BioCyc is a collection of 19494 Pathway/Genome
Databases (PGDBs) for model eukaryotes and for thousands of microbes, plus software tools for exploring
them. BioCyc is an encyclopedic reference that contains curated data from 130,000 publications.
The EcoCyc and MetaCyc databases are freely available, but access to the remaining BioCyc databases requires a paid subscription.
The following websites are part of BioCyc. Opening these sites in your browser
is a convenient way to pre-select that database for searches.
Webinar #1: Introduction to BioCyc
These six sequential
segments, giving you a guided tour of the BioCyc collection in concise
bites. To download or view, just click on one of the links
following each segment's name.
The following webinar will guide you through SmartTables, which enable you
to create, upload, share, and analyze sets of genes, metabolites, pathways, and sequence sites.
The webinar is broken up into parts, ranging from basic operations to more advanced uses such
as gene expression analysis and metabolomics. To download or view, click one of the links below.
Pathway collages are multi-pathway diagrams that you can customize
by, for example, overlaying omics data, altering the relative
positions of pathways, and modifying connections among pathways.
Learn how to generate, customize and export
high-quality pathway-collage diagrams showing collections of user-specified pathways.
Learn the entire process of building a BioCyc-like Pathway/Genome Database (PGDB)
for an organism with a sequenced and annotated
genome. Build a PGDB for your own lab or for the whole scientific community.
Webinar #7: Using the Structured Advanced Query Page
An introduction to the Structured Advanced Query Page, which allows
complex queries and queries across one or more databases in the
BioCyc collection. You'll learn about:The basic steps of setting up an advanced query;
Four examples of increasingly complex queries, including how to query across multiple databases;
Where to learn more about the structure of BioCyc databases.
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