|
| Status |
Public on Dec 10, 2013 |
| Title |
HMLE_Parental_RNASeq |
| Sample type |
SRA |
| |
|
| Source name |
Human mammary epithelial cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: human mammary epithelial cells
transfected with: none (parental)
culture type: monolayer
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard SoLID protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
AB SOLiD System 3.0 |
| |
|
| Description |
RNA library
|
| Data processing |
Short reads were mapped to the human reference genome (hg19) and exon junctions using the ABI Bioscope (version 1.21) pipeline with default parameters.
Only the tags that mapped to the hg19 reference at full 35-nt length were used. Tags that aligned to multiple positions were excluded.
Tags mapped to RefSeq genes were counted to derive a measure of gene expression.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text file records number of tags mapped to each gene
|
| |
|
| Submission date |
Dec 05, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Gabriel G Malouf |
| E-mail(s) |
gabriel.malouf@igbmc.fr
|
| Organization name |
IGBMC
|
| Department |
Cancer and functional genomics
|
| Street address |
1 rue Laurent Fries
|
| City |
Illkirch |
| ZIP/Postal code |
67404 |
| Country |
France |
| |
|
| Platform ID |
GPL9442 |
| Series (2) |
| GSE53024 |
Architecture of Epigenetic Reprogramming Following Twist1 Mediated Epithelial-Mesenchymal Transition [RNA-seq] |
| GSE53026 |
Architecture of Epigenetic Reprogramming Following Twist1 Mediated Epithelial-Mesenchymal Transition |
|
| Relations |
| BioSample |
SAMN02437298 |
| SRA |
SRX387618 |
