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Links tagged with 'computing methodologies'

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Found 7 links

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ChinookTool Content

http://www.bcgsc.bc.ca/chinook/

Computer Related > Web Services
DNA > DNA and Genomic Analysis
DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Pairwise Sequence Alignments

Chinook is a peer-to-peer (P2P) service for the discovery, use and assessment of bioinformatics programs. Chinook Online allows researchers to connect and run distributed bioinformatics programs using a web application.

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tagsbenchmarking biomedical technology assessment computational biology computing methodologies software validation

Geno2phenoTool Content

http://www.geno2pheno.org/cgi-bin/geno2pheno.pl

Model Organisms > Other Organisms

Geno2pheno takes as input an HIV-1 pol-gene DNA sequence and estimates phenotypic drug resistance to 17 antiretroviral drugs.

NAR Web Server Issue 2003
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tagsalgorithms anti-hiv agents artificial intelligence automated pattern recognition cluster analysis computational biology computer-assisted drug therapy computing methodologies decision trees disease susceptibility dna sequence analysis drug combinations factual databases gene expression profiling genetic models genetic polymorphism genetic variation genotype hiv hiv infections hiv-1 humans innate immunity molecular sequence data phenotype pol genes regression analysis reproducibility of results sensitivity and specificity statistical models viral dna viral drug resistance viral genome

MultiPhylTool Content

http://www.cs.nuim.ie/distributed/multiphyl.php

DNA > Phylogeny Reconstruction
Protein > Phylogeny Reconstruction
Sequence Comparison > Analysis of Aligned Sequences

MultiPhyl is a high-throughput Maximum Likelihood based phylogeny analysis program that allows researchers to create a virtual phylogenetic supercomputer from a group semi-idle desktop machines.

NAR Web Server Issue 2007
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tagsalgorithms animals computational biology computer simulation computing methodologies dna sequence analysis genetic databases genetic models genomics humans likelihood functions molecular evolution phylogeny sequence alignment statistical models

ParAlignTool Content

http://www.paralign.org/

Sequence Comparison > Pairwise Sequence Alignments
Sequence Comparison > Similarity Searching

ParAlign provides a service for sequence similarity searching powered by parallel computing technology. The two comparison algorithms used are Smith-Waterman and ParAlign (a heuristic method for sequence alignment).

NAR Web Server Issue 2005
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tagsalgorithms amino acid sequence homology computational biology computing methodologies factual databases microcomputers nucleic acid databases nucleic acid sequence homology protein databases sensitivity and specificity sequence alignment time factors

PrDOSTool Content

http://prdos.hgc.jp/cgi-bin/top.cgi

Protein > 2-D Structure Prediction
Protein > 3-D Structure Prediction

PrDOS (Protein Disorder Prediction Server) is a server to predict the disordered regions of a protein from its amino acid sequence.

NAR Web Server Issue 2007
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tagsalgorithms amino acid sequence artificial intelligence automated pattern recognition computational biology computing methodologies human immunodeficiency virus nef gene products molecular sequence data nef gene products protein conformation protein databases protein sequence analysis proteins sequence alignment statistical models

SelectomeDatabase Content

http://selectome.unil.ch/

Protein > Databases
Protein > Sequence Features
Sequence Comparison > Analysis of Aligned Sequences

Selectome is a database of positive selection based on a rigorous branch-site specific likelihood test. Positive selection is detected using CODEML on all branches of animal gene trees. The web interface of Selectome enables queries according both to the results of positive selection tests, and to gene related criteria. Test results including positively selected sites can be visualized on the tree, and on the protein sequence alignment.

This content is being maintained by selectome.

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tagsamino acid sequence homology animals codon computational biology computing methodologies gene duplication genes genetic databases genetic selection medical informatics applications phylogeny proteins software design vertebrates

TREE-PUZZLETool Content

http://www.tree-puzzle.de/

DNA > Phylogeny Reconstruction
Protein > Phylogeny Reconstruction

Tree-puzzle is a program that constructs phylogenetic trees from sequence alignments using the maximum likelihood method.

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tagsalgorithms computing methodologies database management systems genetic databases likelihood functions mathematical computing molecular sequence data phylogeny sequence analysis