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Sample GSM614004 Query DataSets for GSM614004
Status Public on Oct 30, 2010
Title Erythroid
Sample type SRA
 
Source name Primary pro-erythroblasts derived ex vivo from CD34+ multipotential hematopoietic progenitors
Organism Homo sapiens
Characteristics cell type: Pro-erythroblasts
chip antibody: anti-TAL1 Ab (Santa Cruz sc-12984)
Treatment protocol Human primary proerythroblasts were obtained by ex vivo differentiation from CD34+ hematopoietic stem cells. Briefly, light-density mononuclear cells were isolated by ficoll density gradient centrifugation from G-CSF-mobilized adult blood from donors without hematological malignancies (Ottawa Hospital Research Ethics Board #2007804-01H). CD34+ cells were enriched through positive immunomagnetic selection using the CD34 MicroBead Kit (Miltenyi Biotec Inc.) (purity > 95 ± 3%) and differentiated ex vivo as described in (Giarratana et al., 2005) except that we used 20% BIT (StemCell Technologies). Cells at day 10 of differentiation (corresponding to the proerythroblast stage) were used for chromatin immunoprecipitation
Extracted molecule genomic DNA
Extraction protocol ChIPed DNA was prepared according to the Illumina protocol with two modifications: 1) DNA fragments ranging from 150bp to 300bp were selected at the gel selection step; 2) 21 instead of 18 cycles of PCR were done at the amplification step.
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer
 
Description Human primary proerythroblasts were obtained by ex vivo differentiation from CD34+ hematopoietic stem cells. Briefly, light-density mononuclear cells were isolated by ficoll density gradient centrifugation from G-CSF-mobilized adult blood from donors without hematological malignancies (Ottawa Hospital Research Ethics Board #2007804-01H). CD34+ cells were enriched through positive immunomagnetic selection using the CD34 MicroBead Kit (Miltenyi Biotec Inc.) (purity > 95 ± 3%) and differentiated ex vivo as described in (Giarratana et al., 2005) except that we used 20% BIT (StemCell Technologies). Cells at day 10 of differentiation (corresponding to the proerythroblast stage) were used for chromatin immunoprecipitation
Data processing Sequence reads were obtained using the Illumina Genome Analyzer II. Reads were aligned to human genome (hg18) using MAQ (version 0.6.6) .
 
Submission date Oct 28, 2010
Last update date May 15, 2019
Contact name Stephen Tapscott
E-mail(s) stapscot@fredhutch.org
Organization name Fred Hutch Cancer Research Center
Department Human Biology
Lab Tapscott
Street address 1100 Fairview N. Ave
City Seattle
State/province WASHINGTON
ZIP/Postal code 98103
Country USA
 
Platform ID GPL9052
Series (1)
GSE25000 Differential genomic targeting of the transcription factor TAL1 in alternate hematopoietic lineages
Relations
SRA SRX029598
BioSample SAMN00116839

Supplementary file Size Download File type/resource
GSM614004_FHCRC_tal1_ery_1.map.gz 174.2 Mb (ftp)(http) MAP
GSM614004_FHCRC_tal1_ery_2.map.gz 197.6 Mb (ftp)(http) MAP
GSM614004_erythroid.tal1.bed.gz 55.0 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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