|
| Status |
Public on Jun 08, 2016 |
| Title |
Th1 cells DMSO control 24 hrs unstimulated |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
In vitro differentiated Th1 cells, DMSO control 24 hrs, unstimulated
|
| Organism |
Mus musculus |
| Characteristics |
cell type: In vitro differentiated Th1 cells
treatment: DMSO control
gender: female
strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trisure following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
200 ng total RNA was labelled with the two colour Low Input Quick Amp Labeling Kit according to the manufacturers instructions. Sample cRNA was mixed with spike A mix and labelled with Cy3. Reference RNA was mixed with spike B mix and labelled with Cy5
|
| |
|
| Channel 2 |
| Source name |
Naïve CD4+CD62L+CD25-CD44lo T cells isolated from lymph nodes and spleens
|
| Organism |
Mus musculus |
| Characteristics |
gender: female
strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA extracted using Trisure following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
200 ng total RNA was labelled with the two colour Low Input Quick Amp Labeling Kit according to the manufacturers instructions. Sample cRNA was mixed with spike A mix and labelled with Cy3. Reference RNA was mixed with spike B mix and labelled with Cy5
|
| |
|
| |
| Hybridization protocol |
300 ng of sample cRNA was mixed with 300 ng of reference cRNA and hybridised to SurePrint G3 Mouse GE 8x60K microarrays. Hybridisation and washing of the array slides was done following the specifications in the Agilent Low Input Quick Amp Labeling protocol.
|
| Scan protocol |
Arrays were scanned on an Agilent High Resolution C scanner and images were quantified using Agilent Feature Extraction Software (version 10.7)
|
| Data processing |
Raw intensity values were background corrected with normexp using an offset of 50 and log2 transformed expression ratios (Cy3 channel vs trimmed mean of Cy5 channel across all arrays) were loess normalised.
|
| |
|
| Submission date |
Oct 18, 2014 |
| Last update date |
Jun 08, 2016 |
| Contact name |
Richard Jenner |
| E-mail(s) |
r.jenner@ucl.ac.uk
|
| Organization name |
UCL Cancer Institute
|
| Department |
Cancer Biology
|
| Lab |
Regulatory Genomics
|
| Street address |
72 Huntley Street
|
| City |
London |
| ZIP/Postal code |
WC1E 6BT |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL10787 |
| Series (2) |
| GSE62485 |
T-bet recruits P-TEFb to super-enhancers to regulate T helper cell differentiation (Agilent 2) |
| GSE62486 |
T-bet recruits P-TEFb to super-enhancers to regulate T helper cell differentiation |
|
