Browse the Regulatory Connections Between Genes

The Regulatory Overview enables you to browse through the regulatory network of B. subtilis and overlay experimental data such as gene expression values.

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Regulatory Overview screenshot

Regulatory Overview image generated by Pathway Tools

Browse the Metabolic Network of B. subtilis

The Cellular Overview enables you to browse through the metabolic network of B. subtilis. Search for your favorite enzyme or metabolite and find out where it fits in the big picture.

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Cellular Overview screenshot

Cellular Overview image generated by Pathway Tools

Browse the Bacillus subtilis Genome

Search for your favorite gene in the Genome Browser and learn about its neighbors in the genome.

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Genome Browser screenshot

Genome Browser image generated by Pathway Tools

Create and Manage Lists of Things With SmartTables

SmartTables allow you to generate, analyze and transform lists of objects (genes, enzymes, pathways and more).

Learn More

screenshot of a SmartTable of proteins

SmartTable example

BsubCyc Overview

BsubCyc is a model-organism database for the bacterium Bacillus subtilis 168. The database was originally based on the genome sequence and annotation published in 2009 [Barbe09], and was updated to reflect changes released in [Borriss18] and [Bremer23]. BsubCyc data content is described here. Gene function annotations are updated periodically based on new literature.

BsubCyc is also part of the larger BioCyc collection of thousands of Pathway/Genome Databases for sequenced genomes, including more than 60 B. subtilis strains. Click the "Change Current Database" button above to explore the available databases.

User Guide

What people are saying...

"BsubCyc is a tool of the utmost value."

Penn State

Paul Babitzke
Prof. of Biochemistry
& Molecular Biology

"My lab uses these resources on a daily basis."

University of Wisconsin

Patricia Kiley,
Professor and Chair,
Dep't. of Biomolecular Chemistry

"We rely on BioCyc's Gene Pages and Overview Diagrams almost daily."

University of Minnesota

Arkady Khodursky
Assoc. Prof. Biochemistry

"We use BioCyc and MetaCyc extensively to investigate the metabolic and regulatory processes of organisms we study."

Pacific Northwest National Lab

William Cannon, Team Lead
Computational Biology

"BioCyc is the go-to resource of knowledge and tools for Ginkgo scientists."

Ginkgo Bioworks

"BioCyc is a tremendous resource for pathway analysis in metabolomics."

University of Georgia

Art Edison, Dept of Genetics

"We make extensive use of the BioCyc full metabolic network diagram for omics data analysis."

Great Lakes Bioenergy

Timothy J. Donohue, Director

"I have not found another database that has a better interface than BioCyc."

University of Michigan

Gary B. Huffnagle, Professor
Microbiology and Immunology

See more BioCyc testimonials

Learning Library

Tutorial Videos

Tutorial #1: Introduction to BioCyc
Tutorial #2: Introduction to SmartTables
The following Tutorial will guide you through SmartTables, which enable you to create, upload, share, and analyze sets of genes, metabolites, pathways, and sequence sites. The Tutorial is broken up into parts, ranging from basic operations to more advanced uses such as gene expression analysis and metabolomics.
Tutorial #3: Zoomable Metabolic Map, Comparative Tools, Regulatory Network
This tutorial introduces users to many of the advanced tools available on the BioCyc.org website for navigating cellular networks, analyzing large-scale datasets, and comparing organisms.
Tutorial #4: Omics Data Analysis
This tutorial will show you how to use BioCyc's tools for omics data analysis, including the cellular omics viewer, the omics dashboard, and other tools.
Tutorial #5: Pathway Collages
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.
Tutorial #6: Creating a Pathway/Genome Database
Tutorial #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.