|
Status |
Public on Jan 27, 2021 |
Title |
Anagen replicate8 |
Sample type |
SRA |
|
|
Source name |
Skin
|
Organism |
Capra hircus |
Characteristics |
breed: Chanthangi Pashmina Goat tissue: skin containing pashmina follicles age: 24 months Sex: Male growth stage: Anagen
|
Extracted molecule |
total RNA |
Extraction protocol |
The skin samples containing Pashmina follicles were collected from the flanking region of each goat. The skin biopsies samples were snap-frozen in liquid nitrogen and shipped to the laboratory in RNA-later for processing. Trizol method were used for RNA extraction. Illumina TruSeq RNA Sample Prep Kit was used with 4 ug of total RNA for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Illumina Casava1.7 software used for basecalling. The raw reads were pre-processed to remove the adapter sequences, low-quality reads and low-quality bases filtration towards 3’- end using cutadapt program v2.10 Filtered reads were mapped to Capra hircus reference assembly ARS1 using Hisat program v2.20 (release date 2/6/2020) Genome_build: ARS1 Supplementary_files_format_and_content: Comma saparated file containing log2(FC) for every gene.
|
|
|
Submission date |
Dec 31, 2020 |
Last update date |
Jan 27, 2021 |
Contact name |
Basharat Ahmad Bhat |
E-mail(s) |
bb284@snu.edu.in
|
Phone |
9469662374
|
Organization name |
Sher-e-Kashmir University of Agricultural Sciences and Technology
|
Department |
Animal Biotechnology
|
Street address |
Shuhama
|
City |
Gandarbal |
State/province |
Kashmir |
ZIP/Postal code |
190006 |
Country |
India |
|
|
Platform ID |
GPL19149 |
Series (1) |
GSE164100 |
Identification of potential key genes and pathways associated with the Pashmina fiber initiation using RNA-Seq and integrated bioinformatics analysis |
|
Relations |
BioSample |
SAMN17190697 |
SRA |
SRX9763730 |