|
| Status |
Public on Aug 01, 2014 |
| Title |
cDNA from scc2-4 cells_37C rep1 |
| Sample type |
RNA |
| |
|
| Source name |
scc2-4 cells_37C
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain: Y4251
genotype/variation: MATa, scc2-4, Scc1-Pk9::TRP1, Sth1-9myc::URA3
|
| Treatment protocol |
Exponentially growing cells were harvested.
|
| Growth protocol |
Cells were grown in YP + 2% Glucose to an OD600 of 0.25 and then the temperature shifted from 25°C to 37°C for two hours.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted following the manufacturers instructions (QUIAGEN). dscDNA was amplified using IVT (Invitrogen).
|
| Label |
Biotin-N6-ddATP
|
| Label protocol |
10 mg of dscDNA was digested with DNase I and end-labeled using biotin-N6-ddATP using terminal transferase TdT (Roche, 400 U/µl) and Biotin-N6-ddATP (Enzo Life Sciences).
|
| |
|
| Hybridization protocol |
Hybridization was performed following the manufacturers instructions (Affymetrix). Samples were hybridized in buffer containing SSPE, TritonX-100, denatured salmon sperm DNA and biotin-labelled control oligonucleotide, oligo B2. Samples were denatured at 95ºC for 10 minutes before being hybridized to the arrays for 16 hours at 42ºC in a GeneChip Hybridization Oven 640.
|
| Scan protocol |
The washing and scanning protocol (FlexMini_euk2v3_450), provided by Affymetrix, was performed automatically on a GeneChip Fluidics Station 450. Arrays were scanned using the GeneChip Scanner 3000 7G, and primary analysis of the chip data was performed using the Affymetrix GeneChip Operating Software (GCOS).
|
| Description |
cDNA from scc2-4 cells
4251/37°C
|
| Data processing |
The data provided was pre-processed and normalised using the standard RMA procedure, as provided by the affy package in Bioconductor 2.11.
|
| |
|
| Submission date |
Apr 23, 2014 |
| Last update date |
Aug 01, 2014 |
| Contact name |
Lidia Lopez-Serra |
| E-mail(s) |
lidia.lopez-serra@cancer.org.uk
|
| Organization name |
Canser Research UK
|
| Department |
Chromosome segregation
|
| Street address |
44 Lincoln's Inn Fields
|
| City |
London |
| ZIP/Postal code |
WC2A 3LY |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL2529 |
| Series (2) |
| GSE56991 |
The Scc2NIPBL/Scc4MAU2 complex acts in sister chromatid cohesion and transcriptional regulation by maintaining nucleosome-free regions [microarray] |
| GSE56994 |
The Scc2NIPBL/Scc4MAU2 complex acts in sister chromatid cohesion and transcriptional regulation by maintaining nucleosome-free regions. |
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