Image courtesy of John Burns (Cyanolab) and Cyanosite.
Cellular Dashboard image generated by Pathway Tools.
Image courtesy of Jeff Johansen (John Carrol University) and Cyanosite
Cellular Overview image generated by Pathway Tools.
This image is licensed under the Creative Commons Attribution-Share Alike 3.0 Unported license.
Image courtesy of Pacific Northwest National Laboratory.
This image is licensed under the Creative Commons Attribution-Share Alike 3.0 Unported license.
Multiple Sequence Alignment results generated by Pathway Tools using MUSCLE.
PatMatch query and results by Pathway Tools.
Metabolic Modeling with MetaFlux
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One-stop destination to explore, analyze and visualize cyanobacteria genomes and metabolic pathways with easy-to-use bioinformatics tools
Our recent paper on CyanoCyc and the community curated Synechocystis sp. PCC 6803 genome database is available here
CyanoCyc unique data content:
- Hundreds of cyanobacteria genomes; five curated from the cyanobacterial literature:
- New and old taxonomic nomenclature provided - easy to find your favorite cyanobacteria
- Find cyanobacteria based on phenotypes
- Curated information about protein function, transporters and pathways curated by biochemists and cyanobacteriologists with evidence from cyanobacteria literature
- Carry out comparative analyses on up to 70 cyanobacteria at a time
- Overlay omics data onto the metabolic map diagrams
- Align sequences within a single organism or across multiple organisms via a variety of available tools
What people are saying
"BsubCyc is a tool of the utmost value."
Paul Babitzke
Prof. of Biochemistry
& Molecular Biology
"My lab uses these resources on a daily basis."
Patricia Kiley,
Professor and Chair,
Dep't. of Biomolecular Chemistry
"We rely on BioCyc's Gene Pages and Overview Diagrams almost daily."
Arkady Khodursky
Assoc. Prof. Biochemistry
"We use BioCyc and MetaCyc extensively to investigate the metabolic and regulatory processes of organisms we study."
William Cannon, Team Lead
Computational Biology
"BioCyc is the go-to resource of knowledge and tools for Ginkgo scientists."
"BioCyc is a tremendous resource for pathway analysis in metabolomics."
Art Edison, Dept of Genetics
"We make extensive use of the BioCyc full metabolic network diagram for omics data analysis."
Timothy J. Donohue, Director
"I have not found another database that has a better interface than BioCyc."
Gary B. Huffnagle, Professor
Microbiology and Immunology
Learning Library
Tutorial Videos
Tutorial #1: Introduction to BioCyc
Tutorial #2: Introduction to SmartTables
Tutorial #3: Zoomable Metabolic Map, Comparative Tools, Regulatory Network
Tutorial #4: Omics Data Analysis
Tutorial #5: Pathway Collages
Tutorial #6: Creating a Pathway/Genome Database
- Part 1A: Introduction to Database Building and Pathologic (14:04)
- Part 1B: Building a Database: Detailed Pathologic Example (23:53)
- Part 2A: General Editing Strategies (8:00)
- Part 2B: Creating and Editing Reactions and Compounds (17:32)
- Part 2C: Updating Proteins, Citations, GO Terms, and Enzymatic Reactions (26:10)
- Part 2D: Making and Editing Pathways (9:42)
