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Pedro R Romero*

Alumnus


Fax: (650) 859-3735

Email: 

Alumnus of the Artificial Intelligence Center

Biography and Interests

He was a Post Doctorate Fellow in the Bioinformatics Research Group in the AIC.

Current Projects

EcoCyc

EcoCyc: Encyclopedia of Escherichia coli Genes and Metabolism

EcoCyc is a bioinformatics database that describes the genome and the biochemical machinery of E. coli. The long-term goal of the project is to describe the molecular catalog of the E. coli cell, as well as the functions of each of its molecular parts, to facilitate a system-level understanding of E. coli.

MetaCyc

MetaCyc: Metabolic Pathway Database

MetaCyc is a database of nonredundant, experimentally elucidated metabolic pathways. MetaCyc contains more than 1800 pathways from more than 2200 different organisms (circa 2012). The MetaCyc data were curated from more than 33,000 scientific publications. MetaCyc describes metabolic pathways, reactions, enzymes, and metabolites.

Pathway Tools

Pathway Tools

Pathway Tools is a systems biology software system that supports several use cases: Development of organism-specific database that integrate many bioinformatics datatypes, from genomes to pathways. Development of metabolic-flux models using flux-balance analysis. Scientific visualization, web publishing, and querying of organism-specific databases. Analysis of omics datasets. Computational prediction of metabolic pathways, metabolic pathway hole fillers, and operons. Comparative analyses.

Past Projects

Halo Pilot

A System for Representing Textbook Knowledge

The goal of the project is to demonstrate the current state-of-the-art in knowledge representation by attempting to answer the questions in an advance placement test in chemistry.

Publications

The following are in reverse chronological order of publication.
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