|
| Status |
Public on Dec 20, 2015 |
| Title |
Zscan10_f/f-Tx_rep2 |
| Sample type |
SRA |
| |
|
| Source name |
Embryonic stem cells, Zscan10 floxed, replicate2
|
| Organism |
Mus musculus |
| Characteristics |
cell type: ESC
genotype/variation: control
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNAs were prepared by QuickGene RNA cultured cell HC kit (KURABO) following the manufacturer's instruction and treated with Ribo-Zero Gold Sample Prep Kit (Illumina) for deplete ribosomal RNA.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Description |
Gene expression without Zscan10 deletion
rRNA depleted RNA
|
| Data processing |
Sequenced reads were aligned to the mouse genome (mm10) using TopHat after trimming of adaptor sequences with trim_galore and quality check with FastQC.
Gene expression level measured as FPKM was determined with Cuffdiff.
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text file includes FPKM values for each Sample
|
| |
|
| Submission date |
Dec 18, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Hitoshi Niwa |
| E-mail(s) |
niwa@kumamoto-u.ac.jp
|
| Organization name |
RIKEN
|
| Department |
Center for Developmental Biology
|
| Lab |
Laboratory for Pluripotent Stem Cell Studies
|
| Street address |
2-2-3 Minatojima-minamimachi,Chuo-ku
|
| City |
Kobe |
| State/province |
Hyogo |
| ZIP/Postal code |
650-0047 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE76143 |
Zscan10 is dispensable for maintenance of pluripotency in mouse embryonic stem cells |
|
| Relations |
| BioSample |
SAMN04350009 |
| SRA |
SRX1490961 |
