 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Mar 22, 2017 |
| Title |
E14.5_XX_Meioc_knock-out_RNA-seq_2 |
| Sample type |
SRA |
| |
|
| Source name |
fetal ovary
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: ovary
Stage: E14.5
genotype: Meioc knock-out
preclearing: none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
For RNA-seq experiments, total RNA, of about 1 ug, was extracted using Trizol (Invitrogen) according to manufacturer’s instructions.
For RNA-seq experiments, TruSeq Sample Preparation kit protocol was use with poly-A selection, following the manufacturer's recommendations.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Meioc_KO_RNA-seq_2
|
| Data processing |
Sequenced reads were mapped to mm10 using Tophat with parameter -g1
FPKMs were calculated using Cufflinks
For RIP-seq data, counts were obtained from HTSeq and normalized via DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: Cufflinks output, counts from HTSeq, or normalized counts from DESeq2
|
| |
|
| Submission date |
Nov 30, 2016 |
| Last update date |
Apr 08, 2024 |
| Contact name |
Maria M. Mikedis |
| E-mail(s) |
maria.mikedis@cchmc.org
|
| Organization name |
Cincinnati Children's Hospital Medical Center
|
| Street address |
240 Albert Sabin Way
|
| City |
Cincinnati |
| State/province |
OH |
| ZIP/Postal code |
45229 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE90702 |
Identification of the embryonic germ cell Meioc-/- transcriptome, MEIOC targets in postnatal testis, and YTHDC2 targets in postnatal testis in mouse |
| GSE96919 |
Identification of the mouse embryonic germ cell Meioc-/- transcriptome |
|
| Relations |
| BioSample |
SAMN06076954 |
| SRA |
SRX2694293 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2410930_Gm1564KO_7757_21_genes.fpkm_tracking.gz |
266.3 Kb |
(ftp)(http) |
FPKM_TRACKING |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
