photo of stromatolites along a seashore

Image courtesy of John Burns (Cyanolab) and Cyanosite.

Living Rocks

Some cyanobacteria can make rocks like these living stromatolites in the alkaline (pH > 9) Salda Lake in southern Turkey.

A portion of an Omics Dashboard display, showing panels for Biosynthesis and Degradation, and a popup showing details for L-alanine biosynthesis.

Cellular Dashboard image generated by Pathway Tools.

The Omics Dashboard: A New View of Omics Data

Visualize omics data as a set of graphs hierarchically organized by functional category. Drill down for more detail in areas of interest.

Learn More

a body of water covered by algal bloom

Image courtesy of Jeff Johansen (John Carrol University) and Cyanosite

Harmful Algal Blooms

This Slimy 'algal' bloom consists of the cyanobacteria Microcystis aeruginosa and Anabaena circinalis on the St. Johns River, FL,both of which can produce harmful cyanotoxins.

a portion of a Cellular Overview diagram, showing several pathway classes

Cellular Overview image generated by Pathway Tools.

Explore Metabolic Maps

The Cellular Overview enables you to browse through zoomable metabolic map diagrams for each cyanobacterium, overlay omics data, and even print your own Metabolic Map poster.

Learn More

Photo of a single Spirulina bacterium

This image is licensed under the Creative Commons Attribution-Share Alike 3.0 Unported license.

Cyanobacterium as Food Supplement

Did you know this cyanobacterium Arthrospira platensis (formerly “Spirulina”) is one of several species used as a food supplement, even as far back as the Aztecs?

close-up photo of green bacteria in a bioreactor

Image courtesy of Pacific Northwest National Laboratory.

Biotechnological Applications

Synechococcus sp. PCC 7002 growing in a photobioreactor, for biotechnological applications

Screenshot of cross organism search page with organism selector panel open

Search Cyanobacteria based on phenotypes or taxonomic names

Learn More
Photo of several green cyanobacteria as viewed through a microscope

This image is licensed under the Creative Commons Attribution-Share Alike 3.0 Unported license.

Prochlorococcus, the tiny but mighty marine unicellular cyanobacterium

The smallest and most abundant cyanobacterium contributes significantly to global carbon, oxygen and other biogeochemical cycles.

Learn More

a multiple sequence alignment of gene kaiT across 14 cyanobacterial genomes

Multiple Sequence Alignment results generated by Pathway Tools using MUSCLE.

Multiple Sequence Alignments

Generate multiple sequence alignments for genes or proteins - within a genome or between genomes.

Learn More
Screenshots of PatMatch query and results pages

PatMatch query and results by Pathway Tools.

Sequence Pattern Searches

Search a selected organism for exact or degenerate short patterns of nucleotides or peptides.

Learn More
Pathway display with popup bar charts showing changing metabolic flux over time for different reactions.

Metabolic Modeling with MetaFlux

Build quantitative metabolic models for BioCyc organisms using the MetaFlux metabolic modeling component of Pathway Tools.

Learn More

CyanoCyc Cyanobacterial Pathway/Genome Databases

One-stop destination to explore, analyze and visualize cyanobacteria genomes and metabolic pathways

CyanoCyc unique data content: Easy-to-use bioinformatics tools such as overlaying omics data onto metabolic map diagrams and carrying out multigenome alignments.
Read more about these tools and other information about CyanoCyc and cyanobacteria on the CyanoCyc Intro page.

What people are saying
See more BioCyc testimonials

"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

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. To download or view, click one of the links below.
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.