|
| Status |
Public on Dec 10, 2010 |
| Title |
breast_epithelium_normal_CD44_P1 |
| Sample type |
SRA |
| |
|
| Source name |
reduction mammoplasty
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: breast
cell type: epithelial cell
disease state: normal
cell marker: CD44+
antibody vender: BD-Pharmingen
antibody catalog #: 550988
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
cDNA made from polyA RNA isolated from purified cells using antibody attached to beads were fragmented with NlaIII/MmeI restriction enzyme with subsequent adapter ligation.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Description |
Sage-Seq
|
| Data processing |
Sequencing was carried out at the Wistar Institute. The first 17bps of each read is used as a tag. The number of each unique tag is counted. Processed data file includes tag sequences (17bps) in the first column and counts (frequencies) in the second column. Illumina software pipeline OLB version 1.6, 1.7, 1.8 with CASAVA 1.5 was used for generation of sequence: frequency processed files.
|
| |
|
| Submission date |
Nov 11, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Kornelia Polyak |
| E-mail(s) |
kornelia_polyak@dfci.harvard.edu
|
| Phone |
617-632-2106
|
| Organization name |
Dana-Farber Cancer Institute
|
| Department |
Medical Oncology
|
| Lab |
Polyak
|
| Street address |
450 Brookline Ave
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02215 |
| Country |
USA |
| |
|
| Platform ID |
GPL9052 |
| Series (5)
|
| GSE25291 |
Altered antisense-to-sense transcript ratios in breast cancer: Sage-Seq |
| GSE25292 |
Altered antisense-to-sense transcript ratios in breast cancer |
| GSE26140 |
Epigenetic regulation of cell type-specific expression patterns in the human mammary epithelium [SAGE-Seq] |
| GSE26141 |
Epigenetic regulation of cell type-specific expression patterns in the human mammary epithelium |
| GSE32017 |
Molecular profiling of human mammary gland links breast cancer risk to a p27+ cell population with progenitor characteristics |
|
| Relations |
| SRA |
SRX033284 |
| BioSample |
SAMN00149470 |
Less...
More...