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| Status |
Public on Jul 03, 2008 |
| Title |
A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Transcriptome of HEK and B cells were analyzed by microarray and RNA-Seq parallely. Both platforms were then compared in terms of sensitivity. To assess whether values were a reliable indicator of gene activity, we correlated these values with hypophosphorylated RNA polymerase II (PolIIa) occupancy, used as a landmark of transcription initiation. For HEK, we identified PolIIa islands by chromatin immunoprecipitation and sequencing (ChIP-Seq).
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| Overall design |
For HEK and B cell, samples were hybridized as biological and technical duplicates on Illumina HumanRef8 V2.0 BeadChips. PolIIa Chip-Seq performed on HEK.
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| Contributor(s) |
Sultan M, Schulz MH, Richard H, Magen A, Klingenhoff A, Scherf M, Seifert M, Borodina T, Soldatov A, Parkhomchuk D, Schmidt D, O'Keeffe S, Haas S, Vingron M, Lehrach H, Yaspo M |
| Citation(s) |
18599741, 20150413 |
| Submission date |
Jun 26, 2008 |
| Last update date |
May 15, 2019 |
| Contact name |
Marc Sultan |
| E-mail(s) |
sultan@molgen.mpg.de
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| Organization name |
Max Planck Institute for molecular genetics
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| Street address |
Ihnestr. 73
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| City |
Berlin |
| ZIP/Postal code |
14195 |
| Country |
Germany |
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| Platforms (2) |
| GPL6104 |
Illumina humanRef-8 v2.0 expression beadchip |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
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| Samples (11)
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| Relations |
| SRA |
SRP000714 |
| BioProject |
PRJNA105719 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE11892_RAW.tar |
4.6 Mb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data included within Sample table |
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