|
| Status |
Public on Sep 10, 2024 |
| Title |
Med15_CTRL_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Mouse islets
|
| Organism |
Mus musculus |
| Characteristics |
passage/age: 8 weeks
strain: C57BL/6
chip antibody: MED15 (11566-AP; ProteinTech)
|
| Growth protocol |
MIN6
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Johnson et al., 2007, Science 316: 1497- 1502
SMARTer® ThruPLEX® DNA-Seq Kit
Paired end (MIN6) and single reads (islets)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Description |
Med15 ChIP-seq
Illumina NextSeq500
WT_Med15.bigwig
|
| Data processing |
ChIP-seq reads were aligned to the mm10 genome assembly using BWA and filtered for PCR duplicates.
For MIN6 cells, treatment samples were called using input as control with a q value of 0.05 in MACS2v2.2.1. For islets, EaSeq v1.111 "find peak" function was used with adaptive threshold function for control versus knockout islets (Med15) and control versus input (Med1).
Genome_build: mm10
Supplementary_files_format_and_content: bigwig
|
| |
|
| Submission date |
Sep 09, 2019 |
| Last update date |
Sep 10, 2024 |
| Contact name |
Francis C Lynn |
| E-mail(s) |
fclynn@interchange.ubc.ca
|
| Phone |
6048752000
|
| Organization name |
University of British Columbia
|
| Department |
Surgery
|
| Lab |
Lynn
|
| Street address |
950 28th Ave W
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V5Z 4H4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL19057 |
| Series (1) |
| GSE137145 |
Transcriptional coactivator MED15 is required for beta cell maturation |
|
| Relations |
| BioSample |
SAMN12718730 |
| SRA |
SRX6821918 |
