Showing 20 of 20 results

• Publication

  released

  A genome-wide CRISPR screen identifies CALCOCO2 as a regulator of beta cell function influencing type 2 diabetes risk

  Antje K Rottner, Yingying Ye, Elena Navarro-Guerrero, et al.

  Nat Genet. 2022-12-21;55(1):54-65.

  • doi:10.1038/s41588-022-01261-2
  • PMID:36543916
  • PMCID:PMC9839450

  URL: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9839450/

  Available supplemental data: website

  File format: text

  URL: https://hugeamp.org:8000/research.html?pageid=beta_cell_249

  Data summary: Pancreatic beta cell function and type 2 diabetes predicted effector genes (Rottner AK et al., 2023)

• Publication

  released

  The Tabula Sapiens: A multiple-organ, single-cell transcriptomic atlas of humans

  Tabula Sapiens Consortium*; Robert C Jones, Jim Karkanias, Mark A Krasnow, et al.

  Science. 2022-05-13;376(6594):eabl4896.

  • doi:10.1126/science.abl4896
  • PMID:35549404

  Available supplemental data: website

  URL: http://tabula-sapiens-portal.ds.czbiohub.org/

  Data summary: The entire dataset can be explored interactively at http://tabula-sapiens-portal.ds.czbiohub.org/.

  Available supplemental data: website

  URL: https://doi.org/10.5281/zenodo.6069683

  Data summary: The code used for the analysis is available from Zenodo (https://doi.org/10.5281/zenodo.6069683).

  Available supplemental data: website

  URL: https://doi.org/10.6084/m9.figshare.14267219

  Data summary: Gene counts and metadata are available from figshare…See more

  Available supplemental data: website

  URL: https://registry.opendata.aws/tabula-sapiens/

  Data summary: The raw data files are available from a public AWS S3 bucket…See more

  Available supplemental data: website

  URL: https://doi.org/10.6084/m9.figshare.14962947

  Data summary: The histology images are available from figshare (https://doi.org/10.6084/m9.figshare.14962947).

  Available supplemental data: website

  URL: https://doi.org/10.6084/m9.figshare.14977281

  Data summary: SpliZ scores are available from figshare (https://doi.org/10.6084/m9.figshare.14977281).

• 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 map of transcriptional heterogeneity and regulatory variation in human microglia

  Adam M. H. Young, Natsuhiko Kumasaka, Fiona Calvert, et al.

  Nat Genet. 2021-06-03;53(6):861-868.

  • doi:10.1038/s41588-021-00875-2
  • PMID:34083789
  • PMCID:PMC7610960

• Publication

  released

  Single-cell chromatin accessibility identifies pancreatic islet cell type- and state-specific regulatory programs of diabetes risk

  Joshua Chiou, Chun Zeng, Zhang Cheng, et al.

  Nat Genet. 2021-04-01;53(4):455-466.

  • doi:10.1038/s41588-021-00823-0
  • PMID:33795864

• 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

  A human cell atlas of fetal gene expression

  Junyue Cao, Diana R O'Day, Hannah A Pliner, et al.

  Science. 2020-11-13;370(6518):eaba7721.

  • doi:10.1126/science.aba7721
  • PMID:33184181
  • PMCID:PMC7780123

  Available supplemental data: website

  File format: other format

  URL: https://descartes.brotmanbaty.org/bbi/human-chromatin-during-development/

  Data summary: sci-ATAC-seq data of human fetal tissues:…See more

• Publication

  released

  A human cell atlas of fetal chromatin accessibility

  Silvia Domcke, Andrew J Hill, Riza M Daza, et al.

  Science. 2020-11-13;370(6518):eaba7612.

  • doi:10.1126/science.aba7612
  • PMID:33184180
  • PMCID:PMC7785298

  Available supplemental data: website

  File format: other format

  URL: https://descartes.brotmanbaty.org/bbi/human-chromatin-during-development/

  Data summary: sci-ATAC-seq data of human fetal tissues:…See more

• Publication

  released

  The GTEx Consortium atlas of genetic regulatory effects across human tissues

  GTEx Consortium.

  Science. 2020-09-11;369(6509):1318-1330.

  • doi:10.1126/science.aaz1776
  • PMID:32913098
  • PMCID:PMC7737656

• Publication

  released

  Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer’s and Parkinson’s diseases

  M Ryan Corces, Anna Shcherbina, Soumya Kundu, et al.

  Nat Genet. 2020 Oct 26;52(11):1158-1168.

  • doi:10.1038/s41588-020-00721-x
  • PMID:33106633
  • PMCID:PMC7606627

• Publication

  released

  Exploring genetic interaction manifolds constructed from rich single-cell phenotypes

  Thomas M Norman, Max A Horlbeck, Joseph M Replogle, et al.

  Science. 2019-08-23;365(6455):786-793.

  • doi:10.1126/science.aax4438
  • PMID:31395745
  • PMCID:PMC6746554

• Publication

  released

  Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells

  Yanxiao Zhang, Ting Li, Sebastian Preissl, et al.

  Nat Genet. 2019-08-19;51(9):1380-1388.

  • doi:10.1038/s41588-019-0479-7
  • PMID:31427791
  • PMCID:PMC6722002

  Available supplemental data: website

  Data summary: All sequencing datasets have been deposited on GEO with the accession number GSE116862.

• Publication

  released

  Fine-mapping type 2 diabetes loci to single-variant resolution using high-density imputation and islet-specific epigenome maps

  Anubha Mahajan, Daniel Taliun, Matthias Thurner, et al.

  Nat Genet. 2018-10-08;50(11):1505-1513.

  • doi:10.1038/s41588-018-0241-6
  • PMID:30297969
  • PMCID:PMC6287706

• Publication

  released

  Type 2 diabetes risk alleles in PAM impact insulin release from human pancreatic β-cells

  Soren K Thomsen, Anne Raimondo, Benoit Hastoy, et al.

  Nat Genet. 2018-07-27;50(8):1122-1131.

  • doi:10.1038/s41588-018-0173-1
  • PMID:30054598
  • PMCID:PMC6237273

• Publication

  released

  Regulatory variants at KLF14 influence type 2 diabetes risk via a female-specific effect on adipocyte size and body composition

  Kerrin S Small, Marijana Todorčević, Mete Civelek, et al.

  Nat Genet. 2018-04-09;50(4):572-580.

  • doi:10.1038/s41588-018-0088-x
  • PMID:29632379
  • PMCID:PMC5935235

• Publication

  released

  Shared genetic effects on chromatin and gene expression indicate a role for enhancer priming in immune response

  Kaur Alasoo, Julia Rodrigues, Subhankar Mukhopadhyay, et al.

  Nat Genet. 2018-01-29;50(3):424-431.

  • doi:10.1038/s41588-018-0046-7
  • PMID:29379200
  • PMCID:PMC6548559

• Publication

  released

  Molecular and functional variation in iPSC-derived sensory neurons

  Jeremy Schwartzentruber, Stefanie Foskolou, Helena Kilpinen, et al.

  Nat Genet. 2017-12-11;50(1):54-61.

  • doi:10.1038/s41588-017-0005-8
  • PMID:29229984
  • PMCID:PMC5742539

• Publication

  released

  Variation in the glucose transporter gene SLC2A2 is associated with glycemic response to metformin

  Kaixin Zhou, Sook Wah Yee, Eric L Seiser, et al.

  Nat Genet. 2016-08-08;48(9):1055-1059.

  • doi:10.1038/ng.3632
  • PMID:27500523
  • PMCID:PMC5007158

• Publication

  released

  Gene-gene and gene-environment interactions detected by transcriptome sequence analysis in twins

  Alfonso Buil, Andrew Anand Brown, Tuuli Lappalainen, et al.

  Nat Genet. 2014-12-01;47(1):88-91.

  • doi:10.1038/ng.3162
  • PMID:25436857
  • PMCID:PMC4643454

• Publication

  released

  Single-nucleus chromatin accessibility and transcriptomic characterization of Alzheimer’s Disease

  Samuel Morabito, Emily Miyoshi, Neethu Michael, et al.

  Nat Genet. 2021-07-08;53(8):1143-1155.

  • doi:10.1038/s41588-021-00894-z
  • PMID:34239132
  • PMCID:PMC8766217

  Available supplemental data: website

  File format: other format

  URL: https://www.synapse.org/#!Synapse:syn22079621/

  Data summary: All the multi-omics raw and processed data are available here

  Available supplemental data: website

  File format: other format

  URL: http://swaruplab.bio.uci.edu/singlenucleiAD/

  Data summary: The data can be accessed through online web app

  Available supplemental data: website

  File format: other format

  URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE174367

  Data summary: Raw sequencing data have been deposited into the National Center for Biotechnology Information…See more