|
| Status |
Public on Jan 27, 2021 |
| Title |
Telogen replicate3 |
| 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: Telogen
|
| 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 |
SAMN17190713 |
| SRA |
SRX9763735 |
