Learn to use the UCSC Genome Browser with this free tutorial, sponsored by UCSC Genome Bioinformatics Group. The UCSC Genome Browser provides a way to examine the data from many genomes, with extensive annotation tracks for various data types including known genes, predicted genes, SNPs, comparative multi-species analysis and much more. This introductory tutorial focuses on the foundation and framework for the organization and display of the data, and basic text and sequence searches. This tutorial, which is the first in a series of three tutorials on the UCSC Genome Browser, will get you on your way to expertly navigating this vital tool for genomic research.

You will learn:

  • to perform basic text searches on the UCSC Genome Browser
  • to understand and customize the displays in genomic regions of interest
  • to access additional details and sequence data
  • to start with a sequence and find genomic regions of interest using BLAT
TUTORIAL RELATED CONTENT

TUTORIALS

This tutorial is a part of the tutorial group UCSC Tutorials. You might find the other tutorials in the group interesting:

ENCODE Foundations: ENCyclopedia of DNA Elements

UCSC Genome Browser: The Additional Tools: Additional tools at the UCSC Genome Browser

UCSC Genome Browser: Custom Tracks and Table Browser: UCSC Genome Browser advanced topics

UCSC Archaeal Genome Browser: Provides you with many research and analysis tools that can be used to examine the genomes of more than 50 microbial species from the domain archaea.

ENCODE Data at UCSC: ENCODE Data at UCSC

CATEGORIES

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.

Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.

BLOG POSTS

Video Tip of the Week: Genome Browser in a Box: We've been doing UCSC Genome Browser training workshops for a decade now. We've seen all sorts of situations--from places that had terrific bioinformatics and IT support, to places where the attendees ...

Video Tip of the Week: UCSC #Ebola Genome Portal: Although I had other tips in my queue already, over the last week I've seen a lot of talk about the new Ebola virus portal from the UCSC Genome Browser team. And it struck me that researchers who have ...

Bioinformatics tools extracted from a typical mammalian genome project [supplement]: This is Table 1 that accompanies the full blog post: Bioinformatics tools extracted from a typical mammalian genome project. See the main post for the details and explanation. The table is too long to ...

Bioinformatics tools extracted from a typical mammalian genome project: In this extended blog post, I describe my efforts to extract the information about bioinformatics-related items from a recent genome sequencing paper, and the larger issues this raises in the field. It...

Friday SNPpets: Welcome to our Friday feature link collection: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don't make it to a blog post. Here they are for your e...

BIOMED CENTRAL

Recent BioMed Central research articles citing this resource

Tang Haibao et al., ALLMAPS: robust scaffold ordering based on multiple maps. Genome Biology (2015) doi:10.1186/s13059-014-0573-1

Gerek Z Nevin et al., Evolutionary Diagnosis of non-synonymous variants involved in differential drug response Selected articles from the 2nd International Genomic Medicine Conference (IGMC 2013): Medical Genomics 2nd International Genomic Medicine Conference (IGMC 2013). BMC Medical Genomics (2015) doi:10.1186/1755-8794-8-S1-S6

Wu Xiaowei et al., Nonparametric Bayesian clustering to detect bipolar methylated genomic loci. BMC Bioinformatics (2015) doi:10.1186/s12859-014-0439-2

Kleiner Manuel et al., Evaluation of methods to purify virus-like particles for metagenomic sequencing of intestinal viromes. BMC Genomics (2015) doi:10.1186/s12864-014-1207-4

Mills D James et al., High expression of long intervening non-coding RNA OLMALINC in the human cortical white matter is associated with regulation of oligodendrocyte maturation. Molecular Brain (2015) doi:10.1186/s13041-014-0091-9