ChIRP : RNA interactome analysis
Abstract/Contents
- Abstract
- Abstract Long noncoding RNAs (lncRNAs) are key regulators of diverse cellular activities, yet their mechanisms of actions are largely unknown. Our understanding of lncRNA biology can be greatly improved by the development and deployment of novel technology, such as biochemical tools optimized for RNAs. Here we introduce Chromatin Isolation by RNA Purification (ChIRP), where tiling oligonucleotides retrieve specific lncRNAs and their interacting DNA sequences, which are enumerated by deep sequencing. ChIRP-seq reveals that RNA occupancy sites in the genome are focal, sequence-specific, and numerous. Drosophila roX2 RNA occupies male X-linked gene bodies with increasing tendency toward the 3' end, peaking at CES sites. ChIRP can also be modified for the purification of lncRNA-interacting transcripts and proteins, making it a universal tool for illuminating lncRNA-interactome with newfound precision.
Description
| Type of resource | text |
|---|---|
| Form | electronic; electronic resource; remote |
| Extent | 1 online resource. |
| Publication date | 2014 |
| Issuance | monographic |
| Language | English |
Creators/Contributors
| Associated with | Chu, Ci |
|---|---|
| Associated with | Stanford University, Cancer Biology Program. |
| Primary advisor | Chang, Howard |
| Thesis advisor | Chang, Howard |
| Thesis advisor | Khavari, Paul A |
| Thesis advisor | Sarnow, P. (Peter) |
| Thesis advisor | Wysocka, Joanna, Ph. D |
| Advisor | Khavari, Paul A |
| Advisor | Sarnow, P. (Peter) |
| Advisor | Wysocka, Joanna, Ph. D |
Subjects
| Genre | Theses |
|---|
Bibliographic information
| Statement of responsibility | Ci Chu. |
|---|---|
| Note | Submitted to the Program in Cancer Biology. |
| Thesis | Thesis (Ph.D.)--Stanford University, 2014. |
| Location | electronic resource |
Access conditions
- Copyright
- © 2014 by Ci Chu
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