|
| Status |
Public on Feb 20, 2014 |
| Title |
Granulocyte Rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Gr1+ Granulocyte
|
| Organism |
Mus musculus |
| Characteristics |
cell type: Granulocyte
tissue: Adult bone marrow
age: 8 - 12 weeks
strain: C57BL/6
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Mini column kits
|
| Label |
Cy5
|
| Label protocol |
RNA was labeled with Cy5 using the manufacturer's standard labeling kits and protocol
|
| |
|
| Hybridization protocol |
Cy5-labeled RNA was hybridized to SurePrint G3 Mouse GE 8x60K arrays
|
| Scan protocol |
Arrays were scanned using the Agilent microarray scanner
|
| Description |
GR1
|
| Data processing |
Agilent Feature Extraction Software was used to quantify expression and local background levels for each probe of each sample. Background subtracted expression values were then quantile normalized. Values that did not show significant expression above background (p<0.05 and at least 2.6 fold above background’s standard deviation) were considered not significantly detected and floored to the minimal significantly detected (MSD) value (MSD = 4.6). Expression values were log2 transformed for further analysis.
The processed data used to draw the conclusions in the published study are restricted to noncoding genes identified by us (accession IDs TCONS_xxxxxxx) and coding genes already present on the array.
|
| |
|
| Submission date |
Oct 30, 2013 |
| Last update date |
Feb 20, 2014 |
| Contact name |
Ross Hardison |
| E-mail(s) |
rch8@psu.edu
|
| Organization name |
Pennsylvania State University
|
| Street address |
303 Wartik Lab
|
| City |
University Park |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
|
| Platform ID |
GPL17864 |
| Series (2) |
| GSE51892 |
Long noncoding RNA expression in several hematopoietic progenitor and differentiated cell populations using a custom Agilent microarray |
| GSE52555 |
Long noncoding RNA expression in several hematopoietic progenitor and differentiated cell populations |
|
