Condensed Matrix Descriptor for Proteinb Sequence Comparison.
Abstract The present paper develops a novel way of reducing a protein sequence of any length to a real symmetric condensed 20 × 20 matrix. This condensed matrix can be nicely applied as a protein sequence descriptor. In fact, with such a condensed representation, comparison of two protein sequences...
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ftciteseerx:oai:CiteSeerX.psu:10.1.1.1077.1838 2023-05-15T15:45:12+02:00 Condensed Matrix Descriptor for Proteinb Sequence Comparison. S Pal J Maji Dilip B Bhattacharya D K The Pennsylvania State University CiteSeerX Archives 2016 application/pdf http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1077.1838 http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf en eng http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1077.1838 http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf Metadata may be used without restrictions as long as the oai identifier remains attached to it. http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf text 2016 ftciteseerx 2020-05-03T00:15:38Z Abstract The present paper develops a novel way of reducing a protein sequence of any length to a real symmetric condensed 20 × 20 matrix. This condensed matrix can be nicely applied as a protein sequence descriptor. In fact, with such a condensed representation, comparison of two protein sequences is reduced to a comparison of two such 20 × 20 matrices. As each square matrix has a unique Alley Index/normalized Alley Index, such index is conveniently used in getting distance matrix to construct Phylogenetic trees of different protein sequences. Finally protein sequence comparison is made based on these Phylogenetic trees. In this paper three types viz., NADH dehydrogenase subunit 3 (ND3), subunit 4 (ND4) and subunit 5 (ND5) of protein sequences of nine species, Human, Gorilla, Common Chimpanzee, Pygmy Chimpanzee, Fin Whale, Blue Whale, Rat, Mouse and Opossum are used for comparison. Text Blue whale Fin whale Unknown |
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ftciteseerx |
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English |
description |
Abstract The present paper develops a novel way of reducing a protein sequence of any length to a real symmetric condensed 20 × 20 matrix. This condensed matrix can be nicely applied as a protein sequence descriptor. In fact, with such a condensed representation, comparison of two protein sequences is reduced to a comparison of two such 20 × 20 matrices. As each square matrix has a unique Alley Index/normalized Alley Index, such index is conveniently used in getting distance matrix to construct Phylogenetic trees of different protein sequences. Finally protein sequence comparison is made based on these Phylogenetic trees. In this paper three types viz., NADH dehydrogenase subunit 3 (ND3), subunit 4 (ND4) and subunit 5 (ND5) of protein sequences of nine species, Human, Gorilla, Common Chimpanzee, Pygmy Chimpanzee, Fin Whale, Blue Whale, Rat, Mouse and Opossum are used for comparison. |
author2 |
The Pennsylvania State University CiteSeerX Archives |
format |
Text |
author |
S Pal J Maji Dilip B Bhattacharya D K |
spellingShingle |
S Pal J Maji Dilip B Bhattacharya D K Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
author_facet |
S Pal J Maji Dilip B Bhattacharya D K |
author_sort |
S Pal |
title |
Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
title_short |
Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
title_full |
Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
title_fullStr |
Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
title_full_unstemmed |
Condensed Matrix Descriptor for Proteinb Sequence Comparison. |
title_sort |
condensed matrix descriptor for proteinb sequence comparison. |
publishDate |
2016 |
url |
http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1077.1838 http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf |
genre |
Blue whale Fin whale |
genre_facet |
Blue whale Fin whale |
op_source |
http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf |
op_relation |
http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.1077.1838 http://file.scirp.org/pdf/IJAMSC_2016031713403020.pdf |
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Metadata may be used without restrictions as long as the oai identifier remains attached to it. |
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1766379535753805824 |