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| Status |
Public on Oct 20, 2020 |
| Title |
PacBio long-read RNA-sequencing to identify differentially expressed genes and repetitive elements between Wild Type RBM4 KO HAP1 cell line samples |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Since short reads from Illumina RNA-seq data are challenging to map to repetitive elements , we wanted to confirm the bulk RNA-seq findings using an orthogonal method, namely, using the long read technology of Pacific Biosciences (PacBio) full-length transcriptome sequencing. This dataset provided around 1.1 (WT) and 1.3 (RBM4 KO) million sequence reads of 2.6 kb average length mapping to the human genome.
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| Overall design |
Single replicate provided, each, for Wild Type and RBM4 KO (the 1B6 clone as prefixed in the bulk experiment)
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| Contributor(s) |
Foroushani AK, Chim B, Barbian K, Martens C, Muljo SA |
| Citation(s) |
33020268 |
| |
| Submission date |
Apr 01, 2020 |
| Last update date |
Oct 20, 2020 |
| Contact name |
Stefan A Muljo |
| E-mail(s) |
[email protected]
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| Organization name |
NIH/NIAID
|
| Street address |
10 CENTER DR RM 11N306
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE147897 |
Post-transcriptional regulation of human endogenous retroviruses by RNA-Binding Motif Protein 4, RBM4 |
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| Relations |
| BioProject |
PRJNA622498 |
| SRA |
SRP254902 |
