Nat Commun

Integrative discovery of treatments for high-risk neuroblastoma.

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

pmc

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

Genome Engineering Zebrafish [Service]

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

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

pmc

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]

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

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

pmc

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]

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) - [2019-12-00; online 2019-03-06]

Swedish NMR Centre (SNC) [Collaborative]

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 [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service]

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) - [2019-12-00; online 2019-12-16]

Chemical Proteomics [Technology development]

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

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

GEO

Nat Commun 10 (1) - [2019-12-00; online 2019-02-04]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] In Situ Sequencing (ISS) [Service]

Breast cancer quantitative proteome and proteogenomic landscape

Johansson HJ, None , Socciarelli F, ..., Børresen-Dale AL, Lehtiö J

Nat Commun 10 (1) - [2019-12-00; online 2019-04-08]

Advanced Light Microscopy (ALM) [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Proteogenomics [Technology development]

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 Support and Infrastructure [Technology development] Bioinformatics Support, Infrastructure and Training [Technology development]

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) - [2019-12-00; online 2019-04-03]

Clinical Genomics Lund [Service] Proteogenomics [Technology development]

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]

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

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) - [2019-12-00; online 2019-07-11]

Cryo-EM [Service]

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) - [2019-12-00; online 2019-04-23]

In Situ Sequencing (ISS) [Service]

Programmed DNA elimination of germline development genes in songbirds.

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

pmc

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]

Associations of autozygosity with a broad range of human phenotypes.

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

pmc

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

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

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

pmc

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]

Microbe-host interplay in atopic dermatitis and psoriasis.

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

pmc

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

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

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

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

pmc

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

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

Protein prenylation restrains innate immunity by inhibiting Rac1 effector interactions.

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

pmc

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

Glycoproteomics [Service]

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

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

pmc

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

PLA and Single Cell Proteomics [Technology development]

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

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

pmc

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]

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

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

pmc

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

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

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

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

pmc

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]

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

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

pmc

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

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

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

pmc

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

Targeted and Structural Proteomics [Technology development]

The viral protein corona directs viral pathogenesis and amyloid aggregation.

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

pmc

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

Proteogenomics [Technology development]

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

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

pmc

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

Targeted and Structural Proteomics [Collaborative]

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

pmc

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]

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

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

pmc

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

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

Rapid determination of quaternary protein structures in complex biological samples.

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

pmc

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

Targeted and Structural Proteomics [Technology development]

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

Karkman A, Pärnänen K, Larsson DGJ

pmc

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]

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

pmc

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

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

Targeted NUDT5 inhibitors block hormone signaling in breast cancer cells

Page BDG, Valerie NCK, Wright RHG, ..., Beato M, Helleday T

PDB PDB

Nat Commun 9 (1) - [2018-12-00; online 2018-01-17]

Bioinformatics Compute and Storage [Service] Drug Discovery and Development (DDD) [Service] Protein Science Facility (PSF) [Service]

Targeting PFKFB3 radiosensitizes cancer cells and suppresses homologous recombination

Gustafsson NMS, Färnegårdh K, Bonagas N, ..., Olin T, Helleday T

PDB

Nat Commun 9 (1) - [2018-12-00; online 2018-09-24]

Bioinformatics Compute and Storage [Service] Chemical Biology Consortium Sweden (CBCS) [Service] Drug Discovery and Development (DDD) [Collaborative]

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]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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) - [2018-12-00; online 2018-06-07]

Protein Science Facility (PSF) [Service]

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) - [2018-12-00; online 2018-04-12]

Intelligent image-based in situ single-cell isolation

Brasko C, Smith K, Molnar C, ..., Tamas G, Horvath P

Nat Commun 9 (1) - [2018-12-00; online 2018-01-15]

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

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

PDB PDB PDB PDB PDB

Nat Commun 9 (1) - [2018-12-00; online 2018-09-17]

Bioinformatics Compute and Storage [Service] Protein Science Facility (PSF) [Service]

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) - [2018-12-00; online 2018-03-02]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Proteogenomics [Technology development]

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

GEO

Nat Commun 9 (1) - [2018-12-00; online 2018-03-26]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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 Uppsala [Service]

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 Compute and Storage [Service] Drug Discovery and Development (DDD) [Service]

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) - [2018-12-00; online 2018-12-04]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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

PDB GEO

Nat Commun 9 (1) - [2018-12-00; online 2018-03-16]

Bioinformatics Compute and Storage [Service] Chemical Biology Consortium Sweden (CBCS) [Collaborative] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]

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) - [2018-12-00; online 2018-04-12]

Convergent evolution of complex genomic rearrangements in two fungal meiotic drive elements

Svedberg J, Hosseini S, Chen J, ..., Lascoux M, Johannesson H

BioProject

Nat Commun 9 (1) - [2018-12-00; online 2018-10-12]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Enhanced validation of antibodies for research applications.

Edfors F, Hober A, Linderbäck K, ..., Forsström B, Uhlen M

pmc BioProject BioProject

Nat Commun 9 (1) 4130 [2018-10-08; online 2018-10-08]

Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Neuronal heterogeneity and stereotyped connectivity in the auditory afferent system.

Petitpré C, Wu H, Sharma A, ..., Hadjab S, Lallemend F

pmc GEO

Nat Commun 9 (1) 3691 [2018-09-12; online 2018-09-12]

Bioinformatics Compute and Storage [Service] Eukaryotic Single Cell Genomics (ESCG) [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Contribution of allelic imbalance to colorectal cancer.

Palin K, Pitkänen E, Turunen M, ..., Taipale J, Aaltonen LA

pmc

Nat Commun 9 (1) 3664 [2018-09-10; online 2018-09-10]

Bioinformatics Compute and Storage [Service] High-throughput Genome Engineering (HTGE) [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

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

pmc

Nat Commun 9 (1) 2762 [2018-07-17; online 2018-07-17]

Targeted and Structural Proteomics [Service]

Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity.

Berglund E, Maaskola J, Schultz N, ..., Helleday T, Lundeberg J

pmc

Nat Commun 9 (1) 2419 [2018-06-20; online 2018-06-20]

Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Study of 300,486 individuals identifies 148 independent genetic loci influencing general cognitive function.

Davies G, Lam M, Harris SE, ..., Lencz T, Deary IJ

pmc

Nat Commun 9 (1) 2098 [2018-05-29; online 2018-05-29]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Repeated evolution of self-compatibility for reproductive assurance.

Nieuwenhuis BPS, Tusso S, Bjerling P, ..., Wolf JBW, Immler S

pmc

Nat Commun 9 (1) 1639 [2018-04-24; online 2018-04-24]

Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Genome-wide analysis yields new loci associating with aortic valve stenosis.

Helgadottir A, Thorleifsson G, Gretarsdottir S, ..., Holm H, Stefansson K

pmc

Nat Commun 9 (1) 987 [2018-03-07; online 2018-03-07]

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

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

pmc

Nat Commun 9 (1) 260 [2018-01-17; online 2018-01-17]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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]

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]

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]

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]

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]

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) - [2017-12-00; online 2017-07-19]

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

The cryo-EM structure of hibernating 100S ribosome dimer from pathogenic Staphylococcus aureus

Matzov D, Aibara S, Basu A, ..., Amunts A, Yonath AE

PDB PDB

Nat Commun 8 (1) - [2017-12-00; online 2017-09-28]

Cryo-EM [Service]

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]

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

Reading and editing the Pleurodeles waltl genome reveals novel features of tetrapod regeneration

Elewa A, Wang H, Talavera-López C, ..., Andersson B, Simon A

SRA BioProject

Nat Commun 8 (1) - [2017-12-00; online 2017-12-22]

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]

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] Drug Discovery and Development (DDD) [Collaborative] Protein Science Facility (PSF) [Service]

Microbial mineralization of cellulose in frozen soils

Segura JH, Nilsson MB, Haei M, ..., Schleucher J, Öquist MG

Nat Commun 8 (1) - [2017-12-00; online 2017-10-27]

Swedish NMR Centre (SNC) [Collaborative]

Efficient protein production by yeast requires global tuning of metabolism.

Huang M, Bao J, Hallström BM, Petranovic D, Nielsen J

pmc

Nat Commun 8 (1) 1131 [2017-10-25; online 2017-10-25]

Bioinformatics Compute and Storage [Service] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Synthetic lethality between androgen receptor signalling and the PARP pathway in prostate cancer.

Asim M, Tarish F, Zecchini HI, ..., Neal D, Helleday T

pmc

Nat Commun 8 (1) 374 [2017-08-29; online 2017-08-29]

Advanced FISH Technologies [Service]

Transancestral mapping and genetic load in systemic lupus erythematosus.

Langefeld CD, Ainsworth HC, Cunninghame Graham DS, ..., Gaffney PM, Vyse TJ

pmc

Nat Commun 8 (-) 16021 [2017-07-17; online 2017-07-17]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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

pmc

Nat Commun 8 (-) 15805 [2017-06-14; online 2017-06-14]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Expression of CD226 is associated to but not required for NK cell education.

Wagner AK, Kadri N, Snäll J, ..., Kärre K, Chambers BJ

pmc

Nat Commun 8 (-) 15627 [2017-05-31; online 2017-05-31]

Genome-wide meta-analysis of 241,258 adults accounting for smoking behaviour identifies novel loci for obesity traits

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]

Light-sensing via hydrogen peroxide and a peroxiredoxin

Bodvard K, Peeters K, Roger F, ..., Käll M, Molin M

Nat Commun 8 (1) - [2017-04-00; online 2017-03-24]

Centre for Cellular Imaging [Service]

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]

Clonal reversal of ageing-associated stem cell lineage bias via a pluripotent intermediate.

Wahlestedt M, Erlandsson E, Kristiansen T, ..., Martin-Gonzalez J, Bryder D

pmc

Nat Commun 8 (-) 14533 [2017-02-22; online 2017-02-22]

Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Novel genetic loci associated with hippocampal volume.

Hibar DP, Adams HH, Jahanshad N, ..., Thompson PM, Ikram MA

pmc

Nat Commun 8 (-) 13624 [2017-01-18; online 2017-01-18]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Production of individualized V gene databases reveals high levels of immunoglobulin genetic diversity.

Corcoran MM, Phad GE, Néstor VB, ..., Martin M, Karlsson Hedestam GB

pmc

Nat Commun 7 (-) 13642 [2016-12-20; online 2016-12-20]

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

An oxygen-sensitive toxin-antitoxin system.

Marimon O, Teixeira JM, Cordeiro TN, ..., Wood TK, Pons M

pmc

Nat Commun 7 (-) 13634 [2016-12-08; online 2016-12-08]

Swedish NMR Centre (SNC) [Collaborative]

Evolution of heterogeneous genome differentiation across multiple contact zones in a crow species complex

Vijay N, Bossu CM, Poelstra JW, ..., Kryukov AP, Wolf JBW

Nat Commun 7 (-) 13195 [2016-10-31; online 2016-10-31]

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

Massive and parallel expression profiling using microarrayed single-cell sequencing.

Vickovic S, Ståhl PL, Salmén F, ..., Frisén J, Lundeberg J

pmc

Nat Commun 7 (-) 13182 [2016-10-14; online 2016-10-14]

Bioinformatics Compute and Storage [Service] Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Stockholm (Genomics Applications) [Service] NGI Stockholm (Genomics Production) [Service] National Genomics Infrastructure [Service]

Reconstructing a hydrogen-driven microbial metabolic network in Opalinus Clay rock.

Bagnoud A, Chourey K, Hettich RL, ..., Schwyn B, Bernier-Latmani R

pmc

Nat Commun 7 (-) 12770 [2016-10-14; online 2016-10-14]

Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative]

Feralisation targets different genomic loci to domestication in the chicken.

Johnsson M, Gering E, Willis P, ..., Friberg U, Wright D

pmc

Nat Commun 7 (-) 12950 [2016-09-30; online 2016-09-30]

Bioinformatics Compute and Storage [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

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 Gothenburg [Collaborative]

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

pmc

Nat Commun 7 (-) 12321 [2016-08-05; online 2016-08-05]

Bioinformatics and Expression Analysis (BEA) [Service]

Integrative functional genomics identifies regulatory mechanisms at coronary artery disease loci.

Miller CL, Pjanic M, Wang T, ..., Björkegren JL, Quertermous T

pmc

Nat Commun 7 (-) 12092 [2016-07-08; online 2016-07-08]

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

Genome-wide association study identifies multiple susceptibility loci for multiple myeloma.

Mitchell JS, Li N, Weinhold N, ..., Nilsson B, Houlston RS

pmc

Nat Commun 7 (-) 12050 [2016-07-01; online 2016-07-01]

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

Identification of ETV6-RUNX1-like and DUX4-rearranged subtypes in paediatric B-cell precursor acute lymphoblastic leukaemia.

Lilljebjörn H, Henningsson R, Hyrenius-Wittsten A, ..., Fontes M, Fioretos T

pmc

Nat Commun 7 (-) 11790 [2016-06-06; online 2016-06-06]

Clinical Genomics Lund [Collaborative]

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

pmc

Nat Commun 7 (-) 11567 [2016-05-16; online 2016-05-16]

Targeted and Structural Proteomics [Service]

A combined computational and structural model of the full-length human prolactin receptor.

Bugge K, Papaleo E, Haxholm GW, ..., Lindorff-Larsen K, Kragelund BB

pmc

Nat Commun 7 (-) 11578 [2016-05-13; online 2016-05-13]

Swedish NMR Centre (SNC) [Service]

Hypoxia regulates global membrane protein endocytosis through caveolin-1 in cancer cells.

Bourseau-Guilmain E, Menard JA, Lindqvist E, ..., Welinder C, Belting M

pmc

Nat Commun 7 (-) 11371 [2016-04-20; online 2016-04-20]

Targeted and Structural Proteomics [Service]

CETSA screening identifies known and novel thymidylate synthase inhibitors and slow intracellular activation of 5-fluorouracil.

Almqvist H, Axelsson H, Jafari R, ..., Lundbäck T, Nordlund P

pmc

Nat Commun 7 (-) 11040 [2016-03-24; online 2016-03-24]

Chemical Biology Consortium Sweden (CBCS) [Collaborative] Protein Science Facility (PSF) [Service]

VEGFR2 pY949 signalling regulates adherens junction integrity and metastatic spread.

Li X, Padhan N, Sjöström EO, ..., Jansson L, Claesson-Welsh L

pmc

Nat Commun 7 (-) 11017 [2016-03-23; online 2016-03-23]

Bioinformatics Compute and Storage [Service] Bioinformatics Support and Infrastructure [Service] Bioinformatics Support, Infrastructure and Training [Service] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

Genome-wide meta-analysis uncovers novel loci influencing circulating leptin levels.

Kilpeläinen TO, Carli JF, Skowronski AA, ..., Leibel RL, Loos RJ

pmc

Nat Commun 7 (-) 10494 [2016-02-01; online 2016-02-01]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

New loci for body fat percentage reveal link between adiposity and cardiometabolic disease risk.

Lu Y, Day FR, Gustafsson S, ..., Kilpeläinen TO, Loos RJ

pmc

Nat Commun 7 (-) 10495 [2016-02-01; online 2016-02-01]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

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

pmc mid

Nat Commun 7 (-) 10023 [2016-01-21; online 2016-01-21]

Bioinformatics Compute and Storage [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

Sixteen new lung function signals identified through 1000 Genomes Project reference panel imputation.

Soler Artigas M, Wain LV, Miller S, ..., Hall IP, Tobin MD

pmc

Nat Commun 6 (-) 8658 [2015-12-04; online 2015-12-04]

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

Structural insights into the DNA-binding specificity of E2F family transcription factors.

Morgunova E, Yin Y, Jolma A, ..., Nilsson L, Taipale J

pmc BioProject PDB

Nat Commun 6 (-) 10050 [2015-12-03; online 2015-12-03]

Karolinska High Throughput Center (KHTC) Protein Science Facility (PSF)

Meta-analysis identifies seven susceptibility loci involved in the atopic march.

Marenholz I, Esparza-Gordillo J, Rüschendorf F, ..., Henderson AJ, Lee YA

pmc

Nat Commun 6 (-) 8804 [2015-11-06; online 2015-11-06]

Mutation Analysis Facility (MAF)

Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.

Stödberg T, McTague A, Ruiz AJ, ..., Wedell A, Kurian MA

pmc

Nat Commun 6 (-) 8038 [2015-09-03; online 2015-09-03]

Clinical Genomics Stockholm NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

Crystal structure, biochemical and cellular activities demonstrate separate functions of MTH1 and MTH2.

Carter M, Jemth AS, Hagenkort A, ..., Helleday T, Stenmark P

pmc

Nat Commun 6 (-) 7871 [2015-08-04; online 2015-08-04]

Protein Science Facility (PSF)

Structural basis for cellobiose dehydrogenase action during oxidative cellulose degradation.

Tan TC, Kracher D, Gandini R, ..., Ludwig R, Divne C

pmc PDB PDB PDB PDB PDB PDB

Nat Commun 6 (-) 7542 [2015-07-07; online 2015-07-07]

Protein Science Facility (PSF)

Proximity-dependent initiation of hybridization chain reaction

Koos B, Cane G, Grannas K, ..., Kamali-Moghaddam M, Söderberg O

Nat Commun 6 (-) 7294 [2015-06-12; online 2015-06-12]

PLA and Single Cell Proteomics [Technology development]

Phasing of single DNA molecules by massively parallel barcoding.

Borgström E, Redin D, Lundin S, ..., Andersson AF, Ahmadian A

pmc SRA

Nat Commun 6 (-) 7173 [2015-06-09; online 2015-06-09]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

Evolutionary analysis of the female-specific avian W chromosome.

Smeds L, Warmuth V, Bolivar P, ..., Török J, Ellegren H

pmc mid BioProject

Nat Commun 6 (-) 7330 [2015-06-04; online 2015-06-04]

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

Low-frequency and rare exome chip variants associate with fasting glucose and type 2 diabetes susceptibility.

Wessel J, Chu AY, Willems SM, ..., Scott RA, Goodarzi MO

pmc mid

Nat Commun 6 (-) 5897 [2015-01-29; online 2015-01-29]

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

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

Biological interpretation of genome-wide association studies using predicted gene functions.

Pers TH, Karjalainen JM, Chan Y, ..., Hirschhorn JN, Franke L

pmc mid

Nat Commun 6 (-) 5890 [2015-01-19; online 2015-01-19]

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

The statistical geometry of transcriptome divergence in cell-type evolution and cancer.

Liang C, FANTOM Consortium , Forrest AR, Wagner GP

Nat Commun 6 (-) 6066 [2015-01-14; online 2015-01-14]

Bioinformatics Support and Infrastructure Bioinformatics Support, Infrastructure and Training

Strong effects of genetic and lifestyle factors on biomarker variation and use of personalized cutoffs

Enroth S, Johansson Å, Enroth SB, Gyllensten U

Nat Commun 5 (1) - [2014-12-00; online 2014-08-22]

Clinical Biomarkers [Service]

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]

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

pmc mid

Nat Commun 4 (-) 4999 [2014-09-23; online 2014-09-23]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure

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

pmc mid GENBANK

Nat Commun 5 (-) 4737 [2014-09-05; online 2014-09-05]

Karolinska High Throughput Center (KHTC)

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]

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

pmc mid

Nat Commun 5 (-) 3128 [2014-01-24; online 2014-01-24]

Tissue Profiling

Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease.

Mardinoglu A, Agren R, Kampf C, ..., Uhlen M, Nielsen J

Nat Commun 5 (-) 3083 [2014-01-15; online 2014-01-15]

Tissue Profiling

Hydrogenosomes in the diplomonad Spironucleus salmonicida.

Jerlström-Hultqvist J, Einarsson E, Xu F, ..., Andersson JO, Svärd SG

pmc

Nat Commun 4 (-) 2493 [2013-09-18; online 2013-09-18]

Mass Spectrometry-based Proteomics, Uppsala

Retinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer.

Johansson HJ, Sanchez BC, Mundt F, ..., Linderholm BK, Lehtiö J

pmc

Nat Commun 4 (-) 2175 [2013-07-23; online 2013-07-23]

Drug Discovery and Development (DDD) [Collaborative]

Symptomatic atherosclerosis is associated with an altered gut metagenome.

Karlsson FH, Fåk F, Nookaew I, ..., Bäckhed F, Nielsen J

pmc

Nat Commun 3 (-) 1245 [2012-12-06; online 2012-12-06]

NGI Stockholm (Genomics Applications) NGI Stockholm (Genomics Production) National Genomics Infrastructure