Robert A. Edwards

Department of Biology, San Diego State University

Affiliated withSan Diego State University Argonne National Laboratory

Research Area

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JoVE Journal Publications

ArticleTotal : 1	Year
Publication title Cited by 15	2015

Other Publications

Article	Year
Visualization of proteins in acrylamide gels using ultraviolet illumination. Analytical biochemistry\| PubMed ID: 11811971	2002
Comparative genomics of closely related salmonellae. Trends in microbiology\| PubMed ID: 11827811	2002
The light-induced reactions of tryptophan with halocompounds. Photochemistry and photobiology\| PubMed ID: 12003125	2002
Trp-999 of beta-galactosidase (Escherichia coli) is a key residue for binding, catalysis, and synthesis of allolactose, the natural lac operon inducer. Biochemistry\| PubMed ID: 12578395	2003
Visible fluorescent detection of proteins in polyacrylamide gels without staining. Analytical biochemistry\| PubMed ID: 14769330	2004
Robotic radical prostatectomy: a technique to reduce pT2 positive margins. Urology\| PubMed ID: 15596205	2004
Mosaic prophages with horizontally acquired genes account for the emergence and diversification of the globally disseminated M1T1 clone of Streptococcus pyogenes. Journal of bacteriology\| PubMed ID: 15866915	2005
In vitro characterization of the Bacillus subtilis protein tyrosine phosphatase YwqE. Journal of bacteriology\| PubMed ID: 15866923	2005
Impaired TGF-beta responses in peripheral T cells of G alpha i2-/- mice. Journal of immunology (Baltimore, Md. : 1950)\| PubMed ID: 15879107	2005
Viral metagenomics. Nature reviews. Microbiology\| PubMed ID: 15886693	2005
Low-molecular-weight protein tyrosine phosphatases of Bacillus subtilis. Journal of bacteriology\| PubMed ID: 15995210	2005
Differential roles for CXCR3 in CD4+ and CD8+ T cell trafficking following viral infection of the CNS. European journal of immunology\| PubMed ID: 16479546	2006
An application of statistics to comparative metagenomics. BMC bioinformatics\| PubMed ID: 16549025	2006
Using pyrosequencing to shed light on deep mine microbial ecology. BMC genomics\| PubMed ID: 16549033	2006
Identification of trichloroethanol visualized proteins from two-dimensional polyacrylamide gels by mass spectrometry. Analytical chemistry\| PubMed ID: 16579625	2006
Finding novel genes in bacterial communities isolated from the environment. Bioinformatics (Oxford, England)\| PubMed ID: 16873483	2006
The marine viromes of four oceanic regions. PLoS biology\| PubMed ID: 17090214	2006
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. Nucleic acids research\| PubMed ID: 17145713	2007
Decreased MAPK- and PGE2-dependent IL-11 production in Gialpha2-/- colonic myofibroblasts. American journal of physiology. Gastrointestinal and liver physiology\| PubMed ID: 17332478	2007
Development of indole chemistry to label tryptophan residues in protein for determination of tryptophan surface accessibility. Protein science : a publication of the Protein Society\| PubMed ID: 17525468	2007
Expression of CXC chemokine ligand 10 from the mouse hepatitis virus genome results in protection from viral-induced neurological and liver disease. Journal of immunology (Baltimore, Md. : 1950)\| PubMed ID: 17617609	2007
Metagenomic and small-subunit rRNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Applied and environmental microbiology\| PubMed ID: 17827313	2007
Evidence for differential roles for NKG2D receptor signaling in innate host defense against coronavirus-induced neurological and liver disease. Journal of virology\| PubMed ID: 18094157	2008
Bacterial carbon processing by generalist species in the coastal ocean. Nature\| PubMed ID: 18223640	2008
The RAST Server: rapid annotations using subsystems technology. BMC genomics\| PubMed ID: 18261238	2008
Phylogenetic classification of short environmental DNA fragments. Nucleic acids research\| PubMed ID: 18285365	2008
Microbial ecology of four coral atolls in the Northern Line Islands. PloS one\| PubMed ID: 18301735	2008
Biodiversity and biogeography of phages in modern stromatolites and thrombolites. Nature\| PubMed ID: 18311127	2008
Comparison of healing after cystotomy and repair with fibrin glue and sutured closure in the porcine model. Journal of endourology / Endourological Society\| PubMed ID: 18315486	2008
Functional metagenomic profiling of nine biomes. Nature\| PubMed ID: 18337718	2008
Role for epithelial dysregulation in early-onset colitis-associated colon cancer in Gi2-alpha-/- mice. Inflammatory bowel diseases\| PubMed ID: 18340649	2008
Viral communities associated with healthy and bleaching corals. Environmental microbiology\| PubMed ID: 18479440	2008
Viral diversity and dynamics in an infant gut. Research in microbiology\| PubMed ID: 18541415	2008
Taxonomic composition and gene content of a methane-producing microbial community isolated from a biogas reactor. Journal of biotechnology\| PubMed ID: 18611419	2008
Bone marrow stem cells for urologic tissue engineering. World journal of urology\| PubMed ID: 18654786	2008
Comparative metagenomics reveals host specific metavirulomes and horizontal gene transfer elements in the chicken cecum microbiome. PloS one\| PubMed ID: 18698407	2008
Comparative study of in vivo lymphatic sealing capability of the porcine thoracic duct using laparoscopic dissection devices. The Journal of urology\| PubMed ID: 19010491	2009
Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19017800	2008
The 'buoy' stent: evaluation of a prototype indwelling ureteric stent in a porcine model. BJU international\| PubMed ID: 19154469	2009
Evaluation of the outcomes of electrosurgical induced bowel injury treated with tissue glue/sealant versus sutured repair in a rabbit model. Journal of endourology / Endourological Society\| PubMed ID: 19275489	2009
Metagenomic analysis of stressed coral holobionts. Environmental microbiology\| PubMed ID: 19397678	2009
Epigenetic repression of DNA mismatch repair by inflammation and hypoxia in inflammatory bowel disease-associated colorectal cancer. Cancer research\| PubMed ID: 19638594	2009
Lysogeny and sporulation in Bacillus isolates from the Gulf of Mexico. Applied and environmental microbiology\| PubMed ID: 20008174	2010
The GAAS metagenomic tool and its estimations of viral and microbial average genome size in four major biomes. PLoS computational biology\| PubMed ID: 20011103	2009
Bovine serum albumin glutaraldehyde for completely sutureless laparoscopic heminephrectomy in a survival porcine model. Journal of endourology / Endourological Society\| PubMed ID: 20059350	2010
NOTCH 信号是形成和自我更新的肿瘤启动所必需的细胞和分... Cancer research\| PubMed ID: 20145124	2010
Transposases are the most abundant, most ubiquitous genes in nature. Nucleic acids research\| PubMed ID: 20215432	2010
Accessing the SEED genome databases via Web services API: tools for programmers. BMC bioinformatics\| PubMed ID: 20546611	2010
Mutation of NIMA-related kinase 1 (NEK1) leads to chromosome instability. Molecular cancer\| PubMed ID: 21214959	2011
Linking lipid metabolism to the innate immune response in macrophages through sterol regulatory element binding protein-1a. Cell metabolism\| PubMed ID: 21531336	2011
Cytokine-induced alterations of Î±7 nicotinic receptor in colonic CD4 T cells mediate dichotomous response to nicotine in murine models of Th1/Th17- versus Th2-mediated colitis. Journal of immunology (Baltimore, Md. : 1950)\| PubMed ID: 21784975	2011
Genome sequence of the human pathogen Vibrio cholerae Amazonia. Journal of bacteriology\| PubMed ID: 21952545	2011
Phage-bacteria relationships and CRISPR elements revealed by a metagenomic survey of the rumen microbiome. Environmental microbiology\| PubMed ID: 22004549	2012
PHACTS, a computational approach to classifying the lifestyle of phages. Bioinformatics (Oxford, England)\| PubMed ID: 22238260	2012
Characterization of the ELPhiS Prophage from Salmonella enterica serovar Enteritidis strain LK5. Applied and environmental microbiology\| PubMed ID: 22247173	2012
TNF-Î± Induces Up-Regulation of EGFR Expression and Signaling in Human Colonic Myofibroblasts. American journal of physiology. Gastrointestinal and liver physiology\| PubMed ID: 22301110	2012
PhiSiGns: an online tool to identify signature genes in phages and design PCR primers for examining phage diversity. BMC bioinformatics\| PubMed ID: 22385976	2012
Zinc sequestration by the neutrophil protein calprotectin enhances Salmonella growth in the inflamed gut. Cell host & microbe\| PubMed ID: 22423963	2012
Draft genome sequence of the shrimp pathogen Vibrio harveyi CAIM 1792. Journal of bacteriology\| PubMed ID: 22461546	2012
Muscle sarcomas and alopecia in A/J mice chronically treated with nicotine. Life sciences\| PubMed ID: 22521759	2012
Genome sequence of the bacterioplanktonic, mixotrophic Vibrio campbellii strain PEL22A, isolated in the Abrolhos Bank. Journal of bacteriology\| PubMed ID: 22535939	2012
Genome sequences of the ethanol-tolerant Lactobacillus vini strains LMG 23202T and JP7.8.9. Journal of bacteriology\| PubMed ID: 22582376	2012
PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies. Nucleic acids research\| PubMed ID: 22584627	2012
miR-23a promotes the transition from indolent to invasive colorectal cancer. Cancer discovery\| PubMed ID: 22628407	2012
Genome-wide study of the defective sucrose fermenter strain of Vibrio cholerae from the Latin American cholera epidemic. PloS one\| PubMed ID: 22662140	2012
Diversification of the Salmonella fimbriae: a model of macro- and microevolution. PloS one\| PubMed ID: 22701679	2012
Taxonomic and functional microbial signatures of the endemic marine sponge Arenosclera brasiliensis. PloS one\| PubMed ID: 22768320	2012
Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux. PloS one\| PubMed ID: 22848480	2012
Microfluidic PCR combined with pyrosequencing for identification of allelic variants with phenotypic associations among targeted Salmonella genes. Applied and environmental microbiology\| PubMed ID: 22885744	2012
Metabolic trajectory of cellular differentiation in small intestine by Phasor Fluorescence Lifetime Microscopy of NADH. Scientific reports\| PubMed ID: 22891156	2012
Real time metagenomics: using k-mers to annotate metagenomes. Bioinformatics (Oxford, England)\| PubMed ID: 23047562	2012
Reference-independent comparative metagenomics using cross-assembly: crAss. Bioinformatics (Oxford, England)\| PubMed ID: 23074261	2012
SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models. PloS one\| PubMed ID: 23110173	2012
Intracellular trafficking of the KV1.3 potassium channel is regulated by the prodomain of a matrix metalloprotease. The Journal of biological chemistry\| PubMed ID: 23300077	2013
Applying Shannon's information theory to bacterial and phage genomes and metagenomes. Scientific reports\| PubMed ID: 23301154	2013
A bioinformatic analysis of ribonucleotide reductase genes in phage genomes and metagenomes. BMC evolutionary biology\| PubMed ID: 23391036	2013
Structure and function of a cyanophage-encoded peptide deformylase. The ISME journal\| PubMed ID: 23407310	2013
Multivariate analysis of functional metagenomes. Frontiers in genetics\| PubMed ID: 23579547	2013
Explaining microbial phenotypes on a genomic scale: GWAS for microbes. Briefings in functional genomics\| PubMed ID: 23625995	2013
Circadian clock regulates the host response to Salmonella. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 23716692	2013
Probiotic bacteria reduce salmonella typhimurium intestinal colonization by competing for iron. Cell host & microbe\| PubMed ID: 23870311	2013
Draft Genome Sequence of the Fish Pathogen Piscirickettsia salmonis. Genome announcements\| PubMed ID: 24201203	2013
Combining de novo and reference-guided assembly with scaffold_builder. Source code for biology and medicine\| PubMed ID: 24267787	2013
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic acids research\| PubMed ID: 24293654	2014
Microbial genomic taxonomy. BMC genomics\| PubMed ID: 24365132	2013
The cytokine IL-22 promotes pathogen colonization by suppressing related commensal bacteria. Immunity\| PubMed ID: 24508234	2014
Angiogenic sprouting is regulated by endothelial cell expression of Slug. Journal of cell science\| PubMed ID: 24554431	2014
Excited state photoreaction between the indole side chain of tryptophan and halocompounds generates new fluorophores and unique modifications. Photochemistry and photobiology\| PubMed ID: 24738707	2014
Wnt signaling directs a metabolic program of glycolysis and angiogenesis in colon cancer. The EMBO journal\| PubMed ID: 24825347	2014
FOCUS: an alignment-free model to identify organisms in metagenomes using non-negative least squares. PeerJ\| PubMed ID: 24949242	2014
Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 24982156	2014
A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes. Nature communications\| PubMed ID: 25058116	2014
Comparative genomics of 274 Vibrio cholerae genomes reveals mobile functions structuring three niche dimensions. BMC genomics\| PubMed ID: 25096633	2014
Sequencing at sea: challenges and experiences in Ion Torrent PGM sequencing during the 2013 Southern Line Islands Research Expedition. PeerJ\| PubMed ID: 25177534	2014
Microbial taxonomy in the post-genomic era: rebuilding from scratch? Archives of microbiology\| PubMed ID: 25533848	2015
RASTtk: a modular and extensible implementation of the RAST algorithm for building custom annotation pipelines and annotating batches of genomes. Scientific reports\| PubMed ID: 25666585	2015
Multidimensional metrics for estimating phage abundance, distribution, gene density, and sequence coverage in metagenomes. Frontiers in microbiology\| PubMed ID: 26005436	2015
Genomic Comparison of the Closely-Related Salmonella enterica Serovars Enteritidis, Dublin and Gallinarum. PloS one\| PubMed ID: 26039056	2015