BioCyc: microbial-genome web portal with predicted metabolic pathways and omics analysis tools. Pathway Tools: metabolic reconstruction and modeling software.

Joined June 2012
2nd CyanoCyc Online Mini-Symposium! Register at tinyurl.com/ycxvwk76 @CyanoWorld1
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A new article in Metabolite describes extensions to our Omics Dashboard tool for visual analysis of metabolomics and multi-omics data.  We can see which cellular systems are changing their activity levels across multiple omics data types. mdpi.com/2218-1989/14/1/65
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Introducing our New Genome Browser: The new version is much faster--it zooms and pans in real time. New features include the ability to extract sequence regions. Check it out at: biocyc.org/genbro/genbro.sht…
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Curated Synechococcus and Prochlorococcus Pathway Genome Databases at BioCyc.org #ProSynFest2020
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Replying to @davidendron
The uniprot ids are attached to the protein, not the gene, so add a transform to the gene product, select that column (by clicking on its header, can be tough to find the right spot but lower left usually works), then add a Database Links column, and select UniProt as the db.
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Impact of Zero-Valent Iron on Freshwater Bacterioplankton Metabolism as Predicted from 16S rRNA Gene Sequence Libraries doi.org/10.1007/s00284-021-0… New paper from Current Microbiology that uses Pathway Tools and PathoLogic for pathway prediction.
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New paper from BMC Genomics: Shotgun proteomics of peach fruit reveals major metabolic pathways associated to ripening Pathway Tools was used to predict the metabolic pathways in Prunus persica and generate pathway diagrams. bmcgenomics.biomedcentral.co…
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New in BioCyc & Pathway Tools 24.5: The Metabolic Network Explorer is a novel tool for interactive exploration of the metabolic network around a set of connected compounds of interest. Easy to use, visually attractive, and customizable, check it out at biocyc.org/MetNetExplorer.sh…
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BioCyc contains dbs for 127 Chlamydia genomes. New in BioCyc 24.5, C. trachomatis D/UW-3/CX has been upgraded to Tier2 status, with updated reaction and pathway predictions, new protein features, new complexes, and literature-based curation from 35 papers. biocyc.org/organism-summary?…