|
| Status |
Public on Nov 30, 2011 |
| Title |
pancreas_flox_pool2 |
| Sample type |
SRA |
| |
|
| Source name |
pancreas, flox
|
| Organism |
Mus musculus |
| Characteristics |
gender: male
developmental stage: adult
tissue: pancreas
genotype: wild-type
|
| Growth protocol |
To generate the tamoxifen-inducible cre Lrh1 deletion, mice with floxed Lrh1 alleles (Lee et al. 2008) were crossed with a ROSA26 Tam-ERCre strain (no. 004847, Jackson Laboratories). This line was backcrossed to generate a mixed strain, homozygous Lrh1 floxed, and heterozygous ROSA26 Tam-ERCre line. From this line, adult male mice with or without ROSA26 Tam-ERCre (3–5 mo old) were treated with 0.25 mg/g tamoxifen (T5648, Sigma-Aldrich) in corn oil by oral gavage for two consecutive days followed by sacrifice after 5 d. Mice were kept on a 12-h light–dark cycle from 6:00 am to 6:00 pm with free access to water and standard chow diet (TD.2016, Harland-Teklad Laboratories).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Ten micrograms of total RNA from two separate pools of three Flox or two LRHt-/- pancreas RNA preparations was subjected to the Illumina RNA-seq protocol (Illumina). DNA (0.7 fmol) from each amplified library was analyzed with an Illumina Genome Analyzer.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
non-genomic |
| Library selection |
other |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
wild-type pool 2
|
| Data processing |
The sequence tags were aligned to the mouse (mm9) genome with Bowtie 3.
|
| |
|
| Submission date |
Nov 29, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Scott Andrew Ochsner |
| E-mail(s) |
sochsner@bcm.edu
|
| Phone |
713-798-6227
|
| Organization name |
Baylor College of Medicine
|
| Department |
Molecular and Cellular Biology
|
| Lab |
SPP: Signaling Pathways Project
|
| Street address |
One Baylor Plaza
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL9185 |
| Series (2) |
| GSE34030 |
LRH-1 and PTF1-L coregulate an exocrine pancreas-specific transcriptional network for digestive function [RNA-Seq] |
| GSE34296 |
LRH-1 and PTF1-L coregulate an exocrine pancreas-specific transcriptional network for digestive function |
|
| Relations |
| SRA |
SRX110339 |
| BioSample |
SAMN00761818 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM840629_s_4_mm9.chr1.wig.gz |
4.6 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr10.wig.gz |
3.7 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr11.wig.gz |
6.2 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr12.wig.gz |
2.9 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr13.wig.gz |
2.6 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr13_random.wig.gz |
25.5 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr14.wig.gz |
2.6 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr15.wig.gz |
3.2 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr16.wig.gz |
2.4 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr17.wig.gz |
3.7 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr18.wig.gz |
2.0 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr19.wig.gz |
2.8 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr1_random.wig.gz |
53.3 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr2.wig.gz |
6.4 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr3.wig.gz |
4.0 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr4.wig.gz |
5.1 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr4_random.wig.gz |
3.6 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr5.wig.gz |
5.1 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr6.wig.gz |
4.1 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr7.wig.gz |
5.6 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr8.wig.gz |
4.2 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr8_random.wig.gz |
41.7 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr9.wig.gz |
4.2 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chr9_random.wig.gz |
13.9 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrM.wig.gz |
70.2 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrUn_random.wig.gz |
48.5 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrX.wig.gz |
2.3 Mb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrX_random.wig.gz |
11.8 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrY.wig.gz |
31.3 Kb |
(ftp)(http) |
WIG |
| GSM840629_s_4_mm9.chrY_random.wig.gz |
19.8 Kb |
(ftp)(http) |
WIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
