NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE6506 Query DataSets for GSE6506
Status Public on Nov 21, 2007
Title Hematopoietic Fingerprints: an expression database of stem cells and their progeny
Organism Mus musculus
Experiment type Expression profiling by array
Summary Hematopoietic stem cells (HSC) continuously regenerate a complete hematologic and immune system. Very few genes that regulate this process have yet been identified. In order to identify factors governing differentiation, we have compared the transcriptome of highly purified HSC with their differentiated progeny, including erythrocytes, granulocytes, monocytes, NK cells, activated and naïve T-cells, and B-cells. Chromosomal analysis revealed that HSC were more transcriptionally active than other cell types across most chromosomes. Each lineage expressed ~100 to 400 genes uniquely, including many previously uncharacterized genes. Overexpression of two fingerprint genes resulted in a significant bias in differentiation indicating a role in cell fate determination, demonstrating the utility of these data for modulation of specific cell types.
Keywords: Hematopoietic cells, stem cells, wild type cells, Mus musculus
 
Overall design Goal - Expression profiling of hematopoietic cells

Description - Biological replicates of 10 hematopoietic cell types from female C57Bl/6 mice were purified for microarray analysis

Keywords: Hematopoietic cells, stem cells, wild type cells, Mus musculus

Experimental Factors: wild-type female C57Bl/6 CD45.1 Mus musculus

Experimental Design: 25,000- 50,000 cells were FACS sorted, mRNA was purified by RNAqueous (Ambion), DNAse treated with DNAse1, phenol:chloroform:isoamyl alcohol extracted, and amplified through two rounds of in vitro transcription using MessageAmp (Ambion). Second round was biotinylated with bio-CTP and bio-UTP.

Microarrays: Oligonucleotide, Affymetrix, Moe430 v 2.0

QC: Biological replicates, correlation coefficient > .95; scale factor <10; 5'/3' ratio < 20
 
Contributor(s) Boles N
Citation(s) 18371395, 22039481
Submission date Dec 11, 2006
Last update date Mar 09, 2020
Contact name Nathan C Boles
Organization name Baylor College of Medicine
Department Pediatrics
Lab Goodell
Street address One Baylor Plaza, N1030
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (20)
GSM149579 Long-term hematopoietic stem cells LT-HSC_SPKSL_1
GSM149580 Long-term hematopoietic stem cells LT-HSC_SPKSL_2
GSM149581 NK cells NK_1
Relations
BioProject PRJNA98681

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
GSE6506_RAW.tar 125.5 Mb (http)(custom) TAR (of CEL)
Raw data provided as supplementary file
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap