NDLI: Probabilistic discovery of overlapping cellular processes and their regulation

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Probabilistic discovery of overlapping cellular processes and their regulation

Content Provider	ACM Digital Library
Author	Battle, Alexis Segal, Eran Koller, Daphne
Abstract	Many of the functions carried out by a living cell are regulated at the transcriptional level, to ensure that genes are expressed when they are needed. Thus, to understand biological processes, it is thus necessary to understand the cell's transcriptional network. In this paper, we propose a novel probabilistic model of gene regulation for the task of identifying overlapping biological processes and the regulatory mechanism controlling their activation. A key feature of our approach is that we allow genes to participate in multiple processes, thus providing a more biologically plausible model for the process of gene regulation. We present an algorithm to learn this model automatically from data, using only genome-wide measurements of gene expression as input. We compare our results to those obtained by other approaches, and show significant benefits can be gained by modeling both the organization of genes into overlapping cellular processes and the regulatory programs of these processes. Moreover, our method successfully grouped genes known to function together, recovered many regulatory relationships that are known in the literature, and suggested novel hypotheses regarding the regulatory role of previously uncharacterized proteins.
Starting Page	167
Ending Page	176
Page Count	10
File Format	PDF
ISBN	1581137559
DOI	10.1145/974614.974637
Language	English
Publisher	Association for Computing Machinery (ACM)
Publisher Date	2004-03-27
Publisher Place	New York
Access Restriction	Subscribed
Subject Keyword	Cellular processes Gene regulation Probabilistic relational models
Content Type	Text
Resource Type	Article

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
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