This world tour of genomic resources will discuss the number and breadth of publicly available bioscience resources available to researchers. It will include a tour of example resources, organized by categories such as Algorithms and Analysis tools, expression resources, genome browsers (both Eukaryotic and Prokaryotic/Microbial) , Literature and text mining resources, and resources focused on nucleotides, proteins, pathways, disease and variation. This main discussion will then lead into a discussion of how to find resources with the OpenHelix search interface, learning to use resources with OpenHelix tutorials, and a discussion of additional methods of learning about resources.

You will learn:

  • about several bioscience resources in various subject categories
  • to find the right resource using the OpenHelix search interface
  • how to quickly learn to use resources through OpenHelix tutorials, site documentation, mailing lists, etc.
  • about additional resources for discovering resources to meet your research needs
TUTORIAL RELATED CONTENT

TUTORIALS

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

Ensembl: Ensembl Genome Browser

TAIR: The Arabidopsis Information Resource

PlantGDB: Plant Genome Database

GBrowse: GBrowse User Introductory Tutorial

Ensembl Legacy: Older version of Ensembl Genome Browser

Gramene: A resource on rice and other grass genomes

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.

Expression : This category may contain various expression data collections, annotation tools, or repositories of expression data.

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

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

Literature and Text Mining : Tools which are related to scientific literature. Repositories, query tools, and mining resources are included.

Miscellaneous : Broad overview training suites, or those not categorized by other existing collections, may be located here.

Nucleotides : Tools that are primarily used in the storage, retrieval, or exploration of nucleotide-based data. Some tools may also involve protein sequence information.

Pathways and Interactions : Tools that are involved with protein interactions and pathway features. Some tools are primarily repositories and some offer analysis options.

Proteins : Tools that are primarily used in the storage, retrieval, or exploration of amino acid based data. Some tools may also involve nucleotide sequence information.

Variation & Medical : Resources that include information about sequence variation, phenotypes, or medically-relevant conditions.

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...

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