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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.

You'll learn:

  • 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


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Recent BioMed Central research articles citing this resource

Vitting-Seerup Kristoffer et al., spliceR: an R package for classification of alternative splicing and prediction of coding potential from RNA-seq data Transcriptome analysis. BMC Bioinformatics (2014) doi:10.1186/1471-2105-15-81

Vitulo Nicola et al., A deep survey of alternative splicing in grape reveals changes in the splicing machinery related to tissue, stress condition and genotype Genomics and evolution. BMC Plant Biology (2014) doi:10.1186/1471-2229-14-99

Eckler J Matthew et al., Multiple conserved regulatory domains promote Fezf2 expression in the developing cerebral cortex William Harris. Neural Development (2014) doi:10.1186/1749-8104-9-6

Yaguchi Kunio et al., Identification of transcriptional regulatory elements for Ntng1 and Ntng2 genes in mice. Molecular Brain (2014) doi:10.1186/1756-6606-7-19

Ahmad Rizwan et al., High-resolution, real-time exercise stress cine Abstracts of the 17th Annual SCMR Scientific Sessions 17th Annual SCMR Scientific Sessions. Journal of Cardiovascular Magnetic Resonance (2014) doi:10.1186/1532-429X-16-S1-W14

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.

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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.
Copyright 2009, OpenHelix, LLC.

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