|
| Status |
Public on Oct 13, 2016 |
| Title |
FXR ChIP-seq, Liver, TCA+Metformin |
| Sample type |
SRA |
| |
|
| Source name |
Liver
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl6
Sex: male
treatment: TCA+Metformin
antibody: sc-13063
|
| Treatment protocol |
Mice received either (a) a standard rodent chow diet (A03-10 UAR, control) (CHOW), (b) a standard rodent chow diet and metformin (0.5 g/l in drinking water, ca 50–80 mpk/d) (MET), (c) a standard rodent chow diet containing 0.5% (wt/wt) TCA (TCA), or (d) a standard rodent chow diet containing 0.5% (wt/wt) TCA and metformin for 5 days (TCA+MET). Mice were sacrificed by cervical dislocation after 6 hours of fasting.
|
| Growth protocol |
C57BL6/J mice were purchased from Charles River Laboratories and housed in a temperature-controlled room (22–24°C) with a relative humidity of 36%–80%, and 12-hour light/12-hour dark cycles. Mice were fed ad libitum, with free access to water.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
ChIP was performed as described in Flajollet,S., Lefebvre,B., Rachez,C., and Lefebvre,P. 2006. Distinct Roles of the Steroid Receptor Coactivator 1 and of MED1 in Retinoid-induced Transcription and Cellular Differentiation. J. Biol. Chem. 281:20338-20348.
Libraries were prepared using NEBNext® ChIP-Seq Library Prep Master Mix Set for Illumina (E6240 and E7335 from New England Biolabs) according to the manufacturer's instructions
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Reads were mapped to the mouse genome (mm10) using Bowtie 1
Bigwig files report signal intensity at 25 bp resolution normalized to the library size.
Genome_build: mm10
Supplementary_files_format_and_content: Bigwig (signal intensity at 25 bp resolution normalized to the library size).
|
| |
|
| Submission date |
Oct 12, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jérôme Eeckhoute |
| E-mail(s) |
jerome.eeckhoute@inserm.fr
|
| Organization name |
CNRS
|
| Lab |
INSERM UMR 1011, Université Lille-Nord de France
|
| Street address |
Bâtiment J&K, Faculté de Médecine de Lille-Pôle Recherche, Boulevard du Professeur Leclerc
|
| City |
Lille |
| ZIP/Postal code |
59045 |
| Country |
France |
| |
|
| Platform ID |
GPL17021 |
| Series (1) |
|
| Relations |
| BioSample |
SAMN05898819 |
| SRA |
SRX2240108 |
