NDLI: Detection of gene communities in multi-networks reveals cancer drivers

Content Provider	PubMed Central
Author	Cantini, Laura Medico, Enzo Fortunato, Santo Michele, Caselle
Copyright Year	2015
Abstract	We propose a new multi-network-based strategy to integrate different layers of genomic information and use them in a coordinate way to identify driving cancer genes. The multi-networks that we consider combine transcription factor co-targeting, microRNA co-targeting, protein-protein interaction and gene co-expression networks. The rationale behind this choice is that gene co-expression and protein-protein interactions require a tight coregulation of the partners and that such a fine tuned regulation can be obtained only combining both the transcriptional and post-transcriptional layers of regulation. To extract the relevant biological information from the multi-network we studied its partition into communities. To this end we applied a consensus clustering algorithm based on state of art community detection methods. Even if our procedure is valid in principle for any pathology in this work we concentrate on gastric, lung, pancreas and colorectal cancer and identified from the enrichment analysis of the multi-network communities a set of candidate driver cancer genes. Some of them were already known oncogenes while a few are new. The combination of the different layers of information allowed us to extract from the multi-network indications on the regulatory pattern and functional role of both the already known and the new candidate driver genes.
Related Links	http://dx.doi.org/10.1038/srep17386
Starting Page	17386
File Format	PDF
ISSN	20452322
e-ISSN	20452322
Journal	Scientific Reports
Volume Number	5
Language	English
Publisher	Nature Publishing Group
Publisher Date	2015-12-01
Access Restriction	Open
Rights Holder	Nature Publishing Group
Subject Keyword	Science and technology Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Detection of gene communities in multi-networks reveals cancer drivers

Detection of gene communities in multi-networks reveals cancer drivers

Detection of Composite Communities in Multiplex Biological Networks

Cancer systems biology of TCGA SKCM: Efficient detection of genomic drivers in melanoma

Evaluation and integration of cancer gene classifiers: identification and ranking of plausible drivers

Dynamical detection of network communities

Exploring the impact of different multi-level measures of physician communities in patient-centric care networks on healthcare outcomes: A multi-level regression approach

Finding communities in sparse networks

Single molecule targeted sequencing for cancer gene mutation detection

Detection of gene communities in multi-networks reveals cancer drivers

Similar Documents

Detection of gene communities in multi-networks reveals cancer drivers

Detection of gene communities in multi-networks reveals cancer drivers

Detection of Composite Communities in Multiplex Biological Networks

Cancer systems biology of TCGA SKCM: Efficient detection of genomic drivers in melanoma

Evaluation and integration of cancer gene classifiers: identification and ranking of plausible drivers

Dynamical detection of network communities

Exploring the impact of different multi-level measures of physician communities in patient-centric care networks on healthcare outcomes: A multi-level regression approach

Finding communities in sparse networks

Single molecule targeted sequencing for cancer gene mutation detection

Detection of gene communities in multi-networks reveals cancer drivers