|
| Status |
Public on Mar 08, 2017 |
| Title |
Medial pulp_H3K4me3_II |
| Sample type |
SRA |
| |
|
| Source name |
primary remige
|
| Organism |
Gallus gallus |
| Characteristics |
feather type: primary remige
vane dimension: wide
region: medial side
tissue: mesenchyme (pulp)
batch: II
antibody: H3K4me3 (Abcam, ab8580, lot GR188955-1)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Epithelium and mesenchyme were separated in 2xCMF. Mesenchymal cells were dissociated by 0.35% collagenase digestion. Cell lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody.
Libraries were prepared according to Illumina's instructions in USC epigenome center
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Chuong-CHIP-196
|
| Data processing |
Adaptor sequence trimming, alignment of reads (Bowtie 2 galGal4) were done in Partek flow
Peak calling was done in Galaxy MACS
Genome_build: galGal4
Supplementary_files_format_and_content: wig files were generated by Galaxy MACS
|
| |
|
| Submission date |
Sep 02, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ang Li |
| E-mail(s) |
ang.li3@uta.edu
|
| Phone |
6823063485
|
| Organization name |
University of Texas at Arlington
|
| Department |
Kinesiology
|
| Street address |
655 W Mitchell St, SEIR 244
|
| City |
Arlington |
| State/province |
TX |
| ZIP/Postal code |
76010 |
| Country |
USA |
| |
|
| Platform ID |
GPL19787 |
| Series (2) |
| GSE86414 |
Histone H3 Lysine 4 trimethylation (H3K4me3) ChIP-Seq to identify actively transcribing genes and their active promoter regions in the narrower and wider vanes of primary remiges, respectively |
| GSE86415 |
Histone H3 Lysine 4 trimethylation (H3K4me3) ChIP-Seq and RNA-seq of narrower and wider vanes of primary remiges |
|
| Relations |
| BioSample |
SAMN05727113 |
| SRA |
SRX2107189 |
