|
| Status |
Public on Aug 05, 2013 |
| Title |
DGM-10565 [NG] |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
small airway epithelium (SAE), NS, MspI
|
| Organism |
Homo sapiens |
| Characteristics |
smoking status: NS
tissue: small airway epithelium (SAE)
restriction enzyme: MspI
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Representation of the genome generated by digestion with either HpaII or MspI and amplification by ligation-mediated PCR according to the HELP protocol
|
| Label |
Cy3
|
| Label protocol |
Labeling was done according to Roche-NimbleGen, Inc. protocol. The array is 720K Roche NimbleGen custom array for HpII tiny fragment Enriched by Ligation-mediated PCR (HELP) assay designname 10128_HG19_MKF_HELP_ChIP
|
| |
|
| Channel 2 |
| Source name |
small airway epithelium (SAE), NS, HpaII
|
| Organism |
Homo sapiens |
| Characteristics |
smoking status: NS
tissue: small airway epithelium (SAE)
restriction enzyme: HpaII
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Representation of the genome generated by digestion with either HpaII or MspI and amplification by ligation-mediated PCR according to the HELP protocol
|
| Label |
Cy5
|
| Label protocol |
Labeling was done according to Roche-NimbleGen, Inc. protocol. The array is 720K Roche NimbleGen custom array for HpII tiny fragment Enriched by Ligation-mediated PCR (HELP) assay designname 10128_HG19_MKF_HELP_ChIP
|
| |
|
| |
| Hybridization protocol |
Hybridization were done according to Roche-NimbleGen, Inc. protocol. The array is 720K Roche NimbleGen custom array for HpII tiny fragment Enriched by Ligation-mediated PCR (HELP) assay designname 10128_HG19_MKF_HELP_ChIP
|
| Scan protocol |
Standard NimbleGen protocol.
|
| Description |
DNA methylation
*HELP_532.pair files correspond to MspI fragments
*HELP_635.pair files correspond to HpaII fragments
|
| Data processing |
Software: NimbleScan version 2.5.26
|
| |
|
| Submission date |
Dec 21, 2012 |
| Last update date |
Aug 05, 2013 |
| Contact name |
Yael Strulovici-Barel |
| E-mail(s) |
yas2003@med.cornell.edu
|
| Organization name |
Weill Cornell Medical College
|
| Department |
Department of Genetic Medicine
|
| Lab |
Crystal
|
| Street address |
1300 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10021 |
| Country |
USA |
| |
|
| Platform ID |
GPL16419 |
| Series (1) |
| GSE43079 |
Cigarette Smoking Induces Small Airway Epithelial Epigenetic Changes with Corresponding Modulation of Gene Expression |
|
