|
Status |
Public on Oct 19, 2018 |
Title |
merged_D702_D503 |
Sample type |
SRA |
|
|
Source name |
bottom_15cm_SI
|
Organism |
Mus musculus |
Characteristics |
strain: Neurod1-cre-eYFP condition: S_al tissue: ileum cell type: enteroendocrine cells
|
Treatment protocol |
VSG mice had ~70% of their stomach removed and sutured, sham were opened and had a suture around without pressure. A group of sham operated were weight matched for the VSG. All mice were fed on a standard chow except around the surgery for which they received liquid diet
|
Growth protocol |
mice were grown on a 12h dark/light cycle with ad libitum access to water and standard chow
|
Extracted molecule |
total RNA |
Extraction protocol |
epithelium was single-cell digested and FACS sorted for positive cells. RNA was extracted using microplus RNeasy kit (Qiagen) and quality checked on a picochip bioanalyzer 2ng of RNA was used for library contruction using the SMARTer stranded total RNAseq kit v2 pico kit RNAseq SE-50 on an Illumina HiSEQ 40000
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Description |
V19_S2P
|
Data processing |
data was demultiplexed using the Casava pipeline data was mapped to the mouse genome GRCm38 using STAR v2.5.1 and raw counts generated simultaneously Supplementary_files_format_and_content: Larraufie_VSG_EEC_mouse_rawcount.csv is a csv file of number of counts for ensembl gene ids of each biological sample
|
|
|
Submission date |
Oct 18, 2018 |
Last update date |
Oct 19, 2018 |
Contact name |
Pierre Larraufie |
E-mail(s) |
pl418@medschl.cam.ac.uk
|
Organization name |
Metabolic Research Laboratories and MRC Metabolic Diseases Unit
|
Department |
WT-MRC Institute of Metabolic Science
|
Lab |
Level 4
|
Street address |
Box 289, Addenbrooke's Site
|
City |
Cambridge |
ZIP/Postal code |
CB2 0QQ |
Country |
United Kingdom |
|
|
Platform ID |
GPL21103 |
Series (2) |
GSE121489 |
Transcriptomics analysis of enteroendocrine cells after vertical sleeve gastrectomy |
GSE121490 |
Transcriptomics analysis of enteroendocrine cells following vertical sleeve gastrectomy |
|
Relations |
BioSample |
SAMN10258284 |
SRA |
SRX4904763 |