NDLI: Multi-Analyte Network Markers for Tumor Prognosis

Content Provider	PubMed Central
Author	Kim, Jongkwang Gao, Long Tan, Kai
Editor	Zhao, Zhongming
Copyright Year	2012
Abstract	Deregulation of gene expression, a hallmark of cancer, is caused by both genetic and epigenetic mechanisms. The rapid accumulation of epigenome maps of various cancers suggests a new avenue of research, namely integrating epigenomic data with other types of omic data for cancer diagnosis, prognosis, and biomarker discovery. We introduce the MAPIT algorithm (Multi Analyte Pathway Inference Tool), to enable principled integration of epigenomic, transcriptomic, and protein interactome data. As a proof-of-principle, we apply MAPIT to glioblastoma multiforme (GBM), the most common and aggressive form of brain tumor. Few predictive markers were reported for the prognosis of GBM patients. By integrating mRNA transcriptome, promoter DNA methylome and protein-protein physical interactome, we find ten expression- and three methylation-based network markers, involving 118 genes. When tested on additional GBM patient samples, the prognostic accuracy of the multi-analyte network markers (73.5%) is 9.7% and 8.6% higher than previous prognostic signatures built on gene expression or DNA methylation alone. Our results highlight the critical role of two novel pathways in the prognosis of GBM patients, small GTPase-mediated protein trafficking and ubiquitination-dependent protein degradation. A better understanding of these two pathways could lead to personalized therapies for subgroups of GBM patients. Our study demonstrates that integrating epigenomic, transcriptomic, and interactomic data can improve the accuracy network-based prognosis markers and lead to novel mechanistic understanding of cancer.
Related Links	http://dx.doi.org/10.1371/journal.pone.0052973
Starting Page	52973
File Format	PDF
ISSN	19326203
e-ISSN	19326203
Journal	PLoS ONE
Issue Number	12
Volume Number	7
Language	English
Publisher	Public Library of Science
Publisher Date	2012-12-26
Access Restriction	Open
Rights Holder	Public Library of Science
Subject Keyword	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

Non-invasive lung cancer diagnosis and prognosis based on multi-analyte liquid biopsy

A noninvasive multi-analyte diagnostic assay: combining protein and DNA markers to stratify bladder cancer patients

Combined detection tumor markers for diagnosis and prognosis of gallbladder cancer

Continuous Metabolic Monitoring Based on Multi-Analyte Biomarkers to Predict Exhaustion

Multi-analyte liquid biopsies for molecular pathway guided personalized treatment selection in advanced refractory cancers: A clinical utility pilot study

Correction: Mutation Scanning Using MUT-MAP, a High-Throughput, Microfluidic Chip-Based, Multi-Analyte Panel

A Conjugated Polyelectrolyte with Pendant High Dense Short-Alkyl-Chain-Bridged Cationic Ions: Analyte-Induced Light-Up and Label-Free Fluorescent Sensing of Tumor Markers

Simultaneous multi-analyte urinary protein assay for bladder cancer detection

Multi-modal techniques for diagnosis and prognosis of Alzheimer’s disease

Multi-Analyte Network Markers for Tumor Prognosis

Similar Documents

Non-invasive lung cancer diagnosis and prognosis based on multi-analyte liquid biopsy

A noninvasive multi-analyte diagnostic assay: combining protein and DNA markers to stratify bladder cancer patients

Combined detection tumor markers for diagnosis and prognosis of gallbladder cancer

Continuous Metabolic Monitoring Based on Multi-Analyte Biomarkers to Predict Exhaustion

Multi-analyte liquid biopsies for molecular pathway guided personalized treatment selection in advanced refractory cancers: A clinical utility pilot study

Correction: Mutation Scanning Using MUT-MAP, a High-Throughput, Microfluidic Chip-Based, Multi-Analyte Panel

A Conjugated Polyelectrolyte with Pendant High Dense Short-Alkyl-Chain-Bridged Cationic Ions: Analyte-Induced Light-Up and Label-Free Fluorescent Sensing of Tumor Markers

Simultaneous multi-analyte urinary protein assay for bladder cancer detection

Multi-modal techniques for diagnosis and prognosis of Alzheimer’s disease

Multi-Analyte Network Markers for Tumor Prognosis