Human Gene Set: DESCARTES_FETAL_THYMUS_THYMIC_EPITHELIAL_CELLS


Standard name DESCARTES_FETAL_THYMUS_THYMIC_EPITHELIAL_CELLS
Systematic name M40312
Brief description Marker genes curated from the annotated cluster as represented in the Descartes Human Gene Expression During Development database.
Full description or abstract The gene expression program underlying the specification of human cell types is of fundamental interest. The study authors generated human cell atlases of gene expression and chromatin accessibility in fetal tissues. For gene expression, the study authors applied three-level combinatorial indexing to >110 samples representing 15 organs, ultimately profiling ~4 million single cells. The study authors leveraged the literature and other atlases to identify and annotate hundreds of cell types and subtypes, both within and across tissues. Our analyses focused on organ-specific specializations of broadly distributed cell types (such as blood, endothelial, and epithelial), sites of fetal erythropoiesis (which notably included the adrenal gland), and integration with mouse developmental atlases (such as conserved specification of blood cells). These data represent a rich resource for the exploration of in vivo human gene expression in diverse tissues and cell types.
Collection C8: Cell Type Signature
Source publication Pubmed 33184181   Authors: Cao J,O'Day DR,Pliner HA,Kingsley PD,Deng M,Daza RM,Zager MA,Aldinger KA,Blecher-Gonen R,Zhang F,Spielmann M,Palis J,Doherty D,Steemers FJ,Glass IA,Trapnell C,Shendure J
Exact source descartes DE_gene_by_organ.csv, fold.change>5, qval<0.05, pval<0.05
Related gene sets (show 246 additional gene sets from the source publication)

(show 19 gene sets from the same authors)
External links https://descartes.brotmanbaty.org/bbi/human-gene-expression-during-development/
Filtered by similarity ?
Source species Homo sapiens
Contributed by Anthony Castanza (MSigDB Team)
Source platform or
identifier namespace		 Human_Ensembl_Gene_ID
Dataset references (show 1 datasets)
Download gene set format: grp | gmt | xml | json | TSV metadata
Compute overlaps ? (show collections to investigate for overlap with this gene set)
Compendia expression profiles ? NG-CHM interactive heatmaps
(Please note that clustering takes a few seconds)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)

Legacy heatmaps (PNG)
GTEx compendium
Human tissue compendium (Novartis)
Global Cancer Map (Broad Institute)
NCI-60 cell lines (National Cancer Institute)
Advanced query Further investigate these 244 genes
Gene families ? Categorize these 244 genes by gene family
Show members (show 273 source identifiers mapped to 244 genes)
Version history 2024.1.Hs: Corrected source species field to properly report human origin. Updated exact source, brief and full descriptions.

See MSigDB license terms here. Please note that certain gene sets have special access terms.