|
| Status |
Public on Jun 12, 2014 |
| Title |
GM01651_miR |
| Sample type |
RNA |
| |
|
| Source name |
primary fibroblast cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: GM01651
cell type: primary fibroblast
blm mutation: homozygous (1544insA of RECQL3 gene)
clinical features: Bloom syndrome
age: 13
gender: F
|
| Biomaterial provider |
Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=NA01651
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA samples from fibroblasts were isolated using Qiagen’s miRNAeasy Mini Kit (Qiagen, Valencia, CA). RNA quality was assessed using the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA), and only samples of high quality, defined by distinct 28S and 18S rRNA bands together with a RIN (RNA integrity number) > 7, were used for further analyses.
|
| Label |
biotin
|
| Label protocol |
total RNA (5 micro-g) was converted to biotin-labeled complementary DNA, hybridized onto the chips, and processed by direct detection of the biotin-containing transcripts by streptavidin-Alexa 647 conjugate through a core facility in the Laboratory of Molecular Technology (NCI-Frederick) according to the manufacturer's instructions.
|
| |
|
| Hybridization protocol |
The standard hybridization protocol was used as recommended by a custom miRNA microarray chip (OSU-CCC version 4.0).
|
| Scan protocol |
GeneChips were scanned using the Axon 4000B Scanner through the Laboratory of Molecular Technology (NCI-Frederick).
|
| Description |
primary human fibroblasts
|
| Data processing |
Genepix (version Pro 6.0.1.00)
|
| |
|
| Submission date |
Jan 29, 2014 |
| Last update date |
Sep 05, 2017 |
| Contact name |
James William MacDonald |
| E-mail(s) |
jmacdon@uw.edu
|
| Organization name |
University of Washington
|
| Department |
Environmental and Occupational Health Sciences
|
| Street address |
4225 Roosevelt Way NE
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98105-6099 |
| Country |
USA |
| |
|
| Platform ID |
GPL14592 |
| Series (2) |
| GSE54502 |
Bloom syndrome protein modulates protein-coding gene and miRNA expression as a function of G4 DNA content |
| GSE62877 |
Werner syndrome WRN helicase alters gene expression in a G-quadruplex DNA-dependent manner to antagonize a pro-senescence gene expression program |
|
