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Series GSE107749 Query DataSets for GSE107749
Status Public on Dec 07, 2017
Title ChIP-seq Analysis of MCF7 Cells on Treatment with Estradiol with internal controls
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary A key challenge in quantitative ChIP-seq is the normalisation of data in the presence of genome-wide changes. Data-based methods often rely on assumptions that do not hold true. Misapplication of these methods to ChIP-seq data results in the suppression of the biological signal or erroneous measurement of differential occupancy. To develop methods that address this challenge, we generated two ChIP-seq datasets, measuring Estrogen Receptor-alpha (ER) binding and H4K12ac histone marks in MCF7 before and after 100 nm Estradiol treatment for 45 minutes and 2 hours respectively.
 
Overall design 2 ER ChIP-seq experiments implementing internal normalisation strategies
 
Contributor(s) Markowetz F, Holding AN
Citation(s) 29672735
Submission date Dec 06, 2017
Last update date May 15, 2019
Contact name Andrew Nicholas Holding
E-mail(s) andrew.holding@cruk.cam.ac.uk
Organization name University of Cambridge
Department CRUK Cambridge Institute
Street address Robinson Way
City Cambridge
ZIP/Postal code CB2 0RE
Country United Kingdom
 
Platforms (1)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (20)
GSM2877976 SLX-15091_1a_ER_none
GSM2877977 SLX-15091_2a_ER_none
GSM2877978 SLX-15091_Input_none
Relations
BioProject PRJNA421277
SRA SRP126220

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
GSE107749_E2_normalised_results.csv.gz 604.3 Kb (ftp)(http) CSV
GSE107749_H4_normalised_results.csv.gz 366.2 Kb (ftp)(http) CSV
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Raw data are available in SRA
Processed data are available on Series record

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