Assays to confirm viability: In vitro colony assay
Extracted molecule
total RNA
Extraction protocol
RNA prep method: Arcturus pico pure Amplification method: N/A Cell purification method: Negative selection using magnets followed by FACS Contaminating cell type: N/A Method for estimating purity: FACS and in vitro colony assay
Label
Biotin
Description
This sample was analyzed as part of the Stem Cell Genomics Project (http://www.scgp.ca:8080/StemBase/). The biological material was submitted to the Ontario Genomics Innovation Centre (http://www.ottawagenomecenter.ca/) by Dr. Connie Eaves (ceaves@bccrc.ca; ) for analysis. Stembase Experiment ID: E232 Stembase Experiment ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=232 SCGP Sample ID: S311 SCGP Sample ID link: http://www.scgp.ca:8080/StemBase/?path=/browse/experiment&id=232#SAMPLE_339 Short description: The sample is RNA derived from highly purified mouse mammary colony forming cells (CFC). These cells were derived from freshly dissociated mouse mammary tissue and were analyzed for CFC content by in vitro colony arrays. The relevance to the stem cell project is that we have also purified a mammary cell highly enriched for mammary stem cell. A comparison of mouse mammary progenitor (CFC) and stem cell would be very insightful and useful in identifying stem cell specific genes. Estimated purity: 1 CFC in every 10 sorted cells RNA concentration: 688 Num cells for RNA prep: 3000-4000 ( Biological Triplicates) Sample volume: ~10 ul
Data processing
Calculated using the MAS5 algorithm where sc=1500, tau=0.015, alpha1=0.04, and alpla2=0.06
