NDLI: Algorithms for inferring cis-regulatory structures and protein interaction networks

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Finding approximate tandem repeats in genomic sequences

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Algorithms for inferring cis-regulatory structures and protein interaction networks

Content Provider	ACM Digital Library
Author	Karp, Richard M.
Abstract	A major focus of functional genomics today is the discovery of the interactions between genes and proteins that regulate the transcription of genes and the responses of cells to external signals. The speaker will describe his recent efforts with several coworkers to solve pieces of this puzzle. The work divides into several parts: A new approach to the recognition of transcription-factor binding sites, based on the principle that transcription factors divide naturally into families such as the leucine zippers and the zinc fingers, and that the binding site motifs for transcription factors within the same family have common features. These features may be obscure at the sequence level, but can be characterized at a higher level of description. By discovering and modeling such meta-sequence features one can improve the sensitivity and specificity with which binding sites can be determined for transcription factors within a family. [5], [6] An algorithm and an associated web-based tool for finding recurrent cis-regulatory modules in the promoter regions of human genes. Each such module consists of a set of transcription factors that often bind to the same promoter regions and collectively enhance or inhibit the transcription of the corresponding genes. [4] An algorithm for minimizing the number of gene perturbation experiments required to reconstruct signal transduction pathways whose regulatory structures can be described within the mathematical framework of chain functions. [1] Algorithms for discovering protein complexes and regulatory pathways that are conserved in evolution, using protein sequence data and protein-protein interaction data for two or more organisms. [2], [3].
Starting Page	45
Ending Page	45
Page Count	1
File Format	PDF
ISBN	1581137559
DOI	10.1145/974614.974621
Language	English
Publisher	Association for Computing Machinery (ACM)
Publisher Date	2004-03-27
Publisher Place	New York
Access Restriction	Subscribed
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
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

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