|
Status |
Public on Dec 31, 2018 |
Title |
Jej_4_L |
Sample type |
SRA |
|
|
Source name |
Jejunum
|
Organism |
Homo sapiens |
Characteristics |
facs population: GLP1+/CHGA+/SCG2+ participant: 4
|
Extracted molecule |
total RNA |
Extraction protocol |
Human jejunal mucosal samples were dissociated to single cells, fixed in paraformaldehyde (4%), permeabilised with Saponin, Antibody labelled against GLP-1, CHGA and SCG2 and FACS sorted into 3x populations (GLP1-/CHGA+/SCG2+ [Single positive]; GLP1+/CHGA+/SCG2+ [Double positive]; triple negative [Neg]). RNA was extracted using the Ambion Recoverall total Nucelic Acid isolation kit following the MARIS protocol and concentrated using a Qiagen RNeasy Minelute cleanup kit. The library was constructed with 4ng of input RNA using the Clontech Smarter Stranded total RNA-seq - Pico Input mammalian kit v1
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 4000 |
|
|
Description |
Human Jejunum GLP1+/CHGA+/SCG2+ from participant 4
|
Data processing |
Sequenced reads were trimmed for adapter sequence and mapped to the human genome (GRCh37) using Tophat and raw counts generated with Htseq-count Differential gene expression modelling and normalised counts per million were generated using DESEQ2. Genome_build: GRCh37 Supplementary_files_format_and_content: all_raw_counts.txt is tab delimited file of number of counts for ensembl gene ids for each biological sample
|
|
|
Submission date |
May 24, 2018 |
Last update date |
Dec 31, 2018 |
Contact name |
Brian Yee Hong Lam |
E-mail(s) |
yhbl2@cam.ac.uk
|
Organization name |
University of Cambridge
|
Department |
Metabolic Research Laboratories
|
Street address |
Box 289 Addenbookes Hospital, Hills Road
|
City |
Cambridge |
ZIP/Postal code |
CB2 0QQ |
Country |
United Kingdom |
|
|
Platform ID |
GPL20301 |
Series (1) |
GSE114853 |
Human enteroendocrine cell transcriptomic profiling |
|
Relations |
BioSample |
SAMN09245809 |
SRA |
SRX4119633 |