Nat Commun

ISSN	2041-1723
ISSN-L	2041-1723
IUID	a574eb04884e4c0aaf82a210844daf7c
Modified	2020-11-27T13:14:08.691Z
Created	2017-05-09T09:12:08.433Z

PubMed DOI Crossref

Structural mechanism of FusB-mediated rescue from fusidic acid inhibition of protein synthesis.

González-López A, Ge X, Larsson DSD, ..., Sanyal S, Selmer M

Nat Commun 16 (1) 3693 [2025-04-18; online 2025-04-18]

Cryo-EM [Service]

PubMed DOI Crossref

A genome-wide association study of imaging-defined atherosclerosis.

Gummesson A, Lundmark P, Chen QS, ..., Fall T, Gigante B

Nat Commun 16 (1) 2266 [2025-03-31; online 2025-03-31]

NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

The DNA methylation landscape of primary triple-negative breast cancer.

Aine M, Nacer DF, Arbajian E, ..., Borg Å, Staaf J

Nat Commun 16 (1) 3041 [2025-03-28; online 2025-03-28]

Clinical Genomics Lund [Service]

PubMed DOI Crossref

Identification of a SNAI1 enhancer RNA that drives cancer cell plasticity.

Fan C, Wang Q, Krijger PHL, ..., de Laat W, Ten Dijke P

Nat Commun 16 (1) 2890 [2025-03-25; online 2025-03-25]

CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Continuous map of early hematopoietic stem cell differentiation across human lifetime.

Komic H, Schmachtel T, Simoes C, ..., Thorén FB, Rieger MA

Nat Commun 16 (1) 2287 [2025-03-07; online 2025-03-07]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Associations of PFAS and OH-PCBs with risk of multiple sclerosis onset and disability worsening.

Vaivade A, Erngren I, Carlsson H, ..., Burman J, Kultima K

Nat Commun 16 (1) 2014 [2025-02-27; online 2025-02-27]

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DOI Crossref

Dissecting the properties of circulating IgG against streptococcal pathogens through a combined systems antigenomics-serology workflow

Gomez Toledo A, Chowdhury S, Hjortswang E, ..., Rasmussen M, Malmström J

Nat Commun 16 (1) - [2025-02-24; online 2025-02-24]

Structural Proteomics [Collaborative]

PubMed DOI Crossref

VLDLR mediates Semliki Forest virus neuroinvasion through the blood-cerebrospinal fluid barrier.

Martikainen M, Lugano R, Pietilä I, ..., Dimberg A, Essand M

Nat Commun 15 (1) 10718 [2024-12-23; online 2024-12-23]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Evolution of fast-growing piscivorous herring in the young Baltic Sea.

Goodall J, Pettersson ME, Bergström U, ..., Wennerström L, Andersson L

Nat Commun 15 (1) 10707 [2024-12-23; online 2024-12-23]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Coupling cellular drug-target engagement to downstream pharmacology with CeTEAM.

Valerie NCK, Sanjiv K, Mortusewicz O, ..., Page BDG, Altun M

Nat Commun 15 (1) 10347 [2024-12-06; online 2024-12-06]

Chemical Biology Consortium Sweden (CBCS) [Service]

PubMed DOI Crossref

Dynamics of the blood plasma proteome during hyperacute HIV-1 infection.

Nazziwa J, Freyhult E, Hong MG, ..., Hassan AS, Esbjörnsson J

Nat Commun 15 (1) 10593 [2024-12-05; online 2024-12-05]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

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A landscape of X-inactivation during human T cell development.

Gylemo B, Bensberg M, Hennings V, ..., Ekwall O, Nestor CE

Nat Commun 15 (1) 10527 [2024-12-04; online 2024-12-04]

Clinical Genomics [Service] Clinical Genomics Linköping [Service]

PubMed DOI Crossref

Streptolysin O accelerates the conversion of plasminogen to plasmin

Tang D, Khakzad H, Hjortswang E, ..., Happonen L, Malmström J

Nat Commun 15 (1) 10212 [2024-11-25; online 2024-11-25]

Structural Proteomics [Technology development]

PubMed DOI Crossref

Simultaneous detection of membrane contact dynamics and associated Ca2+ signals by reversible chemogenetic reporters.

García Casas P, Rossini M, Påvénius L, ..., Pizzo P, Filadi R

Nat Commun 15 (1) 9775 [2024-11-12; online 2024-11-12]

Integrated Microscopy Technologies Stockholm [Collaborative]

PubMed DOI Crossref

A unique symbiosome in an anaerobic single-celled eukaryote.

Jerlström-Hultqvist J, Gallot-Lavallée L, Salas-Leiva DE, ..., Archibald JM, Roger AJ

Nat Commun 15 (1) 9726 [2024-11-09; online 2024-11-09]

Integrated Microscopy Technologies Umeå [Service]

PubMed DOI Crossref

Cancer-associated fibroblast subtypes modulate the tumor-immune microenvironment and are associated with skin cancer malignancy.

Forsthuber A, Aschenbrenner B, Korosec A, ..., Kasper M, Lichtenberger BM

Nat Commun 15 (1) 9678 [2024-11-08; online 2024-11-08]

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PubMed DOI Crossref

The structure and function of P5A-ATPases.

Li P, Bågenholm V, Hägglund P, ..., Wang K, Gourdon P

Nat Commun 15 (1) 9605 [2024-11-06; online 2024-11-06]

Cryo-EM [Service]

PubMed DOI Crossref

A bispecific CD40 agonistic antibody allowing for antibody-peptide conjugate formation to enable cancer-specific peptide delivery, resulting in improved T proliferation and anti-tumor immunity in mice.

Mebrahtu A, Laurén I, Veerman R, ..., Rockberg J, Mangsbo S

Nat Commun 15 (1) 9542 [2024-11-05; online 2024-11-05]

Affinity Proteomics Uppsala [Service] Drug Discovery and Development (DDD) [Service]

PubMed DOI Crossref

High-parametric protein maps reveal the spatial organization in early-developing human lung.

Sariyar S, Sountoulidis A, Hansen JN, ..., Lundberg E, Ayoglu B

Nat Commun 15 (1) 9381 [2024-10-30; online 2024-10-30]

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PubMed DOI Crossref

Integrative spatial and genomic analysis of tumor heterogeneity with Tumoroscope.

Shafighi S, Geras A, Jurzysta B, ..., Lagergren J, Szczurek E

Nat Commun 15 (1) 9343 [2024-10-29; online 2024-10-29]

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PubMed DOI Crossref

Epigenetic memory of radiotherapy in dermal fibroblasts impairs wound repair capacity in cancer survivors.

Bian X, Piipponen M, Liu Z, ..., Halle M, Xu Landén N

Nat Commun 15 (1) 9286 [2024-10-28; online 2024-10-28]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

The DoGA consortium expression atlas of promoters and genes in 100 canine tissues.

Hörtenhuber M, Hytönen MK, Mukarram AK, ..., Kere J, Lohi H

Nat Commun 15 (1) 9082 [2024-10-21; online 2024-10-21]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Early evolutionary branching across spatial domains predisposes to clonal replacement under chemotherapy in neuroblastoma.

Karlsson J, Yasui H, Mañas A, ..., Bexell D, Gisselsson D

Nat Commun 15 (1) 8992 [2024-10-18; online 2024-10-18]

Clinical Genomics [Service] Clinical Genomics Lund [Service]

PubMed DOI Crossref

Prevalent and persistent new-onset autoantibodies in mild to severe COVID-19.

Jernbom AF, Skoglund L, Pin E, ..., Månberg A, Nilsson P

Nat Commun 15 (1) 8941 [2024-10-17; online 2024-10-17]

Autoimmunity and Serology Profiling [Collaborative]

PubMed DOI Crossref

Resilience of genetic diversity in forest trees over the Quaternary.

Milesi P, Kastally C, Dauphin B, ..., Pyhäjärvi T, GenTree Consortium

Nat Commun 15 (1) 8538 [2024-10-14; online 2024-10-14]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

De novo production of protoberberine and benzophenanthridine alkaloids through metabolic engineering of yeast.

Jiao X, Fu X, Li Q, ..., Nielsen J, Chen Y

Nat Commun 15 (1) 8759 [2024-10-09; online 2024-10-09]

Chalmers Mass Spectrometry Infrastructure [Collaborative] Integrated Microscopy Technologies Gothenburg [Service]

PubMed DOI Crossref

Unmasking AlphaFold to integrate experiments and predictions in multimeric complexes.

Mirabello C, Wallner B, Nystedt B, Azinas S, Carroni M

Nat Commun 15 (1) 8724 [2024-10-09; online 2024-10-09]

Bioinformatics (NBIS) [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Cryo-EM [Service]

PubMed DOI Crossref

The lncRNA SNHG26 drives the inflammatory-to-proliferative state transition of keratinocyte progenitor cells during wound healing.

Li D, Liu Z, Zhang L, ..., Sommar P, Xu Landén N

Nat Commun 15 (1) 8637 [2024-10-05; online 2024-10-05]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Single cell [Service] NGI Spatial omics [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

The single-cell transcriptomic atlas iPain identifies senescence of nociceptors as a therapeutical target for chronic pain treatment.

Techameena P, Feng X, Zhang K, Hadjab S

Nat Commun 15 (1) 8585 [2024-10-04; online 2024-10-04]

Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Claustrum and dorsal endopiriform cortex complex cell-identity is determined by Nurr1 and regulates hallucinogenic-like states in mice.

Mantas I, Flais I, Masarapu Y, ..., Perlmann T, Svenningsson P

Nat Commun 15 (1) 8176 [2024-09-18; online 2024-09-18]

NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Aging is associated with functional and molecular changes in distinct hematopoietic stem cell subsets.

Su TY, Hauenstein J, Somuncular E, ..., Månsson R, Luc S

Nat Commun 15 (1) 7966 [2024-09-11; online 2024-09-11]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

DNA methylation governs the sensitivity of repeats to restriction by the HUSH-MORC2 corepressor.

Pandiloski N, Horváth V, Karlsson O, ..., Jakobsson J, Douse CH

Nat Commun 15 (1) 7534 [2024-08-30; online 2024-08-30]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service] NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

An intronic copy number variation in Syntaxin 17 determines speed of greying and melanoma incidence in Grey horses.

Rubin CJ, Hodge M, Naboulsi R, ..., Lindgren G, Andersson L

Nat Commun 15 (1) 7510 [2024-08-29; online 2024-08-29]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Structural basis of frizzled 7 activation and allosteric regulation.

Bous J, Kinsolving J, Grätz L, ..., Adebali O, Schulte G

Nat Commun 15 (1) 7422 [2024-08-28; online 2024-08-28]

Cryo-EM [Service]

PubMed DOI Crossref

Single-cell transcriptomics reveal transcriptional programs underlying male and female cell fate during Plasmodium falciparum gametocytogenesis.

Mohammed M, Dziedziech A, Macedo D, ..., Henriksson J, Ankarklev J

Nat Commun 15 (1) 7177 [2024-08-26; online 2024-08-26]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Production) National Genomics Infrastructure

PubMed DOI Crossref

BaTwa populations from Zambia retain ancestry of past hunter-gatherer groups.

Breton G, Barham L, Mudenda G, ..., Schlebusch CM, Jakobsson M

Nat Commun 15 (1) 7307 [2024-08-24; online 2024-08-24]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

FOXO-regulated OSER1 reduces oxidative stress and extends lifespan in multiple species.

Song J, Li Z, Zhou L, ..., Rasmussen LJ, Dai F

Nat Commun 15 (1) 7144 [2024-08-21; online 2024-08-21]

NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Host-pathogen interactions in the Plasmodium-infected mouse liver at spatial and single-cell resolution.

Hildebrandt F, Iturritza MU, Zwicker C, ..., Lundeberg J, Ankarklev J

Nat Commun 15 (1) 7105 [2024-08-19; online 2024-08-19]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Motor innervation directs the correct development of the mouse sympathetic nervous system.

Erickson AG, Motta A, Kastriti ME, ..., Bonanomi D, Adameyko I

Nat Commun 15 (1) 7065 [2024-08-16; online 2024-08-16]

Integrated Microscopy Technologies Stockholm [Collaborative]

PubMed DOI Crossref

Ecological genomics in the Northern krill uncovers loci for local adaptation across ocean basins.

Unneberg P, Larsson M, Olsson A, ..., Meyer B, Wallberg A

Nat Commun 15 (1) 6297 [2024-08-01; online 2024-08-01]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]

PubMed DOI Crossref

A genetic-epigenetic interplay at 1q21.1 locus underlies CHD1L-mediated vulnerability to primary progressive multiple sclerosis.

Pahlevan Kakhki M, Giordano A, Starvaggi Cucuzza C, ..., Kular L, Jagodic M

Nat Commun 15 (1) 6419 [2024-07-30; online 2024-07-30]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Multi-compartmental diversification of neutralizing antibody lineages dissected in SARS-CoV-2 spike-immunized macaques.

Mandolesi M, Das H, de Vries L, ..., Murrell B, Karlsson Hedestam GB

Nat Commun 15 (1) 6338 [2024-07-27; online 2024-07-27]

Bioinformatics Support for Computational Resources [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Interneuron diversity in the human dorsal striatum.

Garma LD, Harder L, Barba-Reyes JM, ..., Hyman BT, Muñoz-Manchado AB

Nat Commun 15 (1) 6164 [2024-07-22; online 2024-07-22]

Bioinformatics Support for Computational Resources [Service]

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A single-cell pan-cancer analysis to show the variability of tumor-infiltrating myeloid cells in immune checkpoint blockade.

Li W, Pan L, Hong W, ..., Xiao C, Li X

Nat Commun 15 (1) 6142 [2024-07-21; online 2024-07-21]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

The Escherichia coli chromosome moves to the replisome.

Gras K, Fange D, Elf J

Nat Commun 15 (1) 6018 [2024-07-17; online 2024-07-17]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Long-range charge transfer mechanism of the III2IV2 mycobacterial supercomplex.

Riepl D, Gamiz-Hernandez AP, Kovalova T, ..., Brzezinski P, Kaila VRI

Nat Commun 15 (1) 5276 [2024-06-20; online 2024-06-20]

Cryo-EM [Service]

PubMed DOI Crossref

descSPIM: an affordable and easy-to-build light-sheet microscope optimized for tissue clearing techniques.

Otomo K, Omura T, Nozawa Y, ..., Brismar H, Susaki EA

Nat Commun 15 (1) 4941 [2024-06-12; online 2024-06-12]

Integrated Microscopy Technologies Stockholm [Technology development]

PubMed DOI Crossref

Spatially resolved multiomics on the neuronal effects induced by spaceflight in mice.

Masarapu Y, Cekanaviciute E, Andrusivova Z, ..., Costes SV, Giacomello S

Nat Commun 15 (1) 4778 [2024-06-11; online 2024-06-11]

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ASXLs binding to the PHD2/3 fingers of MLL4 provides a mechanism for the recruitment of BAP1 to active enhancers.

Zhang Y, Xie G, Lee JE, ..., Ge K, Kutateladze TG

Nat Commun 15 (1) 4883 [2024-06-07; online 2024-06-07]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Structure and mechanism of the K+/H+ exchanger KefC.

Gulati A, Kokane S, Perez-Boerema A, ..., Matsuoka R, Drew D

Nat Commun 15 (1) 4751 [2024-06-04; online 2024-06-04]

Cryo-EM [Service]

PubMed DOI Crossref

Structural conversion of the spidroin C-terminal domain during assembly of spider silk fibers.

De Oliveira DH, Gowda V, Sparrman T, ..., Lendel C, Hedhammar M

Nat Commun 15 (1) 4670 [2024-05-31; online 2024-05-31]

Swedish NMR Centre (SNC) [Collaborative]

PubMed DOI Crossref

Longitudinal molecular profiling elucidates immunometabolism dynamics in breast cancer.

Wang K, Zerdes I, Johansson HJ, ..., Matikas A, Foukakis T

Nat Commun 15 (1) 3837 [2024-05-07; online 2024-05-07]

Global Proteomics and Proteogenomics [Collaborative]

PubMed DOI Crossref

The hinge-engineered IgG1-IgG3 hybrid subclass IgGh47 potently enhances Fc-mediated function of anti-streptococcal and SARS-CoV-2 antibodies.

Izadi A, Karami Y, Bratanis E, ..., Malmström L, Nordenfelt P

Nat Commun 15 (1) 3600 [2024-04-27; online 2024-04-27]

Drug Discovery and Development (DDD) [Service]

PubMed DOI Crossref

Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer.

Papakyriacou I, Kutkaite G, Rúbies Bedós M, ..., Menden MP, Mao Y

Nat Commun 15 (1) 3581 [2024-04-27; online 2024-04-27]

Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Service]

PubMed DOI Crossref

The gut commensal Blautia maintains colonic mucus function under low-fiber consumption through secretion of short-chain fatty acids.

Holmberg SM, Feeney RH, Prasoodanan P K V, ..., Skurk T, Schroeder BO

Nat Commun 15 (1) 3502 [2024-04-25; online 2024-04-25]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

High clonal diversity and spatial genetic admixture in early prostate cancer and surrounding normal tissue.

Zhang N, Harbers L, Simonetti M, ..., Bienko M, Crosetto N

Nat Commun 15 (1) 3475 [2024-04-24; online 2024-04-24]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Molecular patterns of resistance to immune checkpoint blockade in melanoma.

Lauss M, Phung B, Borch TH, ..., Donia M, Jönsson G

Nat Commun 15 (1) 3075 [2024-04-09; online 2024-04-09]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Gene-expression memory-based prediction of cell lineages from scRNA-seq datasets.

Eisele AS, Tarbier M, Dormann AA, Pelechano V, Suter DM

Nat Commun 15 (1) 2744 [2024-03-29; online 2024-03-29]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Ion mobility-tandem mass spectrometry of mucin-type O-glycans.

Bechtella L, Chunsheng J, Fentker K, ..., Karlsson NG, Pagel K

Nat Commun 15 (1) 2611 [2024-03-23; online 2024-03-23]

Glycoproteomics and MS Proteomics [Collaborative]

PubMed DOI Crossref

Epigenetic modulators link mitochondrial redox homeostasis to cardiac function in a sex-dependent manner.

ElBeck Z, Hossain MB, Siga H, ..., Végvári Á, Betsholtz C

Nat Commun 15 (1) 2358 [2024-03-20; online 2024-03-20]

BioImage Informatics [Service] Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

PubMed DOI Crossref

fhl2b mediates extraocular muscle protection in zebrafish models of muscular dystrophies and its ectopic expression ameliorates affected body muscles.

Dennhag N, Kahsay A, Nissen I, ..., von Hofsten J, Pedrosa Domellöf F

Nat Commun 15 (1) 1950 [2024-03-02; online 2024-03-02]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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Prediction of plasma ctDNA fraction and prognostic implications of liquid biopsy in advanced prostate cancer.

Fonseca NM, Maurice-Dror C, Herberts C, ..., Chi KN, Wyatt AW

Nat Commun 15 (1) 1828 [2024-02-28; online 2024-02-28]

Clinical Genomics [Service] Clinical Genomics Stockholm [Service]

PubMed DOI Crossref

scCircle-seq unveils the diversity and complexity of extrachromosomal circular DNAs in single cells.

Chen JP, Diekmann C, Wu H, ..., Bienko M, Crosetto N

Nat Commun 15 (1) 1768 [2024-02-27; online 2024-02-27]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Intestinal stroma guides monocyte differentiation to macrophages through GM-CSF.

Kvedaraite E, Lourda M, Mouratidou N, ..., Henter JI, Svensson M

Nat Commun 15 (1) 1752 [2024-02-26; online 2024-02-26]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

The role of extracellular vesicle fusion with target cells in triggering systemic inflammation.

Papareddy P, Tapken I, Kroh K, ..., Holub M, Herwald H

Nat Commun 15 (1) 1150 [2024-02-07; online 2024-02-07]

Glycoproteomics and MS Proteomics [Service]

PubMed DOI Crossref

Asymmetric nucleosome PARylation at DNA breaks mediates directional nucleosome sliding by ALC1.

Bacic L, Gaullier G, Mohapatra J, ..., Sabantsev A, Deindl S

Nat Commun 15 (1) 1000 [2024-02-02; online 2024-02-02]

Cryo-EM [Service]

PubMed DOI Crossref

A two-step activation mechanism enables mast cells to differentiate their response between extracellular and invasive enterobacterial infection.

von Beek C, Fahlgren A, Geiser P, ..., Pejler G, Sellin ME

Nat Commun 15 (1) 904 [2024-01-30; online 2024-01-30]

NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Apoptosis-mediated ADAM10 activation removes a mucin barrier promoting T cell efferocytosis.

Drexhage LZ, Zhang S, Dupont M, ..., Karaji N, Sattentau QJ

Nat Commun 15 (1) 541 [2024-01-15; online 2024-01-15]

Integrated Microscopy Technologies Stockholm [Service]

PubMed DOI Crossref

Nuclear Hsp104 safeguards the dormant translation machinery during quiescence.

Kohler V, Kohler A, Berglund LL, ..., Andréasson C, Büttner S

Nat Commun 15 (1) 315 [2024-01-05; online 2024-01-05]

Global Proteomics and Proteogenomics [Service]

PubMed DOI Crossref

Blue-shift photoconversion of near-infrared fluorescent proteins for labeling and tracking in living cells and organisms.

Pennacchietti F, Alvelid J, Morales RA, ..., Verkhusha VV, Testa I

Nat Commun 14 (1) 8402 [2023-12-19; online 2023-12-19]

Integrated Microscopy Technologies Stockholm [Service]

PubMed DOI Crossref

Dissecting the genetic landscape of GPCR signaling through phenotypic profiling in C. elegans.

Pu L, Wang J, Lu Q, ..., Henriksson J, Chen C

Nat Commun 14 (1) 8410 [2023-12-18; online 2023-12-18]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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CENP-A and CENP-B collaborate to create an open centromeric chromatin state.

Nagpal H, Ali-Ahmad A, Hirano Y, ..., Sekulić N, Fierz B

Nat Commun 14 (1) 8227 [2023-12-12; online 2023-12-12]

Cryo-EM [Service]

PubMed DOI Crossref

Genes with epigenetic alterations in human pancreatic islets impact mitochondrial function, insulin secretion, and type 2 diabetes

Rönn T, Ofori JK, Perfilyev A, ..., Bacos K, Ling C

Nat Commun 14 (1) 8040 [2023-12-12; online 2023-12-12]

Swedish Metabolomics Centre (SMC) [Collaborative]

PubMed DOI Crossref

Phyloecology of nitrate ammonifiers and their importance relative to denitrifiers in global terrestrial biomes.

Saghaï A, Pold G, Jones CM, Hallin S

Nat Commun 14 (1) 8249 [2023-12-12; online 2023-12-12]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

The formation of the Indo-Pacific montane avifauna.

Reeve AH, Kennedy JD, Pujolar JM, ..., Nylander JAA, Jønsson KA

Nat Commun 14 (1) 8215 [2023-12-11; online 2023-12-11]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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Evaluation of circulating plasma proteins in breast cancer using Mendelian randomisation.

Mälarstig A, Grassmann F, Dahl L, ..., Czene K, Hedman ÅK

Nat Commun 14 (1) 7680 [2023-11-24; online 2023-11-24]

Affinity Proteomics Uppsala [Service] Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

The heat shock protein LarA activates the Lon protease in response to proteotoxic stress.

Omnus DJ, Fink MJ, Kallazhi A, ..., Landreh M, Jonas K

Nat Commun 14 (1) 7636 [2023-11-22; online 2023-11-22]

Global Proteomics and Proteogenomics [Service]

PubMed DOI Crossref

Development of mesothelioma-specific oncolytic immunotherapy enabled by immunopeptidomics of murine and human mesothelioma tumors.

Chiaro J, Antignani G, Feola S, ..., Lehtiö J, Cerullo V

Nat Commun 14 (1) 7056 [2023-11-03; online 2023-11-03]

Global Proteomics and Proteogenomics [Technology development]

PubMed DOI Crossref

Proteomics reveal biomarkers for diagnosis, disease activity and long-term disability outcomes in multiple sclerosis.

Åkesson J, Hojjati S, Hellberg S, ..., Ernerudh J, Gustafsson M

Nat Commun 14 (1) 6903 [2023-10-30; online 2023-10-30]

Affinity Proteomics Uppsala [Service] NGI Proteomics [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Low mutation rate in epaulette sharks is consistent with a slow rate of evolution in sharks.

Sendell-Price AT, Tulenko FJ, Pettersson M, ..., Andersson L, Schartl M

Nat Commun 14 (1) 6628 [2023-10-19; online 2023-10-19]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Design, structure and plasma binding of ancestral β-CoV scaffold antigens.

Hueting D, Schriever K, Sun R, ..., Andréll J, Syrén PO

Nat Commun 14 (1) 6527 [2023-10-16; online 2023-10-16]

Cryo-EM [Service] Drug Discovery and Development (DDD) [Service]

PubMed DOI Crossref

Miniature spatial transcriptomics for studying parasite-endosymbiont relationships at the micro scale.

Sounart H, Voronin D, Masarapu Y, ..., Ghedin E, Giacomello S

Nat Commun 14 (1) 6500 [2023-10-14; online 2023-10-14]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Rewiring of the promoter-enhancer interactome and regulatory landscape in glioblastoma orchestrates gene expression underlying neurogliomal synaptic communication.

Chakraborty C, Nissen I, Vincent CA, ..., Hörnblad A, Remeseiro S

Nat Commun 14 (1) 6446 [2023-10-13; online 2023-10-13]

Bioinformatics (NBIS) [Service] Bioinformatics Long-term Support WABI [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]

PubMed DOI Crossref

Targeting Toll-like receptor-driven systemic inflammation by engineering an innate structural fold into drugs.

Petruk G, Puthia M, Samsudin F, ..., Lindstedt S, Schmidtchen A

Nat Commun 14 (1) 6097 [2023-09-29; online 2023-09-29]

Clinical Genomics [Service] Clinical Genomics Lund [Service] Structural Proteomics [Collaborative]

PubMed DOI Crossref

A subset of type-II collagen-binding antibodies prevents experimental arthritis by inhibiting FCGR3 signaling in neutrophils.

Xu Z, Xu B, Lundström SL, ..., Zubarev RA, Holmdahl R

Nat Commun 14 (1) 5949 [2023-09-23; online 2023-09-23]

Drug Discovery and Development (DDD) [Collaborative]

PubMed DOI Crossref

Comprehensive proteomics and meta-analysis of COVID-19 host response.

Babačić H, Christ W, Araújo JE, ..., Klingström J, Pernemalm M

Nat Commun 14 (1) 5921 [2023-09-22; online 2023-09-22]

Global Proteomics and Proteogenomics [Collaborative]

PubMed DOI Crossref

Prosaposin maintains lipid homeostasis in dopamine neurons and counteracts experimental parkinsonism in rodents.

He Y, Kaya I, Shariatgorji R, ..., Andren PE, Svenningsson P

Nat Commun 14 (1) 5804 [2023-09-19; online 2023-09-19]

Spatial Mass Spectrometry [Collaborative]

PubMed DOI Crossref

Identification of motif-based interactions between SARS-CoV-2 protein domains and human peptide ligands pinpoint antiviral targets.

Mihalič F, Benz C, Kassa E, ..., Jemth P, Ivarsson Y

Nat Commun 14 (1) 5636 [2023-09-13; online 2023-09-13]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Placental growth factor exerts a dual function for cardiomyogenesis and vasculogenesis during heart development.

Witman N, Zhou C, Häneke T, ..., Chien KR, Sahara M

Nat Commun 14 (1) 5435 [2023-09-05; online 2023-09-05]

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The interplay between dietary fatty acids and gut microbiota influences host metabolism and hepatic steatosis.

Schoeler M, Ellero-Simatos S, Birkner T, ..., Burcelin R, Caesar R

Nat Commun 14 (1) 5329 [2023-09-01; online 2023-09-01]

Chalmers Mass Spectrometry Infrastructure [Service]

PubMed DOI Crossref

Long-read whole-genome analysis of human single cells.

Hård J, Mold JE, Eisfeldt J, ..., Michaëlsson J, Ameur A

Nat Commun 14 (1) 5164 [2023-08-24; online 2023-08-24]

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PubMed DOI Crossref

Atomic-level structure determination of amorphous molecular solids by NMR.

Cordova M, Moutzouri P, Nilsson Lill SO, ..., Schantz S, Emsley L

Nat Commun 14 (1) 5138 [2023-08-23; online 2023-08-23]

Swedish NMR Centre (SNC) [Collaborative]

PubMed DOI Crossref

An idiosyncratic zonated stroma encapsulates desmoplastic liver metastases and originates from injured liver.

Fernández Moro C, Geyer N, Harrizi S, ..., Bozóky B, Gerling M

Nat Commun 14 (1) 5024 [2023-08-18; online 2023-08-18]

CRISPR Functional Genomics [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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GATA2 mitotic bookmarking is required for definitive haematopoiesis.

Silvério-Alves R, Kurochkin I, Rydström A, ..., Martin-Gonzalez J, Pereira CF

Nat Commun 14 (1) 4645 [2023-08-14; online 2023-08-14]

Clinical Genomics [Service] Clinical Genomics Lund [Service]

PubMed DOI Crossref

Complementarity-determining region clustering may cause CAR-T cell dysfunction.

Sarén T, Saronio G, Marti Torrell P, ..., Yu D, Essand M

Nat Commun 14 (1) 4732 [2023-08-10; online 2023-08-10]

Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Collaborative] Global Proteomics and Proteogenomics [Service]

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Genetic insights into resting heart rate and its role in cardiovascular disease.

van de Vegte YJ, Eppinga RN, van der Ende MY, ..., Verweij N, van der Harst P

Nat Commun 14 (1) 4646 [2023-08-02; online 2023-08-02]

Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Patrilocality and hunter-gatherer-related ancestry of populations in East-Central Europe during the Middle Bronze Age.

Chyleński M, Makarowicz P, Juras A, ..., Jakobsson M, Malmström H

Nat Commun 14 (1) 4395 [2023-08-01; online 2023-08-01]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Salicylic acid metabolism and signalling coordinate senescence initiation in aspen in nature.

Lihavainen J, Šimura J, Bag P, ..., Ljung K, Jansson S

Nat Commun 14 (1) 4288 [2023-07-18; online 2023-07-18]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service] Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

Next generation pan-cancer blood proteome profiling using proximity extension assay.

Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M

Nat Commun 14 (1) 4308 [2023-07-18; online 2023-07-18]

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Unmodified rabies mRNA vaccine elicits high cross-neutralizing antibody titers and diverse B cell memory responses.

Hellgren F, Cagigi A, Arcoverde Cerveira R, ..., Petsch B, Loré K

Nat Commun 14 (1) 3713 [2023-06-22; online 2023-06-22]

Bioinformatics (NBIS) [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service]

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Flavodiiron-mediated O2 photoreduction at photosystem I acceptor-side provides photoprotection to conifer thylakoids in early spring.

Bag P, Shutova T, Shevela D, ..., Messinger J, Jansson S

Nat Commun 14 (1) 3210 [2023-06-03; online 2023-06-03]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

Directionality of developing skeletal muscles is set by mechanical forces.

Sunadome K, Erickson AG, Kah D, ..., Fried K, Adameyko I

Nat Commun 14 (1) 3060 [2023-05-27; online 2023-05-27]

Integrated Microscopy Technologies Stockholm [Service]

PubMed DOI Crossref

Cisplatin toxicity is counteracted by the activation of the p38/ATF-7 signaling pathway in post-mitotic C. elegans.

Raj D, Kraish B, Martikainen J, ..., Kao G, Naredi P

Nat Commun 14 (1) 2886 [2023-05-20; online 2023-05-20]

Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative] Glycoproteomics and MS Proteomics [Service] Integrated Microscopy Technologies Gothenburg [Service]

PubMed DOI Crossref

Base-resolution UV footprinting by sequencing reveals distinctive damage signatures for DNA-binding proteins.

Elliott K, Singh VK, Boström M, Larsson E

Nat Commun 14 (1) 2701 [2023-05-11; online 2023-05-11]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Identification of three bacterial species associated with increased appendicular lean mass: the HUNT study.

Grahnemo L, Nethander M, Coward E, ..., Hveem K, Ohlsson C

Nat Commun 14 (1) 2250 [2023-04-20; online 2023-04-20]

Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]

PubMed DOI Crossref

Delayed generation of functional virus-specific circulating T follicular helper cells correlates with severe COVID-19.

Yu M, Charles A, Cagigi A, ..., Loré K, Smed-Sörensen A

Nat Commun 14 (1) 2164 [2023-04-15; online 2023-04-15]

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DOI Crossref

Type I interferon shapes brain distribution and tropism of tick-borne flavivirus

Chotiwan N, Rosendal E, Willekens SMA, ..., Marcellino D, Överby AK

Nat Commun 14 (1) - [2023-04-10; online 2023-04-10]

Integrated Microscopy Technologies Umeå [Service]

PubMed DOI Crossref

The intestinal MUC2 mucin C-terminus is stabilized by an extra disulfide bond in comparison to von Willebrand factor and other gel-forming mucins.

Gallego P, Garcia-Bonete MJ, Trillo-Muyo S, ..., Johansson MEV, Hansson GC

Nat Commun 14 (1) 1969 [2023-04-08; online 2023-04-08]

Cryo-EM [Service]

PubMed DOI Crossref

Sialidases and fucosidases of Akkermansia muciniphila are crucial for growth on mucin and nutrient sharing with mucus-associated gut bacteria.

Shuoker B, Pichler MJ, Jin C, ..., Karlsson NG, Abou Hachem M

Nat Commun 14 (1) 1833 [2023-04-01; online 2023-04-01]

Glycoproteomics and MS Proteomics [Collaborative]

PubMed DOI Crossref

Clonal origin and development of high hyperdiploidy in childhood acute lymphoblastic leukaemia.

Woodward EL, Yang M, Moura-Castro LH, ..., Foijer F, Paulsson K

Nat Commun 14 (1) 1658 [2023-03-25; online 2023-03-25]

Clinical Genomics [Service] Clinical Genomics Lund [Service]

PubMed DOI Crossref

Intranasal trimeric sherpabody inhibits SARS-CoV-2 including recent immunoevasive Omicron subvariants.

Mäkelä AR, Uğurlu H, Hannula L, ..., Rissanen I, Saksela K

Nat Commun 14 (1) 1637 [2023-03-24; online 2023-03-24]

Cryo-EM [Service]

PubMed DOI Crossref

Correlates of protection and viral load trajectories in omicron breakthrough infections in triple vaccinated healthcare workers.

Marking U, Havervall S, Norin NG, ..., Klingström J, Thålin C

Nat Commun 14 (1) 1577 [2023-03-22; online 2023-03-22]

Affinity Proteomics Uppsala [Collaborative] Autoimmunity and Serology Profiling [Collaborative]

PubMed DOI Crossref

An integrated single cell and spatial transcriptomic map of human white adipose tissue.

Massier L, Jalkanen J, Elmastas M, ..., Rydén M, Mejhert N

Nat Commun 14 (1) 1438 [2023-03-15; online 2023-03-15]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Real-time single-molecule 3D tracking in E. coli based on cross-entropy minimization.

Amselem E, Broadwater B, Hävermark T, Johansson M, Elf J

Nat Commun 14 (1) 1336 [2023-03-11; online 2023-03-11]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

ARF suppression by MYC but not MYCN confers increased malignancy of aggressive pediatric brain tumors.

Mainwaring OJ, Weishaupt H, Zhao M, ..., Hutter S, Swartling FJ

Nat Commun 14 (1) 1221 [2023-03-03; online 2023-03-03]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Structure and mechanism of a tripartite ATP-independent periplasmic TRAP transporter.

Davies JS, Currie MJ, North RA, ..., Mace PD, Dobson RCJ

Nat Commun 14 (1) 1120 [2023-02-27; online 2023-02-27]

Cryo-EM [Collaborative]

PubMed DOI Crossref

Reconstructing clonal tree for phylo-phenotypic characterization of cancer using single-cell transcriptomics.

Jun S, Toosi H, Mold J, ..., Roth A, Lagergren J

Nat Commun 14 (1) 982 [2023-02-22; online 2023-02-22]

NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Reproducing extracellular matrix adverse remodelling of non-ST myocardial infarction in a large animal model.

Contessotto P, Spelat R, Ferro F, ..., Pandit A, Da Costa M

Nat Commun 14 (1) 995 [2023-02-22; online 2023-02-22]

Glycoproteomics and MS Proteomics [Collaborative]

PubMed DOI Crossref

Antibiotic thermorubin tethers ribosomal subunits and impedes A-site interactions to perturb protein synthesis in bacteria.

Parajuli NP, Emmerich A, Mandava CS, Pavlov MY, Sanyal S

Nat Commun 14 (1) 918 [2023-02-17; online 2023-02-17]

Cryo-EM [Service]

PubMed DOI Crossref

Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.

Li B, Zeis P, Zhang Y, ..., Steinmetz LM, Pelechano V

Nat Commun 14 (1) 910 [2023-02-17; online 2023-02-17]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Cryo-EM structure supports a role of AQP7 as a junction protein.

Huang P, Venskutonytė R, Prasad RB, ..., Artner I, Lindkvist-Petersson K

Nat Commun 14 (1) 600 [2023-02-03; online 2023-02-03]

Cryo-EM [Service]

PubMed DOI Crossref

Inversions maintain differences between migratory phenotypes of a songbird.

Lundberg M, Mackintosh A, Petri A, Bensch S

Nat Commun 14 (1) 452 [2023-01-27; online 2023-01-27]

Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Early response evaluation by single cell signaling profiling in acute myeloid leukemia.

Tislevoll BS, Hellesøy M, Fagerholt OHE, ..., Blaser N, Gjertsen BT

Nat Commun 14 (1) 115 [2023-01-07; online 2023-01-07]

Clinical Genomics [Service] Clinical Genomics Uppsala [Service]

PubMed DOI Crossref

Upper gut heat shock proteins HSP70 and GRP78 promote insulin resistance, hyperglycemia, and non-alcoholic steatohepatitis.

Angelini G, Castagneto-Gissey L, Salinari S, ..., Tremaroli V, Mingrone G

Nat Commun 13 (1) 7715 [2022-12-13; online 2022-12-13]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Structural mechanism of signal transduction in a phytochrome histidine kinase.

Wahlgren WY, Claesson E, Tuure I, ..., Takala H, Westenhoff S

Nat Commun 13 (1) 7673 [2022-12-12; online 2022-12-12]

Cryo-EM [Service]

PubMed DOI Crossref

Sphingosine 1-phosphate mediates adiponectin receptor signaling essential for lipid homeostasis and embryogenesis.

Ruiz M, Devkota R, Panagaki D, ..., Borén J, Pilon M

Nat Commun 13 (1) 7162 [2022-11-22; online 2022-11-22]

Glycoproteomics and MS Proteomics [Service]

PubMed DOI Crossref

Structure of the reduced microsporidian proteasome bound by PI31-like peptides in dormant spores.

Jespersen N, Ehrenbolger K, Winiger RR, ..., Vossbrinck CR, Barandun J

Nat Commun 13 (1) 6962 [2022-11-15; online 2022-11-15]

Cryo-EM [Service]

PubMed DOI Crossref

A multivesicular body-like organelle mediates stimulus-regulated trafficking of olfactory ciliary transduction proteins.

Maurya DK, Berghard A, Bohm S

Nat Commun 13 (1) 6889 [2022-11-12; online 2022-11-12]

Integrated Microscopy Technologies Umeå [Service]

PubMed DOI Crossref

Genetic regulation of serum IgA levels and susceptibility to common immune, infectious, kidney, and cardio-metabolic traits.

Liu L, Khan A, Sanchez-Rodriguez E, ..., Gharavi AG, Kiryluk K

Nat Commun 13 (1) 6859 [2022-11-11; online 2022-11-11]

NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

FRET-FISH probes chromatin compaction at individual genomic loci in single cells.

Mota A, Berezicki S, Wernersson E, ..., Crosetto N, Bienko M

Nat Commun 13 (1) 6680 [2022-11-05; online 2022-11-05]

Spatial Proteomics [Collaborative]

PubMed DOI Crossref

Proteogenomics refines the molecular classification of chronic lymphocytic leukemia

Herbst SA, Vesterlund M, Helmboldt AJ, ..., Lehtiö J, Dietrich S

Nat Commun 13 (1) 6226 [2022-10-20; online 2022-10-20]

Global Proteomics and Proteogenomics [Technology development]

PubMed DOI Crossref

Rapid antibiotic susceptibility testing and species identification for mixed samples.

Kandavalli V, Karempudi P, Larsson J, Elf J

Nat Commun 13 (1) 6215 [2022-10-20; online 2022-10-20]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Structure of a mitochondrial ribosome with fragmented rRNA in complex with membrane-targeting elements.

Tobiasson V, Berzina I, Amunts A

Nat Commun 13 (1) 6132 [2022-10-17; online 2022-10-17]

Cryo-EM [Service]

PubMed DOI Crossref

TLCD1 and TLCD2 regulate cellular phosphatidylethanolamine composition and promote the progression of non-alcoholic steatohepatitis

Petkevicius K, Palmgren H, Glover MS, ..., Maresca M, Peng XR

Nat Commun 13 (1) 6020 [2022-10-14; online 2022-10-14]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

Manganese-driven CoQ deficiency.

Diessl J, Berndtsson J, Broeskamp F, ..., Ott M, Büttner S

Nat Commun 13 (1) 6061 [2022-10-13; online 2022-10-13]

Global Proteomics and Proteogenomics [Service]

PubMed DOI Crossref

Spatiotemporal variations in retrovirus-host interactions among Darwin's finches.

Hill J, Lillie M, Pettersson ME, ..., Andersson L, Jern P

Nat Commun 13 (1) 6033 [2022-10-13; online 2022-10-13]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Membrane-assisted assembly and selective secretory autophagy of enteroviruses.

Dahmane S, Kerviel A, Morado DR, ..., Altan-Bonnet N, Carlson LA

Nat Commun 13 (1) 5986 [2022-10-10; online 2022-10-10]

Cryo-EM [Service]

PubMed DOI Crossref

Spatio-temporal analysis of prostate tumors in situ suggests pre-existence of treatment-resistant clones.

Marklund M, Schultz N, Friedrich S, ..., Sonnhammer E, Lundeberg J

Nat Commun 13 (1) 5475 [2022-09-17; online 2022-09-17]

NGI Short read [Service] NGI Spatial omics NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Terrigenous dissolved organic matter persists in the energy-limited deep groundwaters of the Fennoscandian Shield.

Osterholz H, Turner S, Alakangas LJ, ..., Kalinowski BE, Dopson M

Nat Commun 13 (1) 4837 [2022-08-17; online 2022-08-17]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

A method for Boolean analysis of protein interactions at a molecular level.

Raykova D, Kermpatsou D, Malmqvist T, ..., Kampf C, Söderberg O

Nat Commun 13 (1) 4755 [2022-08-13; online 2022-08-13]

BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative]

PubMed DOI Crossref

Scarf enables a highly memory-efficient analysis of large-scale single-cell genomics data.

Dhapola P, Rodhe J, Olofzon R, ..., Soneji S, Karlsson G

Nat Commun 13 (1) 4616 [2022-08-08; online 2022-08-08]

Clinical Genomics [Service] Clinical Genomics Lund [Service]

PubMed DOI Crossref

Structures of Atm1 provide insight into [2Fe-2S] cluster export from mitochondria.

Li P, Hendricks AL, Wang Y, ..., Wang K, Gourdon P

Nat Commun 13 (1) 4339 [2022-07-27; online 2022-07-27]

Cryo-EM

PubMed DOI Crossref

Genome-wide association study identifies Sjögren's risk loci with functional implications in immune and glandular cells.

Khatri B, Tessneer KL, Rasmussen A, ..., Nordmark G, Lessard CJ

Nat Commun 13 (1) 4287 [2022-07-27; online 2022-07-27]

NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Equilibrated evolution of the mixed auto-/allopolyploid haplotype-resolved genome of the invasive hexaploid Prussian carp.

Kuhl H, Du K, Schartl M, ..., Stöck M, Lamatsch DK

Nat Commun 13 (1) 4092 [2022-07-14; online 2022-07-14]

Bioinformatics Support for Computational Resources [Service] NGI Other [Service] NGI Short read [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Ultra-sensitive monitoring of leukemia patients using superRCA mutation detection assays.

Chen L, Eriksson A, Weström S, ..., Cavelier L, Landegren U

Nat Commun 13 (1) 4033 [2022-07-12; online 2022-07-12]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Collaborative] Clinical Genomics Uppsala [Collaborative]

PubMed DOI Crossref

Single-cell RNA-sequencing analysis of the developing mouse inner ear identifies molecular logic of auditory neuron diversification.

Petitpré C, Faure L, Uhl P, ..., Hadjab S, Lallemend F

Nat Commun 13 (1) 3878 [2022-07-05; online 2022-07-05]

Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Short read [Service] NGI Single cell [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0.

Domenzain I, Sánchez B, Anton M, ..., Sonnenschein N, Nielsen J

Nat Commun 13 (1) 3766 [2022-06-30; online 2022-06-30]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Systems Biology [Collaborative]

PubMed DOI Crossref

Structural basis of rapid actin dynamics in the evolutionarily divergent Leishmania parasite.

Kotila T, Wioland H, Selvaraj M, ..., Romet-Lemonne G, Lappalainen P

Nat Commun 13 (1) 3442 [2022-06-15; online 2022-06-15]

Cryo-EM [Service]

PubMed DOI Crossref

Asgard archaea shed light on the evolutionary origins of the eukaryotic ubiquitin-ESCRT machinery.

Hatano T, Palani S, Papatziamou D, ..., Robinson NP, Balasubramanian M

Nat Commun 13 (1) 3398 [2022-06-13; online 2022-06-13]

Bioinformatics Support for Computational Resources [Service]

PubMed DOI Crossref

Robust derivation of transplantable dopamine neurons from human pluripotent stem cells by timed retinoic acid delivery.

Alekseenko Z, Dias JM, Adler AF, ..., Parmar M, Ericson J

Nat Commun 13 (1) 3046 [2022-06-01; online 2022-06-01]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Nitrogen represses haustoria formation through abscisic acid in the parasitic plant Phtheirospermum japonicum.

Kokla A, Leso M, Zhang X, ..., Yoshida S, Melnyk CW

Nat Commun 13 (1) 2976 [2022-05-27; online 2022-05-27]

Bioinformatics Support for Computational Resources [Service] Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

The long noncoding RNA ADIPINT regulates human adipocyte metabolism via pyruvate carboxylase.

Kerr AG, Wang Z, Wang N, ..., Arner P, Gao H

Nat Commun 13 (1) 2958 [2022-05-26; online 2022-05-26]

NGI Long read [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

A nucleotide-sensing oligomerization mechanism that controls NrdR-dependent transcription of ribonucleotide reductases.

Rozman Grinberg I, Martínez-Carranza M, Bimai O, ..., Sjöberg BM, Stenmark P

Nat Commun 13 (1) 2700 [2022-05-16; online 2022-05-16]

Cryo-EM [Service]

PubMed DOI Crossref

Large differences in carbohydrate degradation and transport potential among lichen fungal symbionts.

Resl P, Bujold AR, Tagirdzhanova G, ..., Willis LM, Spribille T

Nat Commun 13 (1) 2634 [2022-05-12; online 2022-05-12]

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Kierczak M, Rafati N, Höglund J, ..., Karlsson T, Johansson Å

Nat Commun 13 (1) 2532 [2022-05-09; online 2022-05-09]

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Lu X, Maturi NP, Jarvius M, ..., Uhrbom L, Chen X

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Kennedy B, Fitipaldi H, Hammar U, ..., Franks PW, Fall T

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Bioinformatics Support for Computational Resources [Service] Cryo-EM [Service]

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Metelev M, Lundin E, Volkov IL, ..., Elf J, Johansson M

Nat Commun 13 (1) 1852 [2022-04-06; online 2022-04-06]

Bioinformatics Support for Computational Resources [Service]

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Leo IR, Aswad L, Stahl M, ..., Vesterlund M, Jafari R

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Nota K, Klaminder J, Milesi P, ..., Suyama Y, Parducci L

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The spatial transcriptomic landscape of the healing mouse intestine following damage.

Parigi SM, Larsson L, Das S, ..., Lundeberg J, Villablanca EJ

Nat Commun 13 (1) 828 [2022-02-11; online 2022-02-11]

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CRISPR-Cas9 induces large structural variants at on-target and off-target sites in vivo that segregate across generations.

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Nat Commun 13 (1) 627 [2022-02-02; online 2022-02-02]

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Rush JS, Parajuli P, Ruda A, ..., Widmalm G, Korotkova N

Nat Commun 13 (1) 590 [2022-02-01; online 2022-02-01]

Swedish NMR Centre (SNC)

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Pujolar JM, Blom MPK, Reeve AH, ..., Irestedt M, Jønsson KA

Nat Commun 13 (1) 268 [2022-01-12; online 2022-01-12]

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Canonical WNT signaling-dependent gating of MYC requires a noncanonical CTCF function at a distal binding site.

Chachoua I, Tzelepis I, Dai H, ..., Mehmood R, Göndör A

Nat Commun 13 (1) 204 [2022-01-11; online 2022-01-11]

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Tin A, Schlosser P, Matias-Garcia PR, ..., Teumer A, Köttgen A

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Schlosser P, Tin A, Matias-Garcia PR, ..., Köttgen A, Teumer A

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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Iakovleva I, Hall M, Oelker M, ..., Anan I, Sauer-Eriksson AE

Nat Commun 12 (1) 7141 [2021-12-08; online 2021-12-08]

Cryo-EM [Collaborative] Structural Proteomics [Service]

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Hildebrandt F, Andersson A, Saarenpää S, ..., Lundeberg J, Ankarklev J

Nat Commun 12 (1) 7046 [2021-12-02; online 2021-12-02]

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ATR inhibition enables complete tumour regression in ALK-driven NB mouse models.

Szydzik J, Lind DE, Arefin B, ..., Hallberg B, Palmer RH

Nat Commun 12 (1) 6813 [2021-11-24; online 2021-11-24]

Glycoproteomics and MS Proteomics [Service]

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Schön ME, Zlatogursky VV, Singh RP, ..., Wideman JG, Burki F

Nat Commun 12 (1) 6651 [2021-11-17; online 2021-11-17]

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Grosche S, Marenholz I, Esparza-Gordillo J, ..., Xu C, Lee Y

Nat Commun 12 (1) 6618 [2021-11-16; online 2021-11-16]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Sabatier P, Beusch CM, Saei AA, ..., Rodin S, Zubarev RA

Nat Commun 12 (1) 6558 [2021-11-12; online 2021-11-12] Open Access

Chemical Proteomics [Technology development]

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Liu Q, Liu Y, Li G, ..., Chen Y, Nielsen J

Nat Commun 12 (1) 6085 [2021-10-19; online 2021-10-19]

Chalmers Mass Spectrometry Infrastructure [Service]

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Andersson A, Larsson L, Stenbeck L, ..., Engblom C, Lundeberg J

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Single-nuclei transcriptomes from human adrenal gland reveal distinct cellular identities of low and high-risk neuroblastoma tumors.

Bedoya-Reina OC, Li W, Arceo M, ..., Kogner P, Schlisio S

Nat Commun 12 (1) 5309 [2021-09-07; online 2021-09-07]

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Structure of the native pyruvate dehydrogenase complex reveals the mechanism of substrate insertion.

Škerlová J, Berndtsson J, Nolte H, Ott M, Stenmark P

Nat Commun 12 (1) 5277 [2021-09-06; online 2021-09-06]

Cryo-EM [Service]

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Yang R, Goedel A, Kang Y, ..., Niu Y, Chien KR

Nat Commun 12 (1) 5126 [2021-08-26; online 2021-08-26]

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Zhao J, Xu H, Lebrette H, ..., Högbom M, Zou X

Nat Commun 12 (1) 5036 [2021-08-19; online 2021-08-19]

Cryo-EM [Collaborative]

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Mehrshad M, Lopez-Fernandez M, Sundh J, ..., Bertilsson S, Dopson M

Nat Commun 12 (1) 4253 [2021-07-12; online 2021-07-12]

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A multi-ethnic epigenome-wide association study of leukocyte DNA methylation and blood lipids.

Jhun M, Mendelson M, Wilson R, ..., Irvin MR, Assimes TL

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Li P, Wang K, Salustros N, Grønberg C, Gourdon P

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Simonetti M, Zhang N, Harbers L, ..., Ghisetti V, Crosetto N

Nat Commun 12 (1) 3903 [2021-06-23; online 2021-06-23]

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Roxhed N, Bendes A, Dale M, ..., Fredolini C, Schwenk JM

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Affinity Proteomics Stockholm [Technology development]

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Nat Commun 12 (1) 3577 [2021-06-11; online 2021-06-11]

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Karampelias C, Rezanejad H, Rosko M, ..., Korbutt GS, Andersson O

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Common variants in Alzheimer's disease and risk stratification by polygenic risk scores.

de Rojas I, Moreno-Grau S, Tesi N, ..., van der Lee SJ, Ruiz A

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NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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Continent-wide genomic signatures of adaptation to urbanisation in a songbird across Europe.

Salmón P, Jacobs A, Ahrén D, ..., Visser ME, Isaksson C

Nat Commun 12 (1) 2983 [2021-05-20; online 2021-05-20]

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Genomic insights into the conservation status of the world's last remaining Sumatran rhinoceros populations.

von Seth J, Dussex N, Díez-Del-Molino D, ..., Götherström A, Dalén L

Nat Commun 12 (1) 2393 [2021-04-26; online 2021-04-26]

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Woolway RI, Sharma S, Weyhenmeyer GA, ..., Thiery W, Jennings E

Nat Commun 12 (1) 2318 [2021-04-19; online 2021-04-19]

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System-wide identification and prioritization of enzyme substrates by thermal analysis.

Saei AA, Beusch CM, Sabatier P, ..., Schüler H, Zubarev RA

Nat Commun 12 (1) 1296 [2021-02-26; online 2021-02-26] Open Access

Chemical Proteomics [Technology development]

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Nat Commun 12 (1) 1054 [2021-02-16; online 2021-02-16]

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Semenov GA, Linck E, Enbody ED, ..., Andersson L, Taylor SA

Nat Commun 12 (1) 1019 [2021-02-15; online 2021-02-15]

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Distinct subtypes of proprioceptive dorsal root ganglion neurons regulate adaptive proprioception in mice.

Wu H, Petitpré C, Fontanet P, ..., Hadjab S, Lallemend F

Nat Commun 12 (1) 1026 [2021-02-15; online 2021-02-15]

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Eriksson D, Røyrvik EC, Aranda-Guillén M, ..., Kämpe O, Husebye ES

Nat Commun 12 (1) 959 [2021-02-11; online 2021-02-11]

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Endophilin A2 deficiency protects rodents from autoimmune arthritis by modulating T cell activation.

Norin U, Rintisch C, Meng L, ..., Bäckdahl L, Holmdahl R

Nat Commun 12 (1) 610 [2021-01-27; online 2021-01-27]

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Structure of a full-length bacterial polysaccharide co-polymerase.

Wiseman B, Nitharwal RG, Widmalm G, Högbom M

Nat Commun 12 (1) 369 [2021-01-14; online 2021-01-14]

Cryo-EM [Service]

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Cryo-EM structure of Helicobacter pylori urease with an inhibitor in the active site at 2.0 Å resolution.

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Nat Commun 12 (1) 230 [2021-01-11; online 2021-01-11]

Cryo-EM [Service]

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Sex-dimorphic genetic effects and novel loci for fasting glucose and insulin variability.

Lagou V, Mägi R, Hottenga JJ, ..., Prokopenko I, Meta-Analyses of Glucose and Insulin-related traits Consortium (MAGIC)

Nat Commun 12 (1) 24 [2021-01-05; online 2021-01-05]

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Nat Commun 11 (1) 6388 [2020-12-15; online 2020-12-15]

Integrated Microscopy Technologies Umeå [Service]

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Nat Commun 11 (1) 5860 [2020-11-17; online 2020-11-17]

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Nuclear gene proximity and protein interactions shape transcript covariations in mammalian single cells.

Tarbier M, Mackowiak SD, Frade J, ..., Gallant CJ, Friedländer MR

Nat Commun 11 (1) 5445 [2020-10-28; online 2020-10-28]

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Type III ATP synthase is a symmetry-deviated dimer that induces membrane curvature through tetramerization.

Flygaard RK, Mühleip A, Tobiasson V, Amunts A

Nat Commun 11 (1) 5342 [2020-10-22; online 2020-10-22]

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Adhikari S, Nice EC, Deutsch EW, ..., Aebersold R, Baker MS

Nat Commun 11 (1) 5301 [2020-10-16; online 2020-10-16]

Affinity Proteomics Stockholm [Collaborative]

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Nowak K, Rosenthal F, Karlberg T, ..., Leslie Pedrioli DM, Hottiger MO

Nat Commun 11 (1) 5199 [2020-10-15; online 2020-10-15]

Protein Science Facility (PSF) [Service]

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Analysis of translating mitoribosome reveals functional characteristics of translation in mitochondria of fungi.

Itoh Y, Naschberger A, Mortezaei N, Herrmann JM, Amunts A

Nat Commun 11 (1) 5187 [2020-10-14; online 2020-10-14]

Cryo-EM [Service] Global Proteomics and Proteogenomics [Service]

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An embryonic stem cell-specific heterochromatin state promotes core histone exchange in the absence of DNA accessibility.

Navarro C, Lyu J, Katsori AM, Caridha R, Elsässer SJ

Nat Commun 11 (1) 5095 [2020-10-09; online 2020-10-09]

Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

SARS-CoV-2 exposure, symptoms and seroprevalence in healthcare workers in Sweden.

Rudberg AS, Havervall S, Månberg A, ..., Hober S, Thålin C

Nat Commun 11 (1) 5064 [2020-10-08; online 2020-10-08]

Autoimmunity and Serology Profiling [Collaborative]

PubMed DOI Crossref

Large-scale targeted sequencing identifies risk genes for neurodevelopmental disorders.

Wang T, Hoekzema K, Vecchio D, ..., Xia K, Eichler EE

Nat Commun 11 (1) 4932 [2020-10-01; online 2020-10-01]

Clinical Genomics [Service] Clinical Genomics Stockholm [Service]

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Dental cell type atlas reveals stem and differentiated cell types in mouse and human teeth.

Krivanek J, Soldatov RA, Kastriti ME, ..., Kharchenko PV, Adameyko I

Nat Commun 11 (1) 4816 [2020-09-23; online 2020-09-23]

Eukaryotic Single Cell Genomics (ESCG) [Service]

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Retrospective evaluation of whole exome and genome mutation calls in 746 cancer samples.

Bailey MH, Meyerson WU, Dursi LJ, ..., Ding L, PCAWG Consortium

Nat Commun 11 (1) 4748 [2020-09-21; online 2020-09-21]

Clinical Genomics [Service] Clinical Genomics Uppsala [Service]

PubMed DOI Crossref

Integration of molecular profiles in a longitudinal wellness profiling cohort.

Tebani A, Gummesson A, Zhong W, ..., Uhlen M, Fagerberg L

Nat Commun 11 (1) 4487 [2020-09-08; online 2020-09-08]

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An alpaca nanobody neutralizes SARS-CoV-2 by blocking receptor interaction.

Hanke L, Vidakovics Perez L, Sheward DJ, ..., Murrell B, McInerney GM

Nat Commun 11 (1) 4420 [2020-09-04; online 2020-09-04]

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Sex differences in oncogenic mutational processes.

Li CH, Prokopec SD, Sun RX, ..., Boutros PC, PCAWG Consortium

Nat Commun 11 (1) 4330 [2020-08-28; online 2020-08-28]

Clinical Genomics [Service] Clinical Genomics Uppsala [Service]

PubMed DOI Crossref

Cell-surface receptors enable perception of extracellular cytokinins.

Antoniadi I, Novák O, Gelová Z, ..., Ljung K, Turnbull C

Nat Commun 11 (1) 4284 [2020-08-27; online 2020-08-27]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

Single cell RNA sequencing identifies early diversity of sensory neurons forming via bi-potential intermediates.

Faure L, Wang Y, Kastriti ME, ..., Adameyko I, Hadjab S

Nat Commun 11 (1) 4175 [2020-08-21; online 2020-08-21]

Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]

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Gsta4 controls apoptosis of differentiating adult oligodendrocytes during homeostasis and remyelination via the mitochondria-associated Fas-Casp8-Bid-axis.

Carlström KE, Zhu K, Ewing E, ..., Castelo-Branco G, Piehl F

Nat Commun 11 (1) 4071 [2020-08-13; online 2020-08-13]

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PubMed DOI Crossref

Discovery and population genomics of structural variation in a songbird genus.

Weissensteiner MH, Bunikis I, Catalán A, ..., Warmuth VM, Wolf JBW

Nat Commun 11 (1) 3403 [2020-07-07; online 2020-07-07]

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Diamond Blackfan anemia is mediated by hyperactive Nemo-like kinase.

Wilkes MC, Siva K, Chen J, ..., Flygare J, Sakamoto KM

Nat Commun 11 (1) 3344 [2020-07-03; online 2020-07-03]

Chemical Biology Consortium Sweden (CBCS) [Collaborative]

PubMed DOI Crossref

Aβ(1-42) tetramer and octamer structures reveal edge conductivity pores as a mechanism for membrane damage.

Ciudad S, Puig E, Botzanowski T, ..., Bardiaux B, Carulla N

Nat Commun 11 (1) 3014 [2020-06-15; online 2020-06-15]

Swedish NMR Centre (SNC) [Collaborative]

PubMed DOI Crossref

Distinct pre-initiation steps in human mitochondrial translation.

Khawaja A, Itoh Y, Remes C, ..., Amunts A, Rorbach J

Nat Commun 11 (1) 2932 [2020-06-10; online 2020-06-10]

Cryo-EM [Service]

PubMed DOI Crossref

CYCLIN-B1/2 and -D1 act in opposition to coordinate cortical progenitor self-renewal and lineage commitment.

Hagey DW, Topcic D, Kee N, ..., Perlmann T, Muhr J

Nat Commun 11 (1) 2898 [2020-06-09; online 2020-06-09]

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PubMed DOI Crossref

Multi-ancestry GWAS of the electrocardiographic PR interval identifies 202 loci underlying cardiac conduction.

Ntalla I, Weng LC, Cartwright JH, ..., Lubitz SA, Munroe PB

Nat Commun 11 (1) 2542 [2020-05-21; online 2020-05-21]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Single cell transcriptomics identifies stem cell-derived graft composition in a model of Parkinson's disease.

Tiklová K, Nolbrant S, Fiorenzano A, ..., Perlmann T, Parmar M

Nat Commun 11 (1) 2434 [2020-05-15; online 2020-05-15]

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PubMed DOI Crossref

Molecular profiling of driver events in metastatic uveal melanoma.

Karlsson J, Nilsson LM, Mitra S, ..., Olofsson Bagge R, Nilsson JA

Nat Commun 11 (1) 1894 [2020-04-20; online 2020-04-20]

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Increased burden of ultra-rare structural variants localizing to boundaries of topologically associated domains in schizophrenia.

Halvorsen M, Huh R, Oskolkov N, ..., Sullivan PF, Szatkiewicz JP

Nat Commun 11 (1) 1842 [2020-04-15; online 2020-04-15]

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Identification of cell surface markers and establishment of monolayer differentiation to retinal pigment epithelial cells.

Plaza Reyes A, Petrus-Reurer S, Padrell Sánchez S, ..., Kvanta A, Lanner F

Nat Commun 11 (1) 1609 [2020-03-30; online 2020-03-30]

Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]

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Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA.

Madru C, Henneke G, Raia P, ..., Carroni M, Sauguet L

Nat Commun 11 (1) 1591 [2020-03-27; online 2020-03-27]

Cryo-EM [Collaborative]

PubMed DOI Crossref

Exploiting loss of heterozygosity for allele-selective colorectal cancer chemotherapy.

Rendo V, Stoimenov I, Mateus A, ..., Cheong I, Sjöblom T

Nat Commun 11 (1) 1308 [2020-03-11; online 2020-03-11]

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Single-cell analysis of human ovarian cortex identifies distinct cell populations but no oogonial stem cells.

Wagner M, Yoshihara M, Douagi I, ..., Lanner F, Damdimopoulou P

Nat Commun 11 (1) 1147 [2020-03-02; online 2020-03-02]

Bioinformatics Support for Computational Resources [Service] Eukaryotic Single Cell Genomics (ESCG) [Service]

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Primary cell wall inspired micro containers as a step towards a synthetic plant cell.

Paulraj T, Wennmalm S, Wieland DCF, ..., Cárdenas M, Svagan AJ

Nat Commun 11 (1) 958 [2020-02-19; online 2020-02-19]

Integrated Microscopy Technologies Stockholm [Collaborative]

PubMed DOI Crossref

Clonal competition within complex evolutionary hierarchies shapes AML over time.

Sandén C, Lilljebjörn H, Orsmark Pietras C, ..., Ågerstam H, Fioretos T

Nat Commun 11 (1) 579 [2020-02-05; online 2020-02-05]

Clinical Genomics Clinical Genomics Lund

PubMed DOI Crossref

Transcriptomic profiling of skeletal muscle adaptations to exercise and inactivity.

Pillon NJ, Gabriel BM, Dollet L, ..., Krook A, Zierath JR

Nat Commun 11 (1) 470 [2020-01-24; online 2020-01-24]

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The Medical Genome Reference Bank contains whole genome and phenotype data of 2570 healthy elderly.

Pinese M, Lacaze P, Rath EM, ..., Dinger ME, Thomas DM

Nat Commun 11 (1) 435 [2020-01-23; online 2020-01-23]

NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

A spontaneous mitonuclear epistasis converging on Rieske Fe-S protein exacerbates complex III deficiency in mice.

Purhonen J, Grigorjev V, Ekiert R, ..., Fellman V, Kallijärvi J

Nat Commun 11 (1) 322 [2020-01-16; online 2020-01-16]

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Genome-wide association and Mendelian randomisation analysis provide insights into the pathogenesis of heart failure.

Shah S, Henry A, Roselli C, ..., Swerdlow DI, Lumbers RT

Nat Commun 11 (1) 163 [2020-01-09; online 2020-01-09]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Integrative discovery of treatments for high-risk neuroblastoma.

Almstedt E, Elgendy R, Hekmati N, ..., Krona C, Nelander S

Nat Commun 11 (1) 71 [2020-01-03; online 2020-01-03]

Genome Engineering Zebrafish [Service]

PubMed DOI Crossref

A transposable element insertion is associated with an alternative life history strategy.

Woronik A, Tunström K, Perry MW, ..., Käkelä R, Wheat CW

Nat Commun 10 (1) 5757 [2019-12-17; online 2019-12-17]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

BEN-solo factors partition active chromatin to ensure proper gene activation in Drosophila.

Ueberschär M, Wang H, Zhang C, ..., Wen J, Dai Q

Nat Commun 10 (1) 5700 [2019-12-13; online 2019-12-13]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

ProTargetMiner as a proteome signature library of anticancer molecules for functional discovery

Saei AA, Beusch CM, Chernobrovkin A, ..., Végvári Á, Zubarev RA

Nat Commun 10 (1) 5715 [2019-12-00; online 2019-12-16]

Chemical Proteomics [Technology development]

PubMed DOI Crossref

A cell fitness selection model for neuronal survival during development

Wang Y, Wu H, Fontanet P, ..., Hadjab S, Lallemend F

Nat Commun 10 (1) - [2019-12-00; online 2019-09-12]

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PubMed DOI Crossref

iFISH is a publically available resource enabling versatile DNA FISH to study genome architecture

Gelali E, Girelli G, Matsumoto M, ..., Crosetto N, Bienko M

Nat Commun 10 (1) - [2019-12-00; online 2019-04-09]

Advanced FISH Technologies [Technology development] Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]

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Towards a standardized bioinformatics infrastructure for N- and O-glycomics

Rojas-Macias MA, Mariethoz J, Andersson P, ..., Lisacek F, Karlsson NG

Nat Commun 10 (1) - [2019-12-00; online 2019-07-22]

Bioinformatics (NBIS) [Technology development] Bioinformatics Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development] Glycoproteomics and MS Proteomics [Technology development]

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Programmed DNA elimination of germline development genes in songbirds.

Kinsella CM, Ruiz-Ruano FJ, Dion-Côté AM, ..., Forstmeier W, Suh A

Nat Commun 10 (1) 5468 [2019-11-29; online 2019-11-29]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Associations of autozygosity with a broad range of human phenotypes.

Clark DW, Okada Y, Moore KHS, ..., Kubo M, Wilson JF

Nat Commun 10 (1) 4957 [2019-10-31; online 2019-10-31]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Puma genomes from North and South America provide insights into the genomic consequences of inbreeding.

Saremi NF, Supple MA, Byrne A, ..., Wilmers CC, Shapiro B

Nat Commun 10 (1) 4769 [2019-10-18; online 2019-10-18]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Microbe-host interplay in atopic dermatitis and psoriasis.

Fyhrquist N, Muirhead G, Prast-Nielsen S, ..., Andersson B, Alenius H

Nat Commun 10 (1) 4703 [2019-10-16; online 2019-10-16]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Genome-wide association meta-analyses and fine-mapping elucidate pathways influencing albuminuria.

Teumer A, Li Y, Ghasemi S, ..., Pattaro C, Köttgen A

Nat Commun 10 (1) 4130 [2019-09-11; online 2019-09-11]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Protein prenylation restrains innate immunity by inhibiting Rac1 effector interactions.

Akula MK, Ibrahim MX, Ivarsson EG, ..., Sayin VI, Bergo MO

Nat Commun 10 (1) 3975 [2019-09-04; online 2019-09-04]

Glycoproteomics and MS Proteomics [Service]

PubMed DOI Crossref

Unique transcriptional and protein-expression signature in human lung tissue-resident NK cells.

Marquardt N, Kekäläinen E, Chen P, ..., Ljunggren HG, Michaëlsson J

Nat Commun 10 (1) 3841 [2019-08-26; online 2019-08-26]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Profiling surface proteins on individual exosomes using a proximity barcoding assay.

Wu D, Yan J, Shen X, ..., Landegren U, Kamali-Moghaddam M

Nat Commun 10 (1) 3854 [2019-08-26; online 2019-08-26]

Affinity Proteomics Uppsala [Technology development] Bioinformatics Support for Computational Resources [Service] PLA and Single Cell Proteomics [Technology development]

PubMed DOI Crossref

Genome-wide systematic identification of methyltransferase recognition and modification patterns.

Jensen TØ, Tellgren-Roth C, Redl S, ..., Pedersen LE, Nielsen AT

Nat Commun 10 (1) 3311 [2019-08-19; online 2019-08-19]

NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

PAK4 suppresses RELB to prevent senescence-like growth arrest in breast cancer.

Costa TDF, Zhuang T, Lorent J, ..., Defilippi P, Strömblad S

Nat Commun 10 (1) 3589 [2019-08-09; online 2019-08-09]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Structure-based mechanism for activation of the AAA+ GTPase McrB by the endonuclease McrC.

Nirwan N, Itoh Y, Singh P, ..., Amunts A, Saikrishnan K

Nat Commun 10 (1) 3058 [2019-07-11; online 2019-07-11]

Cryo-EM [Service]

PubMed DOI Crossref

Genome-wide analysis of dental caries and periodontitis combining clinical and self-reported data.

Shungin D, Haworth S, Divaris K, ..., Timpson NJ, Johansson I

Nat Commun 10 (1) 2773 [2019-06-24; online 2019-06-24]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

A quantitative Streptococcus pyogenes-human protein-protein interaction map reveals localization of opsonizing antibodies.

Happonen L, Hauri S, Svensson Birkedal G, ..., Malmström L, Malmström J

Nat Commun 10 (1) 2727 [2019-06-21; online 2019-06-21]

Structural Proteomics [Technology development]

PubMed DOI Crossref

The viral protein corona directs viral pathogenesis and amyloid aggregation.

Ezzat K, Pernemalm M, Pålsson S, ..., Spetz AL, El Andaloussi S

Nat Commun 10 (1) 2331 [2019-05-27; online 2019-05-27]

Bioinformatics Support for Computational Resources [Service] Global Proteomics and Proteogenomics [Technology development]

PubMed DOI Crossref

Spatial and temporal localization of immune transcripts defines hallmarks and diversity in the tuberculosis granuloma.

Carow B, Hauling T, Qian X, ..., Nilsson M, Rottenberg ME

Nat Commun 10 (1) 1823 [2019-04-23; online 2019-04-23]

In Situ Sequencing (ISS) [Collaborative]

PubMed DOI Crossref

Neutrophil extracellular traps in the central nervous system hinder bacterial clearance during pneumococcal meningitis.

Mohanty T, Fisher J, Bakochi A, ..., Bentzer P, Linder A

Nat Commun 10 (1) 1667 [2019-04-10; online 2019-04-10]

Structural Proteomics [Collaborative]

PubMed DOI Crossref

Breast cancer quantitative proteome and proteogenomic landscape.

Johansson HJ, Socciarelli F, Vacanti NM, ..., Børresen-Dale AL, Lehtiö J

Nat Commun 10 (1) 1600 [2019-04-08; online 2019-04-08]

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PubMed DOI Crossref

A TetR-family transcription factor regulates fatty acid metabolism in the archaeal model organism Sulfolobus acidocaldarius.

Wang K, Sybers D, Maklad HR, ..., Lindås AC, Peeters E

Nat Commun 10 (1) 1542 [2019-04-04; online 2019-04-04]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia.

Yang M, Vesterlund M, Siavelis I, ..., Lehtiö J, Paulsson K

Nat Commun 10 (1) 1519 [2019-04-03; online 2019-04-03]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics [Service] Clinical Genomics Lund [Service] Global Proteomics and Proteogenomics [Technology development]

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Polymer gels with tunable ionic Seebeck coefficient for ultra-sensitive printed thermopiles.

Zhao D, Martinelli A, Willfahrt A, ..., Fabiano S, Crispin X

Nat Commun 10 (1) 1093 [2019-03-06; online 2019-03-06]

Swedish NMR Centre (SNC) [Collaborative]

PubMed DOI Crossref

Single-cell RNA sequencing reveals midbrain dopamine neuron diversity emerging during mouse brain development

Tiklová K, Björklund ÅK, Lahti L, ..., Parmar M, Perlmann T

Nat Commun 10 (1) 581 [2019-02-04; online 2019-02-04]

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Multi-ancestry study of blood lipid levels identifies four loci interacting with physical activity.

Kilpeläinen TO, Bentley AR, Noordam R, ..., Rao DC, Loos RJF

Nat Commun 10 (1) 376 [2019-01-22; online 2019-01-22]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Rapid determination of quaternary protein structures in complex biological samples.

Hauri S, Khakzad H, Happonen L, ..., Malmström J, Malmström L

Nat Commun 10 (1) 192 [2019-01-14; online 2019-01-14]

Structural Proteomics [Technology development]

PubMed DOI Crossref

Fecal pollution can explain antibiotic resistance gene abundances in anthropogenically impacted environments.

Karkman A, Pärnänen K, Larsson DGJ

Nat Commun 10 (1) 80 [2019-01-08; online 2019-01-08]

NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Trans-ethnic kidney function association study reveals putative causal genes and effects on kidney-specific disease aetiologies.

Morris AP, Le TH, Wu H, ..., Humphreys BD, Franceschini N

Nat Commun 10 (1) 29 [2019-01-03; online 2019-01-03]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing.

Bartoschek M, Oskolkov N, Bocci M, ..., Björklund Å, Pietras K

Nat Commun 9 (1) 5150 [2018-12-04; online 2018-12-04]

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PubMed DOI Crossref

Targeting PFKFB3 radiosensitizes cancer cells and suppresses homologous recombination

Gustafsson NMS, Färnegårdh K, Bonagas N, ..., Olin T, Helleday T

Nat Commun 9 (1) - [2018-12-00; online 2018-09-24]

Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]

PubMed DOI Crossref

Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements

Svedberg J, Hosseini S, Chen J, ..., Lascoux M, Johannesson H

Nat Commun 9 (1) - [2018-12-00; online 2018-10-12]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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Somatic mutagenesis in satellite cells associates with human skeletal muscle aging

Franco I, Johansson A, Olsson K, ..., Fischer H, Eriksson M

Nat Commun 9 (1) - [2018-12-00; online 2018-02-23]

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PubMed DOI Crossref

GWAS and colocalization analyses implicate carotid intima-media thickness and carotid plaque loci in cardiovascular outcomes

Franceschini N, None , Giambartolomei C, ..., Casas JP, O’Donnell CJ

Nat Commun 9 (1) - [2018-12-00; online 2018-12-03]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Aberrant splicing and defective mRNA production induced by somatic spliceosome mutations in myelodysplasia

Shiozawa Y, Malcovati L, Gallì A, ..., Ogawa S, Cazzola M

Nat Commun 9 (1) - [2018-12-00; online 2018-09-07]

Clinical Genomics [Service] Clinical Genomics Uppsala [Service]

PubMed DOI Crossref

Publisher Correction: A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage

Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S

Nat Commun 9 (1) - [2018-12-00; online 2018-05-22]

Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service]

PubMed DOI Crossref

A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons

Södersten E, Toskas K, Rraklli V, ..., Perlmann T, Holmberg J

Nat Commun 9 (1) - [2018-12-00; online 2018-03-26]

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PubMed DOI Crossref

Enhanced validation of antibodies for research applications.

Edfors F, Hober A, Linderbäck K, ..., Forsström B, Uhlen M

Nat Commun 9 (1) 4130 [2018-10-08; online 2018-10-08]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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14-3-3 proteins activate Pseudomonas exotoxins-S and -T by chaperoning a hydrophobic surface.

Karlberg T, Hornyak P, Pinto AF, ..., Björkegren C, Schüler H

Nat Commun 9 (1) 3785 [2018-09-17; online 2018-09-17]

Bioinformatics Support for Computational Resources [Service] Protein Science Facility (PSF) [Service]

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Neuronal heterogeneity and stereotyped connectivity in the auditory afferent system.

Petitpré C, Wu H, Sharma A, ..., Hadjab S, Lallemend F

Nat Commun 9 (1) 3691 [2018-09-12; online 2018-09-12]

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Contribution of allelic imbalance to colorectal cancer.

Palin K, Pitkänen E, Turunen M, ..., Taipale J, Aaltonen LA

Nat Commun 9 (1) 3664 [2018-09-10; online 2018-09-10]

Bioinformatics Support for Computational Resources [Service] CRISPR Functional Genomics [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Structural basis for endotoxin neutralisation and anti-inflammatory activity of thrombin-derived C-terminal peptides.

Saravanan R, Holdbrook DA, Petrlova J, ..., Malmsten M, Schmidtchen A

Nat Commun 9 (1) 2762 [2018-07-17; online 2018-07-17]

Structural Proteomics [Service]

PubMed DOI Crossref

Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity

Berglund E, Maaskola J, Schultz N, ..., Helleday T, Lundeberg J

Nat Commun 9 (1) 2419 [2018-06-20; online 2018-06-20]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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Modular ssDNA binding and inhibition of telomerase activity by designer PPR proteins.

Spåhr H, Chia T, Lingford JP, ..., Filipovska A, Rackham O

Nat Commun 9 (1) 2212 [2018-06-07; online 2018-06-07]

Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

Study of 300,486 individuals identifies 148 independent genetic loci influencing general cognitive function.

Davies G, Lam M, Harris SE, ..., Lencz T, Deary IJ

Nat Commun 9 (1) 2098 [2018-05-29; online 2018-05-29]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Repeated evolution of self-compatibility for reproductive assurance.

Nieuwenhuis BPS, Tusso S, Bjerling P, ..., Wolf JBW, Immler S

Nat Commun 9 (1) 1639 [2018-04-24; online 2018-04-24]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Rice auxin influx carrier OsAUX1 facilitates root hair elongation in response to low external phosphate.

Giri J, Bhosale R, Huang G, ..., Swarup R, Bennett MJ

Nat Commun 9 (1) 1408 [2018-04-12; online 2018-04-12]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate.

Bhosale R, Giri J, Pandey BK, ..., Bennett MJ, Swarup R

Nat Commun 9 (1) 1409 [2018-04-12; online 2018-04-12]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

A DHODH inhibitor increases p53 synthesis and enhances tumor cell killing by p53 degradation blockage.

Ladds MJGW, van Leeuwen IMM, Drummond CJ, ..., McCormack E, Laín S

Nat Commun 9 (1) 1107 [2018-03-16; online 2018-03-16]

Bioinformatics Support for Computational Resources [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

Genome-wide analysis yields new loci associating with aortic valve stenosis.

Helgadottir A, Thorleifsson G, Gretarsdottir S, ..., Holm H, Stefansson K

Nat Commun 9 (1) 987 [2018-03-07; online 2018-03-07]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow.

Zhu Y, Orre LM, Johansson HJ, ..., Branca RMM, Lehtiö J

Nat Commun 9 (1) 903 [2018-03-02; online 2018-03-02]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] Global Proteomics and Proteogenomics [Technology development]

PubMed DOI Crossref

Genome-wide association study in 79,366 European-ancestry individuals informs the genetic architecture of 25-hydroxyvitamin D levels.

Jiang X, O'Reilly PF, Aschard H, ..., Kraft P, Kiel DP

Nat Commun 9 (1) 260 [2018-01-17; online 2018-01-17]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Targeted NUDT5 inhibitors block hormone signaling in breast cancer cells.

Page BDG, Valerie NCK, Wright RHG, ..., Beato M, Helleday T

Nat Commun 9 (1) 250 [2018-01-17; online 2018-01-17]

Bioinformatics Support for Computational Resources [Service] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

Reading and editing the Pleurodeles waltl genome reveals novel features of tetrapod regeneration.

Elewa A, Wang H, Talavera-López C, ..., Andersson B, Simon A

Nat Commun 8 (1) 2286 [2017-12-22; online 2017-12-22]

Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma

Lauss M, Donia M, Harbst K, ..., Svane IM, Jönsson G

Nat Commun 8 (1) - [2017-12-00; online 2017-11-23]

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The dynamic dimer structure of the chaperone Trigger Factor

Morgado L, Burmann BM, Sharpe T, Mazur A, Hiller S

Nat Commun 8 (1) - [2017-12-00; online 2017-12-08]

Swedish NMR Centre (SNC) [Service]

PubMed DOI Crossref

Agonist-induced dimer dissociation as a macromolecular step in G protein-coupled receptor signaling

Petersen J, Wright SC, Rodríguez D, ..., Carlsson J, Schulte G

Nat Commun 8 (1) - [2017-12-00; online 2017-08-09]

Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm [Service]

PubMed DOI Crossref

Brassinosteroid signaling-dependent root responses to prolonged elevated ambient temperature

Martins S, Montiel-Jorda A, Cayrel A, ..., Ljung K, Vert G

Nat Commun 8 (1) - [2017-12-00; online 2017-08-21]

Swedish Metabolomics Centre (SMC) [Service]

PubMed DOI Crossref

Structural basis for dolichylphosphate mannose biosynthesis

Gandini R, Reichenbach T, Tan TC, Divne C

Nat Commun 8 (1) - [2017-12-00; online 2017-07-25]

Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

A comprehensive structural, biochemical and biological profiling of the human NUDIX hydrolase family

Carreras-Puigvert J, Zitnik M, Jemth AS, ..., Zupan B, Helleday T

Nat Commun 8 (1) - [2017-12-00; online 2017-11-16]

BioImage Informatics [Collaborative] Bioinformatics (NBIS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]

PubMed DOI Crossref

Large-scale suppression of recombination predates genomic rearrangements in Neurospora tetrasperma

Sun Y, Svedberg J, Hiltunen M, Corcoran P, Johannesson H

Nat Commun 8 (1) - [2017-12-00; online 2017-10-26]

NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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Microbial mineralization of cellulose in frozen soils.

Segura JH, Nilsson MB, Haei M, ..., Schleucher J, Öquist MG

Nat Commun 8 (1) 1154 [2017-10-27; online 2017-10-27]

Swedish NMR Centre (SNC) [Collaborative]

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Efficient protein production by yeast requires global tuning of metabolism.

Huang M, Bao J, Hallström BM, Petranovic D, Nielsen J

Nat Commun 8 (1) 1131 [2017-10-25; online 2017-10-25]

Bioinformatics Support for Computational Resources [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus

Matzov D, Aibara S, Basu A, ..., Amunts A, Yonath AE

Nat Commun 8 (1) 723 [2017-09-28; online 2017-09-28]

Cryo-EM [Service]

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Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer.

Asim M, Tarish F, Zecchini HI, ..., Neal D, Helleday T

Nat Commun 8 (1) 374 [2017-08-29; online 2017-08-29]

Advanced FISH Technologies [Collaborative]

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Large meta-analysis of genome-wide association studies identifies five loci for lean body mass.

Zillikens MC, Demissie S, Hsu YH, ..., Ohlsson C, Kiel DP

Nat Commun 8 (1) 80 [2017-07-19; online 2017-07-19]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Transancestral mapping and genetic load in systemic lupus erythematosus.

Langefeld CD, Ainsworth HC, Cunninghame Graham DS, ..., Gaffney PM, Vyse TJ

Nat Commun 8 (-) 16021 [2017-07-17; online 2017-07-17]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Genetic loci associated with heart rate variability and their effects on cardiac disease risk.

Nolte IM, Munoz ML, Tragante V, ..., Snieder H, de Geus EJC

Nat Commun 8 (-) 15805 [2017-06-14; online 2017-06-14]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Expression of CD226 is associated to but not required for NK cell education.

Wagner AK, Kadri N, Snäll J, ..., Kärre K, Chambers BJ

Nat Commun 8 (-) 15627 [2017-05-31; online 2017-05-31]

Cellular Immunomonitoring [Collaborative]

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Justice AE, Winkler TW, Feitosa MF, ..., North KE, Cupples LA

Nat Commun 8 (-) 14977 [2017-04-26; online 2017-04-26]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Light-sensing via hydrogen peroxide and a peroxiredoxin.

Bodvard K, Peeters K, Roger F, ..., Käll M, Molin M

Nat Commun 8 (1) 14791 [2017-03-24; online 2017-03-24]

Integrated Microscopy Technologies Gothenburg [Service]

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Altered expression of maize PLASTOCHRON1 enhances biomass and seed yield by extending cell division duration

Sun X, Cahill J, Van Hautegem T, ..., Inzé D, Nelissen H

Nat Commun 8 (-) 14752 [2017-03-16; online 2017-03-16]

Swedish Metabolomics Centre (SMC) [Service]

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Clonal reversal of ageing-associated stem cell lineage bias via a pluripotent intermediate.

Wahlestedt M, Erlandsson E, Kristiansen T, ..., Martin-Gonzalez J, Bryder D

Nat Commun 8 (-) 14533 [2017-02-22; online 2017-02-22]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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Novel genetic loci associated with hippocampal volume.

Hibar DP, Adams HH, Jahanshad N, ..., Thompson PM, Ikram MA

Nat Commun 8 (-) 13624 [2017-01-18; online 2017-01-18]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity.

Corcoran MM, Phad GE, Néstor VB, ..., Martin M, Karlsson Hedestam GB

Nat Commun 7 (-) 13642 [2016-12-20; online 2016-12-20]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

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An oxygen-sensitive toxin-antitoxin system.

Marimon O, Teixeira JM, Cordeiro TN, ..., Wood TK, Pons M

Nat Commun 7 (-) 13634 [2016-12-08; online 2016-12-08]

Swedish NMR Centre (SNC) [Collaborative]

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Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex.

Vijay N, Bossu CM, Poelstra JW, ..., Kryukov AP, Wolf JB

Nat Commun 7 (1) 13195 [2016-10-31; online 2016-10-31]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Massive and parallel expression profiling using microarrayed single-cell sequencing.

Vickovic S, Ståhl PL, Salmén F, ..., Frisén J, Lundeberg J

Nat Commun 7 (-) 13182 [2016-10-14; online 2016-10-14]

Advanced FISH Technologies Bioinformatics (NBIS) [Collaborative] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock.

Bagnoud A, Chourey K, Hettich RL, ..., Schwyn B, Bernier-Latmani R

Nat Commun 7 (-) 12770 [2016-10-14; online 2016-10-14]

Bioinformatics (NBIS) [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

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Feralisation targets different genomic loci to domestication in the chicken.

Johnsson M, Gering E, Willis P, ..., Friberg U, Wright D

Nat Commun 7 (-) 12950 [2016-09-30; online 2016-09-30]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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Limited clonal relatedness between gut IgA plasma cells and memory B cells after oral immunization.

Bemark M, Hazanov H, Strömberg A, ..., Mehr R, Lycke NY

Nat Commun 7 (-) 12698 [2016-09-06; online 2016-09-06]

Clinical Genomics [Collaborative] Clinical Genomics Gothenburg [Collaborative]

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Stromal Hedgehog signalling is downregulated in colon cancer and its restoration restrains tumour growth.

Gerling M, Büller NV, Kirn LM, ..., van den Brink GR, Toftgård R

Nat Commun 7 (-) 12321 [2016-08-05; online 2016-08-05]

Bioinformatics and Expression Analysis (BEA) [Service]

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Integrative functional genomics identifies regulatory mechanisms at coronary artery disease loci.

Miller CL, Pjanic M, Wang T, ..., Björkegren JL, Quertermous T

Nat Commun 7 (-) 12092 [2016-07-08; online 2016-07-08]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Genome-wide association study identifies multiple susceptibility loci for multiple myeloma.

Mitchell JS, Li N, Weinhold N, ..., Nilsson B, Houlston RS

Nat Commun 7 (-) 12050 [2016-07-01; online 2016-07-01]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Lilljebjörn H, Henningsson R, Hyrenius-Wittsten A, ..., Fontes M, Fioretos T

Nat Commun 7 (-) 11790 [2016-06-06; online 2016-06-06]

Clinical Genomics [Collaborative] Clinical Genomics Lund [Collaborative]

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Pseudomonas aeruginosa elastase cleaves a C-terminal peptide from human thrombin that inhibits host inflammatory responses.

van der Plas MJ, Bhongir RK, Kjellström S, ..., Mörgelin M, Schmidtchen A

Nat Commun 7 (-) 11567 [2016-05-16; online 2016-05-16]

Structural Proteomics [Service]

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Bugge K, Papaleo E, Haxholm GW, ..., Lindorff-Larsen K, Kragelund BB

Nat Commun 7 (-) 11578 [2016-05-13; online 2016-05-13]

Swedish NMR Centre (SNC) [Service]

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Hypoxia regulates global membrane protein endocytosis through caveolin-1 in cancer cells.

Bourseau-Guilmain E, Menard JA, Lindqvist E, ..., Welinder C, Belting M

Nat Commun 7 (-) 11371 [2016-04-20; online 2016-04-20]

Structural Proteomics [Service]

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Almqvist H, Axelsson H, Jafari R, ..., Lundbäck T, Nordlund P

Nat Commun 7 (-) 11040 [2016-03-24; online 2016-03-24]

Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]

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Li X, Padhan N, Sjöström EO, ..., Jansson L, Claesson-Welsh L

Nat Commun 7 (-) 11017 [2016-03-23; online 2016-03-23]

Bioinformatics (NBIS) [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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Lu Y, Day FR, Gustafsson S, ..., Kilpeläinen TO, Loos RJF

Nat Commun 7 (1) 10495 [2016-02-01; online 2016-02-01]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Genome-wide meta-analysis uncovers novel loci influencing circulating leptin levels.

Kilpeläinen TO, Carli JF, Skowronski AA, ..., Leibel RL, Loos RJ

Nat Commun 7 (-) 10494 [2016-02-01; online 2016-02-01]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Genetic associations at 53 loci highlight cell types and biological pathways relevant for kidney function.

Pattaro C, Teumer A, Gorski M, ..., Kao WH, Fox CS

Nat Commun 7 (1) 10023 [2016-01-21; online 2016-01-21]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Sixteen new lung function signals identified through 1000 Genomes Project reference panel imputation.

Soler Artigas M, Wain LV, Miller S, ..., Hall IP, Tobin MD

Nat Commun 6 (-) 8658 [2015-12-04; online 2015-12-04]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

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Structural insights into the DNA-binding specificity of E2F family transcription factors.

Morgunova E, Yin Y, Jolma A, ..., Nilsson L, Taipale J

Nat Commun 6 (1) 10050 [2015-12-03; online 2015-12-03]

Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)

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Meta-analysis identifies seven susceptibility loci involved in the atopic march.

Marenholz I, Esparza-Gordillo J, Rüschendorf F, ..., Henderson AJ, Lee YA

Nat Commun 6 (-) 8804 [2015-11-06; online 2015-11-06]

Mutation Analysis Facility (MAF)

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Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.

Stödberg T, McTague A, Ruiz AJ, ..., Wedell A, Kurian MA

Nat Commun 6 (-) 8038 [2015-09-03; online 2015-09-03]

Clinical Genomics Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

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Crystal structure, biochemical and cellular activities demonstrate separate functions of MTH1 and MTH2.

Carter M, Jemth AS, Hagenkort A, ..., Helleday T, Stenmark P

Nat Commun 6 (-) 7871 [2015-08-04; online 2015-08-04]

Protein Science Facility (PSF)

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Structural basis for cellobiose dehydrogenase action during oxidative cellulose degradation.

Tan TC, Kracher D, Gandini R, ..., Ludwig R, Divne C

Nat Commun 6 (-) 7542 [2015-07-07; online 2015-07-07]

Protein Science Facility (PSF)

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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]

Affinity Proteomics Uppsala [Service] PLA and Single Cell Proteomics [Service]

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Phasing of single DNA molecules by massively parallel barcoding.

Borgström E, Redin D, Lundin S, ..., Andersson AF, Ahmadian A

Nat Commun 6 (-) 7173 [2015-06-09; online 2015-06-09]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

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Evolutionary analysis of the female-specific avian W chromosome.

Smeds L, Warmuth V, Bolivar P, ..., Török J, Ellegren H

Nat Commun 6 (-) 7330 [2015-06-04; online 2015-06-04]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

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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

Nat Commun 6 (-) 5897 [2015-01-29; online 2015-01-29]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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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) National Genomics Infrastructure

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Biological interpretation of genome-wide association studies using predicted gene functions.

Pers TH, Karjalainen JM, Chan Y, ..., Hirschhorn JN, Franke L

Nat Commun 6 (-) 5890 [2015-01-19; online 2015-01-19]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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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 (NBIS) Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training

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Genomic identification and characterization of the pseudoautosomal region in highly differentiated avian sex chromosomes

Smeds L, Kawakami T, Burri R, ..., Uebbing S, Ellegren H

Nat Commun 5 (-) 5448 [2014-11-07; online 2014-11-07]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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Evidence that breast cancer risk at the 2q35 locus is mediated through IGFBP5 regulation.

Ghoussaini M, Edwards SL, Michailidou K, ..., Dunning AM, Australian Ovarian Cancer Management Group

Nat Commun 4 (1) 4999 [2014-09-23; online 2014-09-23]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

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The Glanville fritillary genome retains an ancient karyotype and reveals selective chromosomal fusions in Lepidoptera.

Ahola V, Lehtonen R, Somervuo P, ..., Frilander MJ, Hanski I

Nat Commun 5 (-) 4737 [2014-09-05; online 2014-09-05]

Karolinska High Throughput Center (KHTC)

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Strong effects of genetic and lifestyle factors on biomarker variation and use of personalized cutoffs.

Enroth S, Johansson A, Enroth SB, Gyllensten U

Nat Commun 5 (1) 4684 [2014-08-22; online 2014-08-22]

Affinity Proteomics Uppsala [Service] Clinical Biomarkers [Service] PLA and Single Cell Proteomics [Service]

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Sequential pH-driven dimerization and stabilization of the N-terminal domain enables rapid spider silk formation.

Kronqvist N, Otikovs M, Chmyrov V, ..., Jaudzems K, Johansson J

Nat Commun 5 (-) 3254 [2014-02-11; online 2014-02-11]

Fluorescence Correlation Spectroscopy [Collaborative] Integrated Microscopy Technologies Stockholm

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Metabolic enzyme expression highlights a key role for MTHFD2 and the mitochondrial folate pathway in cancer.

Nilsson R, Jain M, Madhusudhan N, ..., Asplund A, Mootha VK

Nat Commun 5 (-) 3128 [2014-01-24; online 2014-01-24]

Tissue Profiling

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Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J

Nat Commun 5 (-) 3083 [2014-01-15; online 2014-01-15]

Tissue Profiling

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Hydrogenosomes in the diplomonad Spironucleus salmonicida.

Jerlström-Hultqvist J, Einarsson E, Xu F, ..., Andersson JO, Svärd SG

Nat Commun 4 (-) 2493 [2013-09-18; online 2013-09-18]

Mass Spectrometry-based Proteomics, Uppsala

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Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.

Johansson HJ, Sanchez BC, Mundt F, ..., Linderholm BK, Lehtiö J

Nat Commun 4 (-) 2175 [2013-07-23; online 2013-07-23]

Drug Discovery and Development (DDD) [Collaborative]

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Symptomatic atherosclerosis is associated with an altered gut metagenome.

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Nat Commun 3 (-) 1245 [2012-12-06; online 2012-12-06]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

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Proteomic screen reveals Fbw7 as a modulator of the NF-κB pathway.

Arabi A, Ullah K, Branca RM, ..., Lehtiö J, Sangfelt O

Nat Commun 3 (-) 976 [2012-08-07; online 2012-08-07]

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