Establishing a framework for comparative analysis of genome sequences

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This paper describes a framework and a high-level language toolkit for comparative analysis of genome sequence alignment The framework integrates the information derived from multiple sequence alignment and phylogenetic tree (hypothetical tree of evolution) to derive new properties about sequences. Multiple sequence alignments are treated as an abstract data type. Abstract operations have been described to manipulate a multiple sequence alignment and to derive mutation related information from a phylogenetic tree by superimposing parsimonious analysis. The framework has been applied on protein alignments to derive constrained columns (in a multiple sequence alignment) that exhibit evolutionary pressure to preserve a common ... continued below

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17 p.

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Bansal, A.K. June 1, 1995.

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Description

This paper describes a framework and a high-level language toolkit for comparative analysis of genome sequence alignment The framework integrates the information derived from multiple sequence alignment and phylogenetic tree (hypothetical tree of evolution) to derive new properties about sequences. Multiple sequence alignments are treated as an abstract data type. Abstract operations have been described to manipulate a multiple sequence alignment and to derive mutation related information from a phylogenetic tree by superimposing parsimonious analysis. The framework has been applied on protein alignments to derive constrained columns (in a multiple sequence alignment) that exhibit evolutionary pressure to preserve a common property in a column despite mutation. A Prolog toolkit based on the framework has been implemented and demonstrated on alignments containing 3000 sequences and 3904 columns.

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17 p.

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OSTI as DE95015991

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  • Other Information: PBD: Jun 1995

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  • Other: DE95015991
  • Report No.: ANL/MCS-TM--209
  • Grant Number: W-7405-ENG-48
  • DOI: 10.2172/97147 | External Link
  • Office of Scientific & Technical Information Report Number: 97147
  • Archival Resource Key: ark:/67531/metadc794341

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  • June 1, 1995

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  • Dec. 19, 2015, 7:14 p.m.

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  • Feb. 2, 2016, 3:38 p.m.

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Bansal, A.K. Establishing a framework for comparative analysis of genome sequences, report, June 1, 1995; Illinois. (digital.library.unt.edu/ark:/67531/metadc794341/: accessed September 21, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.