assembled genomes uncover a global brackish microbiome.
Hugerth LW, Larsson J, Alneberg J, ..., Pinhassi J, Andersson AF
pmc
Genome Biol. 16 (-) 279 [2015-12-14; online 2015-12-14]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Metagenome-Based Metabolic Reconstruction Reveals the Ecophysiological Function of Epsilonproteobacteria in a Hydrocarbon-Contaminated Sulfidic Aquifer.
Keller AH, Schleinitz KM, Starke R, ..., Vogt C, Kleinsteuber S
pmc
Front Microbiol 6 (-) 1396 [2015-12-10; online 2015-12-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
High levels of WNT-5A in human glioma correlate with increased presence of tumor-associated microglia/monocytes.
Dijksterhuis JP, Arthofer E, Marinescu VD, ..., Mulder J, Schulte G
Exp. Cell Res. 339 (2) 280-288 [2015-12-10; online 2015-10-25]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Pleiotrophin promotes vascular abnormalization in gliomas and correlates with poor survival in patients with astrocytomas.
Zhang L, Kundu S, Feenstra T, ..., Dieterich LC, Dimberg A
Sci Signal 8 (406) ra125 [2015-12-08; online 2015-12-08]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Sixteen new lung function signals identified through 1000 Genomes Project reference panel imputation.
Soler Artigas M, Wain LV, Miller S, ..., Hall IP, Tobin MD
pmc
Nat Commun 6 (-) 8658 [2015-12-04; online 2015-12-04]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Quantitative Trait Locus and Genetical Genomics Analysis Identifies Putatively Causal Genes for Fecundity and Brooding in the Chicken.
Johnsson M, Jonsson KB, Andersson L, Jensen P, Wright D
pmc
G3 (Bethesda) 6 (2) 311-319 [2015-12-04; online 2015-12-04]
Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Population structure and genetic diversity in the nannandrous moss Homalothecium lutescens: does the dwarf male system facilitate gene flow?
Rosengren F, Hansson B, Cronberg N
pmc Dryad
BMC Evol. Biol. 15 (-) 270 [2015-12-03; online 2015-12-03]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Structural insights into the DNA-binding specificity of E2F family transcription factors.
Morgunova E, Yin Y, Jolma A, ..., Nilsson L, Taipale J
pmc BioProject PDB
Nat Commun 6 (-) 10050 [2015-12-03; online 2015-12-03]
Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)
PubMed DOI Crossref
Within-species divergence in the seminal fluid proteome and its effect on male and female reproduction in a beetle.
Goenaga J, Yamane T, Rönn J, Arnqvist G
pmc
BMC Evol. Biol. 15 (-) 266 [2015-12-02; online 2015-12-02]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
A Combination of Culture Conditions and Gene Expression Analysis Can Be Used to Investigate and Predict hES Cell Differentiation Potential towards Male Gonadal Cells.
Kjartansdóttir KR, Reda A, Panula S, ..., Hovatta O, Stukenborg JB
pmc
PLoS ONE 10 (12) e0144029 [2015-12-02; online 2015-12-02]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Multi-level omics analysis in a murine model of dystrophin loss and therapeutic restoration.
Roberts TC, Johansson HJ, McClorey G, ..., El Andaloussi S, Wood MJ
pmc
Hum. Mol. Genet. 24 (23) 6756-6768 [2015-12-01; online 2015-09-20]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Protein profiling reveals consequences of lifestyle choices on predicted biological aging.
Enroth S, Enroth SB, Johansson Å, Gyllensten U
pmc
Sci Rep 5 (-) 17282 [2015-12-01; online 2015-12-01]
Clinical Biomarkers
PubMed DOI Crossref
Dietary Fiber-Induced Improvement in Glucose Metabolism Is Associated with Increased Abundance of Prevotella.
Kovatcheva-Datchary P, Nilsson A, Akrami R, ..., Björck I, Bäckhed F
Cell Metab. 22 (6) 971-982 [2015-12-01; online 2015-11-11]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Highly Sensitive FRET-FCS Detects Amyloid β-Peptide Oligomers in Solution at Physiological Concentrations.
Wennmalm S, Chmyrov V, Widengren J, Tjernberg L
Anal. Chem. 87 (23) 11700-11705 [2015-12-01; online 2015-10-23]
Fluorescence Correlation Spectroscopy [Collaborative]
PubMed DOI Crossref
Metabolic Profiling of Chicken Embryos Exposed to Perfluorooctanoic Acid (PFOA) and Agonists to Peroxisome Proliferator-Activated Receptors.
Mattsson A, Kärrman A, Pinto R, Brunström B
pmc
PLoS ONE 10 (12) e0143780 [2015-12-01; online 2015-12-01]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Gene-based meta-analysis of genome-wide association studies implicates new loci involved in obesity.
Hägg S, Ganna A, Van Der Laan SW, ..., Pawitan Y, Ingelsson E
pmc
Hum. Mol. Genet. 24 (23) 6849-6860 [2015-12-01; online 2015-09-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Associations between circulating proteins and corresponding genes expressed in coronary thrombi in patients with acute myocardial infarction.
Helseth R, Weiss TW, Opstad TB, ..., Arnesen H, Seljeflot S
Thromb. Res. 136 (6) 1240-1244 [2015-12-00; online 2015-10-08]
Clinical Biomarkers [Service]
PubMed DOI Crossref
Bacterial diversity along a 2600 km river continuum.
Savio D, Sinclair L, Ijaz UZ, ..., Farnleitner AH, Eiler A
pmc mid
Environ. Microbiol. 17 (12) 4994-5007 [2015-12-00; online 2015-04-30]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Identification of proteins from human permanent erupted enamel.
Castiblanco GA, Rutishauser D, Ilag LL, ..., Castellanos JE, Mejía W
Eur. J. Oral Sci. 123 (6) 390-395 [2015-12-00; online 2015-10-04]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Captured metagenomics: large-scale targeting of genes based on 'sequence capture' reveals functional diversity in soils.
Manoharan L, Kushwaha SK, Hedlund K, Ahrén D
pmc
DNA Res. 22 (6) 451-460 [2015-12-00; online 2015-10-23]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Genetic fine mapping and genomic annotation defines causal mechanisms at type 2 diabetes susceptibility loci.
Gaulton KJ, Ferreira T, Lee Y, ..., Morris AP, DIAbetes Genetics Replication And Meta-analysis (DIAGRAM) Consortium
pmc mid
Nat. Genet. 47 (12) 1415-1425 [2015-12-00; online 2015-11-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Emmprin Expression Predicts Response and Survival following Cisplatin Containing Chemotherapy for Bladder Cancer: A Validation Study.
Hemdan T, Malmström PU, Jahnson S, Segersten U
J. Urol. 194 (6) 1575-1581 [2015-12-00; online 2015-06-30]
Tissue Profiling
PubMed DOI Crossref
Genetic association analyses implicate aberrant regulation of innate and adaptive immunity genes in the pathogenesis of systemic lupus erythematosus.
Bentham J, Morris DL, Cunninghame Graham DS, ..., Alarcón-Riquelme ME, Vyse TJ
pmc mid GEO
Nat. Genet. 47 (12) 1457-1464 [2015-12-00; online 2015-10-27]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The Constrained Maximal Expression Level Owing to Haploidy Shapes Gene Content on the Mammalian X Chromosome.
Hurst LD, Ghanbarian AT, Forrest AR, FANTOM consortium , Huminiecki L
pmc
PLoS Biol. 13 (12) e1002315 [2015-12-00; online 2015-12-18]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
The Plant Genome Integrative Explorer Resource: PlantGenIE.org.
Sundell D, Mannapperuma C, Netotea S, ..., Hvidsten TR, Street NR
New Phytol. 208 (4) 1149-1156 [2015-12-00; online 2015-07-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Amelioration of the Fitness Costs of Antibiotic Resistance Due To Reduced Outer Membrane Permeability by Upregulation of Alternative Porins.
Knopp M, Andersson DI
Mol. Biol. Evol. 32 (12) 3252-3263 [2015-12-00; online 2015-09-12]
Mass Spectrometry-based Proteomics, Uppsala
PubMed DOI Crossref
Phenotypic expansion of visceral myopathy associated with ACTG2 tandem base substitution.
Klar J, Raykova D, Gustafson E, ..., Wanders A, Dahl N
pmc
Eur. J. Hum. Genet. 23 (12) 1679-1683 [2015-12-00; online 2015-03-19]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
The body mass index (BMI) is significantly correlated with levels of cytokines and chemokines in cerebrospinal fluid
Larsson A, Carlsson L, Lind AL, ..., Kamali-Moghaddam M, Thulin M
Cytokine 76 (2) 514-518 [2015-12-00; online 2015-12-00]
Clinical Biomarkers [Service] PLA Proteomics [Collaborative]
PubMed DOI Crossref
Characterization of human organ donors testing positive for type 1 diabetes-associated autoantibodies.
Wiberg A, Granstam A, Ingvast S, ..., Korsgren O, Skog O
pmc
Clin. Exp. Immunol. 182 (3) 278-288 [2015-12-00; online 2015-08-28]
Tissue Profiling
PubMed DOI Crossref
Bioenergetic cues shift FXR splicing towards FXRα2 to modulate hepatic lipolysis and fatty acid metabolism.
Correia JC, Massart J, de Boer JF, ..., Groen AK, Ruas JL
pmc
Mol Metab 4 (12) 891-902 [2015-12-00; online 2015-09-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Discovery of New Risk Markers for Ischemic Stroke Using a Novel Targeted Proteomics Chip.
Lind L, Siegbahn A, Lindahl B, ..., Sundström J, Ärnlöv J
Stroke 46 (12) 3340-3347 [2015-12-00; online 2015-11-07]
Clinical Biomarkers
PubMed DOI Crossref
Oral microbiota in patients with atherosclerosis.
Fåk F, Tremaroli V, Bergström G, Bäckhed F
Atherosclerosis 243 (2) 573-578 [2015-12-00; online 2015-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
DOI Crossref
Nanocellulose from green algae modulates the in vitro inflammatory response of monocytes/macrophages
Hua K, Strømme M, Mihranyan A, Ferraz N
Cellulose 22 (6) 3673-3688 [2015-12-00; online 2015-10-03]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Experiences with workflows for automating data-intensive bioinformatics
Spjuth O, Bongcam-Rudloff E, Hernández GC, ..., Siretskiy A, Vassilev D
Biol. Direct 10 (1) - [2015-12-00; online 2015-08-19]
Bioinformatics Support and Infrastructure [Service] NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Susceptibility to infections, without concomitant hyper-IgE, reported in 1976, is caused by hypomorphic mutation in the phosphoglucomutase 3 (PGM3) gene.
Lundin KE, Hamasy A, Backe PH, ..., Stenmark S, Smith CI
pmc
Clin. Immunol. 161 (2) 366-372 [2015-12-00; online 2015-10-21]
Clinical Genomics Uppsala [Collaborative]
PubMed DOI Crossref
Multi-ancestry genome-wide association study of 21,000 cases and 95,000 controls identifies new risk loci for atopic dermatitis.
Paternoster L, Standl M, Waage J, ..., Weidinger S, EArly Genetics and Lifecourse Epidemiology (EAGLE) Eczema Consortium
pmc mid
Nat. Genet. 47 (12) 1449-1456 [2015-12-00; online 2015-10-21]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Freshwater protists do not go with the flow: population structure in Gonyostomum semen independent of connectivity among lakes.
Sassenhagen I, Sefbom J, Säll T, Godhe A, Rengefors K
Environ. Microbiol. 17 (12) 5063-5072 [2015-12-00; online 2015-07-18]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Selenium metabolism to the trimethylselenonium ion (TMSe) varies markedly because of polymorphisms in the indolethylamine N-methyltransferase gene.
Kuehnelt D, Engström K, Skröder H, ..., Broberg K, Vahter M
ISRCTN
Am. J. Clin. Nutr. 102 (6) 1406-1415 [2015-12-00; online 2015-11-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Hormone Replacement Therapy Associated White Blood Cell DNA Methylation and Gene Expression are Associated With Within-Pair Differences of Body Adiposity and Bone Mass.
Bahl A, Pöllänen E, Ismail K, ..., Kovanen V, Ollikainen M
Twin Res Hum Genet 18 (6) 647-661 [2015-12-00; online 2015-12-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative]
PubMed DOI Crossref
De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping.
Olsen RA, Bunikis I, Tiukova I, ..., Käller M, Vezzi F
pmc
Gigascience 4 (-) 56 [2015-11-26; online 2015-11-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genome-Wide Association Study Identifies That the ABO Blood Group System Influences Interleukin-10 Levels and the Risk of Clinical Events in Patients with Acute Coronary Syndrome.
Johansson Å, Alfredsson J, Eriksson N, Wallentin L, Siegbahn A
pmc
PLoS ONE 10 (11) e0142518 [2015-11-24; online 2015-11-24]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Combinations of Genetic Data Present in Bipolar Patients, but Absent in Control Persons.
Mellerup E, Andreassen OA, Bennike B, ..., Werge T, Moeller GL
pmc
PLoS ONE 10 (11) e0143432 [2015-11-20; online 2015-11-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Complete genome sequence of Staphylococcus aureus, strain ILRI_Eymole1/1, isolated from a Kenyan dromedary camel.
Zubair S, Fischer A, Liljander A, ..., Bongcam-Rudloff E, Jores J
pmc
Stand Genomic Sci 10 (-) 109 [2015-11-20; online 2015-11-20]
Bioinformatics Support and Infrastructure
DOI Crossref
A Conserved Odorant Receptor Detects the Same 1-Indanone Analogs in a Tortricid and a Noctuid Moth
Gonzalez F, Bengtsson JM, Walker WB, ..., Ignell R, Bengtsson M
Front. Ecol. Evol. 3 (-) - [2015-11-19; online 2015-11-19]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
RNA sequencing uncovers antisense RNAs and novel small RNAs in Streptococcus pyogenes.
Le Rhun A, Beer YY, Reimegård J, Chylinski K, Charpentier E
pmc
RNA Biol 13 (2) 177-195 [2015-11-19; online 2015-11-19]
Bioinformatics Long-term Support WABI [Collaborative]
PubMed DOI Crossref
DNA-dependent formation of transcription factor pairs alters their binding specificity.
Jolma A, Yin Y, Nitta KR, ..., Morgunova E, Taipale J
BioProject PDB PDB PDB
Nature 527 (7578) 384-388 [2015-11-19; online 2015-11-10]
Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)
PubMed DOI Crossref
Single cell analysis of cancer cells using an improved RT-MLPA method has potential for cancer diagnosis and monitoring.
Kvastad L, Werne Solnestam B, Johansson E, ..., Latta D, Lundeberg J
pmc
Sci Rep 5 (-) 16519 [2015-11-12; online 2015-11-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Immunocapture strategies in translational proteomics.
Fredolini C, Byström S, Pin E, ..., Nilsson P, Schwenk JM
pmc
Expert Rev Proteomics 13 (1) 83-98 [2015-11-11; online 2015-11-11]
Plasma Profiling [Technology development]
PubMed DOI Crossref
Working draft genome sequence of the mesophilic acetate oxidizing bacterium Syntrophaceticus schinkii strain Sp3.
Manzoor S, Müller B, Niazi A, Schnürer A, Bongcam-Rudloff E
pmc
Stand Genomic Sci 10 (-) 99 [2015-11-11; online 2015-11-11]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Normalization of Host Intestinal Mucus Layers Requires Long-Term Microbial Colonization.
Johansson ME, Jakobsson HE, Holmén-Larsson J, ..., Bäckhed F, Hansson GC
pmc mid
Cell Host Microbe 18 (5) 582-592 [2015-11-11; online 2015-11-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Effect of genetic and environmental factors on protein biomarkers for common non-communicable disease and use of personally normalized plasma protein profiles (PNPPP).
Enroth S, Bosdotter Enroth S, Johansson Å, Gyllensten U
Biomarkers 20 (6-7) 355-364 [2015-11-09; online 2015-11-09]
Clinical Biomarkers [Service] NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Meta-analysis identifies seven susceptibility loci involved in the atopic march.
Marenholz I, Esparza-Gordillo J, Rüschendorf F, ..., Henderson AJ, Lee YA
pmc
Nat Commun 6 (-) 8804 [2015-11-06; online 2015-11-06]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Dominant Genetic Variation and Missing Heritability for Human Complex Traits: Insights from Twin versus Genome-wide Common SNP Models.
Chen X, Kuja-Halkola R, Rahman I, ..., Pedersen NL, Magnusson PK
pmc
Am. J. Hum. Genet. 97 (5) 708-714 [2015-11-05; online 2015-11-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Intra-mitochondrial Methylation Deficiency Due to Mutations in SLC25A26.
Kishita Y, Pajak A, Bolar NA, ..., Okazaki Y, Wedell A
pmc
Am. J. Hum. Genet. 97 (5) 761-768 [2015-11-05; online 2015-11-03]
Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
In search for symmetries in the metabolism of cancer.
Gatto F, Nielsen J
Wiley Interdiscip Rev Syst Biol Med 8 (1) 23-35 [2015-11-05; online 2015-11-05]
Systems Biology [Technology development]
PubMed DOI Crossref
Quantitative proteogenomics of human pathogens using DIA-MS.
Malmström L, Bakochi A, Svensson G, ..., Karlsson C, Malmström J
J Proteomics 129 (-) 98-107 [2015-11-03; online 2015-09-19]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival.
Langenkamp E, Zhang L, Lugano R, ..., Smits A, Dimberg A
Cancer Res. 75 (21) 4504-4516 [2015-11-01; online 2015-09-11]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
The Role of FTO and Vitamin D for the Weight Loss Effect of Roux-en-Y Gastric Bypass Surgery in Obese Patients.
Bandstein M, Schultes B, Ernst B, ..., Schiöth HB, Benedict C
pmc
Obes Surg 25 (11) 2071-2077 [2015-11-00; online 2015-03-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data.
Nater A, Burri R, Kawakami T, Smeds L, Ellegren H
pmc
Syst. Biol. 64 (6) 1000-1017 [2015-11-00; online 2015-07-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
High-Throughput Sequencing Reveals Drastic Changes in Fungal Communities in the Phyllosphere of Norway Spruce (Picea abies) Following Invasion of the Spruce Bud Scale (Physokermes piceae).
Menkis A, Marčiulynas A, Gedminas A, Lynikienė J, Povilaitienė A
Microb. Ecol. 70 (4) 904-911 [2015-11-00; online 2015-06-10]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Mutation in CEP63 co-segregating with developmental dyslexia in a Swedish family.
Einarsdottir E, Svensson I, Darki F, ..., Kere J, Matsson H
pmc
Hum. Genet. 134 (11-12) 1239-1248 [2015-11-00; online 2015-09-25]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genus-Wide Comparative Genomics of Malassezia Delineates Its Phylogeny, Physiology, and Niche Adaptation on Human Skin.
Wu G, Zhao H, Li C, ..., Nagarajan N, Dawson TL
pmc
PLoS Genet. 11 (11) e1005614 [2015-11-00; online 2015-11-05]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Single-cell genomics of a rare environmental alphaproteobacterium provides unique insights into Rickettsiaceae evolution.
Martijn J, Schulz F, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJ
pmc mid
ISME J 9 (11) 2373-2385 [2015-11-00; online 2015-04-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Population genetic differentiation of height and body mass index across Europe.
Robinson MR, Hemani G, Medina-Gomez C, ..., Yang J, Visscher PM
pmc mid
Nat. Genet. 47 (11) 1357-1362 [2015-11-00; online 2015-09-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling.
Zieba A, Sjöstedt E, Olovsson M, ..., Uhlen M, Ponten F
OMICS 19 (11) 659-668 [2015-11-00; online 2015-10-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Technology development]
PubMed DOI Crossref
Early Exposure to Dogs and Farm Animals and the Risk of Childhood Asthma.
Fall T, Lundholm C, Örtqvist AK, ..., Ingelsson E, Almqvist C
JAMA Pediatr 169 (11) e153219 [2015-11-00; online 2015-11-02]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Inactivation of the Deg protease family in the cyanobacterium Synechocystis sp. PCC 6803 has impact on the outer cell layers
Cheregi O, Miranda H, Gröbner G, Funk C
Journal of Photochemistry and Photobiology B: Biology 152 (-) 383-394 [2015-11-00; online 2015-11-00]
Swedish NMR Centre (SNC) [Service]
PubMed DOI Crossref
Herring and Beef Meals Lead to Differences in Plasma 2-Aminoadipic Acid, β-Alanine, 4-Hydroxyproline, Cetoleic Acid, and Docosahexaenoic Acid Concentrations in Overweight Men.
Ross AB, Svelander C, Undeland I, Pinto R, Sandberg AS
ClinicalTrials.gov
J. Nutr. 145 (11) 2456-2463 [2015-11-00; online 2015-09-25]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Rescue of primary ubiquinone deficiency due to a novel COQ7 defect using 2,4-dihydroxybensoic acid.
Freyer C, Stranneheim H, Naess K, ..., Wredenberg A, Wedell A
pmc
J. Med. Genet. 52 (11) 779-783 [2015-11-00; online 2015-06-19]
Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
HaloPlex Targeted Resequencing for Mutation Detection in Clinical Formalin-Fixed, Paraffin-Embedded Tumor Samples.
Moens LN, Falk-Sörqvist E, Ljungström V, ..., Nilsson M, Botling J
J Mol Diagn 17 (6) 729-739 [2015-11-00; online 2015-09-12]
Clinical Genomics Uppsala NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Fibroblast Growth Factor 23 and Incidence of Subarachnoid Hemorrhage: Nested Case-Control Study.
Söderholm M, Engström G
Stroke 46 (11) 3260-3262 [2015-11-00; online 2015-09-22]
Clinical Biomarkers [Service]
PubMed DOI Crossref
Risks and benefits of sex-mismatched hematopoietic cell transplantation differ according to conditioning strategy.
Nakasone H, Remberger M, Tian L, ..., Miklos DB, Meyer E
pmc
Haematologica 100 (11) 1477-1485 [2015-11-00; online 2015-08-06]
Mass Cytometry [Collaborative]
PubMed DOI Crossref
Assessing the consistency of public human tissue RNA-seq data sets.
Danielsson F, James T, Gomez-Cabrero D, Huss M
pmc
Brief. Bioinformatics 16 (6) 941-949 [2015-11-00; online 2015-04-02]
Bioinformatics Long-term Support WABI [Technology development]
PubMed DOI Crossref
Exploring the genetics of irritable bowel syndrome: a GWA study in the general population and replication in multinational case-control cohorts.
Ek WE, Reznichenko A, Ripke S, ..., Wouters MM, D'Amato M
Gut 64 (11) 1774-1782 [2015-11-00; online 2014-09-23]
Mutation Analysis Facility (MAF) NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Linked selection and recombination rate variation drive the evolution of the genomic landscape of differentiation across the speciation continuum of Ficedula flycatchers.
Burri R, Nater A, Kawakami T, ..., Török J, Ellegren H
pmc BioProject
Genome Res. 25 (11) 1656-1665 [2015-11-00; online 2015-09-09]
Bioinformatics Long-term Support WABI [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Variant Profiling of Candidate Genes in Pancreatic Ductal Adenocarcinoma.
Huang J, Löhr JM, Nilsson M, ..., Zheng Z, Ye W
Clin. Chem. 61 (11) 1408-1416 [2015-11-00; online 2015-09-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
DOI Crossref
Impact of asymmetric male and female gamete dispersal on allelic diversity and spatial genetic structure in valley oak (Quercus lobata Née)
Sork VL, Smouse PE, Grivet D, Scofield DG
Evol Ecol 29 (6) 927-945 [2015-11-00; online 2015-11-12]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Metagenomic sequencing of marine periphyton: taxonomic and functional insights into biofilm communities.
Sanli K, Bengtsson-Palme J, Nilsson RH, ..., Blanck H, Eriksson KM
pmc
Front Microbiol 6 (-) 1192 [2015-10-30; online 2015-10-30]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Quinolone resistance mutations in the faecal microbiota of Swedish travellers to India.
Johnning A, Kristiansson E, Angelin M, ..., Johansson A, Larsson DG
pmc BioProject
BMC Microbiol. 15 (-) 235 [2015-10-24; online 2015-10-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genetic Polymorphisms in Vitamin D Metabolism and Signaling Genes and Risk of Breast Cancer: A Nested Case-Control Study.
Clendenen TV, Ge W, Koenig KL, ..., Sund M, Zeleniuch-Jacquotte A
pmc
PLoS ONE 10 (10) e0140478 [2015-10-21; online 2015-10-21]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Nurr1 and Retinoid X Receptor Ligands Stimulate Ret Signaling in Dopamine Neurons and Can Alleviate α-Synuclein Disrupted Gene Expression.
Volakakis N, Tiklova K, Decressac M, ..., Björklund A, Perlmann T
J. Neurosci. 35 (42) 14370-14385 [2015-10-21; online 2015-10-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Membrane vesicle-mediated release of bacterial RNA.
Sjöström AE, Sandblad L, Uhlin BE, Wai SN
pmc
Sci Rep 5 (-) 15329 [2015-10-20; online 2015-10-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Structure-activity relationships for lipoprotein lipase agonists that lower plasma triglycerides in vivo.
Caraballo R, Larsson M, Nilsson SK, ..., Enquist P, Elofsson M
Eur J Med Chem 103 (-) 191-209 [2015-10-20; online 2015-09-12]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Noncanoncial signal recognition particle RNAs in a major eukaryotic phylum revealed by purification of SRP from the human pathogen Cryptococcus neoformans.
Dumesic PA, Rosenblad MA, Samuelsson T, ..., Yates JR, Madhani HD
pmc
Nucleic Acids Res. 43 (18) 9017-9027 [2015-10-15; online 2015-08-16]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Mutation in NRAS in familial Noonan syndrome--case report and review of the literature.
Ekvall S, Wilbe M, Dahlgren J, ..., Annerén G, Bondeson ML
pmc
BMC Med. Genet. 16 (-) 95 [2015-10-14; online 2015-10-14]
Clinical Genomics Uppsala
PubMed DOI Crossref
The folate-coupled enzyme MTHFD2 is a nuclear protein and promotes cell proliferation.
Gustafsson Sheppard N, Jarl L, Mahadessian D, ..., Jain M, Nilsson R
pmc
Sci Rep 5 (-) 15029 [2015-10-13; online 2015-10-13]
Cell Profiling
PubMed DOI Crossref
Brachyspira suanatina sp. nov., an enteropathogenic intestinal spirochaete isolated from pigs and mallards: genomic and phenotypic characteristics.
Mushtaq M, Zubair S, Råsbäck T, Bongcam-Rudloff E, Jansson DS
pmc
BMC Microbiol. 15 (-) 208 [2015-10-12; online 2015-10-12]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genome-wide transcriptional and physiological responses to drought stress in leaves and roots of two willow genotypes.
Pucholt P, Sjödin P, Weih M, Rönnberg-Wästljung AC, Berlin S
pmc
BMC Plant Biol. 15 (-) 244 [2015-10-12; online 2015-10-12]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Evaluation of whole-genome sequencing of four Chinese crested dogs for variant detection using the ion proton system.
Viluma A, Sayyab S, Mikko S, Andersson G, Bergström TF
pmc
Canine Genet Epidemiol 2 (-) 16 [2015-10-08; online 2015-10-08]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Many obesity-associated SNPs strongly associate with DNA methylation changes at proximal promoters and enhancers.
Voisin S, Almén MS, Zheleznyakova GY, ..., Rask-Andersen M, Schiöth HB
pmc
Genome Med 7 (-) 103 [2015-10-08; online 2015-10-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Comparative Sigma Factor-mRNA Levels in Mycobacterium marinum under Stress Conditions and during Host Infection.
Pettersson BM, Das S, Behra PR, ..., Ennis DG, Kirsebom LA
pmc
PLoS ONE 10 (10) e0139823 [2015-10-07; online 2015-10-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Crosstalk between Gut Microbiota and Dietary Lipids Aggravates WAT Inflammation through TLR Signaling.
Caesar R, Tremaroli V, Kovatcheva-Datchary P, Cani PD, Bäckhed F
pmc GEO
Cell Metab. 22 (4) 658-668 [2015-10-06; online 2015-09-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Standing genetic variation as a major contributor to adaptation in the Virginia chicken lines selection experiment.
Sheng Z, Pettersson ME, Honaker CF, Siegel PB, Carlborg Ö
pmc
Genome Biol. 16 (-) 219 [2015-10-01; online 2015-10-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Candidate gene analysis and exome sequencing confirm LBX1 as a susceptibility gene for idiopathic scoliosis.
Grauers A, Wang J, Einarsdottir E, ..., Kere J, Gerdhem P
Spine J 15 (10) 2239-2246 [2015-10-01; online 2015-05-20]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Spatiotemporal Heterogeneity Characterizes the Genetic Landscape of Pheochromocytoma and Defines Early Events in Tumorigenesis.
Crona J, Backman S, Maharjan R, ..., Hellman P, Björklund P
Clin. Cancer Res. 21 (19) 4451-4460 [2015-10-01; online 2015-05-21]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Homozygous loss-of-function variants in European cosmopolitan and isolate populations.
Kaiser VB, Svinti V, Prendergast JG, ..., Semple CA, Wilson JF
pmc
Hum. Mol. Genet. 24 (19) 5464-5474 [2015-10-01; online 2015-07-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Transcriptome Profiling Reveals Degree of Variability in Induced Pluripotent Stem Cell Lines: Impact for Human Disease Modeling.
Schuster J, Halvardson J, Pilar Lorenzo L, ..., Feuk L, Dahl N
Cell Reprogram 17 (5) 327-337 [2015-10-00; online 2015-09-09]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genetic variance estimation with imputed variants finds negligible missing heritability for human height and body mass index.
Yang J, Bakshi A, Zhu Z, ..., Goddard ME, Visscher PM
pmc mid dbGaP dbGaP dbGaP
Nat. Genet. 47 (10) 1114-1120 [2015-10-00; online 2015-09-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Signatures of post-zygotic structural genetic aberrations in the cells of histologically normal breast tissue that can predispose to sporadic breast cancer.
Forsberg LA, Rasi C, Pekar G, ..., Tot T, Dumanski JP
pmc GEO
Genome Res. 25 (10) 1521-1535 [2015-10-00; online 2015-10-03]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The Human Glioblastoma Cell Culture Resource: Validated Cell Models Representing All Molecular Subtypes.
Xie Y, Bergström T, Jiang Y, ..., Forsberg-Nilsson K, Uhrbom L
pmc
EBioMedicine 2 (10) 1351-1363 [2015-10-00; online 2015-08-15]
Array and Analysis Facility
DOI Crossref
Acid-Base Catalyst Discriminates between a Fructose 6-Phosphate Aldolase and a Transaldolase
Stellmacher L, Sandalova T, Leptihn S, ..., Sprenger GA, Samland AK
ChemCatChem 7 (19) 3140-3151 [2015-10-00; online 2015-08-06]
Protein Science Facility (PSF)
PubMed DOI Crossref
Cytostatic Effect of Repeated Exposure to Simvastatin: A Mechanism for Chronic Myotoxicity Revealed by the Use of Mesodermal Progenitors Derived from Human Pluripotent Stem Cells.
Peric D, Barragan I, Giraud-Triboult K, ..., Laustriat D, Peschanski M
Stem Cells 33 (10) 2936-2948 [2015-10-00; online 2015-07-18]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Quantitative Mass Spectrometry Reveals Partial Translational Regulation for Dosage Compensation in Chicken.
Uebbing S, Konzer A, Xu L, ..., Bergquist J, Ellegren H
pmc
Mol. Biol. Evol. 32 (10) 2716-2725 [2015-10-00; online 2015-06-26]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The Influence of Age and Sex on Genetic Associations with Adult Body Size and Shape: A Large-Scale Genome-Wide Interaction Study.
Winkler TW, Justice AE, Graff M, ..., Kutalik Z, Loos RJ
pmc
PLoS Genet. 11 (10) e1005378 [2015-10-00; online 2015-10-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Trimeric microsomal glutathione transferase 2 displays one third of the sites reactivity.
Ahmad S, Thulasingam M, Palombo I, ..., Haeggström JZ, Rinaldo-Matthis A
Biochim. Biophys. Acta 1854 (10 Pt A) 1365-1371 [2015-10-00; online 2015-06-13]
Protein Science Facility (PSF)
PubMed DOI Crossref
A New Method for Detecting Associations with Rare Copy-Number Variants.
Tzeng JY, Magnusson PK, Sullivan PF, Swedish Schizophrenia Consortium , Szatkiewicz JP
pmc
PLoS Genet. 11 (10) e1005403 [2015-10-00; online 2015-10-02]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Positive Modulation of the Glycine Receptor by Means of Glycine Receptor–Binding Aptamers
Shalaly ND, Aneiros E, Blank M, ..., Andersson CV, Sandberg K
J Biomol Screen 20 (9) 1112-1123 [2015-10-00; online 2015-10-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Cis-Regulatory Changes Associated with a Recent Mating System Shift and Floral Adaptation in Capsella.
Steige KA, Reimegård J, Koenig D, Scofield DG, Slotte T
pmc
Mol. Biol. Evol. 32 (10) 2501-2514 [2015-10-00; online 2015-08-28]
Bioinformatics Long-term Support WABI [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
BCG Skin Infection Triggers IL-1R-MyD88-Dependent Migration of EpCAMlow CD11bhigh Skin Dendritic cells to Draining Lymph Node During CD4+ T-Cell Priming.
Bollampalli VP, Harumi Yamashiro L, Feng X, ..., Nylén S, Rothfuchs AG
pmc
PLoS Pathog. 11 (10) e1005206 [2015-10-00; online 2015-10-06]
Advanced Light Microscopy (ALM) [Service]
PubMed DOI Crossref
The effects of age and gender on plasma levels of 63 cytokines
Larsson A, Carlsson L, Gordh T, ..., Thulin M, Kamali-Moghaddam M
Journal of Immunological Methods 425 (-) 58-61 [2015-10-00; online 2015-10-00]
Clinical Biomarkers [Service] PLA Proteomics [Collaborative]
PubMed DOI Crossref
Isolation of novel IncA/C and IncN fluoroquinolone resistance plasmids from an antibiotic-polluted lake.
Flach CF, Johnning A, Nilsson I, ..., Kristiansson E, Larsson DG
J. Antimicrob. Chemother. 70 (10) 2709-2717 [2015-10-00; online 2015-07-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
The Human Gut Microbiome as a Transporter of Antibiotic Resistance Genes between Continents.
Bengtsson-Palme J, Angelin M, Huss M, ..., Larsson DGJ, Johansson A
pmc
Antimicrob. Agents Chemother. 59 (10) 6551-6560 [2015-10-00; online 2015-08-12]
Bioinformatics Long-term Support WABI [Collaborative]
PubMed DOI Crossref
The use of gene arrays and corresponding connectivity mapping (Cmap) to identify novel anti-ageing ingredients.
Gillbro JM, Merinville E, Olsson M, ..., Visdal-Johnsen L, Mavon A
Int J Cosmet Sci 37 Suppl 1 (-) 9-14 [2015-10-00; online 2015-06-27]
Array and Analysis Facility
PubMed DOI Crossref
Dibenzocyclooctadiene lignans from Schisandra spp. selectively inhibit the growth of the intracellular bacteria Chlamydia pneumoniae and Chlamydia trachomatis.
Hakala E, Hanski L, Uvell H, ..., Elofsson M, Vuorela PM
J. Antibiot. 68 (10) 609-614 [2015-10-00; online 2015-05-07]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Profound parental bias associated with chromosome 14 acquired uniparental disomy indicates targeting of an imprinted locus.
Chase A, Leung W, Tapper W, ..., Dumanski JP, Cross NC
pmc
Leukemia 29 (10) 2069-2074 [2015-10-00; online 2015-06-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A comprehensive 1,000 Genomes-based genome-wide association meta-analysis of coronary artery disease.
Nikpay M, Goel A, Won HH, ..., Farrall M, CARDIoGRAMplusC4D Consortium
pmc mid
Nat. Genet. 47 (10) 1121-1130 [2015-10-00; online 2015-09-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Cerebrospinal fluid monoamine metabolite concentrations as intermediate phenotypes between glutamate-related genes and psychosis.
Andreou D, Söderman E, Axelsson T, ..., Agartz I, Jönsson EG
Psychiatry Res 229 (1-2) 497-504 [2015-09-30; online 2015-07-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Identification of Novel Epigenetic Markers of Prostate Cancer by NotI-Microarray Analysis.
Dmitriev AA, Rosenberg EE, Krasnov GS, ..., Senchenko VN, Kashuba VI
pmc
Dis. Markers 2015 (-) 241301 [2015-09-28; online 2015-09-28]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).
Delhomme N, Sundström G, Zamani N, ..., Grabherr MG, Street NR
pmc
PLoS ONE 10 (9) e0139080 [2015-09-28; online 2015-09-28]
Bioinformatics Support and Infrastructure NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Virtual Screening for Transition State Analogue Inhibitors of IRAP Based on Quantum Mechanically Derived Reaction Coordinates
Svensson F, Engen K, Lundbäck T, Larhed M, Sköld C
J. Chem. Inf. Model. 55 (9) 1984-1993 [2015-09-28; online 2015-09-28]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes.
Saw JH, Spang A, Zaremba-Niedzwiedzka K, ..., Guy L, Ettema TJG
pmc Dryad
Philos. Trans. R. Soc. Lond., B, Biol. Sci. 370 (1678) 20140328 [2015-09-26; online 2015-09-02]
Microbial Single Cell Genomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The genomes of three stocks comprising the most widely utilized live sporozoite Theileria parva vaccine exhibit very different degrees and patterns of sequence divergence.
Norling M, Bishop RP, Pelle R, ..., Daubenberger CA, Silva JC
pmc
BMC Genomics 16 (-) 729 [2015-09-24; online 2015-09-24]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Ancient genomes link early farmers from Atapuerca in Spain to modern-day Basques.
Günther T, Valdiosera C, Malmström H, ..., Götherström A, Jakobsson M
pmc BioProject
Proc. Natl. Acad. Sci. U.S.A. 112 (38) 11917-11922 [2015-09-22; online 2015-09-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Dormant phages of Helicobacter pylori reveal distinct populations in Europe.
Vale FF, Vadivelu J, Oleastro M, ..., Mégraud F, Lehours P
pmc
Sci Rep 5 (-) 14333 [2015-09-21; online 2015-09-21]
Clinical Genomics Stockholm [Collaborative]
PubMed DOI Crossref
Draft genome sequence of 'Treponema phagedenis' strain V1, isolated from bovine digital dermatitis.
Mushtaq M, Manzoor S, Pringle M, Rosander A, Bongcam-Rudloff E
pmc
Stand Genomic Sci 10 (-) 67 [2015-09-21; online 2015-09-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Gene expression profiling of pre-eclamptic placentae by RNA sequencing.
Kaartokallio T, Cervera A, Kyllönen A, ..., Laivuori H, FINNPEC Core Investigator Group
pmc
Sci Rep 5 (-) 14107 [2015-09-21; online 2015-09-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
PARP1- and CTCF-Mediated Interactions between Active and Repressed Chromatin at the Lamina Promote Oscillating Transcription.
Zhao H, Sifakis EG, Sumida N, ..., Imreh MP, Göndör A
GEO GEO
Mol. Cell 59 (6) 984-997 [2015-09-17; online 2015-09-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genetic and morphological evidence for introgression between three species of willows.
Fogelqvist J, Verkhozina AV, Katyshev AI, ..., Lascoux M, Berlin S
pmc
BMC Evol. Biol. 15 (-) 193 [2015-09-16; online 2015-09-16]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Comprehensive analysis of microRNA expression in regionalized human neural progenitor cells reveals microRNA-10 as a caudalizing factor.
Jönsson ME, Nelander Wahlestedt J, Åkerblom M, ..., Jakobsson J, Parmar M
pmc GEO
Development 142 (18) 3166-3177 [2015-09-15; online 2015-09-24]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
WNT3 involvement in human bladder exstrophy and cloaca development in zebrafish.
Baranowska Körberg I, Hofmeister W, Markljung E, ..., Lindstrand A, Nordenskjöld A
Hum. Mol. Genet. 24 (18) 5069-5078 [2015-09-15; online 2015-06-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genetics and Prognostication in Splenic Marginal Zone Lymphoma: Revelations from Deep Sequencing.
Parry M, Rose-Zerilli MJ, Ljungström V, ..., Oscier D, Strefford JC
pmc mid
Clin. Cancer Res. 21 (18) 4174-4183 [2015-09-15; online 2015-03-18]
Clinical Genomics Uppsala
PubMed DOI Crossref
HLA class I is most tightly linked to levels of tapasin compared with other antigen-processing proteins in glioblastoma.
Thuring C, Follin E, Geironson L, ..., Buus S, Paulsson KM
pmc
Br. J. Cancer 113 (6) 952-962 [2015-09-15; online 2015-08-28]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Glioma-derived plasminogen activator inhibitor-1 (PAI-1) regulates the recruitment of LRP1 positive mast cells.
Roy A, Coum A, Marinescu VD, ..., Pontén F, Tchougounova E
pmc
Oncotarget 6 (27) 23647-23661 [2015-09-15; online 2015-07-15]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Surface Chemistry of Nanocellulose Fibers Directs Monocyte/Macrophage Response.
Hua K, Ålander E, Lindström T, ..., Strømme M, Ferraz N
Biomacromolecules 16 (9) 2787-2795 [2015-09-14; online 2015-08-08]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Determination of obesity associated gene variants related to TMEM18 through ultra-deep targeted re-sequencing in a case-control cohort for pediatric obesity.
Rask-Andersen M, Sällman Almén M, Jacobsson JA, ..., Fredriksson R, Schiöth HB
Genet Res (Camb) 97 (-) e16 [2015-09-14; online 2015-09-14]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Rare and low-frequency variants and their association with plasma levels of fibrinogen, FVII, FVIII, and vWF.
Huffman JE, de Vries PS, Morrison AC, ..., O'Donnell CJ, Smith NL
pmc
Blood 126 (11) e19-e29 [2015-09-10; online 2015-06-25]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The epigenetic signature of subcutaneous fat cells is linked to altered expression of genes implicated in lipid metabolism in obese women.
Arner P, Sinha I, Thorell A, ..., Dahlman-Wright K, Dahlman I
pmc
Clin Epigenetics 7 (-) 93 [2015-09-08; online 2015-09-08]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Tandem Benzophenone Amino Pyridines, Potent and Selective Inhibitors of Human Leukotriene C4 Synthase
Kleinschmidt TK, Haraldsson M, Basavarajappa D, ..., Lindbom L, Haeggstrom JZ
Journal of Pharmacology and Experimental Therapeutics 355 (1) 108-116 [2015-09-08; online 2015-08-17]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Paternally expressed imprinted genes establish postzygotic hybridization barriers in Arabidopsis thaliana.
Wolff P, Jiang H, Wang G, Santos-González J, Köhler C
pmc
Elife 4 (-) - [2015-09-07; online 2015-09-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein Identification.
Omenn GS, Lane L, Lundberg EK, ..., Nesvizhskii AI, Deutsch EW
pmc mid
J. Proteome Res. 14 (9) 3452-3460 [2015-09-04; online 2015-07-15]
Cell Profiling
PubMed DOI Crossref
Quest for Missing Proteins: Update 2015 on Chromosome-Centric Human Proteome Project.
Horvatovich P, Lundberg EK, Chen YJ, ..., Paik YK, Hancock WS
J. Proteome Res. 14 (9) 3415-3431 [2015-09-04; online 2015-06-16]
Cell Profiling
PubMed DOI Crossref
High cortisol in 5-year-old children causes loss of DNA methylation in SINE retrotransposons: a possible role for ZNF263 in stress-related diseases.
Nätt D, Johansson I, Faresjö T, Ludvigsson J, Thorsell A
pmc
Clin Epigenetics 7 (-) 91 [2015-09-04; online 2015-09-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Pseudomonas aeruginosa lasI/rhlI quorum sensing genes promote phagocytosis and aquaporin 9 redistribution to the leading and trailing regions in macrophages.
Holm A, Karlsson T, Vikström E
pmc
Front Microbiol 6 (-) 915 [2015-09-03; online 2015-09-03]
Advanced Light Microscopy (ALM) [Service]
PubMed DOI Crossref
Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.
Stödberg T, McTague A, Ruiz AJ, ..., Wedell A, Kurian MA
pmc
Nat Commun 6 (-) 8038 [2015-09-03; online 2015-09-03]
Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
An Exopolysaccharide-Deficient Mutant of Lactobacillus rhamnosus GG Efficiently Displays a Protective Llama Antibody Fragment against Rotavirus on Its Surface.
Álvarez B, Krogh-Andersen K, Tellgren-Roth C, ..., Hammarström L, Marcotte H
pmc GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK
Appl. Environ. Microbiol. 81 (17) 5784-5793 [2015-09-01; online 2015-06-21]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Transplanted Bone Marrow-Derived Cells Contribute to Human Adipogenesis.
Rydén M, Uzunel M, Hård JL, ..., Mattsson J, Arner P
Cell Metab. 22 (3) 408-417 [2015-09-01; online 2015-07-21]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Whole exome sequencing identifies LRP1 as a pathogenic gene in autosomal recessive keratosis pilaris atrophicans.
Klar J, Schuster J, Khan TN, ..., Baig SM, Dahl N
J. Med. Genet. 52 (9) 599-606 [2015-09-00; online 2015-07-05]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Half-of-the-Sites Reactivity of the Castor Δ9-18:0-Acyl Carrier Protein Desaturase.
Liu Q, Chai J, Moche M, ..., Lindqvist Y, Shanklin J
pmc
Plant Physiol. 169 (1) 432-441 [2015-09-00; online 2015-08-01]
Protein Science Facility (PSF)
PubMed DOI Crossref
Acute Sleep Loss Induces Tissue-Specific Epigenetic and Transcriptional Alterations to Circadian Clock Genes in Men.
Cedernaes J, Osler ME, Voisin S, ..., Schiöth HB, Benedict C
ClinicalTrials.gov
J. Clin. Endocrinol. Metab. 100 (9) E1255-E1261 [2015-09-00; online 2015-07-15]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Elevated Serum GAD65 and GAD65-GADA Immune Complexes in Stiff Person Syndrome
Gu Urban GJ, Friedman M, Ren P, ..., Landegren U, Kamali-Moghaddam M
Sci Rep 5 (1) - [2015-09-00; online 2015-06-16]
PLA Proteomics [Technology development]
PubMed DOI Crossref
Transcriptomics of colour patterning and coloration shifts in crows.
Poelstra JW, Vijay N, Hoeppner MP, Wolf JB
Mol. Ecol. 24 (18) 4617-4628 [2015-09-00; online 2015-08-25]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Use of a proximity extension assay proteomics chip to discover new biomarkers for human atherosclerosis.
Lind L, Ärnlöv J, Lindahl B, ..., Sundström J, Ingelsson E
Atherosclerosis 242 (1) 205-210 [2015-09-00; online 2015-07-24]
Clinical Biomarkers
PubMed DOI Crossref
Exome sequencing followed by genotyping suggests SYPL2 as a susceptibility gene for morbid obesity.
Jiao H, Arner P, Gerdhem P, ..., Kere J, Dahlman I
pmc
Eur. J. Hum. Genet. 23 (9) 1216-1222 [2015-09-00; online 2014-11-20]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Design, Synthesis and Inhibitory Activity of Photoswitchable RET Kinase Inhibitors
Ferreira R, Nilsson JR, Solano C, Andréasson J, Grøtli M
Sci Rep 5 (1) - [2015-09-00; online 2015-05-06]
Chemical Biology Consortium Sweden (CBCS) [Service]
PubMed DOI Crossref
Shared immunological targets in the lungs and joints of patients with rheumatoid arthritis: identification and validation.
Ytterberg AJ, Joshua V, Reynisdottir G, ..., Klareskog L, Catrina AI
Ann. Rheum. Dis. 74 (9) 1772-1777 [2015-09-00; online 2014-05-13]
Advanced Mass Spectrometry Proteomics
DOI Crossref
Synthesis of enantiopure angiotensin II type 2 receptor [AT2R] antagonist EMA401
Wakchaure PB, Bremberg U, Wannberg J, Larhed M
Tetrahedron 71 (38) 6881-6887 [2015-09-00; online 2015-09-00]
Drug Discovery and Development (DDD)
DOI Crossref
Towards a stereoselective synthesis of α,α-disubstituted proline analogues
Das SK, Bhatt N, Mujahid M, ..., Naicker T, Govender T
Tetrahedron Letters 56 (37) 5172-5174 [2015-09-00; online 2015-09-00]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Analysis of the genetic architecture of susceptibility to cervical cancer indicates that common SNPs explain a large proportion of the heritability.
Chen D, Cui T, Ek WE, ..., Wang H, Gyllensten U
Carcinogenesis 36 (9) 992-998 [2015-09-00; online 2015-06-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Widespread non-additive and interaction effects within HLA loci modulate the risk of autoimmune diseases.
Lenz TL, Deutsch AJ, Han B, ..., de Bakker PI, Raychaudhuri S
pmc mid
Nat. Genet. 47 (9) 1085-1090 [2015-09-00; online 2015-08-10]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Polymorphisms in the FK506 binding protein 5 gene are associated with attention deficit hyperactivity disorder and diurnal cortisol levels.
Isaksson J, Allen M, Nilsson KW, Lindblad F
Acta Paediatr. 104 (9) 910-915 [2015-09-00; online 2015-06-03]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Altered serotonin (5-HT) 1D and 2A receptor expression may contribute to defective insulin and glucagon secretion in human type 2 diabetes.
Bennet H, Balhuizen A, Medina A, ..., Wierup N, Fex M
Peptides 71 (-) 113-120 [2015-09-00; online 2015-07-25]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Auxotrophy and intrapopulation complementary in the 'interactome' of a cultivated freshwater model community.
Garcia SL, Buck M, McMahon KD, ..., Eiler A, Warnecke F
Mol. Ecol. 24 (17) 4449-4459 [2015-09-00; online 2015-07-17]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Molecular profiling of prostate cancer derived exosomes may reveal a predictive signature for response to docetaxel.
Kharaziha P, Chioureas D, Rutishauser D, ..., Nilsson S, Panaretakis T
pmc
Oncotarget 6 (25) 21740-21754 [2015-08-28; online 2015-04-07]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
BEX1 acts as a tumor suppressor in acute myeloid leukemia.
Lindblad O, Li T, Su X, ..., Rönnstrand L, Kazi JU
pmc
Oncotarget 6 (25) 21395-21405 [2015-08-28; online 2015-06-06]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Microfluidic screening and whole-genome sequencing identifies mutations associated with improved protein secretion by yeast.
Huang M, Bai Y, Sjostrom SL, ..., Andersson-Svahn H, Nielsen J
pmc
Proc. Natl. Acad. Sci. U.S.A. 112 (34) E4689-E4696 [2015-08-25; online 2015-08-12]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Transcriptomic changes in the plant pathogenic fungus Rhizoctonia solani AG-3 in response to the antagonistic bacteria Serratia proteamaculans and Serratia plymuthica.
Gkarmiri K, Finlay RD, Alström S, ..., Cubeta MA, Högberg N
pmc
BMC Genomics 16 (-) 630 [2015-08-22; online 2015-08-22]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Structure of the Glycosyltransferase Ktr4p from Saccharomyces cerevisiae.
Possner DD, Claesson M, Guy JE
pmc
PLoS ONE 10 (8) e0136239 [2015-08-21; online 2015-08-21]
Protein Science Facility (PSF)
PubMed DOI Crossref
In Vitro and In Vivo Response to Low-Modulus PMMA-Based Bone Cement.
Carlsson E, Mestres G, Treerattrakoon K, ..., Larsson S, Persson C
pmc
Biomed Res Int 2015 (-) 594284 [2015-08-20; online 2015-08-20]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Personality and intelligence: persistence, not self-directedness, cooperativeness or self-transcendence, is related to twins' cognitive abilities.
Mousavi F, Rozsa S, Nilsson T, ..., Anckarsäter H, Garcia D
pmc
PeerJ 3 (-) e1195 [2015-08-20; online 2015-08-20]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium.
Yu NY, Hallström BM, Fagerberg L, ..., Uhlén M, Daub CO
pmc
Nucleic Acids Res. 43 (14) 6787-6798 [2015-08-18; online 2015-06-27]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Collaborative]
PubMed DOI Crossref
The Ty1-copia LTR retroelement family PARTC is highly conserved in conifers over 200 MY of evolution.
Zuccolo A, Scofield DG, De Paoli E, Morgante M
Gene 568 (1) 89-99 [2015-08-15; online 2015-05-20]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Genome-wide association study of toxic metals and trace elements reveals novel associations.
Ng E, Lind PM, Lindgren C, ..., Morris A, Lind L
pmc
Hum. Mol. Genet. 24 (16) 4739-4745 [2015-08-15; online 2015-05-31]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Gene × dietary pattern interactions in obesity: analysis of up to 68 317 adults of European ancestry.
Nettleton JA, Follis JL, Ngwa JS, ..., Loos RJ, Franks PW
pmc
Hum. Mol. Genet. 24 (16) 4728-4738 [2015-08-15; online 2015-05-23]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Sex-Specific Effects of Adiponectin on Carotid Intima-Media Thickness and Incident Cardiovascular Disease.
Persson J, Strawbridge RJ, McLeod O, ..., Hamsten A, IMPROVE Study Group
pmc
J Am Heart Assoc 4 (8) e001853 [2015-08-14; online 2015-08-14]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Whole Exome- and mRNA-Sequencing of an AT/RT Case Reveals Few Somatic Mutations and Several Deregulated Signalling Pathways in the Context of SMARCB1 Deficiency.
Sandgren J, Holm S, Marino AM, ..., Nistér M, Díaz de Ståhl T
pmc
Biomed Res Int 2015 (-) 862039 [2015-08-12; online 2015-08-12]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Adaptive mutations in sugar metabolism restore growth on glucose in a pyruvate decarboxylase negative yeast strain.
Zhang Y, Liu G, Engqvist MK, ..., Siewers V, Nielsen J
pmc
Microb. Cell Fact. 14 (-) 116 [2015-08-08; online 2015-08-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Microstructural White Matter Properties Mediate the Association between APOE and Perceptual Speed in Very Old Persons without Dementia.
Laukka EJ, Lövdén M, Kalpouzos G, ..., Fratiglioni L, Bäckman L
pmc
PLoS ONE 10 (8) e0134766 [2015-08-07; online 2015-08-07]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Effect of a Bromo Substituent on the Glutathione Peroxidase Activity of a Pyridoxine-like Diselenide.
Singh VP, Poon JF, Butcher RJ, ..., Ott MK, Engman L
J. Org. Chem. 80 (15) 7385-7395 [2015-08-07; online 2015-07-03]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Comprehensive genomic profiles of small cell lung cancer.
George J, Lim JS, Jang SJ, ..., Sage J, Thomas RK
pmc mid GEO
Nature 524 (7563) 47-53 [2015-08-06; online 2015-07-15]
Clinical Genomics Uppsala
PubMed DOI Crossref
Crystal structure, biochemical and cellular activities demonstrate separate functions of MTH1 and MTH2.
Carter M, Jemth AS, Hagenkort A, ..., Helleday T, Stenmark P
pmc
Nat Commun 6 (-) 7871 [2015-08-04; online 2015-08-04]
Protein Science Facility (PSF)
PubMed DOI Crossref
Roux-en-Y Gastric Bypass and Vertical Banded Gastroplasty Induce Long-Term Changes on the Human Gut Microbiome Contributing to Fat Mass Regulation.
Tremaroli V, Karlsson F, Werling M, ..., Nielsen J, Bäckhed F
pmc
Cell Metab. 22 (2) 228-238 [2015-08-04; online 2015-08-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
MicroRNA-132 enhances transition from inflammation to proliferation during wound healing.
Li D, Wang A, Liu X, ..., Ståhle M, Landén NX
pmc
J. Clin. Invest. 125 (8) 3008-3026 [2015-08-03; online 2015-06-30]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Genome-wide mapping of promoter-anchored interactions with close to single-enhancer resolution.
Sahlén P, Abdullayev I, Ramsköld D, ..., Lundeberg J, Sandberg R
pmc GEO SRA SRA
Genome Biol. 16 (-) 156 [2015-08-03; online 2015-08-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Heat differentiated complement factor profiling.
Hamsten C, Skattum L, Truedsson L, ..., Nilsson P, Neiman M
J Proteomics 126 (-) 155-162 [2015-08-03; online 2015-06-07]
Plasma Profiling [Technology development]
PubMed DOI Crossref
Identifying and Assessing Interesting Subgroups in a Heterogeneous Population.
Lee W, Alexeyenko A, Pernemalm M, ..., Lehtiö J, Pawitan Y
pmc
Biomed Res Int 2015 (-) 462549 [2015-08-03; online 2015-08-03]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Analysis of the Human Prostate-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling Identifies TMEM79 and ACOXL as Two Putative, Diagnostic Markers in Prostate Cancer.
O'Hurley G, Busch C, Fagerberg L, ..., Uhlén M, Pontén F
pmc
PLoS ONE 10 (8) e0133449 [2015-08-03; online 2015-08-03]
Cell Profiling NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Plasma Profiling Tissue Profiling [Technology development]
PubMed DOI Crossref
Effect of genetic variations on ticagrelor plasma levels and clinical outcomes.
Varenhorst C, Eriksson N, Johansson Å, ..., Wallentin L, PLATO Investigators
ClinicalTrials.gov
Eur. Heart J. 36 (29) 1901-1912 [2015-08-01; online 2015-05-04]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Manganese lipoxygenase of F. oxysporum and the structural basis for biosynthesis of distinct 11-hydroperoxy stereoisomers.
Wennman A, Magnuson A, Hamberg M, Oliw EH
pmc
J. Lipid Res. 56 (8) 1606-1615 [2015-08-00; online 2015-06-27]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Representation of selected-reaction monitoring data in the mzQuantML data standard.
Qi D, Lawless C, Teleman J, ..., Hubbard S, Jones AR
pmc
Proteomics 15 (15) 2592-2596 [2015-08-00; online 2015-04-18]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Whole-exome sequencing of Ethiopian patients with ichthyosis vulgaris and atopic dermatitis.
Taylan F, Nilsson D, Asad S, ..., Nordenskjöld M, Bradley M
J. Allergy Clin. Immunol. 136 (2) 507-9.e19 [2015-08-00; online 2015-03-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A prezygotic transmission distorter acting equally in female and male zebra finches Taeniopygia guttata.
Knief U, Schielzeth H, Ellegren H, Kempenaers B, Forstmeier W
Mol. Ecol. 24 (15) 3846-3859 [2015-08-00; online 2015-06-20]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Association of the LINGO2-related SNP rs10968576 with body mass in a cohort of elderly Swedes.
Rask-Andersen M, Almén MS, Lind L, Schiöth HB
Mol. Genet. Genomics 290 (4) 1485-1491 [2015-08-00; online 2015-02-26]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Inbreeding Affects Gene Expression Differently in Two Self-Incompatible Arabidopsis lyrata Populations with Similar Levels of Inbreeding Depression.
Menzel M, Sletvold N, Ågren J, Hansson B
pmc
Mol. Biol. Evol. 32 (8) 2036-2047 [2015-08-00; online 2015-04-10]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Prevalence of polymorphisms with significant resistance to NS5A inhibitors in treatment-naive patients with hepatitis C virus genotypes 1a and 3a in Sweden.
Lindström I, Kjellin M, Palanisamy N, ..., Lannergard A, Lennerstrand J
Infect Dis (Lond) 47 (8) 555-562 [2015-08-00; online 2015-04-09]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Bioinformatic Challenges in Clinical Diagnostic Application of Targeted Next Generation Sequencing: Experience from Pheochromocytoma.
Crona J, Ljungström V, Welin S, ..., Hellman P, Björklund P
pmc
PLoS ONE 10 (7) e0133210 [2015-07-31; online 2015-07-31]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Identification of New Potential Interaction Partners for Human Cytoplasmic Copper Chaperone Atox1: Roles in Gene Regulation?
Öhrvik H, Wittung-Stafshede P
pmc
Int J Mol Sci 16 (8) 16728-16739 [2015-07-23; online 2015-07-23]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Directional dominance on stature and cognition in diverse human populations.
Joshi PK, Esko T, Mattsson H, ..., Polašek O, Wilson JF
pmc mid
Nature 523 (7561) 459-462 [2015-07-23; online 2015-07-02]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Compaction of rolling circle amplification products increases signal integrity and signal-to-noise ratio.
Clausson C, Arngården L, Ishaq O, ..., Wählby C, Söderberg O
pmc
Sci Rep 5 (-) 12317 [2015-07-23; online 2015-07-23]
Advanced Light Microscopy (ALM) [Collaborative] BioImage Informatics [Technology development]
PubMed DOI Crossref
lobChIP: from cells to sequencing ready ChIP libraries in a single day.
Wallerman O, Nord H, Bysani M, Borghini L, Wadelius C
pmc
Epigenetics Chromatin 8 (-) 25 [2015-07-21; online 2015-07-21]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Two new loci and gene sets related to sex determination and cancer progression are associated with susceptibility to testicular germ cell tumor.
Kristiansen W, Karlsson R, Rounge TB, ..., Grotmol T, Wiklund F
Hum. Mol. Genet. 24 (14) 4138-4146 [2015-07-15; online 2015-04-17]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Predisposition to Childhood Otitis Media and Genetic Polymorphisms within the Toll-Like Receptor 4 (TLR4) Locus.
Hafrén L, Einarsdottir E, Kentala E, ..., Kere J, Mattila PS
pmc
PLoS ONE 10 (7) e0132551 [2015-07-15; online 2015-07-15]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Distinguishing Mast Cell Progenitors from Mature Mast Cells in Mice.
Dahlin JS, Ding Z, Hallgren J
pmc
Stem Cells Dev. 24 (14) 1703-1711 [2015-07-15; online 2015-03-10]
Array and Analysis Facility
PubMed DOI Crossref
Evaluation of the protein biomarkers and the analgesic response to systemic methylene blue in patients with refractory neuropathic pain: a double-blind, controlled study.
Miclescu AA, Svahn M, Gordh TE
pmc
J Pain Res 8 (-) 387-397 [2015-07-15; online 2015-07-15]
Clinical Biomarkers
PubMed DOI Crossref
Differential Expression Analysis by RNA-Seq Reveals Perturbations in the Platelet mRNA Transcriptome Triggered by Pathogen Reduction Systems.
Osman A, Hitzler WE, Ameur A, Provost P
pmc
PLoS ONE 10 (7) e0133070 [2015-07-14; online 2015-07-14]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Metagenomic insights into strategies of aerobic and anaerobic carbon and nitrogen transformation in boreal lakes.
Peura S, Sinclair L, Bertilsson S, Eiler A
pmc
Sci Rep 5 (-) 12102 [2015-07-10; online 2015-07-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
SF3B1 mutation identifies a distinct subset of myelodysplastic syndrome with ring sideroblasts.
Malcovati L, Karimi M, Papaemmanuil E, ..., Cazzola M, Hellström Lindberg E
pmc
Blood 126 (2) 233-241 [2015-07-09; online 2015-05-10]
Clinical Genomics Uppsala NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Cell periphery-related proteins as major genomic targets behind the adaptive evolution of an industrial Saccharomyces cerevisiae strain to combined heat and hydrolysate stress.
Wallace-Salinas V, Brink DP, Ahrén D, Gorwa-Grauslund MF
pmc
BMC Genomics 16 (-) 514 [2015-07-09; online 2015-07-09]
Bioinformatics Support and Infrastructure [Collaborative]
PubMed DOI Crossref
Identification of large variation in pfcrt, pfmdr-1 and pfubp-1 markers in Plasmodium falciparum isolates from Ethiopia and Tanzania.
Golassa L, Kamugisha E, Ishengoma DS, ..., Choy A, Swedberg G
pmc
Malar. J. 14 (-) 264 [2015-07-08; online 2015-07-08]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Structural basis for cellobiose dehydrogenase action during oxidative cellulose degradation.
Tan TC, Kracher D, Gandini R, ..., Ludwig R, Divne C
pmc PDB PDB PDB PDB PDB PDB
Nat Commun 6 (-) 7542 [2015-07-07; online 2015-07-07]
Protein Science Facility (PSF)
PubMed DOI Crossref
Scaffolding of a bacterial genome using MinION nanopore sequencing.
Karlsson E, Lärkeryd A, Sjödin A, Forsman M, Stenberg P
pmc
Sci Rep 5 (-) 11996 [2015-07-07; online 2015-07-07]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Genome Characterization, Prevalence and Distribution of a Macula-Like Virus from Apis mellifera and Varroa destructor.
de Miranda JR, Cornman RS, Evans JD, ..., Neumann P, Gauthier L
pmc GENBANK GENBANK GENBANK
Viruses 7 (7) 3586-3602 [2015-07-06; online 2015-07-06]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Foxf2 Is Required for Brain Pericyte Differentiation and Development and Maintenance of the Blood-Brain Barrier.
Reyahi A, Nik AM, Ghiami M, ..., Johansson BR, Carlsson P
Dev. Cell 34 (1) 19-32 [2015-07-06; online 2015-06-25]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
The TOPCONS web server for consensus prediction of membrane protein topology and signal peptides.
Tsirigos KD, Peters C, Shu N, Käll L, Elofsson A
pmc
Nucleic Acids Res. 43 (W1) W401-W407 [2015-07-01; online 2015-05-15]
Bioinformatics Support and Infrastructure [Collaborative]
PubMed DOI Crossref
Potential role of milk fat globule membrane in modulating plasma lipoproteins, gene expression, and cholesterol metabolism in humans: a randomized study.
Rosqvist F, Smedman A, Lindmark-Månsson H, ..., Dahlman I, Risérus U
ClinicalTrials.gov
Am. J. Clin. Nutr. 102 (1) 20-30 [2015-07-00; online 2015-05-29]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Polymorphisms in DCDC2 and S100B associate with developmental dyslexia.
Matsson H, Huss M, Persson H, ..., Peyrard-Janvid M, Kere J
pmc
J. Hum. Genet. 60 (7) 399-401 [2015-07-00; online 2015-04-17]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
HHEX_23 AA Genotype Exacerbates Effect of Diabetes on Dementia and Alzheimer Disease: A Population-Based Longitudinal Study.
Xu WL, Pedersen NL, Keller L, ..., Bäckman L, Fratiglioni L
pmc
PLoS Med. 12 (7) e1001853 [2015-07-00; online 2015-07-14]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Using Genetic Variants to Assess the Relationship Between Circulating Lipids and Type 2 Diabetes.
Fall T, Xie W, Poon W, ..., Frayling TM, Ingelsson E
Diabetes 64 (7) 2676-2684 [2015-07-00; online 2015-05-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
UV irradiation responses in Giardia intestinalis.
Einarsson E, Svärd SG, Troell K
Exp. Parasitol. 154 (-) 25-32 [2015-07-00; online 2015-04-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR.
Vizoso M, Ferreira HJ, Lopez-Serra P, ..., Marais R, Esteller M
pmc mid
Nat. Med. 21 (7) 741-750 [2015-07-00; online 2015-06-01]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Discovery and Fine-Mapping of Glycaemic and Obesity-Related Trait Loci Using High-Density Imputation.
Horikoshi M, Mӓgi R, van de Bunt M, ..., Morris AP, ENGAGE Consortium
pmc
PLoS Genet. 11 (7) e1005230 [2015-07-00; online 2015-07-01]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Function of Isolated Pancreatic Islets From Patients at Onset of Type 1 Diabetes: Insulin Secretion Can Be Restored After Some Days in a Nondiabetogenic Environment In Vitro: Results From the DiViD Study.
Krogvold L, Skog O, Sundström G, ..., Korsgren O, Dahl-Jørgensen K
Diabetes 64 (7) 2506-2512 [2015-07-00; online 2015-02-14]
NGI Uppsala (Uppsala Genome Center)
DOI Crossref
Elevated Plasma Levels of MMP-12 Are Associated With Atherosclerotic Burden and Symptomatic Cardiovascular Disease in Subjects With Type 2 DiabetesSignificance
Goncalves I, Bengtsson E, Colhoun HM, ..., Schnecke V, Nilsson J
Arterioscler Thromb Vasc Biol 35 (7) 1723-1731 [2015-07-00; online 2015-05-07]
Clinical Biomarkers [Service]
PubMed DOI Crossref
Genome-wide association study identifies new susceptibility loci for cutaneous lupus erythematosus.
Kunz M, König IR, Schillert A, ..., Kuhn A, Ibrahim SM
Exp. Dermatol. 24 (7) 510-515 [2015-07-00; online 2015-04-02]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Genome-wide association study of plasma levels of polychlorinated biphenyls disclose an association with the CYP2B6 gene in a population-based sample.
Ng E, Salihovic S, Lind PM, ..., Morris AP, Lind L
pmc
Environ. Res. 140 (-) 95-101 [2015-07-00; online 2015-04-04]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
CTCF/cohesin-binding sites are frequently mutated in cancer.
Katainen R, Dave K, Pitkänen E, ..., Taipale J, Aaltonen LA
Nat. Genet. 47 (7) 818-821 [2015-07-00; online 2015-06-09]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Global Multilocus Sequence Type Analysis of Chlamydia trachomatis Strains from 16 Countries.
Herrmann B, Isaksson J, Ryberg M, ..., Gravningen K, Bruisten S
pmc
J. Clin. Microbiol. 53 (7) 2172-2179 [2015-07-00; online 2015-05-01]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Proteomics for the detection of indirect markers of steroids treatment in bovine muscle.
Stella R, Biancotto G, Arrigoni G, ..., Angeletti R, James P
Proteomics 15 (13) 2332-2341 [2015-07-00; online 2015-03-12]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Detection of leukemia-associated mutations in peripheral blood DNA of hematologically normal elderly individuals.
Score J, Chase A, Forsberg LA, ..., Gale RE, Cross NC
Leukemia 29 (7) 1600-1602 [2015-07-00; online 2015-01-30]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Meta-analysis of Genome-wide Association Studies for Neuroticism, and the Polygenic Association With Major Depressive Disorder.
Genetics of Personality Consortium , de Moor MH, van den Berg SM, ..., Martin NG, Boomsma DI
pmc mid
JAMA Psychiatry 72 (7) 642-650 [2015-07-00; online 2015-05-21]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Toward Rare Blood Cell Preservation for RNA Sequencing.
Vickovic S, Ahmadian A, Lewensohn R, Lundeberg J
J Mol Diagn 17 (4) 352-359 [2015-07-00; online 2015-05-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Identifying glycoside hydrolase family 18 genes in the mycoparasitic fungal species Clonostachys rosea.
Tzelepis G, Dubey M, Jensen DF, Karlsson M
GENBANK
Microbiology (Reading, Engl.) 161 (7) 1407-1419 [2015-07-00; online 2015-04-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Structural Basis for the Specificity of Human NUDT16 and Its Regulation by Inosine Monophosphate
Trésaugues L, Lundbäck T, Welin M, ..., Gräslund S, Nordlund P
PDB PDB
PLoS ONE 10 (6) e0131507 [2015-06-29; online 2015-06-29]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF)
PubMed DOI Crossref
High BRAF Mutation Frequency and Marked Survival Differences in Subgroups According to KRAS/BRAF Mutation Status and Tumor Tissue Availability in a Prospective Population-Based Metastatic Colorectal Cancer Cohort.
Sorbye H, Dragomir A, Sundström M, ..., Qvortrup C, Glimelius B
pmc
PLoS ONE 10 (6) e0131046 [2015-06-29; online 2015-06-29]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Ebf1 heterozygosity results in increased DNA damage in pro-B cells and their synergistic transformation by Pax5 haploinsufficiency.
Prasad MA, Ungerbäck J, Åhsberg J, ..., Hagman J, Sigvardsson M
pmc
Blood 125 (26) 4052-4059 [2015-06-25; online 2015-04-04]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling.
Lindskog C, Linné J, Fagerberg L, ..., Pontén F, Uhlén M
pmc GEO GEO
BMC Genomics 16 (-) 475 [2015-06-25; online 2015-06-25]
Bioinformatics Long-term Support WABI [Collaborative] Tissue Profiling [Collaborative]
PubMed DOI Crossref
Structure of the nuclease subunit of human mitochondrial RNase P.
Reinhard L, Sridhara S, Hällberg BM
pmc PDB PDB
Nucleic Acids Res. 43 (11) 5664-5672 [2015-06-23; online 2015-05-09]
Protein Science Facility (PSF)
PubMed DOI Crossref
The Plasmodiophora brassicae genome reveals insights in its life cycle and ancestry of chitin synthases.
Schwelm A, Fogelqvist J, Knaust A, ..., Ludwig-Müller J, Dixelius C
pmc
Sci Rep 5 (-) 11153 [2015-06-18; online 2015-06-18]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Dynamics of Cell Generation and Turnover in the Human Heart.
Bergmann O, Zdunek S, Felker A, ..., Druid H, Frisén J
Cell 161 (7) 1566-1575 [2015-06-18; online 2015-06-16]
Advanced Light Microscopy (ALM) [Service]
PubMed DOI Crossref
Confrontation of fibroblasts with cancer cells in vitro: gene network analysis of transcriptome changes and differential capacity to inhibit tumor growth.
Alexeyenko A, Alkasalias T, Pavlova T, ..., Guven H, Klein G
pmc GEO
J. Exp. Clin. Cancer Res. 34 (-) 62 [2015-06-18; online 2015-06-18]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Transglutaminase 4 as a prostate autoantigen in male subfertility.
Landegren N, Sharon D, Shum AK, ..., Snyder M, Kämpe O
Sci Transl Med 7 (292) 292ra101 [2015-06-17; online 2015-06-19]
Autoimmunity Profiling [Service] Bioinformatics Support and Infrastructure PLA Proteomics
PubMed DOI Crossref
Characterization of Three Mycobacterium spp. with Potential Use in Bioremediation by Genome Sequencing and Comparative Genomics.
Das S, Pettersson BM, Behra PR, ..., Bhattacharya A, Kirsebom LA
pmc GENBANK GENBANK GENBANK
Genome Biol Evol 7 (7) 1871-1886 [2015-06-16; online 2015-06-16]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
IFN-α production by plasmacytoid dendritic cell associations with polymorphisms in gene loci related to autoimmune and inflammatory diseases.
Berggren O, Alexsson A, Morris DL, ..., Rönnblom L, Eloranta ML
Hum. Mol. Genet. 24 (12) 3571-3581 [2015-06-15; online 2015-03-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex.
Sjöstedt E, Fagerberg L, Hallström BM, ..., Uhlén M, Mulder J
pmc
PLoS ONE 10 (6) e0130028 [2015-06-15; online 2015-06-15]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Collaborative]
PubMed DOI Crossref
Whiteboard: a framework for the programmatic visualization of complex biological analyses.
Sundström G, Zamani N, Grabherr MG, Mauceli E
Bioinformatics 31 (12) 2054-2055 [2015-06-15; online 2015-02-11]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Contribution of common non-synonymous variants in PCSK1 to body mass index variation and risk of obesity: a systematic review and meta-analysis with evidence from up to 331 175 individuals.
Nead KT, Li A, Wehner MR, ..., Anand SS, Meyre D
pmc
Hum. Mol. Genet. 24 (12) 3582-3594 [2015-06-15; online 2015-03-17]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Proximity-dependent initiation of hybridization chain reaction
Koos B, Cane G, Grannas K, ..., Kamali-Moghaddam M, Söderberg O
Nat Commun 6 (-) 7294 [2015-06-12; online 2015-06-12]
PLA Proteomics [Technology development]
PubMed DOI Crossref
Phasing of single DNA molecules by massively parallel barcoding.
Borgström E, Redin D, Lundin S, ..., Andersson AF, Ahmadian A
pmc SRA
Nat Commun 6 (-) 7173 [2015-06-09; online 2015-06-09]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Functional Identification of Target by Expression Proteomics (FITExP) reveals protein targets and highlights mechanisms of action of small molecule drugs.
Chernobrovkin A, Marin-Vicente C, Visa N, Zubarev RA
pmc
Sci Rep 5 (-) 11176 [2015-06-08; online 2015-06-08]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
A quantitative assessment of the Hadoop framework for analyzing massively parallel DNA sequencing data.
Siretskiy A, Sundqvist T, Voznesenskiy M, Spjuth O
pmc
Gigascience 4 (-) 26 [2015-06-04; online 2015-06-04]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Evolutionary analysis of the female-specific avian W chromosome.
Smeds L, Warmuth V, Bolivar P, ..., Török J, Ellegren H
pmc mid BioProject
Nat Commun 6 (-) 7330 [2015-06-04; online 2015-06-04]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia.
Mansouri L, Sutton LA, Ljungström V, ..., Nilsson M, Rosenquist R
pmc
J. Exp. Med. 212 (6) 833-843 [2015-06-01; online 2015-05-20]
Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Ancient wolf genome reveals an early divergence of domestic dog ancestors and admixture into high-latitude breeds.
Skoglund P, Ersmark E, Palkopoulou E, Dalén L
Curr. Biol. 25 (11) 1515-1519 [2015-06-01; online 2015-05-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Human adaptation to arsenic-rich environments.
Schlebusch CM, Gattepaille LM, Engström K, ..., Jakobsson M, Broberg K
Mol. Biol. Evol. 32 (6) 1544-1555 [2015-06-00; online 2015-03-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Zebrafish: A possible tool to evaluate bioactive ions.
Montazerolghaem M, Nyström L, Engqvist H, Karlsson Ott M
Acta Biomater 19 (-) 10-14 [2015-06-00; online 2015-03-17]
Genome Engineering Zebrafish
PubMed DOI Crossref
NLRC4 Inflammasome Is an Important Regulator of Interleukin-18 Levels in Patients With Acute Coronary Syndromes: Genome-Wide Association Study in the PLATelet inhibition and patient Outcomes Trial (PLATO).
Johansson Å, Eriksson N, Becker RC, ..., Siegbahn A, PLATO Investigators
Circ Cardiovasc Genet 8 (3) 498-506 [2015-06-00; online 2015-03-10]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Non-reciprocal Interspecies Hybridization Barriers in the Capsella Genus Are Established in the Endosperm.
Rebernig CA, Lafon-Placette C, Hatorangan MR, Slotte T, Köhler C
pmc GEO
PLoS Genet. 11 (6) e1005295 [2015-06-00; online 2015-06-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed
Differential Gene Regulation in Fibroblasts in Co-culture with Keratinocytes and Head and Neck SCC Cells.
Hakelius M, Saiepour D, Göransson H, ..., Gerdin B, Nowinski D
Anticancer Res. 35 (6) 3253-3265 [2015-06-00; online 2015-05-31]
Array and Analysis Facility
PubMed DOI Crossref
Effect of host plant and immune challenge on the levels of chemosensory and odorant-binding proteins in caterpillar salivary glands.
Celorio-Mancera Mde L, Ytterberg AJ, Rutishauser D, Janz N, Zubarev RA
Insect Biochem. Mol. Biol. 61 (-) 34-45 [2015-06-00; online 2015-05-03]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Multiple Changes of Gene Expression and Function Reveal Genomic and Phenotypic Complexity in SLE-like Disease.
Wilbe M, Kozyrev SV, Farias FH, ..., Hansson-Hamlin H, Lindblad-Toh K
pmc
PLoS Genet. 11 (6) e1005248 [2015-06-00; online 2015-06-09]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Consequences of increased terrestrial dissolved organic matter and temperature on bacterioplankton community composition during a Baltic Sea mesocosm experiment.
Lindh MV, Lefébure R, Degerman R, ..., Andersson A, Pinhassi J
pmc
Ambio 44 Suppl 3 (-) 402-412 [2015-06-00; online 2015-05-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A nucleosome turnover map reveals that the stability of histone H4 Lys20 methylation depends on histone recycling in transcribed chromatin.
Svensson JP, Shukla M, Menendez-Benito V, ..., Allshire RC, Ekwall K
pmc GEO
Genome Res. 25 (6) 872-883 [2015-06-00; online 2015-03-18]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
High-throughput mutational screening adds clinically important information in myelodysplastic syndromes and secondary or therapy-related acute myeloid leukemia.
Karimi M, Nilsson C, Dimitriou M, ..., Kere J, Hellström-Lindberg E
pmc
Haematologica 100 (6) e223-e225 [2015-06-00; online 2015-03-15]
Mutation Analysis Facility (MAF) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Single locus sex determination and female heterogamety in the basket willow (Salix viminalis L.).
Pucholt P, Rönnberg-Wästljung AC, Berlin S
pmc
Heredity (Edinb) 114 (6) 575-583 [2015-06-00; online 2015-02-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed
Whole-genome Linkage Analysis and Sequence Analysis of Candidate Loci in Familial Breast Cancer.
Marikkannu R, Aravidis C, Rantala J, ..., Nilsson D, Lindblom A
Anticancer Res. 35 (6) 3155-3165 [2015-06-00; online 2015-05-31]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Microbial metagenomics in the Baltic Sea: Recent advancements and prospects for environmental monitoring.
Ininbergs K, Bergman B, Larsson J, Ekman M
pmc
Ambio 44 Suppl 3 (-) 439-450 [2015-06-00; online 2015-05-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
The impact of low-frequency and rare variants on lipid levels.
Surakka I, Horikoshi M, Mägi R, ..., Ripatti S, ENGAGE Consortium
pmc mid
Nat. Genet. 47 (6) 589-597 [2015-06-00; online 2015-05-12]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The potential clinical impact of the tissue-based map of the human proteome.
Lindskog C
Expert Rev Proteomics 12 (3) 213-215 [2015-06-00; online 2015-04-30]
Tissue Profiling [Technology development]
PubMed DOI Crossref
Exome Sequencing and CNV Analysis on Chromosome 18 in Small Intestinal Neuroendocrine Tumors: Ruling Out a Suspect?
Delgado Verdugo A, Crona J, Maharjan R, ..., Westin G, Björklund P
Horm. Metab. Res. 47 (6) 452-455 [2015-06-00; online 2014-10-30]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
CETSA: a target engagement assay with potential to transform drug discovery
Jensen AJ, Molina DM, Lundbäck T
Future Medicinal Chemistry 7 (8) 975-978 [2015-06-00; online 2015-06-00]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Hemophagocytic lymphohistiocytosis in 2 patients with underlying IFN-γ receptor deficiency.
Tesi B, Sieni E, Neves C, ..., Azzari C, Bryceson YT
J. Allergy Clin. Immunol. 135 (6) 1638-1641 [2015-06-00; online 2015-01-17]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Exome sequencing of contralateral breast cancer identifies metastatic disease.
Klevebring D, Lindberg J, Rockberg J, ..., Sandberg M, Czene K
Breast Cancer Res. Treat. 151 (2) 319-324 [2015-06-00; online 2015-04-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.
Kiflemariam S, Ljungström V, Pontén F, Sjöblom T
Am. J. Pathol. 185 (6) 1600-1609 [2015-06-00; online 2015-04-10]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.
Edqvist PH, Huvila J, Forsström B, ..., Pontén F, Auranen A
Gynecol. Oncol. 137 (3) 529-537 [2015-06-00; online 2015-04-07]
Tissue Profiling [Collaborative]
PubMed
Circulating microRNA expression pattern separates patients with anti-neutrophil cytoplasmic antibody associated vasculitis from healthy controls.
Skoglund C, Carlsen AL, Weiner M, ..., Heegaard NH, Segelmark M
Clin. Exp. Rheumatol. 33 (2 Suppl 89) S-64-71 [2015-05-26; online 2015-05-26]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Phylogeny, evolution and classification of gall wasps: the plot thickens.
Ronquist F, Nieves-Aldrey JL, Buffington ML, ..., Liljeblad J, Nylander JA
pmc
PLoS ONE 10 (5) e0123301 [2015-05-20; online 2015-05-20]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Complete genomes reveal signatures of demographic and genetic declines in the woolly mammoth.
Palkopoulou E, Mallick S, Skoglund P, ..., Reich D, Dalén L
pmc mid
Curr. Biol. 25 (10) 1395-1400 [2015-05-18; online 2015-04-29]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
CGGBP1 mitigates cytosine methylation at repetitive DNA sequences.
Agarwal P, Collier P, Fritz MH, ..., Westermark B, Singh U
pmc
BMC Genomics 16 (-) 390 [2015-05-16; online 2015-05-16]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Complex archaea that bridge the gap between prokaryotes and eukaryotes.
Spang A, Saw JH, Jørgensen SL, ..., Guy L, Ettema TJ
pmc mid GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK SRA
Nature 521 (7551) 173-179 [2015-05-14; online 2015-05-07]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Phylogeographical pattern of Francisella tularensis in a nationwide outbreak of tularaemia in Norway, 2011.
Afset JE, Larssen KW, Bergh K, ..., Johansson A, Forsman M
Euro Surveill. 20 (19) 9-14 [2015-05-14; online 2015-05-14]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Human genomics. Effect of predicted protein-truncating genetic variants on the human transcriptome.
Rivas MA, Pirinen M, Conrad DF, ..., Lappalainen T, MacArthur DG
pmc mid dbGaP dbGaP dbGaP
Science 348 (6235) 666-669 [2015-05-08; online 2015-05-09]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Complement inhibitor CD55 governs the integrity of membrane rafts in pancreatic beta cells, but plays no role in insulin secretion.
Nagaraj V, King B, Storm P, ..., Blom AM, Renström E
Biochem. Biophys. Res. Commun. 460 (3) 518-524 [2015-05-08; online 2015-03-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genome-wide association mapping in a wild avian population identifies a link between genetic and phenotypic variation in a life-history trait.
Husby A, Kawakami T, Rönnegård L, ..., Ellegren H, Qvarnström A
pmc Dryad
Proc. Biol. Sci. 282 (1806) 20150156 [2015-05-07; online 2015-04-04]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Intestinal dysbiosis in children with short bowel syndrome is associated with impaired outcome.
Engstrand Lilja H, Wefer H, Nyström N, Finkel Y, Engstrand L
pmc
Microbiome 3 (-) 18 [2015-05-04; online 2015-05-04]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Cooperative genetic changes in pediatric B-cell precursor acute lymphoblastic leukemia with deletions or mutations of IKZF1.
Olsson L, Albitar F, Castor A, ..., Paulsson K, Johansson B
Genes Chromosomes Cancer 54 (5) 315-325 [2015-05-00; online 2015-03-03]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Cu(OAc)2-Catalysed Oxidative Dual C-H/N-H Activation of Terminal Alkynes andN-Deprotected Sulfonimidamides: An Easy Access toN-Alkynylated Sulfonimidamides
Nandi GC, Kota SR, Naicker T, ..., Kruger HG, Arvidsson PI
Eur. J. Org. Chem. 2015 (13) 2861-2867 [2015-05-00; online 2015-03-17]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Genetic regulation of bone metabolism in the chicken: similarities and differences to Mammalian systems.
Johnsson M, Jonsson KB, Andersson L, Jensen P, Wright D
pmc
PLoS Genet. 11 (5) e1005250 [2015-05-00; online 2015-05-29]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Genome-wide meta-analysis identifies six novel loci associated with habitual coffee consumption.
Coffee and Caffeine Genetics Consortium , Cornelis MC, Byrne EM, ..., van Dam RM, Chasman DI
pmc mid
Mol. Psychiatry 20 (5) 647-656 [2015-05-00; online 2014-10-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Mixed ancestry and admixture in Kauai's feral chickens: invasion of domestic genes into ancient Red Junglefowl reservoirs.
Gering E, Johnsson M, Willis P, Getty T, Wright D
BioProject Dryad SRA
Mol. Ecol. 24 (9) 2112-2124 [2015-05-00; online 2015-02-07]
NGI Uppsala (Uppsala Genome Center)
DOI Crossref
NOTA: a potent metallo-β-lactamase inhibitor
Somboro AM, Tiwari D, Bester LA, ..., Naicker T, Essack SY
J. Antimicrob. Chemother. 70 (5) 1594-1596 [2015-05-00; online 2015-01-06]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
Age- and sex-specific causal effects of adiposity on cardiovascular risk factors.
Fall T, Hägg S, Ploner A, ..., Ingelsson E, ENGAGE Consortium
pmc
Diabetes 64 (5) 1841-1852 [2015-05-00; online 2015-02-26]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Tracking the origin of metastatic prostate cancer.
Lindberg J, Kristiansen A, Wiklund P, Grönberg H, Egevad L
Eur. Urol. 67 (5) 819-822 [2015-05-00; online 2014-09-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed
Diagnostic urinary proteome profile for immunoglobulin a nephropathy.
Samavat S, Kalantari S, Nafar M, ..., Parvin M, Zubarev RA
Iran J Kidney Dis 9 (3) 239-248 [2015-05-00; online 2015-05-10]
Advanced Mass Spectrometry Proteomics
PubMed DOI Crossref
Autosomal recessive mutations in the COL2A1 gene cause severe spondyloepiphyseal dysplasia.
Tham E, Nishimura G, Geiberger S, ..., Nordenskjöld M, Grigelioniene G
Clin. Genet. 87 (5) 496-498 [2015-05-00; online 2014-07-26]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Dietary fat quality impacts genome-wide DNA methylation patterns in a cross-sectional study of Greek preadolescents.
Voisin S, Almén MS, Moschonis G, ..., Manios Y, Schiöth HB
pmc
Eur. J. Hum. Genet. 23 (5) 654-662 [2015-05-00; online 2014-07-31]
NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
The role of genetic factors for hearing deterioration across 20 years: a twin study.
Bogo R, Farah A, Johnson AC, ..., Svartengren M, Skjönsberg Å
J. Gerontol. A Biol. Sci. Med. Sci. 70 (5) 647-653 [2015-05-00; online 2015-02-11]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Plant-mediated gene silencing restricts growth of the potato late blight pathogen Phytophthora infestans.
Jahan SN, Åsman AK, Corcoran P, ..., Vetukuri RR, Dixelius C
pmc
J. Exp. Bot. 66 (9) 2785-2794 [2015-05-00; online 2015-03-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Nanoparticle-stabilized microbubbles for multimodal imaging and drug delivery.
Mørch Ý, Hansen R, Berg S, ..., de Lange Davies C, Stenstad PM
Contrast Media Mol Imaging 10 (5) 356-366 [2015-04-30; online 2015-04-30]
Advanced Light Microscopy (ALM) [Collaborative]
PubMed DOI Crossref
Deep sequencing and SNP array analyses of pediatric T-cell acute lymphoblastic leukemia reveal NOTCH1 mutations in minor subclones and a high incidence of uniparental isodisomies affecting CDKN2A.
Karrman K, Castor A, Behrendtz M, ..., Paulsson K, Johansson B
pmc
J Hematol Oncol 8 (-) 42 [2015-04-24; online 2015-04-24]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Genetically determined height and coronary artery disease.
Nelson CP, Hamby SE, Saleheen D, ..., Samani NJ, CARDIoGRAM+C4D Consortium
pmc mid
N. Engl. J. Med. 372 (17) 1608-1618 [2015-04-23; online 2015-04-09]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Circulating carnosine dipeptidase 1 associates with weight loss and poor prognosis in gastrointestinal cancer.
Arner P, Henjes F, Schwenk JM, ..., Nilsson P, Rydén M
pmc
PLoS ONE 10 (4) e0123566 [2015-04-21; online 2015-04-21]
Plasma Profiling
PubMed DOI Crossref
Polymorphisms in chloroquine resistance-associated genes in Plasmodium vivax in Ethiopia.
Golassa L, Erko B, Baliraine FN, Aseffa A, Swedberg G
pmc
Malar. J. 14 (-) 164 [2015-04-16; online 2015-04-16]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Combination effects of AHR agonists and Wnt/β-catenin modulators in zebrafish embryos: Implications for physiological and toxicological AHR functions.
Wincent E, Stegeman JJ, Jönsson ME
pmc mid
Toxicol. Appl. Pharmacol. 284 (2) 163-179 [2015-04-15; online 2015-02-21]
Genome Engineering Zebrafish [Service]
PubMed DOI Crossref
AP-1-mediated chromatin looping regulates ZEB2 transcription: new insights into TNFα-induced epithelial-mesenchymal transition in triple-negative breast cancer.
Qiao Y, Shiue CN, Zhu J, ..., Zhao C, Dahlman-Wright K
pmc
Oncotarget 6 (10) 7804-7814 [2015-04-10; online 2015-03-13]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Common genetic variants influence human subcortical brain structures.
Hibar DP, Stein JL, Renteria ME, ..., Thompson PM, Medland SE
pmc mid
Nature 520 (7546) 224-229 [2015-04-09; online 2015-01-22]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Inter-relationships between the metrics of instrumental meat color and microbial growth during aerobic storage of beef at 4°C
Li S, Zamaratskaia G, Roos S, ..., Borch E, Johansson M
Acta Agriculturae Scandinavica, Section A - Animal Science 65 (2) 97-106 [2015-04-03; online 2015-09-00]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Transplant experiments uncover Baltic Sea basin-specific responses in bacterioplankton community composition and metabolic activities.
Lindh MV, Figueroa D, Sjöstedt J, ..., Legrand C, Pinhassi J
pmc
Front Microbiol 6 (-) 223 [2015-04-01; online 2015-04-01]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A prognosis based classification of undifferentiated uterine sarcomas: identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival.
Gremel G, Liew M, Hamzei F, ..., Pontén F, Carlson JW
Int. J. Cancer 136 (7) 1608-1618 [2015-04-01; online 2014-08-19]
Tissue Profiling
PubMed DOI Crossref
Is label-free LC-MS/MS ready for biomarker discovery?
Sandin M, Chawade A, Levander F
Proteomics Clin Appl 9 (3-4) 289-294 [2015-04-00; online 2015-02-07]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Adiposity as a cause of cardiovascular disease: a Mendelian randomization study.
Hägg S, Fall T, Ploner A, ..., Ingelsson E, European Network for Genetic and Genomic Epidemiology Consortium
pmc
Int J Epidemiol 44 (2) 578-586 [2015-04-00; online 2015-05-27]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Using genetics to test the causal relationship of total adiposity and periodontitis: Mendelian randomization analyses in the Gene-Lifestyle Interactions and Dental Endpoints (GLIDE) Consortium.
Shungin D, Cornelis MC, Divaris K, ..., Johansson I, Franks PW
pmc
Int J Epidemiol 44 (2) 638-650 [2015-04-00; online 2015-06-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Immunohistochemistry-based prognostic biomarkers in NSCLC: novel findings on the road to clinical use?
Lindskog C, Edlund K, Mattsson JS, Micke P
Expert Rev. Mol. Diagn. 15 (4) 471-490 [2015-04-00; online 2015-01-19]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Duffy antigen receptor genetic variant and the association with Interleukin 8 levels.
Moreno Velásquez I, Kumar J, Björkbacka H, ..., de Faire U, Gigante B
Cytokine 72 (2) 178-184 [2015-04-00; online 2015-01-31]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Is the adiposity-associated FTO gene variant related to all-cause mortality independent of adiposity? Meta-analysis of data from 169,551 Caucasian adults.
Zimmermann E, Ängquist LH, Mirza SS, ..., Sonestedt E, Sørensen TIA
pmc mid
Obes Rev 16 (4) 327-340 [2015-04-00; online 2015-03-05]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
GWAS-identified loci for coronary heart disease are associated with intima-media thickness and plaque presence at the carotid artery bulb.
den Hoed M, Strawbridge RJ, Almgren P, ..., Melander O, Lind L
Atherosclerosis 239 (2) 304-310 [2015-04-00; online 2015-02-16]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Mixture effects of levonorgestrel and ethinylestradiol: estrogenic biomarkers and hormone receptor mRNA expression during sexual programming.
Säfholm M, Jansson E, Fick J, Berg C
Aquat. Toxicol. 161 (-) 146-153 [2015-04-00; online 2015-02-24]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Birth weight as an independent predictor of ADHD symptoms: a within-twin pair analysis.
Pettersson E, Sjölander A, Almqvist C, ..., Lichtenstein P, Larsson H
pmc mid
J Child Psychol Psychiatry 56 (4) 453-459 [2015-04-00; online 2014-07-22]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Fluctuating expression of microRNAs in adenovirus infected cells.
Zhao H, Chen M, Tellgren-Roth C, Pettersson U
Virology 478 (-) 99-111 [2015-04-00; online 2015-03-07]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Identification and validation of N-acetyltransferase 2 as an insulin sensitivity gene.
Knowles JW, Xie W, Zhang Z, ..., Walker M, Quertermous T
pmc
J. Clin. Invest. 125 (4) 1739-1751 [2015-04-00; online 2015-03-23]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Functional anti-CD94/NKG2A and anti-CD94/NKG2C autoantibodies in patients with systemic lupus erythematosus.
Hagberg N, Theorell J, Hjorton K, ..., Bryceson YT, Rönnblom L
Arthritis & rheumatology (Hoboken, N.J.) 67 (4) 1000-1011 [2015-04-00; online 2014-12-17]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Oseltamivir-resistant influenza A (H1N1) virus strain with an H274Y mutation in neuraminidase persists without drug pressure in infected mallards.
Gillman A, Muradrasoli S, Söderström H, ..., Olsen B, Järhult JD
pmc
Appl. Environ. Microbiol. 81 (7) 2378-2383 [2015-04-00; online 2015-01-27]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Methylation levels of SLC23A2 and NCOR2 genes correlate with spinal muscular atrophy severity.
Zheleznyakova GY, Nilsson EK, Kiselev AV, ..., Baranov VS, Schiöth HB
pmc
PLoS ONE 10 (3) e0121964 [2015-03-30; online 2015-03-30]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Site-specific programming of the host epithelial transcriptome by the gut microbiota.
Sommer F, Nookaew I, Sommer N, Fogelstrand P, Bäckhed F
pmc
Genome Biol. 16 (-) 62 [2015-03-28; online 2015-03-28]
Array and Analysis Facility Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Age-associated DNA methylation changes in immune genes, histone modifiers and chromatin remodeling factors within 5 years after birth in human blood leukocytes.
Acevedo N, Reinius LE, Vitezic M, ..., Greco D, Kere J
pmc
Clin Epigenetics 7 (-) 34 [2015-03-26; online 2015-03-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Modulation of genetic associations with serum urate levels by body-mass-index in humans.
Huffman JE, Albrecht E, Teumer A, ..., Köttgen A, Vitart V
pmc
PLoS ONE 10 (3) e0119752 [2015-03-26; online 2015-03-26]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
DOI Crossref
Crystal Structures of the Kinase Domain of the Sulfate-Activating Complex in Mycobacterium tuberculosis
Poyraz Ö, Brunner K, Lohkamp B, ..., Schnell R, Schneider G
PDB PDB PDB PDB
PLoS ONE 10 (3) e0121494 [2015-03-25; online 2015-03-25]
Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF)
PubMed DOI Crossref
Discovery of molecular markers to discriminate corneal endothelial cells in the human body.
Yoshihara M, Ohmiya H, Hara S, ..., Tsujikawa M, Nishida K
pmc
PLoS ONE 10 (3) e0117581 [2015-03-25; online 2015-03-25]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Complete genome sequence of Borrelia afzelii K78 and comparative genome analysis.
Schüler W, Bunikis I, Weber-Lehman J, ..., Bergström S, Lundberg U
pmc
PLoS ONE 10 (3) e0120548 [2015-03-23; online 2015-03-23]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Structural basis for lack of ADP-ribosyltransferase activity in poly(ADP-ribose) polymerase-13/zinc finger antiviral protein.
Karlberg T, Klepsch M, Thorsell AG, ..., Linusson A, Schüler H
pmc
J. Biol. Chem. 290 (12) 7336-7344 [2015-03-20; online 2015-01-31]
Protein Science Facility (PSF)
PubMed DOI Crossref
Complete Genome Sequence of Francisella guangzhouensis Strain 08HL01032T, Isolated from Air-Conditioning Systems in China.
Svensson D, Öhrman C, Bäckman S, ..., Forsman M, Sjödin A
pmc
Genome Announc 3 (2) - [2015-03-19; online 2015-03-19]
Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service]
PubMed DOI Crossref
Comparative proteomic analysis of hyphae and germinating cysts of Phytophthora pisi and Phytophthora sojae.
Hosseini S, Resjö S, Liu Y, ..., Andreasson E, Karlsson M
J Proteomics 117 (-) 24-40 [2015-03-18; online 2015-01-24]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Conservation of transcription factor binding specificities across 600 million years of bilateria evolution.
Nitta KR, Jolma A, Yin Y, ..., Furlong EE, Taipale J
pmc
Elife 4 (-) - [2015-03-17; online 2015-03-17]
Karolinska High Throughput Center (KHTC)
PubMed DOI Crossref
Local hopping mobile DNA implicated in pseudogene formation and reductive evolution in an obligate cyanobacteria-plant symbiosis.
Vigil-Stenman T, Larsson J, Nylander JA, Bergman B
pmc
BMC Genomics 16 (-) 193 [2015-03-17; online 2015-03-17]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
SLC10A4 is a vesicular amine-associated transporter modulating dopamine homeostasis.
Larhammar M, Patra K, Blunder M, ..., Wallén-Mackenzie Å, Kullander K
Biol. Psychiatry 77 (6) 526-536 [2015-03-15; online 2014-09-02]
Advanced Light Microscopy (ALM) [Collaborative]
PubMed DOI Crossref
Microsatellite instability and mutations in BRAF and KRAS are significant predictors of disseminated disease in colon cancer.
Birgisson H, Edlund K, Wallin U, ..., Glimelius B, Sundström M
pmc GEO
BMC Cancer 15 (-) 125 [2015-03-14; online 2015-03-14]
Array and Analysis Facility
PubMed DOI Crossref
Variations of gastric corpus microbiota are associated with early esophageal squamous cell carcinoma and squamous dysplasia.
Nasrollahzadeh D, Malekzadeh R, Ploner A, ..., Dawsey SM, Ye W
pmc
Sci Rep 5 (-) 8820 [2015-03-06; online 2015-03-06]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploid Capsella bursa-pastoris.
Douglas GM, Gos G, Steige KA, ..., Slotte T, Wright SI
pmc
Proc. Natl. Acad. Sci. U.S.A. 112 (9) 2806-2811 [2015-03-03; online 2015-02-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Proteomic profiling reveals autoimmune targets in sarcoidosis.
Häggmark A, Hamsten C, Wiklundh E, ..., Grunewald J, Nilsson P
Am. J. Respir. Crit. Care Med. 191 (5) 574-583 [2015-03-01; online 2015-01-22]
Autoimmunity Profiling [Collaborative] Tissue Profiling [Collaborative]
PubMed
Genomewide association study of body weight traits in Baluchi sheep.
Gholizadeh M, Rahimi-Mianji G, Nejati-Javaremi A
J. Genet. 94 (1) 143-146 [2015-03-00; online 2015-04-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Targeted next-generation sequencing in chronic lymphocytic leukemia: a high-throughput yet tailored approach will facilitate implementation in a clinical setting.
Sutton LA, Ljungström V, Mansouri L, ..., Stamatopoulos K, Rosenquist R
pmc
Haematologica 100 (3) 370-376 [2015-03-00; online 2014-12-07]
Clinical Genomics Uppsala
PubMed DOI Crossref
MuSK: a new target for lethal fetal akinesia deformation sequence (FADS).
Wilbe M, Ekvall S, Eurenius K, ..., Annerén G, Bondeson ML
J. Med. Genet. 52 (3) 195-202 [2015-03-00; online 2015-01-24]
Clinical Genomics Uppsala NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
High-resolution crystal structure of a polyextreme GH43 glycosidase from Halothermothrix orenii with α-L-arabinofuranosidase activity.
Hassan N, Kori LD, Gandini R, ..., Divne C, Tan TC
pmc PDB
Acta Crystallogr F Struct Biol Commun 71 (Pt 3) 338-345 [2015-03-00; online 2015-02-19]
Protein Science Facility (PSF)
PubMed DOI Crossref
Evaluation of human papillomavirus DNA detection in samples obtained for routine Chlamydia trachomatis screening.
Söderlund-Strand A, Wikström A, Dillner J
J. Clin. Virol. 64 (-) 88-91 [2015-03-00; online 2015-01-13]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Amplification-free sequencing of cell-free DNA for prenatal non-invasive diagnosis of chromosomal aberrations.
Karlsson K, Sahlin E, Iwarsson E, ..., Nordenskjöld M, Linnarsson S
Genomics 105 (3) 150-158 [2015-03-00; online 2014-12-30]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A genomic duplication is associated with ectopic eomesodermin expression in the embryonic chicken comb and two duplex-comb phenotypes.
Dorshorst B, Harun-Or-Rashid M, Bagherpoor AJ, ..., Hallböök F, Andersson L
pmc
PLoS Genet. 11 (3) e1004947 [2015-03-00; online 2015-03-19]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The Fun30 chromatin remodeler Fft3 controls nuclear organization and chromatin structure of insulators and subtelomeres in fission yeast.
Steglich B, Strålfors A, Khorosjutina O, ..., Javerzat JP, Ekwall K
pmc GEO
PLoS Genet. 11 (3) e1005101 [2015-03-00; online 2015-03-23]
Bioinformatics and Expression Analysis (BEA) NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
The H1-receptor antagonist cetirizine ameliorates high-fat diet-induced glucose intolerance in male C57BL/6 mice, but not diabetes outcome in female non-obese diabetic (NOD) mice.
Anvari E, Wang X, Sandler S, Welsh N
pmc
Ups. J. Med. Sci. 120 (1) 40-46 [2015-03-00; online 2014-10-08]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Structural characterization of substrate and inhibitor binding to farnesyl pyrophosphate synthase from Pseudomonas aeruginosa.
Schmidberger JW, Schnell R, Schneider G
pmc PDB PDB PDB PDB PDB
Acta Crystallogr. D Biol. Crystallogr. 71 (Pt 3) 721-731 [2015-03-00; online 2015-02-26]
Protein Science Facility (PSF)
PubMed DOI Crossref
Effects of ecological engineered oxygenation on the bacterial community structure in an anoxic fjord in western Sweden.
Forth M, Liljebladh B, Stigebrandt A, Hall PO, Treusch AH
pmc
ISME J 9 (3) 656-669 [2015-03-00; online 2014-09-23]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
High-density genotyping of immune loci in Koreans and Europeans identifies eight new rheumatoid arthritis risk loci.
Kim K, Bang SY, Lee HS, ..., Plenge RM, Bae SC
pmc mid
Ann. Rheum. Dis. 74 (3) e13 [2015-03-00; online 2014-02-14]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Preclinical characterization of acyl sulfonimidamides: potential carboxylic acid bioisosteres with tunable properties.
Borhade SR, Svensson R, Brandt P, ..., Arvidsson PI, Sandström A
ChemMedChem 10 (3) 455-460 [2015-03-00; online 2015-01-30]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
FGF2 as a potential prognostic biomarker for proneural glioma patients.
Sooman L, Freyhult E, Jaiswal A, ..., Bergqvist M, Ekman S
Acta Oncol 54 (3) 385-394 [2015-03-00; online 2014-09-30]
Bioinformatics Support and Infrastructure Tissue Profiling
PubMed DOI Crossref
MetCap: a bioinformatics probe design pipeline for large-scale targeted metagenomics.
Kushwaha SK, Manoharan L, Meerupati T, Hedlund K, Ahrén D
pmc
BMC Bioinformatics 16 (-) 65 [2015-02-28; online 2015-02-28]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Roux-en Y gastric bypass surgery induces genome-wide promoter-specific changes in DNA methylation in whole blood of obese patients.
Nilsson EK, Ernst B, Voisin S, ..., Schultes B, Schiöth HB
pmc ClinicalTrials.gov
PLoS ONE 10 (2) e0115186 [2015-02-24; online 2015-02-24]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The roles of SNF2/SWI2 nucleosome remodeling enzymes in blood cell differentiation and leukemia.
Prasad P, Lennartsson A, Ekwall K
pmc
Biomed Res Int 2015 (-) 347571 [2015-02-19; online 2015-02-19]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Evolution of Darwin's finches and their beaks revealed by genome sequencing.
Lamichhaney S, Berglund J, Almén MS, ..., Webster MT, Andersson L
BioProject GENBANK
Nature 518 (7539) 371-375 [2015-02-19; online 2015-02-18]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia.
Nordlund J, Bäcklin CL, Zachariadis V, ..., Forestier E, Syvänen AC
pmc
Clin Epigenetics 7 (-) 11 [2015-02-17; online 2015-02-17]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Genetic studies of body mass index yield new insights for obesity biology.
Locke AE, Kahali B, Berndt SI, ..., Loos RJ, Speliotes EK
pmc mid
Nature 518 (7538) 197-206 [2015-02-12; online 2015-02-13]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Clonal distribution of BCR-ABL1 mutations and splice isoforms by single-molecule long-read RNA sequencing.
Cavelier L, Ameur A, Häggqvist S, ..., Olsson-Strömberg U, Hermanson M
pmc
BMC Cancer 15 (-) 45 [2015-02-12; online 2015-02-12]
Bioinformatics Compute and Storage [Service] Clinical Genomics Uppsala NGI Uppsala (Uppsala Genome Center) [Service]
PubMed DOI Crossref
New genetic loci link adipose and insulin biology to body fat distribution.
Shungin D, Winkler TW, Croteau-Chonka DC, ..., Lindgren CM, Mohlke KL
pmc mid
Nature 518 (7538) 187-196 [2015-02-12; online 2015-02-13]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Data processing has major impact on the outcome of quantitative label-free LC-MS analysis.
Chawade A, Sandin M, Teleman J, Malmström J, Levander F
J. Proteome Res. 14 (2) 676-687 [2015-02-06; online 2014-11-20]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the illumina platform.
Sinclair L, Osman OA, Bertilsson S, Eiler A
pmc SRA SRA
PLoS ONE 10 (2) e0116955 [2015-02-03; online 2015-02-03]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Risk of childhood asthma is associated with CpG-site polymorphisms, regional DNA methylation and mRNA levels at the GSDMB/ORMDL3 locus.
Acevedo N, Reinius LE, Greco D, ..., Kere J, Söderhäll C
pmc
Hum. Mol. Genet. 24 (3) 875-890 [2015-02-01; online 2014-09-27]
Bioinformatics and Expression Analysis (BEA) Mutation Analysis Facility (MAF)
PubMed DOI Crossref
The GH receptor exon 3 deleted/full-length polymorphism is associated with central adiposity in the general population.
Glad CA, Carlsson LM, Melander O, ..., Svensson PA, Johannsson G
Eur. J. Endocrinol. 172 (2) 123-128 [2015-02-00; online 2014-11-14]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Novel high-throughput screening method for identification of fungal dimorphism blockers.
Stylianou M, Uvell H, Lopes JP, ..., Elofsson M, Urban CF
J Biomol Screen 20 (2) 285-291 [2015-02-00; online 2014-10-05]
Chemical Biology Consortium Sweden (CBCS) [Collaborative]
PubMed DOI Crossref
Transcriptional responses of the bacterial antagonist Serratia plymuthica to the fungal phytopathogen Rhizoctonia solani.
Neupane S, Finlay RD, Alström S, Elfstrand M, Högberg N
Environ Microbiol Rep 7 (1) 123-127 [2015-02-00; online 2014-08-21]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Environmental and genetic factors in the development of anticitrullinated protein antibodies (ACPAs) and ACPA-positive rheumatoid arthritis: an epidemiological investigation in twins.
Hensvold AH, Magnusson PK, Joshua V, ..., Klareskog L, Catrina AI
Ann. Rheum. Dis. 74 (2) 375-380 [2015-02-00; online 2013-11-28]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Biochemical and structural characterization of a thermostable β-glucosidase from Halothermothrix orenii for galacto-oligosaccharide synthesis.
Hassan N, Nguyen TH, Intanon M, ..., Divne C, Tan TC
pmc PDB PDB PDB
Appl. Microbiol. Biotechnol. 99 (4) 1731-1744 [2015-02-00; online 2014-09-01]
Protein Science Facility (PSF)
PubMed DOI Crossref
Proposal of Thorsellia kenyensis sp. nov. and Thorsellia kandunguensis sp. nov., isolated from larvae of Anopheles arabiensis, as members of the family Thorselliaceae fam. nov.
Kämpfer P, Glaeser SP, Nilsson LKJ, ..., Busse H, Terenius O
GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK GENBANK
Int. J. Syst. Evol. Microbiol. 65 (Pt 2) 444-451 [2015-02-00; online 2014-11-12]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Genome and physiology of the ascomycete filamentous fungus Xeromyces bisporus, the most xerophilic organism isolated to date.
Leong SL, Lantz H, Pettersson OV, ..., Tellgren-Roth C, Schnürer J
Environ. Microbiol. 17 (2) 496-513 [2015-02-00; online 2014-08-22]
Bioinformatics Support and Infrastructure NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) NGI Uppsala (SNP&SEQ Technology Platform) NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
CTNND2-a candidate gene for reading problems and mild intellectual disability.
Hofmeister W, Nilsson D, Topa A, ..., Syk Lundberg E, Lindstrand A
J. Med. Genet. 52 (2) 111-122 [2015-02-00; online 2014-12-05]
Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling.
Edqvist PH, Fagerberg L, Hallström BM, ..., Uhlén M, Pontén F
pmc
J. Histochem. Cytochem. 63 (2) 129-141 [2015-02-00; online 2014-11-19]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Technology development]
PubMed DOI Crossref
Multi-omic data analysis using Galaxy.
Boekel J, Chilton JM, Cooke IR, ..., Moerland PD, Griffin TJ
Nat. Biotechnol. 33 (2) 137-139 [2015-02-00; online 2015-02-07]
Bioinformatics Support and Infrastructure Clinical Proteomics Mass spectrometry
PubMed DOI Crossref
Associations between the 17q21 region and allergic rhinitis in 5 birth cohorts.
Fuertes E, Söderhäll C, Acevedo N, ..., Carlsten C, Melén E
J. Allergy Clin. Immunol. 135 (2) 573-576 [2015-02-00; online 2014-09-30]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Predicting venous thrombosis in women using a combination of genetic markers and clinical risk factors.
Bruzelius M, Bottai M, Sabater-Lleal M, ..., Hamsten A, Odeberg J
J. Thromb. Haemost. 13 (2) 219-227 [2015-02-00; online 2014-12-05]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
The composition of the gut microbiota shapes the colon mucus barrier.
Jakobsson HE, Rodríguez-Piñeiro AM, Schütte A, ..., Hansson GC, Johansson ME
pmc
EMBO Rep. 16 (2) 164-177 [2015-02-00; online 2014-12-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility.
Wessel J, Chu AY, Willems SM, ..., Scott RA, Goodarzi MO
pmc mid
Nat Commun 6 (-) 5897 [2015-01-29; online 2015-01-29]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Prognostic impact of COX-2 in non-small cell lung cancer: a comprehensive compartment-specific evaluation of tumor and stromal cell expression.
Mattsson JS, Bergman B, Grinberg M, ..., Micke P, Gulyas M
Cancer Lett. 356 (2 Pt B) 837-845 [2015-01-28; online 2014-10-31]
Tissue Profiling [Collaborative]
PubMed DOI Crossref
Endonuclease specificity and sequence dependence of type IIS restriction enzymes.
Lundin S, Jemt A, Terje-Hegge F, ..., Lexow P, Lundeberg J
pmc SRA
PLoS ONE 10 (1) e0117059 [2015-01-28; online 2015-01-28]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Next-generation sequencing reveals low-dose effects of cationic dendrimers in primary human bronchial epithelial cells.
Feliu N, Kohonen P, Ji J, ..., Nyström A, Fadeel B
ACS Nano 9 (1) 146-163 [2015-01-27; online 2014-12-23]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
Intratumoral genome diversity parallels progression and predicts outcome in pediatric cancer.
Mengelbier LH, Karlsson J, Lindgren D, ..., Mayrhofer M, Gisselsson D
Nat Commun 6 (-) 6125 [2015-01-27; online 2015-01-27]
Array and Analysis Facility NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
TGF-β1-Induced Epithelial-Mesenchymal Transition Promotes Monocyte/Macrophage Properties in Breast Cancer Cells.
Johansson J, Tabor V, Wikell A, Jalkanen S, Fuxe J
pmc
Front Oncol 5 (-) 3 [2015-01-26; online 2015-01-26]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Proteomics. Tissue-based map of the human proteome.
Uhlén M, Fagerberg L, Hallström BM, ..., Nielsen J, Pontén F
Science 347 (6220) 1260419 [2015-01-23; online 2015-01-24]
Cell Profiling NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling [Technology development]
PubMed DOI Crossref
Biological interpretation of genome-wide association studies using predicted gene functions.
Pers TH, Karjalainen JM, Chan Y, ..., Hirschhorn JN, Franke L
pmc mid
Nat Commun 6 (-) 5890 [2015-01-19; online 2015-01-19]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
Drug-induced mRNA signatures are enriched for the minority of genes that are highly heritable.
Gao T, Brodin P, Davis MM, Jojic V
Pac Symp Biocomput - (-) 395-406 [2015-01-17; online 2015-01-17]
Mass Cytometry [Collaborative]
PubMed DOI Crossref
Transcription-coupled recruitment of human CHD1 and CHD2 influences chromatin accessibility and histone H3 and H3.3 occupancy at active chromatin regions.
Siggens L, Cordeddu L, Rönnerblad M, Lennartsson A, Ekwall K
pmc
Epigenetics Chromatin 8 (1) 4 [2015-01-15; online 2015-01-15]
Bioinformatics and Expression Analysis (BEA)
PubMed DOI Crossref
Variation in the human immune system is largely driven by non-heritable influences.
Brodin P, Jojic V, Gao T, ..., Maecker HT, Davis MM
pmc mid
Cell 160 (1-2) 37-47 [2015-01-15; online 2015-01-17]
Mass Cytometry [Collaborative]
PubMed DOI Crossref
The statistical geometry of transcriptome divergence in cell-type evolution and cancer.
Liang C, FANTOM Consortium , Forrest AR, Wagner GP
Nat Commun 6 (-) 6066 [2015-01-14; online 2015-01-14]
Bioinformatics Support and Infrastructure
PubMed DOI Crossref
Comparison of heritability of Cystatin C- and creatinine-based estimates of kidney function and their relation to heritability of cardiovascular disease.
Arpegård J, Viktorin A, Chang Z, ..., Magnusson PK, Svensson P
pmc
J Am Heart Assoc 4 (1) e001467 [2015-01-14; online 2015-01-14]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Defects of CRB2 cause steroid-resistant nephrotic syndrome.
Ebarasi L, Ashraf S, Bierzynska A, ..., Hildebrandt F, Majumdar A
pmc
Am. J. Hum. Genet. 96 (1) 153-161 [2015-01-08; online 2015-01-06]
Genome Engineering Zebrafish
PubMed DOI Crossref
Insights on the evolution of mycoparasitism from the genome of Clonostachys rosea.
Karlsson M, Durling MB, Choi J, ..., Lee YH, Jensen DF
pmc SRA
Genome Biol Evol 7 (2) 465-480 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
A genetic study on C5-TRAF1 and progression of joint damage in rheumatoid arthritis.
van Steenbergen HW, Rodríguez-Rodríguez L, Berglin E, ..., Rantapää-Dahlqvist S, van der Helm-van Mil AH
pmc
Arthritis Res. Ther. 17 (-) 1 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform) [Service]
PubMed DOI Crossref
The higher frequency of IgA deficiency among Swedish twins is not explained by HLA haplotypes.
Frankowiack M, Kovanen RM, Repasky GA, ..., Pedersen NL, Hammarström L
Genes Immun. 16 (3) 199-205 [2015-01-08; online 2015-01-08]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
Parallel protein detection by solid-phase proximity ligation assay with real-time PCR or sequencing.
Ebai T, Kamali-Moghaddam M, Landegren U
Curr Protoc Mol Biol 109 (-) 20.10.1-20.1025 [2015-01-05; online 2015-01-05]
PLA Proteomics [Technology development]
PubMed DOI Crossref
A secretagogin locus of the mammalian hypothalamus controls stress hormone release.
Romanov RA, Alpár A, Zhang MD, ..., Hökfelt T, Harkany T
pmc
EMBO J. 34 (1) 36-54 [2015-01-02; online 2014-11-29]
Fluorescence Tissue Profiling
PubMed DOI Crossref
Mutagenesis. Smoking is associated with mosaic loss of chromosome Y.
Dumanski JP, Rasi C, Lönn M, ..., Ingelsson E, Forsberg LA
pmc mid
Science 347 (6217) 81-83 [2015-01-02; online 2014-12-06]
NGI Uppsala (SNP&SEQ Technology Platform)
PubMed DOI Crossref
High Plasma Levels of Heparin-Binding Epidermal Growth Factor Are Associated With a More Stable Plaque Phenotype and Reduced Incidence of Coronary Events
Rattik S, Wigren M, Bjorkbacka H, ..., Goncalves I, Nilsson J
Arterioscler Thromb Vasc Biol 35 (1) 222-228 [2015-01-01; online 2014-10-30]
Clinical Biomarkers [Service]
PubMed DOI Crossref
Scavenging effect of Trolox released from brushite cements.
Mestres G, Santos CF, Engman L, Persson C, Ott MK
Acta Biomater 11 (-) 459-466 [2015-01-00; online 2014-09-18]
BioMaterial Interactions (BioMat)
PubMed DOI Crossref
Body composition and bone mineral density in women with Cushing's syndrome in remission and the association with common genetic variants influencing glucocorticoid sensitivity.
Ragnarsson O, Glad CA, Bergthorsdottir R, ..., Wängberg B, Johannsson G
Eur. J. Endocrinol. 172 (1) 1-10 [2015-01-00; online 2014-11-26]
Mutation Analysis Facility (MAF)
PubMed DOI Crossref
Expression of human leukocyte antigen class I in endocrine and exocrine pancreatic tissue at onset of type 1 diabetes.
Skog O, Korsgren S, Wiberg A, ..., Korsgren O, Dahl-Jørgensen K
Am. J. Pathol. 185 (1) 129-138 [2015-01-00; online 2014-12-20]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Identification and functional characterization of G6PC2 coding variants influencing glycemic traits define an effector transcript at the G6PC2-ABCB11 locus.
Mahajan A, Sim X, Ng HJ, ..., Gloyn AL, T2D-GENES consortium and GoT2D consortium
pmc
PLoS Genet. 11 (1) e1004876 [2015-01-00; online 2015-01-27]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Phenotypic plasticity and differentiation in an invasive freshwater microalga
Sassenhagen I, Wilken S, Godhe A, Rengefors K
Harmful Algae 41 (-) 38-45 [2015-01-00; online 2015-01-00]
NGI Uppsala (Uppsala Genome Center)
PubMed DOI Crossref
Reprogramming of Yersinia from virulent to persistent mode revealed by complex in vivo RNA-seq analysis.
Avican K, Fahlgren A, Huss M, ..., Dersch P, Fällman M
pmc GEO
PLoS Pathog. 11 (1) e1004600 [2015-01-00; online 2015-01-15]
Bioinformatics Long-term Support WABI [Collaborative]
PubMed DOI Crossref
Lessons and implications from association studies and post-GWAS analyses of cervical cancer.
Chen D, Gyllensten U
Trends Genet. 31 (1) 41-54 [2015-01-00; online 2014-12-04]
NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Combining an amyloid-beta (Aβ) cleaving enzyme inhibitor with a γ-secretase modulator results in an additive reduction of Aβ production
Strömberg K, Eketjäll S, Georgievska B, ..., Cowburn RF, Dabrowski M
FEBS J 282 (1) 65-73 [2015-01-00; online 2014-11-07]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
The Biobanking Analysis Resource Catalogue (BARCdb): a new research tool for the analysis of biobank samples.
Galli J, Oelrich J, Taussig MJ, ..., Ortega-Paino E, Landegren U
pmc
Nucleic Acids Res. 43 (Database issue) D1158-D1162 [2015-01-00; online 2014-10-23]
PLA Proteomics
PubMed DOI Crossref
The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling.
Gremel G, Wanders A, Cedernaes J, ..., Uhlén M, Pontén F
J. Gastroenterol. 50 (1) 46-57 [2015-01-00; online 2014-05-03]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) Tissue Profiling
PubMed DOI Crossref
Methylated RASSF1A in malignant peripheral nerve sheath tumors identifies neurofibromatosis type 1 patients with inferior prognosis.
Danielsen SA, Lind GE, Kolberg M, ..., Picci P, Lothe RA
pmc
Neuro-oncology 17 (1) 63-69 [2015-01-00; online 2014-07-20]
NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production)
PubMed DOI Crossref
A Machine Learning Approach to Explain Drug Selectivity to Soluble and Membrane Protein Targets.
Freyhult E, Gustafsson MG, Strömbergsson H
Mol Inform 34 (1) 44-52 [2015-01-00; online 2015-01-08]
Bioinformatics Support and Infrastructure
DOI Crossref
Synthesis of Vinyl- and Aryl-Acyl Sulfonimidamides Through Pd-Catalyzed Carbonylation Using Mo(CO)6as ex situ CO Source
Wakchaure PB, Borhade SR, Sandström A, Arvidsson PI
Eur. J. Org. Chem. 2015 (1) 213-219 [2015-01-00; online 2014-11-19]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
Healthy Nordic diet downregulates the expression of genes involved in inflammation in subcutaneous adipose tissue in individuals with features of the metabolic syndrome.
Kolehmainen M, Ulven SM, Paananen J, ..., Arner P, Dahlman I
ClinicalTrials.gov
Am. J. Clin. Nutr. 101 (1) 228-239 [2015-01-00; online 2014-12-21]
Bioinformatics and Expression Analysis (BEA)
DOI Crossref
Applied Enantioselective Aminocatalysis: α-Heteroatom Functionalization Reactions on the Carbapenem (β-Lactam Antibiotic) Core
Cele ZED, Arvidsson PI, Kruger HG, Govender T, Naicker T
Eur. J. Org. Chem. 2015 (3) 638-646 [2015-01-00; online 2014-12-11]
Drug Discovery and Development (DDD) [Collaborative]
PubMed DOI Crossref
The mutational landscape in pediatric acute lymphoblastic leukemia deciphered by whole genome sequencing.
Lindqvist CM, Nordlund J, Ekman D, ..., Syvänen A, Berglund EC
pmc
Hum. Mutat. 36 (1) 118-128 [2015-01-00; online 2014-10-31]
Bioinformatics Long-term Support WABI [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform)
DOI Crossref
Anti-Obesity Effects and Metabolism in DIO Mice of a Novel Hybrid Lipid with Lauric and Lipoic Acid
Madawala SR, Manubolu M, Asp M, ..., Malmlöf K, Dutta PC
J Obes Weight Loss Ther 05 (02) - [2015-00-00; online 2015-00-00]
NGI Uppsala (Uppsala Genome Center)
DOI Crossref
Cytotoxicity, in Vivo Skin Irritation and Acute Systemic Toxicity of the Mesoporous Magnesium Carbonate Upsalite
Frykstrand S, Forsgren J, Zhang P, Strømme M, Ferraz N
JBNB 06 (04) 257-266 [2015-00-00; online 2015-00-00]
BioMaterial Interactions (BioMat)
DOI Crossref
Pd-catalyzed C–N coupling of vinylbromides and sulfonimidamides: a facile synthesis of N′-vinylsulfonimidamides
Nandi GC, Kota SR, Wakchaure PB, ..., Naicker T, Arvidsson PI
RSC Adv. 5 (76) 62084-62090 [2015-00-00; online 2015-00-00]
Drug Discovery and Development (DDD) [Technology development]
PubMed DOI Crossref
The effect of N-methylation of amino acids (Ac-X-OMe) on solubility and conformation: a DFT study
Md. Abdur Rauf S, Arvidsson PI, Albericio F, ..., Kruger HG, Honarparvar B
Org. Biomol. Chem. 13 (39) 9993-10006 [2015-00-00; online 2015-00-00]
Drug Discovery and Development (DDD) [Collaborative]
DOI Crossref
Assessing the Barley Genome Zipper and Genomic Resources for Breeding Purposes
Silvar C, Martis MM, Nussbaumer T, ..., Ordon F, Perovic D
Plant Genome 8 (3) 0 [2015-00-00; online 2015-00-00]
Bioinformatics Support and Infrastructure
SciLifeLab Publications
SciLifeLab
Software v3.2.12