|
| Status |
Public on Dec 02, 2013 |
| Title |
xHomo-3 |
| Sample type |
SRA |
| |
|
| Source name |
xHomo_E9.5 embryo
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6J
genotype/variation: xHomo
developmental stage: E9.5
tissue: embryo
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was purified with an RNeasy Mini Kit (QIAGEN), in which an on-column DNase treatment was included.
500 ng of purified RNA was then subjected to mRNA isolation and library preparation using a NEBNext Ultra RNA Directional Library Prep Kit for Illumina with the Poly (A) mRNA Magnetic Isolation Module (NEB) following manufacturer’s instructions.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
Illumina Bcl2fastq 1.8.2 software was used for demultiplexing and generation of fastq files
RNA-seq data were processed with Tophat and Cufflinks using the UCSC mm9 annotation
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each sample
|
| |
|
| Submission date |
Aug 11, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Li Shen |
| Organization name |
HHMI/Boston Children's Hospital/Harvard Medical School
|
| Street address |
200 Longwood Ave
|
| City |
Boston |
| ZIP/Postal code |
02115 |
| Country |
USA |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE49761 |
Role of Tet1 in genomic imprinting erasure [RNA-seq] |
| GSE49764 |
Role of Tet1 in genomic imprinting erasure |
|
| Relations |
| BioSample |
SAMN02315353 |
| SRA |
SRX333422 |
