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Ambion GeneAssist™ Pathway Atlas
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| Learn how a protein is involved in different cellular pathways. |
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BioCarta -- Online maps of metabolic and signaling pathways
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| Search extensive collection of dynamic maps of classic metabolic and signal transduction pathway maps. |
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BioCyc -- A collection of pathway/genome databases
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| Search for a collection of over 205 pathway/genome databases. |
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BioSilico -- Integrated access to various metabolic databases
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| Search and analyze metabolic pathways.
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Bionemo -- molecular information on biodegradation metabolism
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| Find information about proteins and genes directly implicated in biodegradation metabolism.
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CPA -- Comparative Pathway Analyzer
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| A web server for comparative analysis, clustering and visualization of metabolic networks in multiple organisms.
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DAVID -- A Database for Annotation, Visualization and Integrated Discovery
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| Conduct comprehensive gene annotation, expression data analysis, biological pathway mapping, and other functional genomics tasks. |
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DRASTIC—INSIGHTS -- querying information in a plant gene expression database
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| Search for information of plant gene expression in response to pathogens and environmental changes. |
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GOLD.db -- genomics of lipid-associated disorders database
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| Search for biological pathway and genomic information of lipid-associated disorders. |
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GeneNet -- A database on structure and functional organization of gene networks
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| Search for information on gene networks, such as metabolic pathways and signal transduction pathways. |
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GenePath -- from mutations to genetic networks and back
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| Analyze mutant-based experiments and synthesize genetic networks. |
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KEGG Atlas -- mapping for global analysis of metabolic pathways
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| A new graphical interface to the KEGG suite of databases, especially to the systems information in the PATHWAY and BRITE databases.
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KEGG PATHWAY Database
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| Search a collection of pathway maps on metabolism, signal transduction, gene regulation, and cellular processes.
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KEGGanim -- pathway animations for high-throughput data
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| A web-based tool for visualizing experimental data in the context of biological pathways.
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KOBAS server -- a web-based platform for automated annotation and pathway identification
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| Annotate a set of nucleotide or protein sequences with KEGG Orthology terms and identify frequently occurring or statistically significantly enriched pathways among the queried sequences. |
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LIGAND -- Database of chemical compounds and reactions in biological pathways
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| Search for information on chemical compounds and their reactions in biological pathways. |
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LIPID MAPS -- LIPID Metabolites And Pathways Strategy
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| Online tools for lipid research.
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LMPD -- LIPID MAPS proteome database
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| Search for lipid-associated protein sequences and annotations.
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MODOMICS -- database of RNA modification pathways
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| Search for comprehensive information on RNA modification. |
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MassTRIX -- Mass TRanslator into Pathways
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| Annotate metabolites in high precision mass spectrometry data.
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MetaCyc -- A Multiorganism Database of Metabolic Pathways and Enzymes
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| Search information on biological pathways and enzymes in different organisms (mainly plants and microbes).
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MetaNetter -- inference and visualization of high-resolution metabolomic networks
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| Visualize high-resolution metabolomic networks.
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MetaPath Online -- a web server implementation of the network expansion algorithm
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| Analyze the biosynthetic capacities of metabolic networks.
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Metabolic PathFinding -- inferring relevant pathways in biochemical networks
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| Predict relevant pathways in biochemical networks.
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PANTHER -- A browsable database of gene products organized by biological function, using curated protein family and subfamily classification
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| Browse and search proteins based on their biological functions. |
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PMAP -- the proteolysis map
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| Databases for analyzing proteolytic events and pathways.
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PUMA2 — grid-based high-throughput analysis of genomes and metabolic pathways
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| Carry out high-throughput genetic sequence analysis and metabolic reconstructions from sequence data. |
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PathCase -- Pathways Database System
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| A web-based bioinformatics tool to store, query, and visualize metabolic pathways.
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Pathguide -- a pathway resource list
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| Search for database and tools relevant to biological pathway study from this comprehensive resources list.
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PathwayExplorer -- web service for visualizing high-throughput expression data on biological pathways
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| Visualize high-throughput microarray gene expression data on biological pathways. |
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PeroxisomeDB -- a database for the peroxisomal proteome, functional genomics and disease
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| Search for integrated genetic and functional information on peroxisomal genes in human and yeast. |
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Reactome -- a curated knowledgebase of biological pathways
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| Find comprehensive biological pathway information from a curated resource of core pathways and reactions in human biology. |
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SYSTOMONAS — an integrated database for systems biology analysis of Pseudomonas
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| Conduct systems biology analysis of Pseudomonas. |
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TBestDB -- Taxonomically broad EST database -- protist ESTs
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| Search for EST data from a wide range of eukaryotes. |
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The Path-A metabolic pathway prediction web server
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| Predict the involvement of metabolic pathways of a set of protein sequences.
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The University of Minnesota Biocatalysis/Biodegradation Database -- Post-genomic data mining
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| Search for curated information on microbial catabolism and related biotransformations, primarily for environmental pollutants.
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The University of Minnesota pathway prediction system
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| Predicting metabolic logic.
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VisANT -- Integrative Visual Analysis Tool for Biological Networks and Pathways
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| Tool for pathway visualization, editing, prediction and construction. |
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metaSHARK -- a WWW platform for interactive exploration of metabolic networks
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| Interactively explore the KEGG metabolic network.
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