DNA encoding for an efficient 'Omics processing

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DNA encoding for an efficient 'Omics processing

Murovec, Boštjan ; Tiedje, James M. ; Stres, Blaž

The exponential growth of available DNA sequences and the increased interoperability of biological information is triggering intergoivernmental efforts aimed at increasing the access, dissemination, ... and analysis of sequence data. Achieving the efficient storage and processing of DNA material is an important goal that parallels well with the foreseen coding standardization on the horizon. This paper proposes novel coding approaches, for both the dissemination and processing of sequences, where the speed of the DNA processing is shown to be boosted by exploring more than the normally utilized eight bits for encoding a single nucleotide. Further gains are achived by encoding the nucleotides together with their trailing alignament information as a single 64-bit data structure. the paper also proposes a slight modification to the established FASTA scheme in order to improve on its representation of alignament information. The significance of the proposition is confirmed by the encouraging results from empirical tests.

Source: Computer methods and programs in biomedicine. - ISSN 0169-2607 (Vol. 100, no. 2, 2010, str. 175-190)

Type of material - article, component part

Publish date - 2010

Language - english

COBISS.SI-ID - 2625416

Link(s):
http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T5J-500SR9R-1&_user=4776866&_coverDate=05%2F04%2F2010&_rdoc=1&_fmt=high&_orig=search&_sort=d&_docanchor=&view=c&_acct=C000033658&_version=1&_urlVersion=0&_userid=4776866&md5=78c89ede53f4f7ca853cb1403a642138
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Author
Murovec, Boštjan | Tiedje, James M. | Stres, Blaž

Topics
molekularna genetika | DNK | sekvence | bioinformatika

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source: Computer methods and programs in biomedicine. - ISSN 0169-2607 (Vol. 100, no. 2, 2010, str. 175-190)

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Year	Impact factor		Edition		Category		Classification
Year	JCR	SNIP	JCR	SNIP	JCR	SNIP	JCR	SNIP

Links to authors' personal bibliographies	Links to information on researchers in the SICRIS system
Murovec, Boštjan	20183
Tiedje, James M.
Stres, Blaž	19104

Source: Personal bibliographies and: SICRIS

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