Results 231 to 240 of about 931,274 (267)

Finding anchors for genomic sequence comparison

Proceedings of the eighth annual international conference on Computational molecular biology - RECOMB '04, 2004
Recent sequencing of the human and other mammalian genomes has brought about the necessity to align them, to identify and characterize their commonalities and differences. Programs that align whole genomes generally use a seed-and-extend technique, starting from exact or near-exact matches and selecting a reliable subset of these, called anchors, and ...
Ross Lippert, Xiaoyue Zhao, Liliana Florea, Clark M. Mobarry, Sorin Istrail   +4 more
openaire   +4 more sources

Family-Free Genome Comparison

2017
The comparison of genome structures across distinct species offers valuable insights into the species' phylogeny, genome organization, and gene associations. In this chapter, we review the family-free genome comparison tool FFGC which provides several methods for gene order analyses that do not require prior knowledge of evolutionary relationships ...
Dörr, Daniel, Feijão, Pedro, Stoye, Jens, Setubal, João C., Stadler, Peter, Stoye, Jens   +5 more
openaire   +4 more sources

Genome Comparison of Bacterial Pathogens

2009
Bacterial pathogens are being sequenced at an increasing rate. To many microbiologists, it appears that there simply is not enough time to digest all the information suddenly available. In this chapter we present several tools for comparison of sequenced pathogenic genomes, and discuss differences between pathogens and non-pathogens.
T M, Wassenaar, J, Bohlin, T T, Binnewies, D W, Ussery   +3 more
openaire   +2 more sources

High Throughput Comparison of Prokaryotic Genomes

2008
This work handles the optimization of the grid computing performances for a data-intensive and high "throughput" comparison of protein sequences. We use the word "throughput" from the telecommunication science to mean the amount of concurrent independent jobs in grid.
Luciana Carota, Lisa Bartoli, Piero Fariselli, Pier Luigi Martelli, Ludovica Montanucci, Giorgio Pietro Maggi, Rita Casadio   +6 more
openaire   +9 more sources

Family-Free Genome Comparison

The comparison of large-scale genome structures across distinct species offers valuable insights into the species' phylogeny, genome organization, and gene associations. In this chapter, we review the family-free genome comparison tool FFGC that, relying on built-in interfaces with a sequence comparison tool (either BLAST+ or DIAMOND) and with an ILP ...
Dias Vieira Braga, Marília, Doerr, Daniel, Rubert, Diego P., Stoye, Jens, Setubal, João Carlos, Stadler, Peter F., Stoye, Jens   +6 more
openaire   +3 more sources

Genome-Scale Model Management and Comparison

2013
Spurred by recent innovations in genome sequencing, the reconstruction of genome-scale models has increased in recent years. Genome-scale models are now available for a wide range of organisms, and models have been successfully applied to a number of research topics including metabolic engineering, genome annotation, biofuel production, and ...
Stephan, Pabinger, Zlatko, Trajanoski
openaire   +2 more sources

A comparison of the genome organization of capripoxvirus with that of the orthopoxviruses

Journal of Virology, 1989
Comprehensive comparisons of genome organizations for poxviruses of different genera have not previously been reported. Here we have made such a comparison by cross-hybridizing genome fragments from capripoxvirus KS-1 and vaccinia virus WR (VV).
P D, Gershon, D M, Ansell, D N, Black
openaire   +2 more sources

Databases and software for the comparison of prokaryotic genomes

Microbiology, 2005
The explosion in the number of complete genomes over the past decade has spawned a new and exciting discipline, that of comparative genomics. To exploit the full potential of this approach requires the development of novel algorithms, databases and software which are sophisticated enough to draw meaningful comparisons between complete genome sequences ...
Dawn, Field, Edward J, Feil, Gareth A, Wilson   +2 more
openaire   +2 more sources

GCVT — A Genome Comparison and Viewing Tool

2012 IEEE 12th International Conference on Bioinformatics & Bioengineering (BIBE), 2012
This paper highlights the features of a simple Genome Comparison and Viewing Tool (GCVT) for comparing bacterial genomes based on their genes, products, GC counts and genome sizes. For selected features from the results of comparison, a facility to perform alignment using the Needleman-Wunsch, Smith — Waterman and ClustalW algorithms is also provided ...
Shakuntala Baichoo, Parinita Ujoodha, Yovish Bissessur   +2 more
openaire   +1 more source

WebACT: An Online Genome Comparison Suite

2007
Comparison of related genomes is an enormously powerful technique for explaining phenotypic differences and revealing recent evolutionary events. Genomes evolve through a host of mechanisms including long- and short-range intragenomic rearrangements, insertion of laterally acquired DNA, gene loss, and single-nucleotide polymorphisms.
James C, Abbott, David M, Aanensen, Stephen D, Bentley   +2 more
openaire   +2 more sources