Name
Abstract | ||
|---|---|---|
The PUMA2 system (available at http://compbio.mcs.anl.gov/ puma2) is an interactive, integrated bio-informatics environment for high-throughput genetic sequence analysis and metabolic reconstructions from sequence data. PUMA2 provides a framework for comparative and evolutionary analysis of genomic data and metabolic networks in the context of taxonomic and phenotypic information. Grid infrastructure is used to perform computationally intensive tasks. PUMA2 currently contains precomputed analysis of 213 prokaryotic, 22 eukaryotic, 650 mitochondrial and 1493 viral genomes and automated metabolic reconstructions for > 200 organisms. Genomic data is annotated with information integrated from > 200 sequence, structural and metabolic databases and ontologies. PUMA2 supports both automated and interactive expert-driven annotation of genomes, using a variety of publicly available bio-informatics tools. It also contains a suite of unique PUMA2 tools for automated assignment of gene function, evolutionary analysis of protein families and comparative analysis of metabolic pathways. PUMA2 allows users to submit batch sequence data for automated functional analysis and construction of metabolic models. The results of these analyses are made available to the users in the PUMA2 environment for further interactive sequence analysis and annotation. |
Year | DOI | Venue |
|---|---|---|
2006 | 10.1093/nar/gkj095 | NUCLEIC ACIDS RESEARCH |
Keywords | Field | DocType |
genomics,metabolic pathway,computational biology,comparative analysis,systems integration,protein family,functional analysis,genetics,metabolic network,internet,metabolism,enzymes,sequence analysis,high throughput | Ontology (information science),Genome,Protein family,Annotation,Biology,Genomics,Computational biology,Grid,Sequence analysis,System integration | Journal |
Volume | Issue | ISSN |
34 | Database issue | 0305-1048 |
Citations | PageRank | References |
18 | 1.43 | 20 |
Authors | ||
8 | ||
Name | Order | Citations | PageRank |
|---|---|---|---|
| N Maltsev | 1 | 239 | 58.35 |
| Elizabeth M Glass | 2 | 55 | 4.38 |
| Dinanath Sulakhe | 3 | 183 | 18.55 |
| Alexis A. Rodriguez | 4 | 29 | 2.86 |
| Mustafa H. Syed | 5 | 25 | 2.69 |
| Tanuja Bompada | 6 | 32 | 2.81 |
| Yi Zhang | 7 | 25 | 2.30 |
| Mark D'Souza | 8 | 23 | 2.22 |