|
Status |
Public on Dec 17, 2014 |
Title |
PatientA_FFPE_250ng_BS_RES_8ul, rep2 |
Sample type |
genomic |
|
|
Source name |
colon adenocarcinoma, FFPE from Patient A
|
Organism |
Homo sapiens |
Characteristics |
tissue: colon adenocarcinoma gender: male input amount: 250 ng first processing step: bisulfite modification second processing step: Illumina Restore assay volume: 8 ul specimen preservation method: formalin-fixed paraffin-embedded (FFPE) year of tissue collection: 1999 patient id: A
|
Extracted molecule |
genomic DNA |
Extraction protocol |
QIAamp DNA FFPE Tissue Kit (QIAGEN Inc., Valencia, CA).
|
Label |
Cy5 and Cy3
|
Label protocol |
Standard Illumina Protocol.
|
|
|
Hybridization protocol |
Bisulfite-converted DNA was amplified, fragmented and hybridized to Illumina Infinium Human Methylation450 BeadChip using standard Illumina protocol.
|
Scan protocol |
Arrays were imaged using HiScanSQ System (Illumina, Inc.) using standard recommended Illumina scanner setting.
|
Description |
PatientA_RES3 Archived formalin-fixed paraffin-embedded colon adenocarinoma.
|
Data processing |
R/Bioconductor: DASEN method in the WateRmelon package (version 1.2.2).
|
|
|
Submission date |
Jul 02, 2014 |
Last update date |
Dec 17, 2014 |
Contact name |
Steven Eschrich |
E-mail(s) |
Steven.Eschrich@moffitt.org
|
Organization name |
Moffitt Cancer Center
|
Department |
Biostatistics & Bioinformatics
|
Street address |
12902 Magnolia Drive
|
City |
Tampa |
State/province |
FL |
ZIP/Postal code |
33612 |
Country |
USA |
|
|
Platform ID |
GPL13534 |
Series (1) |
GSE59038 |
Expanding epigenomics to archived FFPE tissues: An evaluation of DNA repair methodologies |
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