NDLI: Storage and Matching Technique in Genomic Sequences for Approximate Motif Searching

Content Provider	IEEE Xplore Digital Library
Author	Srinivasa, K.G. Shashidhara, H.S.
Copyright Year	2008
Description	Author affiliation: Data Min. Lab., M S Ramaiah Inst. of Technol., Bangalore (Srinivasa, K.G.; Shashidhara, H.S.)
Abstract	Sequence retrieval serves as a preprocess for a number of other processes including motif discovery, in which obtained sequences are scored against a consensus before being recognized as a motif. This depends on the way sequences are stored prior to retrieval. The usage of two bits for representing genomic characters is optimal storage wise, however does not provide any details regarding length of repetitive characters or other details of positional significance. The intent of the paper is to showcase an alternative storage technique for the sequence and its corresponding retrieval technique. We represent our technique with the use of integers for clarity of understanding. With the bit equivalent of the integers used in actual representation we could minimize storage complexity significantly. We give a clear picture of the requirements of a storage technique from a motif discovery perspective before showcasing our proposal.
Starting Page	968
Ending Page	973
File Size	228538
Page Count	6
File Format	PDF
ISBN	9780769534077
DOI	10.1109/ICCIT.2008.201
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2008-11-11
Publisher Place	South Korea
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Sequences sequence alignment Redundancy Laboratories Genomics Information retrieval Data mining Proposals Information technology biological data mining storage techniques DNA Bioinformatics Arithmetic
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

Mining repetitive sequences using a big data ecosystem

Fast searching in biological sequences using multiple hash functions

Approximate string matching in DNA sequences

DNA Sequence Matching Using Boolean Algebra

Algorithms for splicing junction donor recognition in genomic DNA sequences

BIM: Image matching using biological gene sequence alignment

MGIGA: An Iterative Merge Based Genetic Algorithm for Motif Discovery in Genomic Sequences

Multiple Sequence Alignment using Fuzzy Logic

Protein identification system: methods of searching for similar sequences

Storage and Matching Technique in Genomic Sequences for Approximate Motif Searching

Similar Documents

Mining repetitive sequences using a big data ecosystem

Fast searching in biological sequences using multiple hash functions

Approximate string matching in DNA sequences

DNA Sequence Matching Using Boolean Algebra

Algorithms for splicing junction donor recognition in genomic DNA sequences

BIM: Image matching using biological gene sequence alignment

MGIGA: An Iterative Merge Based Genetic Algorithm for Motif Discovery in Genomic Sequences

Multiple Sequence Alignment using Fuzzy Logic

Protein identification system: methods of searching for similar sequences

Storage and Matching Technique in Genomic Sequences for Approximate Motif Searching