|
| Status |
Public on May 06, 2021 |
| Title |
Nucleosome conformation dictates the histone code |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Histone post-translational modifications (PTMs) play a critical role in chromatin regulation. It has been proposed that these PTMs form localized “codes” that are read by specialized domains (reader domains) in chromatin associated proteins (CAPs) to regulate downstream function. Substantial effort has been made to define [CAP - histone PTM] specificity, and in doing so to decipher the histone code. However, this has largely been done using a reductive approach of isolated reader domains and histone peptides, with the assumption that PTM readout is unaffected by any higher order considerations. Here we show that histone PTM specificity is in fact dependent on nucleosomal context, necessitating we re-define the ‘histone code’ concept and further interrogate it at the nucleosomal level.
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| |
|
| Overall design |
We performed CUT&RUN for one NURF complex protein, three Histone PTMs, and one IgG control for paired-end sequencing.
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| |
|
| Contributor(s) |
Venters BJ |
| Citation(s) |
38319148 |
| |
| Submission date |
May 14, 2020 |
| Last update date |
Feb 06, 2024 |
| Contact name |
Bryan J Venters |
| Organization name |
EpiCypher
|
| Street address |
6 Davis Drive
|
| City |
Durham |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
| |
|
| Platforms (2) |
|
| Samples (10)
|
| GSM4553893 |
CUT&RUN IgG negative control 500K K562 cells |
| GSM5452705 |
CUT&RUN IgG negative control TSA-500K K562 cells |
| GSM5452706 |
CUT&RUN GST antibody only negative control TSA-500K K562 cells |
| GSM5452707 |
CUT&RUN H3K4me3 TSA-500K K562 cells |
| GSM5452709 |
CUT&RUN H3K18ac TSA-500K K562 cells |
| GSM5452710 |
CUT&RUN BPTF TSA-500K K562 cells |
| GSM5452711 |
CUT&RUN GST-BPTF TSA-500K K562 cells |
|
| Relations |
| BioProject |
PRJNA632919 |
| SRA |
SRP261683 |
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