Tools for Comparative Genomics
Tutorial and training materials by OpenHelix
|Learn to use VISTA from the Genomics Division of Lawrence Berkeley National Laboratory. VISTA provides a way to examine the data from many genomes, with extensive annotation for various data types including known genes, predicted genes, SNPs, comparative multi-species analysis and much more. VISTA also contains excellent sequence alignment and visualization tools with capacity for long sequences. Use VISTA as a primary resource for your comparative genomics research needs.|
- how to examine pre-computed relationships among a variety of species
- ways of submitting and analyzing sequences of your own in VISTA
- how to discover possible regulatory transcription factor binding sites in your favorite genes
- to compare genomic sequences with customizable graphical representations and many other output options
Recent BioMed Central research articles citing this resource
Chen Chao-Kung et al., TRACER: a resource to study the regulatory architecture of the mouse genome Human and rodent genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-215
Parveen Nazia et al., Comparative genomics using teleost fish helps to systematically identify target gene bodies of functionally defined human enhancers Comparative and evolutionary genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-122
Yang Jun-Bo et al., Complete chloroplast genome of the genus Cymbidium : lights into the species identification, phylogenetic implications and population genetic analyses Phylogenetics and phylogeography. BMC Evolutionary Biology (2013) doi:10.1186/1471-2148-13-84
Merelli Ivan et al., SNPranker 2.0: a gene-centric data mining tool for diseases associated SNP prioritization in GWAS Computational Intelligence in Bioinformatics and Biostatistics: new trends from the CIBB conference series Seventh International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2010). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S1-S9
Wang Junwen et al., Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing Human and rodent genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-11
More about the resource:
VISTA is a powerful comparative genomics system which may lead to discoveries of medical importance. The VISTA family of tools is developed and hosted at Genomics Division of Lawrence Berkeley National Laboratory. This collaborative effort is supported by supported by the Programs for Genomic Applications grant from the NHLBI/NIH and the Office of Biological and Environmental Research, Office of Science, US Department of Energy.
The materials and slides offered can not be resold or used for profit purposes. Reproduction, distribution and/or use is strictly limited to instructional purposes only and can not be used for for monetary gain or wide distribution.
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