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| Status |
Public on Nov 08, 2014 |
| Title |
Genome-wide maps of Scl/TAL1 in human erythroid cells. |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
ChIP-Seq experiments using an Scl/TAL1 antibody were carried out in primary erythroid cells cultured from two individuals of Caucasian origin. ChIP-Seq libraries were prepared from two biological replicates for each individual. ChIP DNA was processed for Illumina High-throughput sequencing according to Illumina protocol. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA from each experiments, we generated a high-resolution map of Scl/TAL1 genomic targets in human erythroid cells. We find that WGATAR and the combinatorial CTG(n9)GATA are the most significant motifs responsible for the chromatin occupancy by Scl/TAL1. In addition, other motifs are also significantly enriched at the Scl/TAL1 targets. Amongst these were binding sites for known TFs (Sp/XKLF, RUNX1, NFE2). We next investigated how many of these targets varied between these two individuals. We find that 0.8% of Scl/TAL1 binding regions differ significantly between the two individuals.
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| Overall design |
We have compared the genome-wide occupancy of Scl/TAL1 in erythroid cells between two different individuals
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| Contributor(s) |
De Gobbi M, Lower KM, Hughes JR, Gibbons RR, Higgs DR |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Nov 19, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Richard J Gibbons |
| E-mail(s) |
richard.gibbons@imm.ox.ac.uk
|
| Phone |
+441865222632
|
| Fax |
+441865222500
|
| URL |
http://www.imm.ox.ac.uk/wimm-research/molhaem/richard-gibbons
|
| Organization name |
Weatherall Institute of Molecular Medicine
|
| Department |
MRC Molecular Haematology Unit
|
| Lab |
Gibbons
|
| Street address |
John Radcliffe Hospital,
|
| City |
Oxford |
| State/province |
Oxon |
| ZIP/Postal code |
OX3 9DU |
| Country |
United Kingdom |
| |
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| Platforms (1) |
| GPL9115 |
Illumina Genome Analyzer II (Homo sapiens) |
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| Samples (4)
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|
| Relations |
| BioProject |
PRJNA181274 |
| SRA |
SRP017241 |
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