Showing 24 of 24 results

• Publication

  released

  Multimodal cell atlas of the ageing human skeletal muscle

  Yiwei Lai, Ignacio Ramírez-Pardo, Joan Isern, et al.

  Nature. 2024-04-22;

  • PMID:38649488
  • doi:10.1038/s41586-024-07348-6

  Data summary: All raw data have been deposited to CNGB Nucleotide Sequence Archive (CNP0004394, CNP0004395,…See more

  URL: https://db.cngb.org/cdcp/hlma/

  Data summary: All processed data are available at the Human Muscle Ageing Cell Atlas database.

  URL: https://github.com/MGI-tech-bioinformatics/DNBelab_C_Series_HT_scRNA-analysis-software

  Data summary: All data were analysed using standard programs and packages, as described in the Methods. Custom…See more

  URL: https://github.com/123anjuan/HMA

  Data summary: Analysis of the generated data82.

• Publication

  released

  An integrated map of cell type-specific gene expression in pancreatic islets

  Ruth M Elgamal, Parul Kudtarkar, Rebecca L Melton, et al.

  Diabetes. 2023-15-08;(db230130)

  • PMID:37582230
  • doi:10.2337/db23-0130

• Publication

  released

  Deconstruction of rheumatoid arthritis synovium defines inflammatory subtypes

  Fan Zhang, Anna Helena Jonsson, Aparna Nathan, et al.

  Nature. 2023-11-08;623(7987):616-624.

  • doi:10.1038/s41586-023-06708-y
  • PMID:37938773
  • PMCID:PMC10651487

  URL: https://doi.org/10.7303/syn52297840

  Data summary: CITE-seq single-cell expression matrices and sequencing and bulk expression matrices are available…See more

  URL: https://arkportal.synapse.org/Explore/Datasets/DetailsPage?id=syn52297840

  Data summary: Associated genotype and clinical data are available through the Arthritis and Autoimmune and…See more

  URL: https://immunogenomics.io/ampra2/

  Data summary: A cell browser website is available to visualize our data and results.

  Data summary: AMP Phase 1 single-cell data from ref. 8 are available on Immport (SDY998). PEAC clinical trial…See more

  URL: https://github.com/Immunogenomics/RA_Atlas_CITEseq/

  Data summary: The source code for the analyses is available at GitHub

  URL: https://zenodo.org/record/8118599

  Data summary: The source code for the analyses is available at zenodo

• Publication

  released

  Cohesin-mediated loop anchors confine the locations of human replication origins

  Daniel J Emerson # 1 2 3 , Peiyao A Zhao # 4 , Ashley L Cook # 1 2 3 , et al.

  Nature. 2022-06-08;606(7915):812-819.

  • doi:10.1038/s41586-022-04803-0
  • PMID:35676475
  • PMCID:PMC9217744

  Data summary: All new raw data created in this manuscript have been uploaded to the 4D Nucleome portal and will…See more

• Publication

  released

  Human and rat skeletal muscle single-nuclei multi-omic integrative analyses nominate causal cell types, regulatory elements, and SNPs for complex traits

  Peter Orchard, Nandini Manickam, Christa Ventresca, et al.

  Genome Res. 2021-11-23;31(12):2258-2275.

  • doi:10.1101/gr.268482.120
  • PMID:34815310
  • PMCID:PMC8647829

  URL: https://zenodo.org/search?page=1&size=20&q=5009200

  URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE178735

• Publication

  released

  Systematic analysis of binding of transcription factors to noncoding variants

  Jian Yan, Yunjiang Qiu, André M. Ribeiro dos Santos, et al.

  Nature. 2021-1-27;

  • doi:10.1038/s41586-021-03211-0
  • PMID:33505025

• Publication

  released

  Large-scale genetic association and single cell accessible chromatin mapping defines cell type-specific mechanisms of type 1 diabetes risk

  Joshua Chiou, Ryan J Geusz, Mei-Lin Okino, et al.

  Nature. 2021-05-19;594(7863):398-402.

  • doi:10.1038/s41586-021-03552-w
  • PMID:34012112

• Publication

  released

  A Transcription Start Site Map in Human Pancreatic Islets Reveals Functional Regulatory Signatures

  Arushi Varshney, Yasuhiro Kyono, Venkateswaran Ramamoorthi Elangovan, et al.

  Diabetes. 2021-04-13;(db201087)

  • doi:10.2337/db20-1087
  • PMID:33849996

• Publication

  released

  Genome-wide enhancer maps link risk variants to disease genes

  Joseph Nasser, Drew T. Bergman, Charles P. Fulco, et al.

  Nature. 2021-04-07;593:238–243.

  • doi:10.1038/s41586-021-03446-x

• Publication

  released

  Expanded encyclopaedias of DNA elements in the human and mouse genomes

  The ENCODE Project Consortium, Jill E. Moore, Michael J. Purcaro, et al.

  Nature. 2020-07-29;583(7818):699–710.

  • doi:10.1038/s41586-020-2493-4
  • PMID:32728249
  • PMCID:PMC7410828

• Publication

  released

  Index and biological spectrum of human DNase I hypersensitive sites

  Wouter Meuleman, Alexander Muratov, Eric Rynes, et al.

  Nature. 2020-07-29;584(7820):244–251.

  • doi:10.1038/s41586-020-2559-3
  • PMCID:PMC7422677
  • PMID:32728217

• Publication

  released

  Charting cellular identity during human in vitro β-cell differentiation

  Adrian Veres, Aubrey L Faust, Henry L Bushnell, et al.

  Nature. 2019-05-01;569(7756):368-373.

  • doi:10.1038/s41586-019-1168-5
  • PMCID:PMC6903417
  • PMID:31068696

• Publication

  released

  Type 2 Diabetes–Associated Genetic Variants Regulate Chromatin Accessibility in Human Islets

  Shubham Khetan, Romy Kursawe, Ahrim Youn, et al.

  Diabetes. 2018-11-01;67:2466–2477.

  • doi:10.2337/db18-0393
  • PMID:30181159

  URL: https://diabetes.diabetesjournals.org/content/67/11/2466

  Data summary: The accession number for human islet ATAC-seq and RNA-seq data reported in this article is NCBI…See more

• Publication

  released

  High-throughput characterization of genetic effects on DNA-protein binding and gene transcription

  Cynthia A Kalita, Christopher D Brown, Andrew Freiman, et al.

  Genome Res. 2018-09-25;28(11):1701-1708.

  • doi:10.1101/gr.237354.118
  • PMID:30254052
  • PMCID:PMC6211638

• Publication

  released

  Glucose-Induced Changes in Gene Expression in Human Pancreatic Islets: Causes or Consequences of Chronic Hyperglycemia

  Emilia Ottosson-Laakso, Ulrika Krus, Petter Storm, et al.

  Diabetes. 2017-12-01;66(12):3013-3028.

  • doi:10.2337/db17-0311
  • PMID:28882899

• Publication

  released

  Disease-specific biases in alternative splicing and tissue-specific dysregulation revealed by multitissue profiling of lymphocyte gene expression in type 1 diabetes

  Jeremy R B Newman, Ana Conesa, Matthew Mika, et al.

  Genome Res. 2017-11-01;27(11):1807-1815.

  • doi:10.1101/gr.217984.116
  • PMCID:PMC5668939
  • PMID:29025893

• Publication

  released

  A Loss-of-Function Splice Acceptor Variant in IGF2 Is Protective for Type 2 Diabetes

  Josep M Mercader, Rachel G Liao, Avery D Bell, et al.

  Diabetes. 2017-08-24;66(11):2903-2914.

  • doi:10.2337/db17-0187
  • PMID:28838971
  • PMCID:PMC5652606

• Publication

  released

  Single-Cell Transcriptomics of the Human Endocrine Pancreas

  Yue J. Wang, Jonathan Schug, Kyoung-Jae Won, et al.

  Diabetes. 2016-10-01;65(10):3028-38.

  • doi:10.2337/db16-0405
  • PMID:27364731

• Publication

  released

  Integrative analysis of haplotype-resolved epigenomes across human tissues

  Danny Leung, Inkyung Jung, Nisha Rajagopal, et al.

  Nature. 2015-02-19;518(7539):350-354.

  • doi:10.1038/nature14217
  • PMID:25693566
  • PMCID:PMC4449149

• Publication

  released

  A common Greenlandic TBC1D4 variant confers muscle insulin resistance and type 2 diabetes

  Ida Moltke, Niels Grarup, Marit E Jørgensen, et al.

  Nature. 2014-08-14;512(7513):190-3.

  • doi:10.1038/nature13425
  • PMID:25043022

• Publication

  released

  Transcriptome and genome sequencing uncovers functional variation in humans

  Tuuli Lappalainen, Michael Sammeth, Marc R Friedländer, et al.

  Nature. 2013-09-26;501(7468):506-11.

  • doi:10.1038/nature12531
  • PMID:24037378
  • PMCID:PMC3918453

• Publication

  released

  Biological, clinical and population relevance of 95 loci for blood lipids

  Tanya M Teslovich, Kiran Musunuru, Albert V Smith, et al.

  Nature. 2010-08-05;466(7307):707-13.

  • doi:10.1038/nature09270
  • PMID:20686565
  • PMCID:PMC3039276

  URL: http://csg.sph.umich.edu/willer/public/lipids2010/

• Publication

  released

  Parental origin of sequence variants associated with complex diseases

  Augustine Kong, Valgerdur Steinthorsdottir, Gisli Masson, et al.

  Nature. 2009-12-17;462(7275):868-74.

  • doi:10.1038/nature08625
  • PMID:20016592
  • PMCID:PMC3746295

• Publication

  released

  A Whole-Genome RNA Interference Screen Reveals a Role for Spry2 in Insulin Transcription and the Unfolded Protein Response

  Zachary Pappalardo, Deeksha Gambhir Chopra, Thomas G Hennings, et al.

  Diabetes. 2017-02-28;66(6):1703-1712.

  • doi:10.2337/db16-0962
  • PMID:28246293
  • PMCID:PMC5440024