Learn to use WormBase, the primary resource for molecular and genetic information on Caenorhabditis elegans and related species. This resource contains not only genomic data but also has information on strains, phenotypes, cell and gene expression, and discussion forums on the C. elegans community. This all-inclusive resource is a critical tool for those using nematodes as a model organism for their research.
Note: The WormBase team has released a new interface, and we will update our materials to reflect this soon. The current material here refers to the legacy site, which remains accessible from http://legacy.wormbase.org/ at this time.
You will learn:
This tutorial is a part of the tutorial group Model organisms. You might find the other tutorials in the group interesting:
TAIR: The Arabidopsis Information Resource
Saccharomyces Genome Database (SGD): Saccharomyces Genome Database
PhenomicDB: Phenotypes database
FlyBase: A resource for the genes, genome and molecular biology of Drosophila melanogaster and related species.
Mouse Genome Informatics (MGI): The Mouse Genome Informatics resource provides data, tools, and analyses for the mouse model organism.
Rat Genome Database (RGD): Rat Genome Database
ZFIN: The Zebrafish Information Network
Gramene: A resource on rice and other grass genomes
Genome Databases (euk) : Genomic databases or repositories primarily aimed at eukaryotic organisms. Some may contain prokaryotic data as well.
Video Tip of the Week: RNACentral, wrangling non-coding RNA for simplifying access: Non-coding RNA data can be tricky to locate in public data sources. Sometimes it is handled with other gene sets, other times it's not. Some ncRNA may be found in databases of one type or one species, ...
Video Tip of the Week: Worm behavioral phenotypes database: Gathering detailed phenotype data from any species is challenging. It can be an enormous problem to even standardize the descriptions you want to assign, never mind the actual collection of the informa...
Video Tip of the Week: A 3D Worm!: In this era of big data and computational tools, it's easy to generate huge amounts of texty and statistical data that offers great insights into biology, and delivers leads to design experiments in a...
What's the answer? (GMOD tools): BioStar is a site for asking, answering and discussing bioinformatics questions. We are members of thecommunity and find it very useful. Often questions and answers arise at BioStar that are germane to...
NAR database issue (always a treasure trove): The advance access release of most of the NAR database issue articles is out. As usual, this this database issue includes a wealth of new and updated data repositories and analysis tools. We'll be wri...
Recent BioMed Central research articles citing this resource
Vadnal Jonathan et al., Identification of candidate infection genes from the model entomopathogenic nematode Heterorhabditis bacteriophora Multicellular invertebrate genomics. BMC Genomics (2017) doi:10.1186/s12864-016-3468-6
Zhang V. Simo et al., AGOUTI: improving genome assembly and annotation using transcriptome data. GigaScience (2016) doi:10.1186/s13742-016-0136-3
Stroehlein J. Andreas et al., CAP protein superfamily members in Toxocara canis. Parasites Vectors (2016) doi:10.1186/s13071-016-1642-y
Gilabert Aude et al., Expanding the view on the evolution of the nematode dauer signalling pathways: refinement through gene gain and pathway co-option Multicellular invertebrate genomics. BMC Genomics (2016) doi:10.1186/s12864-016-2770-7
Campbell Bronwyn et al., Paramyosin of canine Onchocerca lupi : usefulness for the diagnosis of a neglected zoonotic disease. Parasites Vectors (2016) doi:10.1186/s13071-016-1783-z