UCSC Genome Browser advanced topics
Free Tutorial Suite Sponsored By UCSC Bioinformatics Group
|Learn to use the advanced features, including the Table Browser and custom tracks, of the UCSC Genome Browser with this free tutorial, sponsored by UCSC Genome Bioinformatics Group. The UCSC Genome Browser provides a way to query and extract 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. Obtain large lists of genes, SNPs, or any other features of interest, or display your own data, using the tools underlying the UCSC Genome Browser. This tutorial is the second in a series of tutorials on the UCSC Genome Browser and explores many aspects beyond the basic search and analysis functions covered in the introductory tutorial.|
- to perform advanced searches of the UCSC genome databases
- to export and download large quantities of targeted data
- to create custom tracks resulting from your advanced searches
- to create custom annotation tracks of your data to share with others
- to use the Genome Graphs tool for visualizing GWAS data
This tutorial is a part of the tutorial group UCSC Tutorials. You might find the other tutorials in the group interesting:
Recent BioMed Central research articles citing this resource
Ho S Eric et al., A multispecies polyadenylation site model Selected articles from the Eleventh Asia Pacific Bioinformatics Conference (APBC 2013): Bioinformatics The Eleventh Asia Pacific Bioinformatics Conference (APBC 2013). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S2-S9
Mugal F Carina et al., Genome-wide analysis in chicken reveals that local levels of genetic diversity are mainly governed by the rate of recombination Non-human and non-rodent vertebrate genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-86
Distefano Rosario et al., VIRGO: visualization of A-to-I RNA editing sites in genomic sequences Italian Society of Bioinformatics (BITS): Annual Meeting 2012 Ninth Annual Meeting of the Italian Society of Bioinformatics (BITS). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-S7-S5
Doran G Anthony et al., Snpdat: Easy and rapid annotation of results from de novo snp discovery projects for model and non-model organisms Sequence analysis (applications). BMC Bioinformatics (2013) doi:10.1186/1471-2105-14-45
Tian Ming et al., Copy number variants in locally raised Chinese chicken genomes determined using array comparative genomic hybridization Non-human and non-rodent vertebrate genomics. BMC Genomics (2013) doi:10.1186/1471-2164-14-262
More about the resource:
The UCSC Genome Browser, sometimes referred to as the "Golden Path" browser, offers a well-organized and user-friendly view of the human genome, and dozens of other genomes as well. The official genomic sequence is supplemented with many other data types which are useful to researchers: expression, variation, comparative genomics, and many more. The data can be accessed with simple text or sequence searches, or probed in depth with customized queries.
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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