|
Status |
Public on Jan 25, 2024 |
Title |
RNAseq_ZSCAN4_KO_Ctrl_rep1 |
Sample type |
SRA |
|
|
Source name |
Embryonic cells
|
Organism |
Homo sapiens |
Characteristics |
tissue: Embryonic cells cell line: ES cells (SEES3) cell type: Pluripotent stem cells genotype: Male treatment: Ctrl replication: Biological replicate 1
|
Extracted molecule |
polyA RNA |
Extraction protocol |
Total RNA was extracted using TRIzol solution (Roche) according to the manufacturer's instructions The cDNA library was prepared from 500ng of each total RNA sample for massive parallel sequencing using an NEBNext Poly(A) mRNA Magnetic Isolation Module and an Ultra Directional RNA Library Prep Kit for Illumina (NEB). The cDNA library produced ranged from 400 to 1000 bp, including the adaptor sequences
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Fastq files were processed and analyzed on the Biowardrobe platform Heat maps were generated by Morpheus Assembly: hg19 Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
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|
|
Submission date |
Sep 20, 2023 |
Last update date |
Jan 25, 2024 |
Contact name |
Tomohiko Akiyama |
E-mail(s) |
akiakiakit@hotmail.com
|
Phone |
0457872596
|
Organization name |
Yokohama city university
|
Department |
School of medicine
|
Street address |
3-9 Fuku-ura
|
City |
Yokohama |
State/province |
Kanagawa |
ZIP/Postal code |
236-0004 |
Country |
Japan |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE243627 |
ZSCAN4-binding motif - TGCACAC is conserved and enriched in CA/TG microsatellites in both mouse and human genomes [RNA-Seq] |
GSE243628 |
ZSCAN4-binding motif - TGCACAC is conserved and enriched in CA/TG microsatellites in both mouse and human genomes |
|
Relations |
BioSample |
SAMN37479654 |
SRA |
SRX21832896 |