Adrienne E. Zweifel
A5063002189- Bioinformatics and Genomic Networks
- Biomedical Text Mining and Ontologies
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Burkholderia infections and melioidosis
- CRISPR and Genetic Engineering
- Bacterial Genetics and Biotechnology
- Wikis in Education and Collaboration
- Bacteriophages and microbial interactions
- RNA and protein synthesis mechanisms
- Diatoms and Algae Research
- Semantic Web and Ontologies
- Chemical Synthesis and Analysis
- Advanced Proteomics Techniques and Applications
Texas A&M University
2010-2021
University of Colorado Denver
2014-2015
Texas A&M University System
2014
University of California, San Francisco
2014
The Gene Ontology (GO) Consortium (GOC, http://www.geneontology.org) is a community-based bioinformatics resource that classifies gene product function through the use of structured, controlled vocabularies. Over past year, GOC has implemented several processes to increase quantity, quality and specificity GO annotations. First, number manual, literature-based annotations grown at an increasing rate. Second, as result new 'phylogenetic annotation' process, manually reviewed, homology-based...
The Gene Ontology (GO) (http://www.geneontology.org) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies. number GO annotations products has increased due to curation efforts among Consortium (GOC) groups, including focused literature-based annotation and ortholog-based functional inference. ontologies continue expand improve as result targeted ontology development, introduction computable logical definitions...
Abstract Background Systems biology and functional genomics require genome-wide datasets resources. Complete sets of cloned open reading frames (ORFs) have been made for about a dozen bacterial species allow researchers to express study complete proteomes in high-throughput fashion. Results We constructed an frame (ORFeome) collection 3974 or 94% the known Escherichia coli K-12 ORFs Gateway ® entry vector pENTR/Zeo. The has used protein expression interaction studies. For example, we...
Phenotypic data are routinely used to elucidate gene function in organisms amenable genetic manipulation. However, previous this work, there was no generalizable system place for the structured storage and retrieval of phenotypic information bacteria. The Ontology Microbial Phenotypes (OMP) has been created standardize capture such from microbes. OMP built on foundations Basic Formal Phenotype Trait Ontology. Terms have logical definitions that can facilitate computational searching...
Our investigations show that nonlethal concentrations of nitric oxide (NO) abrogate the antibiotic activity β-lactam antibiotics against Burkholderia pseudomallei, Escherichia coli and nontyphoidal Salmonella enterica serovar Typhimurium. NO protects B. pseudomallei already exposed to β-lactams, suggesting this diatomic radical tolerizes bacteria antimicrobial important class antibiotics. The elicit tolerance repress consumption oxygen (O2), while stimulating hydrogen peroxide (H2O2)...
EcoliWiki is the community annotation component of PortEco (http://porteco.org; formerly EcoliHub) project, an online data resource that integrates information on laboratory strains Escherichia coli, its phages, plasmids and mobile genetic elements. As one early adopters wiki approach to model organism databases, was designed not only facilitate community-driven sharing biological knowledge about E. coli as a organism, but also be interoperable with other resources. content currently covers...
Diverse colony morphologies are a hallmark of Burkholderia pseudomallei recovered from infected patients. We observed that stresses inhibit aerobic respiration shifted populations B. the canonical white morphotype toward two distinct, reversible, yet relatively stable yellow variants (YA and YB). As accumulating evidence supports importance enteric infection gastric colonization, we tested response to hypoxia, acidity, stomach colonization. Yellow exhibited competitive advantage under...
Experimental data about gene functions curated from the primary literature have enormous value for research scientists in understanding biology. Using Gene Ontology (GO), manual curation by experts has provided an important resource studying function, especially within model organisms. Unprecedented expansion of scientific and validation predicted proteins increased both challenges keeping pace. Capturing literature-based functional annotations is limited ability biocurators to handle...
Abstract Experimental data about known gene functions curated from the primary literature have enormous value for research scientists in understanding biology. Using Gene Ontology (GO), manual curation by experts has provided an important resource studying function, especially within model organisms. Unprecedented expansion of scientific and validation predicted proteins increased both challenges keeping pace. Capturing literature-based functional annotations is limited ability biocurators...