|
| Status |
Public on Jun 06, 2024 |
| Title |
WT rep1 H3K4me2 ChIP (Set6) |
| Sample type |
SRA |
| |
|
| Source name |
retina
|
| Organism |
Mus musculus |
| Characteristics |
tissue: retina
age: P18
genotype: WT
chip antibody: H3K4me2
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Mouse cerebellum from P18 pups were collected
Samples were subjected to chromatin prep and ChIP protocol ( Diagenode's iDeal ChIP-seq protocol) using H3K27AC antibody (Abcam ab4729) and H3K4me2 antibody (Abcam ab7766).
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
WT rep1 H3K4me2 ChIP
|
| Data processing |
Low quality reads and adapter sequences were trimmed by Trimmomatic
Surviving reads were aligned to mouse reference genome by BWA aligner and filtered by Picard tools
Peak calling was performed by MAC with the subtraction of input samples
Assembly: mm10
Supplementary files format and content: BW peak file
|
| |
|
| Submission date |
Oct 17, 2023 |
| Last update date |
Jun 06, 2024 |
| Contact name |
Shuchang Liu |
| E-mail(s) |
shl96@pitt.edu
|
| Organization name |
University of Pittsburgh
|
| Street address |
203 Lothrop Street
|
| City |
Pittsburgh |
| State/province |
PA |
| ZIP/Postal code |
15261 |
| Country |
USA |
| |
|
| Platform ID |
GPL24247 |
| Series (2) |
| GSE245544 |
A cis-regulatory module underlies retinal ganglion cell genesis and axonogenesis [Set6.H3K27Ac and H3K4me2 ChIP-Seq cerebellum P18 WT] |
| GSE245549 |
A cis-regulatory module underlies retinal ganglion cell genesis and axonogenesis |
|
| Relations |
| BioSample |
SAMN37856800 |
| SRA |
SRX22115656 |
