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Sample GSM1934095 Query DataSets for GSM1934095
Status Public on Dec 17, 2015
Title MLL_ChIPSeq
Sample type SRA
 
Source name Leukaemia cell line (SEM)
Organism Homo sapiens
Characteristics cell line: SEM
cell type: Paediatric pro B-cell line derived from ALL with t(4;11)(q21;q23) translocation
chip antibody: MLL (Bethyl, A300-086A)
Growth protocol SEM cells were continuously grown in IMDM with 10-20% FBS, split when they reached a density of 1-2X10e6 down to 5X10e5
Extracted molecule genomic DNA
Extraction protocol Fixed cells were lysed in 1% SDS lysis buffer. Samples were sonicated and protein-DNA complexes were isolated with antibody.
Libraries were prepared according to Illumina's protocol accompanying the DNA Library Prep Master Mix Set (Part# E6040).
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2000
 
Data processing ChIP-seq reads were aligned to the hg18 genome using bowtie version 1.1.2 with following parameters: p1 m2 best strata sam
Peaks were called using SeqMonk version 0.24.1
Genome_build: hg18
Supplementary_files_format_and_content: bed files were generated from text files outputted directly from SeqMonk
 
Submission date Nov 09, 2015
Last update date May 15, 2019
Contact name Thomas Milne
E-mail(s) thomas.milne@imm.ox.ac.uk
Organization name Weatherall Institute of Molecular Medicine
Department Molecular Haematology Unit
Street address John Radcliffe Hospital
City Oxford
ZIP/Postal code OX3 9DS
Country United Kingdom
 
Platform ID GPL11154
Series (1)
GSE74812 MLL-rearranged acute lymphoblastic leukemias upregulate BCL-2 through H3K79 methylation and are highly sensitive to the BCL-2 specific antagonist ABT-199
Relations
BioSample SAMN04252482
SRA SRX1424881

Supplementary file Size Download File type/resource
GSM1934095_SEM_MLL_Peaks.bed.gz 189.1 Kb (ftp)(http) BED
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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