|
| Status |
Public on Apr 01, 2024 |
| Title |
CON2 RNA-seq |
| Sample type |
SRA |
| |
|
| Source name |
endometrium cells
|
| Organism |
Equus asinus |
| Characteristics |
cell type: primary cultured endometrium cells
treatment: none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cultured endometrium cells were dissected and stored in liquid nitrogen individually. Total RNA from each tank was isolated by TRIzol reagent (Invitrogen, UK).
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
CON2
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Index of the reference genome was built using Hisat2 v2.0.4 and paired-end clean reads were aligned to the reference genome using Hisat2 v2.0.4.
HTSeq v0.9.1 was used to count the reads numbers mapped to each gene. Then FPKM of each gene was calculated based on the length of the gene and reads count mapped to this gene.
Genome_build: ASM130575v1
Supplementary_files_format_and_content: gene_fpkm.xlsx: Excel file includes gene expression count for each Sample.
Supplementary_files_format_and_content: gene.fa
Supplementary_files_format_and_content: Equus_asinus_NCBI_novel_gene.fa
|
| |
|
| Submission date |
May 06, 2021 |
| Last update date |
Apr 01, 2024 |
| Contact name |
JunLin Song |
| E-mail(s) |
songjunlin123@sina.com
|
| Organization name |
JunLin Song
|
| Street address |
Changcheng Road
|
| City |
Qingdao |
| ZIP/Postal code |
266109 |
| Country |
China |
| |
|
| Platform ID |
GPL30098 |
| Series (1) |
| GSE174022 |
Transcriptome analysis of endometrium cells in Equus asinus |
|
| Relations |
| BioSample |
SAMN19064819 |
| SRA |
SRX10810320 |
