Sentra: a database of signal transduction proteins for comparative genome analysis (2007)
D'Souza, Mark, Glass, Elizabeth M., Syed, Mustafa H., Zhang, Yi, Rodriguez, Alexis, Maltsev, Natalia, ...
Sentra (http://compbio.mcs.anl.gov/sentra), a database of signal transduction proteins encoded in completely sequenced prokaryotic genomes, has been updated to reflect recent advances in...
PUMA2--grid-based high-throughput analysis of genomes and metabolic pathways (2006)
Maltsev, Natalia, Glass, Elizabeth, Sulakhe, Dinanath, Rodriguez, Alexis, Syed, Mustafa H., Bompada, Tanuja, ...
The PUMA2 system (available at http://compbio.mcs.anl.gov/puma2) is an interactive, integrated bioinformatics environment for high-throughput genetic sequence analysis and metabolic reconstructions...
Comparative genome analysis of Bacillus cereus group genomes with Bacillus subtilis (2005)
Anderson, Iain, Sorokin, Alexei, Kapatral, Vinayak, Reznik, Gary, Bhattacharya, Anamitra, Mikhailova, Natalia, ...
Genome features of the Bacillus cereus group genomes (representative strains of Bacillus cereus, Bacillus anthracis and Bacillus thuringiensis sub spp israelensis) were analyzed and compared with the...
Kapatral, Vinayak, Ivanova, Natalia, Anderson, Iain, Reznik, Gary, Bhattacharyya, Anamitra, Gardner, Warren L., ...
We present the draft genome sequence and its analysis for Fusobacterium nucleatum sub spp. vincentii (FNV), and compare that genome with F. nucleatum ATCC 25586 (FN). A total of 441 FNV open reading...
The ERGOTM genome analysis and discovery system (2003)
Overbeek, Ross, Larsen, Niels, Walunas, Theresa, D'Souza, Mark, Pusch, Gordon, Selkov, Eugene, ...
The ERGOTM (http://ergo.integratedgenomics.com/ERGO/) genome analysis and discovery suite is an integration of biological data from genomics, biochemistry, high-throughput expression profiling,...
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Reznik, Gary, Feil, Helene, Feil, William S., Anderson, Iain, ...
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Reznik, Gary, Feil, Helene, Feil, William S., Anderson, Iain, ...
The Use of Gene Clusters to Infer Functional Coupling (1998)
Ross Overbeek, Michael Fonstein, Mark D'Souza, Natalia Maltsev, Gordon D. Pusch
Earlier, we presented evidence that it is possible to predict functional coupling between genes based on conservation of gene clusters between genomes. With the rapid increase in availability of...
The genome sequence of the facultative intracellular pathogen Brucella melitensis
DelVecchio, Vito G., Kapatral, Vinayak, Redkar, Rajendra J., Patra, Guy, Mujer, Cesar, Los, Tamara, ...
Brucella melitensis is a facultative intracellular bacterial pathogen that causes abortion in goats and sheep and Malta fever in humans. The genome of B. melitensis strain 16M was sequenced and found...
Whole-genome comparative analysis of three phytopathogenic Xylella fastidiosa strains
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Ivanova, Natalia, D'Souza, Mark, Bernal, Axel, Lykidis, Athanasios, ...
Xylella fastidiosa (Xf) causes wilt disease in plants and is responsible for major economic and crop losses globally. Owing to the public importance of this phytopathogen we embarked on a comparative...
Genome Sequence and Analysis of the Oral Bacterium Fusobacterium nucleatum Strain ATCC 25586
Kapatral, Vinayak, Anderson, Iain, Ivanova, Natalia, Reznik, Gary, Los, Tamara, Lykidis, Athanasios, ...
We present a complete DNA sequence and metabolic analysis of the dominant oral bacterium Fusobacterium nucleatum. Although not considered a major dental pathogen on its own, this anaerobe facilitates...
From Genetic Footprinting to Antimicrobial Drug Targets: Examples in Cofactor Biosynthetic Pathways
Gerdes, Svetlana Y., Scholle, Michael D., D'Souza, Mark, Bernal, Axel, Baev, Mark V., Farrell, Michael, ...
Novel drug targets are required in order to design new defenses against antibiotic-resistant pathogens. Comparative genomics provides new opportunities for finding optimal targets among previously...
The ERGOTM genome analysis and discovery system
Overbeek, Ross, Larsen, Niels, Walunas, Theresa, D'Souza, Mark, Pusch, Gordon, Selkov, Eugene, ...
The ERGOTM (http://ergo.integratedgenomics.com/ERGO/) genome analysis and discovery suite is an integration of biological data from genomics, biochemistry, high-throughput expression profiling,...
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Reznik, Gary, Feil, Helene, Feil, William S., Anderson, Iain, ...
Draft sequencing is a rapid and efficient method for determining the near-complete sequence of microbial genomes. Here we report a comparative analysis of one complete and two draft genome sequences...
Kapatral, Vinayak, Ivanova, Natalia, Anderson, Iain, Reznik, Gary, Bhattacharyya, Anamitra, Gardner, Warren L., ...
We present the draft genome sequence and its analysis for Fusobacterium nucleatum sub spp. vincentii (FNV), and compare that genome with F. nucleatum ATCC 25586 (FN). A total of 441 FNV open reading...
PUMA2—grid-based high-throughput analysis of genomes and metabolic pathways
Maltsev, Natalia, Glass, Elizabeth, Sulakhe, Dinanath, Rodriguez, Alexis, Syed, Mustafa H., Bompada, Tanuja, ...
The PUMA2 system (available at ) is an interactive, integrated bioinformatics environment for high-throughput genetic sequence analysis and metabolic reconstructions from sequence data. PUMA2...
The genome sequence of the facultative intracellular pathogen Brucella melitensis
DelVecchio, Vito G., Kapatral, Vinayak, Redkar, Rajendra J., Patra, Guy, Mujer, Cesar, Los, Tamara, ...
Brucella melitensis is a facultative intracellular bacterial pathogen that causes abortion in goats and sheep and Malta fever in humans. The genome of B. melitensis strain 16M was sequenced and found...
Whole-genome comparative analysis of three phytopathogenic Xylella fastidiosa strains
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Ivanova, Natalia, D'Souza, Mark, Bernal, Axel, Lykidis, Athanasios, ...
Xylella fastidiosa (Xf) causes wilt disease in plants and is responsible for major economic and crop losses globally. Owing to the public importance of this phytopathogen we embarked on a comparative...
Genome Sequence and Analysis of the Oral Bacterium Fusobacterium nucleatum Strain ATCC 25586
Kapatral, Vinayak, Anderson, Iain, Ivanova, Natalia, Reznik, Gary, Los, Tamara, Lykidis, Athanasios, ...
We present a complete DNA sequence and metabolic analysis of the dominant oral bacterium Fusobacterium nucleatum. Although not considered a major dental pathogen on its own, this anaerobe facilitates...
From Genetic Footprinting to Antimicrobial Drug Targets: Examples in Cofactor Biosynthetic Pathways
Gerdes, Svetlana Y., Scholle, Michael D., D'Souza, Mark, Bernal, Axel, Baev, Mark V., Farrell, Michael, ...
Novel drug targets are required in order to design new defenses against antibiotic-resistant pathogens. Comparative genomics provides new opportunities for finding optimal targets among previously...
The ERGOTM genome analysis and discovery system
Overbeek, Ross, Larsen, Niels, Walunas, Theresa, D'Souza, Mark, Pusch, Gordon, Selkov, Eugene, ...
The ERGOTM (http://ergo.integratedgenomics.com/ERGO/) genome analysis and discovery suite is an integration of biological data from genomics, biochemistry, high-throughput expression profiling,...
Bhattacharyya, Anamitra, Stilwagen, Stephanie, Reznik, Gary, Feil, Helene, Feil, William S., Anderson, Iain, ...
Draft sequencing is a rapid and efficient method for determining the near-complete sequence of microbial genomes. Here we report a comparative analysis of one complete and two draft genome sequences...
Kapatral, Vinayak, Ivanova, Natalia, Anderson, Iain, Reznik, Gary, Bhattacharyya, Anamitra, Gardner, Warren L., ...
We present the draft genome sequence and its analysis for Fusobacterium nucleatum sub spp. vincentii (FNV), and compare that genome with F. nucleatum ATCC 25586 (FN). A total of 441 FNV open reading...
PUMA2—grid-based high-throughput analysis of genomes and metabolic pathways
Maltsev, Natalia, Glass, Elizabeth, Sulakhe, Dinanath, Rodriguez, Alexis, Syed, Mustafa H., Bompada, Tanuja, ...
The PUMA2 system (available at ) is an interactive, integrated bioinformatics environment for high-throughput genetic sequence analysis and metabolic reconstructions from sequence data. PUMA2...
Sentra: a database of signal transduction proteins for comparative genome analysis
D'Souza, Mark, Glass, Elizabeth M., Syed, Mustafa H., Zhang, Yi, Rodriguez, Alexis, Maltsev, Natalia, ...
Sentra (), a database of signal transduction proteins encoded in completely sequenced prokaryotic genomes, has been updated to reflect recent advances in understanding signal transduction events on a...