|
| Status |
Public on Jul 12, 2007 |
| Title |
HMEC S1 day 7 sample 1 |
| Sample type |
RNA |
| |
|
| Source name |
HMEC S1
|
| Organism |
Homo sapiens |
| Characteristics |
BioSourceType: frozen_sample
DevelopmentalStage: adult
OrganismPart: mammary gland
TargetedCellType: human mammary epithelial
Sex: female
Organism: Homo sapiens
CellLine: HMT3522S1 (HMEC S1)
|
| Biomaterial provider |
Mina Bissell
|
| Growth protocol |
Cells cultured in a H14 medium (DMEM/F12 containing 250 ng/ml insulin, 10 µg/ml transferrin, 2.6 ng/ml sodium selenite, 10-10 M estradiol, 1.4 x 10-6 M hydrocortisone, 10 ng/ml EGF and 5 µg /ml prolactin) were grown for 7 days in a 3D laminin-rich extracellular matrix (Matrigel BD Biosciences).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was extracted and purified using the QIAGEN RNAeasy kit by following the kit protocol. It was stored at -70C until use.
|
| Label |
biotin
|
| Label protocol |
Affymetrix in vitro transcription
|
| |
|
| Hybridization protocol |
Affymetrix Generic Hybridization
|
| Scan protocol |
Affymetrix Scanning
|
| Description |
We analyzed gene expression in 184 (finite life span) and HMT3522 S1 (immortal non-malignant) HMECs on successive days (3, 5, and 7) post-seeding in a laminin-rich extracellular matrix assay. Both HMECs underwent growth arrest in G0/G1 and differentiated into polarized acini between days 5 and 7.
|
| Data processing |
Experiments with Affymetrix-present P-call rates of >30% were included in the analysis. Signal values from each of the 22,283 probe sets were calculated by means of robust multi-array analysis (RMA) using Bioconductor. (http://www.bioconductor.org) in the R computing environment. The signal values were inverse log2 transformed and then imported into GeneSpring software (SiliconGenetics); and each array was normalized to its median signal intensity.
|
| |
|
| Submission date |
Jun 12, 2007 |
| Last update date |
Aug 14, 2011 |
| Contact name |
Katherine J Martin |
| E-mail(s) |
[email protected]
|
| URL |
http://bioarray.us/
|
| Organization name |
Bioarray Consulting
|
| Street address |
61 Carleton Rd
|
| City |
Belmont |
| State/province |
MA |
| ZIP/Postal code |
02478 |
| Country |
USA |
| |
|
| Platform ID |
GPL96 |
| Series (1) |
| GSE8096 |
Transcription profiling time series of finite life span and immortal non-malignant human mammary epithelial cell lines |
|
