|
| Status |
Public on Mar 28, 2018 |
| Title |
NMR_NM_4925_LVR [re-used] |
| Sample type |
SRA |
| |
|
| Source name |
young_liver
|
| Organism |
Heterocephalus glaber |
| Characteristics |
Sex: male
age: 3.7 years
tissue: liver
|
| 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 |
This is duplicated sample record of GSM2609152 for the convenient retrieval of the complete raw data from SRA
140912_nmr_4925_Leber
|
| 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 10, 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) |
| GSE98744 |
RNA-seq of naked mole-rat liver from young and old animals |
| GSE98746 |
Aging in naked mole-rats and rats |
|
| Relations |
| BioSample |
SAMN06925372 |
| SRA |
SRX2793924 |
