|
| Status |
Public on Aug 14, 2019 |
| Title |
RNA-seq analyses of wild-type and PML KO mESCs |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Promyelocytic leukemia (PML) body is a phase-separated nuclear structure composed of various proteins including several chromatin regulators, and physically associates with chromatin. To address roles of PML bodies in transcriptional regulation, we performed RNA-seq analyses with wild-type and PMK knockout mESCs
|
| |
|
| Overall design |
Wild-type and PML KO mESCs were analyzed by RNA-seq to profile polyA tail mRNAs. Sequence reads were processed with Cutadapt and aligned to mm10 using Tophat. Differential expression analysis was performed using edgeR. TDF file was generated by using IGV. An XLSX file includes FC and false discovery rate (FDR) computed by using edgeR.
|
| |
|
| Contributor(s) |
Kurihara M, Kato K, Sanbo C, Shigenobu S, Ohkawa Y, Fuchigami T, Miyanari Y |
| Citation(s) |
32353257 |
| |
| Submission date |
Aug 08, 2019 |
| Last update date |
May 05, 2020 |
| Contact name |
Misuzu Kurihara |
| E-mail(s) |
kmisuzu1018@gmail.com, miyanari@nibb.ac.jp
|
| Organization name |
National Institute for Basic Biology
|
| Street address |
5-1 Higashiyama, Myodaiji
|
| City |
Okazaki |
| State/province |
Aichi |
| ZIP/Postal code |
444-8787 |
| Country |
Japan |
| |
|
| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
|
| Samples (6)
|
|
| This SubSeries is part of SuperSeries: |
| GSE135563 |
Dissecting roles of PML bodies by genome-wide profiling of PML body-associated regions |
|
| Relations |
| BioProject |
PRJNA559283 |
| SRA |
SRP217808 |
Less...
More...