Showing 12 of 12 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

  Long-range chromosomal interactions increase and mark repressed gene expression during adipogenesis

  Kristina M Garske, Caroline Comenho, David Z Pan, et al.

  Epigenetics. 2022-12-01;17(13):1849-1862.

  Available supplemental data: website

  File format: other format

  URL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE129574

  Data summary: Assay for transposase accessible chromatin (ATAC) -seq libraries were produced from human primary…See more

• Publication

  released

  Genetic regulation of RNA splicing in human pancreatic islets

  Goutham Atla, Silvia Bonàs-Guarch, Mirabai Cuenca-Ardura, et al.

  Genome Biol. 2022-09-15;23(1):196.

  • doi:10.1186/s13059-022-02757-0
  • PMID:36109769
  • PMCID:PMC9479353

  URL: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02757-0#Sec36

  Available supplemental data: website

  File format: text

  URL: https://zenodo.org/record/6546807#.Y-wbZi-B39B

• 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

  A single-cell atlas of chromatin accessibility in the human genome

  Kai Zhang, James D. Hocker, Michael Miller, et al.

  Cell. 2021-11-08;S0092-8674(21):01279-4.

  • doi:10.1016/j.cell.2021.10.024
  • PMID:34774128
  • PMCID:PMC8664161

  Available supplemental data: website

  File format: other format

  URL: https://cmdga.org/publications/424edf8e-b0ab-4dfd-b61c-a68aae175e03/

  Data summary: sci-ATAC-seq data of human lung samples: dbGaP: phs001961

  Available supplemental data: website

  File format: other format

  URL: https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs002204.v1.p1

  Data summary: sci-ATAC-seq data of human heart samples: dbGaP: phs002204

  Available supplemental data: website

  File format: other format

  URL: https://cmdga.org/publications/1c27d047-15bc-46ac-bf94-e8881474d541/

  Data summary: sci-ATAC-seq data of human islet samples: GEO: GSE160472

  Available supplemental data: website

  File format: other format

  URL: https://cmdga.org/publications/7b1307ba-fbf9-4461-8c59-f8a65ee5379f/

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

  Available supplemental data: website

  File format: other format

  URL: https://cmdga.org/publications/1d94a4be-f51d-4f82-a84c-414193b0b2e3/

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

  Available supplemental data: website

  File format: other format

  URL: https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs002003.v1.p1

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

  Available supplemental data: website

  File format: other format

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

  Data summary: Human chromatin accessibility during development

• Publication

  released

  Single-Cell Epigenomics and Functional Fine-Mapping of Atherosclerosis GWAS Loci

  Tiit Örd, Kadri Õunap, Lindsey K Stolze, et al.

  Circ Res.. 2021-05-24;129(2):240-258.

  • doi:10.1161/CIRCRESAHA.121.318971
  • PMID:34024118
  • PMCID:PMC8260472

  Available supplemental data: website

  File format: other format

  URL: https://figshare.com/articles/dataset/Single-nuclei_ATAC-Seq_data_from_human_atherosclerosis/14501985

  Data summary: Single-cell ATAC-Seq data from human atherosclerosis. The files contain cells from endarterectomy…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

  Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes

  Allen Wang, Joshua Chiou, Olivier B Poirion, et al.

  eLife. 2020-11-09;9:e62522.

  • doi:10.7554/eLife.62522
  • PMID:33164753

  Available supplemental data: website

  File format: other format

  URL: https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/study.cgi?study_id=phs001961.v1.p1

  Data summary: sci-ATAC-seq data of human lung samples: dbGaP: phs001961

• Publication

  released

  Transcriptional and Cellular Diversity of the Human Heart

  Nathan R. Tucker, Mark Chaffin, Stephen J. Fleming, et al.

  Circulation. 2020-08-04;142(5):466-482.

  • doi:10.1161/CIRCULATIONAHA.119.045401
  • PMID:32403949
  • PMCID:PMC7666104

  URL: https://www.ahajournals.org/doi/10.1161/CIRCULATIONAHA.119.045401

  Available supplemental data: website

  File format: other format

  URL: https://www.ahajournals.org/doi/suppl/10.1161/circulationaha.119.045401

  Data summary: The Data Supplement is available with this article.

  Available supplemental data: website

  File format: other format

  URL: https://singlecell.broadinstitute.org/single_cell/study/SCP498/transcriptional-and-cellulardiversity-of-the-human-heart

  Data summary: Processed data with interactivity for gene search functions will be available through the Broad…See more

• Publication

  released

  ATAC-seq reveals alterations in open chromatin in pancreatic islets from subjects with type 2 diabetes

  Madhusudhan Bysani, Rasmus Agren, Cajsa Davegårdh, et al.

  Sci Rep. 2019-05-23;9(1):7785.

  • doi:10.1038/s41598-019-44076-8
  • PMID:31123324
  • PMCID:PMC6533306

  Available supplemental data: website

  URL: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6533306/

  Data summary: Supplementary Materials

• Publication

  released

  Genetic Regulation of Adipose Gene Expression and Cardio-Metabolic Traits

  Mete Civelek, Ying Wu, Calvin Pan, et al.

  AJHG. 2017-03-02;100(3):428–443.

  • doi:10.1016/j.ajhg.2017.01.027
  • PMID:28257690
  • PMCID:PMC5339333

  Available supplemental data: website

  URL: http://dx.doi.org/10.1016/j.ajhg.2017.01.027

  Data summary: Supplemental Data include 8 figures and 14 tables and can be found with this article.