|
Status |
Public on Jun 14, 2018 |
Title |
NMR_NM_6074_THY |
Sample type |
SRA |
|
|
Source name |
thyroid
|
Organism |
Heterocephalus glaber |
Characteristics |
tissue: thyroid Sex: male age: 3.8 years reproductive status: non-breeder
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Extraction was done as described in Bens et al. 2016. (PMID:26763976) Library preparation was done using Illumina's TruSeq RNA Library Prep Kit v2 kit following the manufacturer's description.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
NMR_counts.xls
|
Data processing |
Extraction of read information in FastQ format was done using the tool bcl2astq v1.8.4 (provided by Illumina). Reads were mapped using STAR (v2.4.1d) with a maximum mismatch of 6% and a minimum aligned length of 90%. Reads mapped to multiple loci were discarded. Reads per gene were counted using HTSeq framework (0.6.1p1) Genome_build: genome (hetgla2, GCA_000247695.1) can be download from UCSC (ftp://hgdownload.cse.ucsc.edu/goldenPath/hetGla2/bigZips/) Supplementary_files_format_and_content: The Excel sheet includes raw counts for all genes and each sample.
|
|
|
Submission date |
May 08, 2017 |
Last update date |
May 15, 2019 |
Contact name |
Marco Groth |
E-mail(s) |
dnaseq@leibniz-fli.de
|
Organization name |
Leibniz Institute on Aging - FLI
|
Department |
Core Facility - Next Generation Sequencing
|
Street address |
Beutenbergstraße 11
|
City |
Jena |
ZIP/Postal code |
07747 |
Country |
Germany |
|
|
Platform ID |
GPL21195 |
Series (2) |
GSE98663 |
RNA-seq of nine naked mole-rat tissues from breeders and non-breeders |
GSE98719 |
RNA-seq of breeding and non-breeding naked mole-rats and guinea pigs |
|
Relations |
BioSample |
SAMN06917174 |
SRA |
SRX2790654 |