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Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome
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Zeitschriftentitel: | Evolutionary Bioinformatics |
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Personen und Körperschaften: | , , |
In: | Evolutionary Bioinformatics, 8, 2012, S. EBO.S8552 |
Format: | E-Article |
Sprache: | Englisch |
veröffentlicht: |
SAGE Publications
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Schlagwörter: |
author_facet |
Dreher, Felix Kamburov, Atanas Herwig, Ralf Dreher, Felix Kamburov, Atanas Herwig, Ralf |
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author |
Dreher, Felix Kamburov, Atanas Herwig, Ralf |
spellingShingle |
Dreher, Felix Kamburov, Atanas Herwig, Ralf Evolutionary Bioinformatics Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome Computer Science Applications Genetics Ecology, Evolution, Behavior and Systematics |
author_sort |
dreher, felix |
spelling |
Dreher, Felix Kamburov, Atanas Herwig, Ralf 1176-9343 1176-9343 SAGE Publications Computer Science Applications Genetics Ecology, Evolution, Behavior and Systematics http://dx.doi.org/10.4137/ebo.s8552 <jats:p> The analysis of interaction networks is crucial for understanding molecular function and has an essential impact for genome-wide studies. However, the interactomes of most species are largely incomplete and computational strategies that take into account sequence homology can help compensating for this lack of information using cross-species analysis. In this work we report the construction of a porcine interactome resource. We applied sequence homology matching and carried out bi-directional BLASTp searches for the currently available protein sequence collections of human and pig. Using this homology we were able to recover, on average, 71% of the proteins annotated for human pathways for the pig. Porcine protein-protein interactions were deduced from homologous proteins with known interactions in human. The result of this work is a resource comprising 204,699 predicted porcine interactions that can be used in genome analyses in order to enhance functional interpretation of data. The data can be visualized and downloaded from http://cpdb.molgen.mpg.de/pig . </jats:p> Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome Evolutionary Bioinformatics |
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title |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_unstemmed |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_full |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_fullStr |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_full_unstemmed |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_short |
Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_sort |
construction of a pig physical interactome using sequence homology and a comprehensive reference human interactome |
topic |
Computer Science Applications Genetics Ecology, Evolution, Behavior and Systematics |
url |
http://dx.doi.org/10.4137/ebo.s8552 |
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2012 |
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<jats:p> The analysis of interaction networks is crucial for understanding molecular function and has an essential impact for genome-wide studies. However, the interactomes of most species are largely incomplete and computational strategies that take into account sequence homology can help compensating for this lack of information using cross-species analysis. In this work we report the construction of a porcine interactome resource. We applied sequence homology matching and carried out bi-directional BLASTp searches for the currently available protein sequence collections of human and pig. Using this homology we were able to recover, on average, 71% of the proteins annotated for human pathways for the pig. Porcine protein-protein interactions were deduced from homologous proteins with known interactions in human. The result of this work is a resource comprising 204,699 predicted porcine interactions that can be used in genome analyses in order to enhance functional interpretation of data. The data can be visualized and downloaded from http://cpdb.molgen.mpg.de/pig . </jats:p> |
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author | Dreher, Felix, Kamburov, Atanas, Herwig, Ralf |
author_facet | Dreher, Felix, Kamburov, Atanas, Herwig, Ralf, Dreher, Felix, Kamburov, Atanas, Herwig, Ralf |
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description | <jats:p> The analysis of interaction networks is crucial for understanding molecular function and has an essential impact for genome-wide studies. However, the interactomes of most species are largely incomplete and computational strategies that take into account sequence homology can help compensating for this lack of information using cross-species analysis. In this work we report the construction of a porcine interactome resource. We applied sequence homology matching and carried out bi-directional BLASTp searches for the currently available protein sequence collections of human and pig. Using this homology we were able to recover, on average, 71% of the proteins annotated for human pathways for the pig. Porcine protein-protein interactions were deduced from homologous proteins with known interactions in human. The result of this work is a resource comprising 204,699 predicted porcine interactions that can be used in genome analyses in order to enhance functional interpretation of data. The data can be visualized and downloaded from http://cpdb.molgen.mpg.de/pig . </jats:p> |
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spelling | Dreher, Felix Kamburov, Atanas Herwig, Ralf 1176-9343 1176-9343 SAGE Publications Computer Science Applications Genetics Ecology, Evolution, Behavior and Systematics http://dx.doi.org/10.4137/ebo.s8552 <jats:p> The analysis of interaction networks is crucial for understanding molecular function and has an essential impact for genome-wide studies. However, the interactomes of most species are largely incomplete and computational strategies that take into account sequence homology can help compensating for this lack of information using cross-species analysis. In this work we report the construction of a porcine interactome resource. We applied sequence homology matching and carried out bi-directional BLASTp searches for the currently available protein sequence collections of human and pig. Using this homology we were able to recover, on average, 71% of the proteins annotated for human pathways for the pig. Porcine protein-protein interactions were deduced from homologous proteins with known interactions in human. The result of this work is a resource comprising 204,699 predicted porcine interactions that can be used in genome analyses in order to enhance functional interpretation of data. The data can be visualized and downloaded from http://cpdb.molgen.mpg.de/pig . </jats:p> Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome Evolutionary Bioinformatics |
spellingShingle | Dreher, Felix, Kamburov, Atanas, Herwig, Ralf, Evolutionary Bioinformatics, Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome, Computer Science Applications, Genetics, Ecology, Evolution, Behavior and Systematics |
title | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_full | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_fullStr | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_full_unstemmed | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_short | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
title_sort | construction of a pig physical interactome using sequence homology and a comprehensive reference human interactome |
title_unstemmed | Construction of a Pig Physical Interactome Using Sequence Homology and a Comprehensive Reference Human Interactome |
topic | Computer Science Applications, Genetics, Ecology, Evolution, Behavior and Systematics |
url | http://dx.doi.org/10.4137/ebo.s8552 |