|
| Status |
Public on Jan 01, 2016 |
| Title |
NCI-HPN-F4K Colon p54 Late Transformed |
| Sample type |
RNA |
| |
|
| Source name |
mouse colon epithelial cells
|
| Organism |
Mus musculus |
| Characteristics |
Stage: p54
strain: C57BL/6
gender: female
|
| Treatment protocol |
RNAwas extracted from the murine epithelial cells during the various stages of cellular transformation. The uncultured colon epithelial cells served as a normal control. The Qiagen RNAeasy Mini Kit was used to extract the RNA according to manufacturer's protocols.
|
| Growth protocol |
none
|
| Extracted molecule |
total RNA |
| Extraction protocol |
700ng of total input RNA was used from each of the cell lines and uncultured was labeled with Cy3 and fragmented before application to the microarray.
|
| Label |
Cy 3
|
| Label protocol |
The denatured probe was applied to the Agilent Mouse Gene Expression 4 X44K Microarray Kit along with 2xGE Hybridization Buffer according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
The arrays were hybridized according to the Agilent One-Color Microarray-Based Gene Expression Analysis protocol.
|
| Scan protocol |
The arrays were scanned using an Agilent Scanner System with the following settings: 5µm resolution scan, scan area (61 x21.6mm), single pass 5um scanning mode, eXtended Dynamic range, Dye channel Green, and Green PMT XDR Hi 100%, XDR Lo 10% . Images were quantified using Agilent Feature Extraction Software (version 8.1.1).
|
| Description |
female
|
| Data processing |
Raw data were log2 transformed and normalized to 75 percentile according to Agilent protocol
|
| |
|
| Submission date |
Aug 25, 2015 |
| Last update date |
Jan 01, 2016 |
| Contact name |
Hesed Maria Padilla-Nash |
| E-mail(s) |
nashh@mail.nih.gov
|
| Phone |
301-435-4019
|
| Organization name |
NCI
|
| Department |
Genetics Branch
|
| Lab |
Section of Cancer Genomics
|
| Street address |
50 South Drive
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892-8010 |
| Country |
USA |
| |
|
| Platform ID |
GPL7202 |
| Series (2) |
| GSE72347 |
Molecular Characterization of Spontaneously Transformed Epithelial Murine Colon Cell Lines as a Model of Human Colorectal Neoplasia (expression) |
| GSE72349 |
Molecular Characterization of Spontaneously Transformed Epithelial Murine Colon Cell Lines as a Model of Human Colorectal Neoplasia |
|
