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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Feb 05, 2010 |
| Title |
Genome-wide map of PCL2 (Polycomb-like 2) enrichment in undifferentiated mouse embryonic stem cells (ESCs) |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
In total 8,736,191 reads from IP fraction and 9,958,984 reads from Wash fraction uniquely mapped to the mouse genome (mm9). Settings for enrichment analysis: maxSpacing=500; minHits=20; minPeakHits=6; minRatio=3. 4,701 regions have been identified as enriched in the IP fraction. In order to get a rough idea of false discovery rate (FDR), enrichment analysis using Wash fraction as test and IP fraction as control was performed, 15 regions was found. This suggests that the FDR likely is around 0.3%.
Keywords: Epigenetics
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| Overall design |
Examination of PCL2 enrichment in mouse ESCs.
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| Contributor(s) |
Walker E, Chang WY, Stanford WL |
| Citation(s) |
20144788 |
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| Submission date |
Jun 09, 2009 |
| Last update date |
May 15, 2019 |
| Contact name |
William L Stanford |
| E-mail(s) |
william.stanford@utoronto.ca
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| URL |
http://www.wlstanfordlab.com/
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| Organization name |
University of Toronto
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| Department |
IBBME
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| Lab |
William L. Stanford
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| Street address |
164 College St
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| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5S 3G9 |
| Country |
Canada |
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| Platforms (1) |
| GPL9185 |
Illumina Genome Analyzer (Mus musculus) |
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| Samples (1) |
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| Relations |
| SRA |
SRP001841 |
| BioProject |
PRJNA116091 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE16526_RAW.tar |
231.9 Mb |
(http)(custom) |
TAR (of TXT, XLS) |
SRA Run Selector |
| Processed data provided as supplementary file |
| Raw data are available in SRA |
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