Showing 25 of 138 results

• 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

  The developmental impacts of natural selection on human pelvic morphology

  Mariel Young, Daniel Richard, Mark Grabowski, et al.

  Sci Adv. 2022-08-19;8(33):eabq4884.

  • doi:10.1126/sciadv.abq4884
  • PMID:35977020
  • PMCID:PMC9385149

• 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

  Single-nucleus chromatin accessibility profiling highlights regulatory mechanisms of coronary artery disease risk

  Adam W Turner, Shengen Shawn Hu, Jose Verdezoto Mosquera, et al.

  Nat Genet.. 2022-06-01;54(6):804-816.

  • doi:10.1038/s41588-022-01069-0
  • PMID:35590109
  • PMCID:PMC9203933

  File format: TSV

  URL: https://static-content.springer.com/esm/art%3A10.1038%2Fs41588-022-01069-0/MediaObjects/41588_2022_1069_MOESM10_ESM.xlsx

  Data summary: Supplementary Data 6 Chromatin accessibility QTLs within individual coronary artery cell types,…See more

  File format: TSV

  URL: https://static-content.springer.com/esm/art%3A10.1038%2Fs41588-022-01069-0/MediaObjects/41588_2022_1069_MOESM11_ESM.xlsx

  Data summary: Supplementary Data 7 Chromatin accessibility QTLs from bulk coronary artery ATAC-seq data,…See more

• Publication

  released

  Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells

  Kousuke Mouri, Michael H. Guo, Carl G. de Boer, et al.

  Nat Genet. 2022-05-01;54(5):603-612.

  • doi:10.1038/s41588-022-01056-5
  • PMID:35513721

• Publication

  released

  A chromatin accessibility landscape during early adipogenesis of human adipose-derived stem cells

  Sen Li, Xiaolin Zong, Liheng Zhang, et al.

  Adipocyte. 2022-04-17;11(1):239-249.

  • doi:10.1080/21623945.2022.2063015
  • PMID:35435105
  • PMCID:PMC9037556

• Publication

  released

  Cryomilling Tethered Chromatin Conformation Capture reveal new insights into inter-chromosomal interactions

  Jiang Xu, Sanjeev Kumar, Nan Hua, et al.

  bioRxiv. 2022-02-12;

  • doi:10.1101/2022.02.03.478915

• Publication

  released

  Cis-regulatory architecture of human ESC-derived hypothalamic neuron differentiation aids in variant-to-gene mapping of relevant complex traits

  Matthew C. Pahl, Claudia A. Doege, Kenyaita M. Hodge, et al.

  Nat Commun. 2021-11-19;12(1):6749.

  • doi:10.1038/s41467-021-27001-4
  • PMID:34799566
  • PMCID:PMC8604959

• Publication

  released

  Joint disease-specificity at the regulatory base-pair level

  Pushpanathan Muthuirulan, Dewei Zhao, Mariel Young, et al.

  Nat Commun. 2021-07-06;12(1):4161.

  • doi:10.1038/s41467-021-24345-9
  • PMID:34230488
  • PMCID:PMC8260791

• Publication

  released

  Genetic effects on liver chromatin accessibility identify disease regulatory variants

  Kevin W Currin, Michael R Erdos, Narisu Narisu, et al.

  Am J Hum Genet.. 2021-05-20;S0002-9297(21):00185-3.

  • doi:10.1016/j.ajhg.2021.05.001
  • PMID:34038741
  • PMCID:PMC8323023

• Publication

  released

  Integrative analysis of liver-specific non-coding regulatory SNPs associated with the risk of coronary artery disease

  Ilakya Selvarajan, Anu Toropainen, Kristina M Garske, et al.

  Am J Hum Genet. 2021-03-04;108(3):411-430.

  • doi:10.1016/j.ajhg.2021.02.006
  • PMID:33626337
  • PMCID:PMC8008493

• Publication

  released

  A molecular quantitative trait locus map for osteoarthritis

  Julia Steinberg, Lorraine Southam, Theodoros I. Roumeliotis, et al.

  Nature Communications. 2021-02-26;12(1):1309.

  • doi:10.1038/s41467-021-21593-7
  • PMID:33637762

  URL: https://msk.hugeamp.org/downloads.html

  URL: https://hmgubox.helmholtz-muenchen.de/d/fc1fcf65a6724152b7f9/

• Publication

  released

  Liquid chromatin Hi-C characterizes compartment-dependent chromatin interaction dynamics

  Houda Belaghzal, Tyler Borrman, Andrew D Stephens, et al.

  Nat Genet. 2021-02-11;53(3):367-378.

  • doi:10.1038/s41588-021-00784-4
  • PMID:33574602
  • PMCID:PMC7946813

  Data summary: All sequencing data have been submitted to a public data repository (GEO; accession number…See more

• Publication

  released

  Regulatory genomic circuitry of human disease loci by integrative epigenomics

  Carles A Boix, Benjamin T James, Yongjin P Park, et al.

  Nature. 2021-02-03;590(7845):300-307.

  • doi:10.1038/s41586-020-03145-z
  • PMID:33536621
  • PMCID:PMC7875769

• Publication

  released

  Integration of genomics and transcriptomics predicts diabetic retinopathy susceptibility genes

  Andrew D Skol, Segun C Jung, Ana Marija Sokovic, et al.

  eLife. 2020-11-09;:e59980.

  • doi:10.7554/eLife.59980
  • PMCID:PMC7728435
  • PMID:33164750

  URL: https://datadryad.org/stash/dataset/doi:10.5061/dryad.zkh18938j

• Publication

  released

  Common schizophrenia risk variants are enriched in open chromatin regions of human glutamatergic neurons

  Mads E. Hauberg, Jordi Creus-Muncunill, Jaroslav Bendl, et al.

  Nat Commun. 2020-11-04;11(1):5581.

  • doi:10.1038/s41467-020-19319-2
  • PMID:33149216
  • PMCID:PMC7643171

• Publication

  released

  Genetic variant effects on gene expression in human pancreatic islets and their implications for T2D

  Ana Viñuela, Arushi Varshney, Martijn van de Bunt, et al.

  Nat Commun. 2020-09-30;11(1):4912.

  • doi:10.1038/s41467-020-18581-8
  • PMID:32999275
  • PMCID:PMC7528108

  URL: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7528108/

• 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

  An integrated multi-omics approach identifies the landscape of interferon-α-mediated responses of human pancreatic beta cells

  Maikel L. Colli, Mireia Ramos-Rodríguez, Ernesto S. Nakayasu, et al.

  Nature Communications. 2020-05-22;11(1):2584.

  • doi:10.1038/s41467-020-16327-0
  • PMID:32444635
  • PMCID:PMC7244579

• Publication

  released

  Characterisation of genetic regulatory effects for osteoporosis risk variants in human osteoclasts

  Benjamin H. Mullin, Jennifer Tickner, Kun Zhu, et al.

  Genome Biology. 2020-03-26;20(1):80.

  • PMID:32216834
  • PMCID:PMC7098081
  • doi:10.1186/s13059-020-01997-2

  URL: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-020-01997-2

• Publication

  released

  Landscape of stimulation-responsive chromatin across diverse human immune cells

  Diego Calderon, Michelle L. T. Nguyen, Anja Mezger, et al.

  Nature Genetics. 2019-9-30;51:1494–1505.

  • doi:10.1038/s41588-019-0505-9
  • PMID:31570894
  • PMCID:PMC6858557

• Publication

  released

  Chromatin activity at GWAS loci identifies T cell states driving complex immune diseases

  Blagoje Soskic, Eddie Cano-Gamez, Deborah J. Smyth, et al.

  Nature Genetics. 2019-9-23;51:1486–1493.

  • doi:10.1038/s41588-019-0493-9
  • PMCID:PMC6872452
  • PMID:31548716

• Publication

  released

  Epigenetic Analyses of Human Left Atrial Tissue Identifies Gene Networks Underlying Atrial Fibrillation

  Amelia W Hall, Nathan R Tucker, Mark Chaffin, et al.

  Circ Genom Precis Med. 2019-11-11;13(6):e003085.

  • doi:10.1161/CIRCGEN.120.003085
  • PMID:33155827
  • PMCID:PMC8240092

  URL: https://www.ahajournals.org/doi/10.1161/circ.140.suppl_1.10573

• Publication

  released

  Identification and Massively Parallel Characterization of Regulatory Elements Driving Neural Induction

  Fumitaka Inoue, Anat Kreimer, Tal Ashuach, et al.

  Cell Stem Cell. 2019-11-07;25(5):713-727.e10.

  • PMID:31631012
  • PMCID:PMC6850896
  • doi:10.1016/j.stem.2019.09.010