creators_name: Nagpal, Gandharva
creators_name: Sharma, Minakshi
creators_name: Kumar, Shailesh
creators_name: Chaudhary, Kumardeep
creators_name: Gupta, Sudheer
creators_name: Gautam, Ankur
creators_name: Raghava, G.P.S.
type: article
datestamp: 2015-07-20 03:43:53
lastmod: 2015-07-20 03:43:53
metadata_visibility: show
title: PCMdb: pancreatic cancer methylation database.
ispublished: pub
subjects: QR
keywords: Genetic database; cancer genetics
note: Open Access
abstract: Pancreatic cancer is the fifth most aggressive malignancy and urgently requires new biomarkers to facilitate early detection. For providing impetus to the biomarker discovery, we have developed Pancreatic Cancer Methylation Database (PCMDB, http://crdd.osdd.net/raghava/pcmdb/), a comprehensive resource dedicated to methylation of genes in pancreatic cancer. Data was collected and compiled manually from published literature. PCMdb has 65907 entries for methylation status of 4342 unique genes. In PCMdb, data was compiled for both cancer cell lines (53565 entries for 88 cell lines) and cancer tissues (12342 entries for 3078 tissue samples). Among these entries, 47.22% entries reported a high level of methylation for the corresponding genes while 10.87% entries reported low level of methylation. PCMdb covers five major subtypes of pancreatic cancer; however, most of the entries were compiled for adenocarcinomas (88.38%) and mucinous neoplasms (5.76%). A user-friendly interface has been developed for data browsing, searching and analysis. We anticipate that PCMdb will be helpful for pancreatic cancer biomarker discovery.
date: 2014
date_type: published
publication: Scientific reports
volume: 4
publisher: Nature Publishing Group
pagerange: 4197
refereed: TRUE
issn: 2045-2322
official_url: http://www.nature.com/srep/2014/140226/srep04197/full/srep04197.html
citation:   Nagpal, Gandharva and Sharma, Minakshi and Kumar, Shailesh and Chaudhary, Kumardeep and Gupta, Sudheer and Gautam, Ankur and Raghava, G.P.S.  (2014) PCMdb: pancreatic cancer methylation database.  Scientific reports, 4.  p. 4197.  ISSN 2045-2322