Journal ArticleDOI
Can ends justify the means? Digging deep for human fusion genes of prokaryotic origin.
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TLDR
This report focuses on identifying, analyzing, and tabulating human fusion proteins of prokaryotic origin found to mimic operons, simulate protein-protein interfaces in proKaryotes, exhibiting multiple functions and alternative splicing in humans.Abstract:
Gene fusion has been described as an important evolutionary phenomenon. This report focuses on identifying, analyzing, and tabulating human fusion proteins of prokaryotic origin. These fusion proteins are found to mimic operons, simulate protein-protein interfaces in prokaryotes, exhibiting multiple functions and alternative splicing in humans. The accredited biological functions for each of these proteins is made available as a database at http://sege.ntu.edu.sg/wester/fusion/read more
Citations
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Multiple horizontal gene transfer events and domain fusions have created novel regulatory and metabolic networks in the oomycete genome.
Paul Morris,Laura Rose Schlosser,Katherine Diane Onasch,Tom Wittenschlaeger,Ryan S. Austin,Nicholas J. Provart +5 more
TL;DR: This work postulated that the novel multifunctional proteins of oomycetes could function as potential Rosetta Stones to identify interacting proteins of conserved metabolic and regulatory networks in other eukaryotic genomes, but ortholog analysis of each domain within this set, identified only 18 candidate Rosetta Stone proteins.
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Bioinformatics: A Concept-Based Introduction
TL;DR: This workbook provides hands-on experience which has been lacking for qualified bioinformatics researchers and the time required to communicate using domain specific terms is becoming a major bottle neck in scientific productivity.
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Bioinformation Discovery: Data to Knowledge in Biology
TL;DR: Bioinformatics tools are frequently used in bioinformation discovery and a large number of them are currently available in the public domain for research in drug discovery.
Journal ArticleDOI
Insights to metabolic network evolution by fusion proteins.
TL;DR: The association of six fusion proteins with the citric acid cycle and their capability to produce metabolites with high connectivity index suggests that fusion gene products and their evolution have had a key role in the selection of complex multifaceted networks.
Book ChapterDOI
Structural Aspects of Protein–Protein Interactions
TL;DR: In this paper, the authors delineate how PPIs are functionally significant for the sustenance of life and discuss all the parameters that are utilized to analyze a particular PPI, particularly the interface between the two interacting proteins.
References
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TL;DR: The results of an international collaboration to produce and make freely available a draft sequence of the human genome are reported and an initial analysis is presented, describing some of the insights that can be gleaned from the sequence.
Journal ArticleDOI
Detecting Protein Function and Protein-Protein Interactions from Genome Sequences
Edward M. Marcotte,Matteo Pellegrini,Ho Leung Ng,Danny W. Rice,Todd O. Yeates,David Eisenberg +5 more
TL;DR: Searching sequences from many genomes revealed 6809 putative protein-protein interactions in Escherichia coli and 45,502 in yeast, and many members of these pairs were confirmed as functionally related; computational filtering further enriches for interactions.
Journal ArticleDOI
Complete genome sequence of Methanobacterium thermoautotrophicum deltaH: functional analysis and comparative genomics.
Douglas Smith,Lynn Doucette-Stamm,C Deloughery,H M Lee,J Dubois,T Aldredge,R Bashirzadeh,D Blakely,R Cook,K Gilbert,D Harrison,L Hoang,P Keagle,W Lumm,B Pothier,D Qiu,R Spadafora,R Vicaire,Y Wang,Jamey Wierzbowski,R Gibson,N Jiwani,A Caruso,D Bush,J N Reeve +24 more
TL;DR: The complete 1,751,377-bp sequence of the genome of the thermophilic archaeon Methanobacterium thermoautotrophicum deltaH has been determined by a whole-genome shotgun sequencing approach.
Journal ArticleDOI
Clustering of highly homologous sequences to reduce the size of large protein databases
TL;DR: A fast and flexible program for clustering large protein databases at different sequence identity levels takes less than 2 h for the all-against-all sequence comparison and clustering of the non-redundant protein database of over 560,000 sequences on a high-end PC.