|
| Status |
Public on Dec 31, 2016 |
| Title |
Retrieving Chromatin Patterns from Deep Sequencing Data Using Correlation Functions. |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Robust comparison of deep-sequencing data sets is often hampered by differences in their pattern structure or signal-to-noise ratio. Here, we established multi-scale correlation evaluation (MCORE), a method to dissect and compare the genome-wide topology of chromatin features. We applied MCORE to Hi-C, ChIA-PET, ChIP-seq, RNA-seq and Bisulfite-seq data from mouse embryonic stem cells and neural cells to track the extension, transformation and spatial repositioning of chromatin domains during differentiation.
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| |
|
| Overall design |
ChIP-seq of histone modifications and RNA-seq of total RNA in mouse ESCs and retinoic acid derived NPCs
|
| |
|
| Contributor(s) |
Molitor J, Mallm JP, Rippe K, Erdel F |
| Citation(s) |
28131315 |
| |
| Submission date |
Sep 29, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Jan-Philipp Mallm |
| Organization name |
DKFZ
|
| Street address |
Im Neuenheimer Feld 267
|
| City |
Heidelberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
| |
|
| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
|
| Samples (40)
|
|
| Relations |
| Reanalysis of |
GSM1413868 |
| Reanalysis of |
GSM1413870 |
| BioProject |
PRJNA262580 |
| SRA |
SRP048456 |
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