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Series GSE24759 Query DataSets for GSE24759
Status Public on Jan 21, 2011
Title Densely interconnected transcriptional circuits control cell states in human hematopoiesis
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Tremendous progress has been made in identifying individual transcription factors that regulate hematopoietic differentiation, but many aspects of the global architecture of hematopoiesis remain unknown. Here, we profiled gene expression in 38 distinct purified populations of human hematopoietic cells and used probabilistic models of gene expression patterns and sequence-based analysis of motifs in gene promoters to decipher the general organization of their regulatory circuitry. We identified modules of highly co-expressed genes, some of which are restricted to a single lineage, but most are expressed at variable levels across multiple lineages. We found densely interconnected cis-regulatory circuits and a large number of transcription factors that are differentially expressed across hematopoietic states, suggesting a more complex regulatory system than previously assumed. We functionally validated a subset of candidate factors using RNA interference and ChIP-Seq. Our dataset, analytic tools, and findings, available on a web-based portal, provide a unique resource to study the regulatory architecture of hematopoiesis.
 
Overall design We defined 38 distinct hematopoietic cell states based on cell surface marker expression, representing hematopoietic stem and progenitor cells, terminally differentiated cells, and intermediate states. For each state, we purified samples separately from 4 to 7 independent donors by multiparameter flow cytometry, yielding 211 profiled samples. Cells from all stem and progenitor populations were purified from umbilical cord blood. Terminally differentiated lymphocyte populations were purified from peripheral blood.
 
Citation(s) 21241896
Submission date Oct 18, 2010
Last update date Mar 26, 2024
Contact name Noa Novershtern
E-mail(s) noa.novershtern@weizmann.ac.il
Organization name Weizmann Institute of Science
Department Molecular Genetics
Street address Weizmann Institute
City Rehovot
ZIP/Postal code 7610001
Country Israel
 
Platforms (1)
GPL4685 [U133AAofAv2] Affymetrix GeneChip HT-HG_U133A Early Access Array
Samples (211)
GSM609632 Basophils, sample 1
GSM609633 Basophils, sample 2
GSM609634 Basophils, sample 3
Relations
BioProject PRJNA132159

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24759_GEO_names_map.xlsx 16.7 Kb (ftp)(http) XLSX
GSE24759_RAW.tar 571.9 Mb (http)(custom) TAR (of CEL)
GSE24759_RMA.pre-norm.txt.gz 23.2 Mb (ftp)(http) TXT
GSE24759_data.sort.txt.gz 6.7 Mb (ftp)(http) TXT
GSE24759_modules.txt.gz 35.1 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record
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