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microme.eu

MicroCyc Web Services | Microme

http://www.microme.eu/microcyc-web-services

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Is a component of the Microscope platform designed to extract genomic and metabolic data from the Pathway Genome Databases, generated by Pathway-tools. At SRI, which is then refined by curation performed in the context of the Microme project. The official MicroCyc web service client. Page: provides more detailed information for extracting data from MicroCyc using web services. Clients developed for the Microme training workshop.

microme.eu

Download Microme Data | Microme

http://www.microme.eu/download-microme-data

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Genome-protein-reaction associations for 9K organisms (bacteria/archaea). An initial set of 10 tested constraint-based models. Reactome data (24 bacterial species). Includes aproimately 250k inferred genome-reaction sets. Genome-protein-reaction associations for 5K organisms (bacteria/archaea). An initial set of 10 tested constraint-based models. Reactome data (24 bacterial species). An initial set of 10 tested constraint-based models. EMF fla...

microme.eu

User account | Microme

http://www.microme.eu/user/password

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Username or e-mail address: *. MICROME is an EU Framework Programme 7 Collaborative Project. Grant Agreement Number 222886-2. Site maintained by the External Services team at EMBL-EBI.

microme.eu

Training | Microme

http://www.microme.eu/training

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. MICROME is an EU Framework Programme 7 Collaborative Project. Grant Agreement Number 222886-2. Site maintained by the External Services team at EMBL-EBI.

microme.eu

Microme Standard Operating Procedures | Microme

http://www.microme.eu/pages/microme-sops

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Microme Standard Operating Procedures. List of Microme Standard Operating Procedures. The primary target of the SOPs is the MICROME curators: - trained in biology - with no specific programming skills. After the first Microme annotation jamboree (see Deliverable D7.2. The experience gained was used to define a list of SOPs. Two main categories were defined:. SOPs to curate Reference Data. SOPs to curate Projected Data. Creation of pathway even...

microme.eu

Consortium Members | Microme

http://www.microme.eu/members

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Team (PI in bold). Centre for Research and Technology Hellas. Centro Nacional de Biotecnología. Claudia Rato da Silva. German Collection of Microorganisms and Cell Cultures. Spanish National Cancer Centre. Victor de la Torre. Swiss Institute of Bioinformatics. Université Libre de Bruxelles. Vitor Martins dos Santos. Wellcome Trust Sanger Institute. MICROME is an EU Framework Programme 7 Collaborative Project. Grant Agreement Number 222886-2.

microme.eu

Bacterial Reactome Web Services | Microme

http://www.microme.eu/bacterial-reactome-web-services

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Bacterial Reactome Web Services. Microme implements and fully support the Reactome Web Services API, based on the SOAP protocol, to fetch events and molecules from the bacterial Reactome knowledge-base. Two SOAP-based services are described using the W3 standard Web Services Description Language (WSDL):. All other operations are defined here: http:/ pathway.microme.eu/caBIOWebApp/services/caBIOService? Simple description of the Reactome WS API.

microme.eu

Publications | Microme

http://www.microme.eu/Publications

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Microbial stratification in low pH oxic and suboxic macroscopic growths along an acid mine drainage. Méndez-García C, Mesa V, Sprenger RR, Richter M, Diez MS, Solano J, Bargiela R, Golyshina OV, et al. The logic of metabolism and its fuzzy consequences. Danchin A, Sekowska A. Computational evaluation of cellular metabolic costs successfully predicts genes whose expression is deleterious. Proc Natl. Acad. Sci. U.S.A. Oberhardt M, Ruppin E.

microme.eu

Download Microme Software | Microme

http://www.microme.eu/download-microme-software

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Hosts some software which can be used by external users to access and analyse various elements of the Microme data set. We provide a Perl script and accompanying data. Genome-scale functional characterization of a species. We provide a software package. That performs the following functionalities:. Fing a minimal media for a given organism, when the organism is forced to grow at list X% of its maximal biomass. The Phenotype MicroArray (OmniLog...

microme.eu

Organization overview | Microme

http://www.microme.eu/organization

Skip to Main Content Area. Botero Tool for Retrobiosynthesis. Project objectives and structure. The Microme project is a four-year collaborative project funded from December 2009-Framework Programme 7 of the European Commission, and developed around eight work packages. Microme will produce four primary products:. I) a curated database of reference pathways and variants. Iii) a set of genome-scale, constraint-based metabolic models derived from the networks.