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Sample GSM552242 Query DataSets for GSM552242
Status Public on Oct 07, 2010
Title HPC7_Scl
Sample type SRA
Source name HPC-7 Cell Line
Organism Mus musculus
Characteristics cell type: Early haematopoietic cell line derived from ES cells
Treatment protocol No treatment beyond normal growth protocol was used.
Growth protocol HPC-7 cells were grown in 10% conditioned mSCF and were routinely counted and split every day to be kept at a confluence between 0.7-2 x 106 cells per ml).
Extracted molecule genomic DNA
Extraction protocol Chromatin was fixed in 0.4% formaldehyde, sheared to 200-500bp using a Bioruptor (Diagenode), immunoprecipitated using the indicated antisera, purified and sequenced using Illumina Genome Analyzers as recommended by the manufacturer.
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina Genome Analyzer II
Description Chromatin IP against Scl protein
Data processing Processed alignment files include either .map.txt or .export.txt files. The .map.txt files were created using the Maq software package using the default alignment settings. The .export.txt files were created using the Eland software package, again using the standard settings. All alignments were made to the mm9 mouse genome. Column headings for both file types can be found in the linked Readme file. The .bedgraph files were created using an in house script and show the sequence read denisty across the mm9 mouse genome.
Submission date Jun 07, 2010
Last update date May 15, 2019
Contact name Samuel David Foster
Organization name Cambridge Institute for Medical Research
Department Department of Haematology
Lab Haematopoietic Stem Cell Lab
Street address Wellcome Trust/MRC Building, Addenbrooke's Hospital, Hills Road
City Cambridge
State/province Cambridgeshire
ZIP/Postal code CB2 0XY
Country United Kingdom
Platform ID GPL9250
Series (3)
GSE22178 Combinatorial Transcriptional Control in Blood Stem/Progenitor Cells: Genome-wide Analysis of 10 major Transcriptional Regulators
GSE51337 Divergent functions of hematopoietic transcription factors in lineage priming and differentiation during erythro-megakaryopoiesis
GSE51338 Dynamic shifts in occupancy by TAL1 are guided by GATA factors and drive large-scale reprogramming of gene expression during hematopoiesis
SRA SRX021818
BioSample SAMN00014607

Supplementary file Size Download File type/resource 778.3 Mb (ftp)(http) TXT
GSM552242_HPC7_Scl_pt1.bedgraph.gz 63.9 Mb (ftp)(http) BEDGRAPH
GSM552242_HPC7_Scl_pt2.bedgraph.gz 60.4 Mb (ftp)(http) BEDGRAPH
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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