|
Status |
Public on Nov 01, 2017 |
Title |
control |
Sample type |
SRA |
|
|
Source name |
mouse scramble–transfected Sertoli cell line TM4
|
Organism |
Mus musculus |
Characteristics |
cell type: Testis growth protocol: Cells were grown in DMEM supplemented with 10%FBS treatment prototcol: Scramble transfected antibody: Ago2
|
Treatment protocol |
cells were transfected with miR-471-5p mimic or scramble and after 48 h, cells were subjected to RNA immunoprecipitation using Ago2 antibody
|
Growth protocol |
Cells were grown in DMEM medium with 5% CO2.
|
Extracted molecule |
total RNA |
Extraction protocol |
IP RNAs were obtained following standard RNA IP protocol (Millipore Magna-RIP RNA-Binding Protein Immunoprecipitation Kit) RNA libraries were prepared for sequencing using Illumina TruSeq protocols
|
|
|
Library strategy |
RIP-Seq |
Library source |
transcriptomic |
Library selection |
other |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
Immuno-precipitated RNA
|
Data processing |
Illumina Casava v1.8.2 software used for base-calling Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using TopHat v2.0.8b gene count measurements were obtained using HTSeq-count Genome_build: UCSC mm9 Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
|
|
|
Submission date |
May 31, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Yidong Chen |
E-mail(s) |
cheny8@uthscsa.edu
|
Phone |
2105629163
|
Organization name |
UT Health Science Center at San Antonio
|
Department |
Population Health Sciences
|
Street address |
8403 Floyd Curl Drive, MSC 7784
|
City |
San Antonio |
State/province |
Texas |
ZIP/Postal code |
78229 |
Country |
USA |
|
|
Platform ID |
GPL13112 |
Series (1) |
GSE99500 |
MiR-471-5p–Dependent Regulation of Phagocytosis/Autophagy-Associated Proteins |
|
Relations |
BioSample |
SAMN07180303 |
SRA |
SRX2872528 |