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 will learn:
This tutorial is a part of the tutorial group Alignment and comparison resources. You might find the other tutorials in the group interesting:
ClustalW2: Performs multiple sequence alignments
BLAST: Basic Local Alignment and Search Tool
FASTA: FASTA sequence algorithm
Entrez Gene: NCBI's Entrez tool for gene-centric information
Primer3: Pick primers from a DNA sequence.
DCODE: DCODE.org Comparative Genomics Developments, a collection of powerful comparative genomics tools
RefSeq: Provides molecular sequence records to help locate gene and protein data.
Algorithms and Analysis : This category contains various tools that may help perform analysis of different genomics data types. This may include sequence alignment, large-scale or complex queries, motif finding, or comparative assessments.
Expression : This category may contain various expression data collections, annotation tools, or repositories of expression data.
Nucleotides : Tools that are primarily used in the storage, retrieval, or exploration of nucleotide-based data. Some tools may also involve protein sequence information.
Variation & Medical : Resources that include information about sequence variation, phenotypes, or medically-relevant conditions.
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PSA: VISTA servers down: LBL servers are down today. If you've been trying to use VISTA (the comparative genomics tools) , you will get a "server not found" error. Â We've contacted someone over there and were informed they wer...
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Recent BioMed Central research articles citing this resource
Pietzner Maik et al., Plasma proteome and metabolome characterization of an experimental human thyrotoxicosis model. BMC Medicine (2017) doi:10.1186/s12916-016-0770-8
Greil Richard et al., Reactivation of dormant anti-tumor immunity – a clinical perspective of therapeutic immune checkpoint modulation. Cell Communication and Signaling (2017) doi:10.1186/s12964-016-0155-9
Catakovic Kemal et al., T cell exhaustion: from pathophysiological basics to tumor immunotherapy. Cell Communication and Signaling (2017) doi:10.1186/s12964-016-0160-z
Cho Joung Youn et al., Effect of desflurane-remifentanil vs. Propofol-remifentanil anesthesia on arterial oxygenation during one-lung ventilation for thoracoscopic surgery: a prospective randomized trial Perioperative medicine and outcome. BMC Anesthesiology (2017) doi:10.1186/s12871-017-0302-x
Ziemssen F. et al., Demographics of patients receiving Intravitreal anti-VEGF treatment in real-world practice: healthcare research data versus randomized controlled trials Retina. BMC Ophthalmology (2017) doi:10.1186/s12886-017-0401-y