|
Status |
Public on Sep 10, 2024 |
Title |
Input_IM15KO_rep2 |
Sample type |
SRA |
|
|
Source name |
Mouse islets
|
Organism |
Mus musculus |
Characteristics |
passage/age: 8 weeks strain: C57BL/6
|
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 |
Input Illumina NextSeq500
|
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 |
SAMN12718752 |
SRA |
SRX6821920 |