Affiliation: University of California
- Complete genome sequence of an astrovirus identified in a domestic rabbit (Oryctolagus cuniculus) with gastroenteritisMark D Stenglein
Department of Medicine, University of California San Francisco, San Francisco, CA, USA
Virol J 9:216. 2012..This study therefore defines a viral species and a potential rabbit pathogen...
- The 3A protein from multiple picornaviruses utilizes the golgi adaptor protein ACBD3 to recruit PI4KIIIβAlexander L Greninger
Howard Hughes Medical Institute and the Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, California, USA
J Virol 86:3605-16. 2012....
- Plate-based transfection and culturing technique for genetic manipulation of Plasmodium falciparumFlorence Caro
Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, California, USA
Malar J 11:22. 2012..The methods and tools presented here will facilitate genome-scale genetic manipulation of P. falciparum...
- Experimental induction of proventricular dilatation disease in cockatiels (Nymphicus hollandicus) inoculated with brain homogenates containing avian bornavirus 4Ady Y Gancz
The Exotic Clinic, Herzlyia, Israel
Virol J 6:100. 2009..However, it remains unclear whether ABV infection actually causes PDD. To address this question, we examined the impact of ABV inoculation on the cockatiel (Nymphicus hollandicus)...
- Genome-wide diversity and selective pressure in the human rhinovirusAmy L Kistler
Department of Microbiology and Immunology, University of California, San Francisco, California, USA
Virol J 4:40. 2007..Previous comparative genome sequence analyses indicate that recombination drives diversification in multiple genera of the picornavirus family, yet it remains unclear if this holds for HRV...
- Recovery of divergent avian bornaviruses from cases of proventricular dilatation disease: identification of a candidate etiologic agentAmy L Kistler
Departments of Biochemistry, Microbiology and Medicine, Howard Hughes Medical Institute, University of California, San Francisco, 94143, USA
Virol J 5:88. 2008..For almost 40 years, a viral etiology for PDD has been suspected, but to date no candidate etiologic agent has been reproducibly linked to the disease...
- The complete genome of klassevirus - a novel picornavirus in pediatric stoolAlexander L Greninger
Howard Hughes Medical Institute, Departments of Medicine, Biochemistry, and Microbiology, University of California, San Francisco, California 94143, USA
Virol J 6:82. 2009..Modern technologies, especially deep sequencing, allow rapid, high-throughput screening of clinical samples such as stool for new infectious agents associated with human disease...
- Viral discovery and sequence recovery using DNA microarraysDavid Wang
Department of Biochemistry and Biophysics, University of California San Francisco, USA
PLoS Biol 1:E2. 2003..This combination of array hybridization followed by direct viral sequence recovery should prove to be a general strategy for the rapid identification and characterization of novel viruses and emerging infectious disease...
- The transcriptome of the intraerythrocytic developmental cycle of Plasmodium falciparumZbynek Bozdech
Department of Biochemistry and Biophysics, University of California, San Francisco, USA
PLoS Biol 1:E5. 2003..falciparum and provide a resource for the identification of new chemotherapeutic and vaccine candidates...
- Improved methods for magnetic purification of malaria parasites and haemozoinCharles C Kim
Howard Hughes Medical Institute, Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94158, USA
Malar J 9:17. 2010..As these methods are not necessarily optimized for parasite purification, the relationship between magnetic field strength and the quantity and quality of yield during parasite purification was explored...
- Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarrayZbynek Bozdech
Department of Biochemistry and Biophysics, University of California San Francisco, 513 Parnassus Ave, San Francisco, CA 94143-0448, USA
Genome Biol 4:R9. 2003..falciparum genome. Expression profiling of trophozoites and schizonts revealed genes associated with stage-specific processes and may serve as the basis for future drug targets and vaccine development...
- Whole-genome analysis of mRNA decay in Plasmodium falciparum reveals a global lengthening of mRNA half-life during the intra-erythrocytic development cycleJennifer L Shock
Department of Biochemistry and Biophysics, University of California San Francisco, 1700 4th Street, San Francisco, California 94158 2330, USA
Genome Biol 8:R134. 2007..Previously, studies in several organisms found that the specific half-life of each mRNA is precisely related to its physiologic role, and plays an important role in determining levels of gene expression...
- Genome-scale approaches for discovering novel nonconventional splicing substrates of the Ire1 nucleaseMaho Niwa
Howard Hughes Medical Institute and Department of Biochemistry and Biophysics, University of California at San Francisco, San Francisco, CA 94143 2200, USA
Genome Biol 6:R3. 2005..Because only the spliced mRNA is translated, splicing is the key regulatory step of the UPR...
- E-Predict: a computational strategy for species identification based on observed DNA microarray hybridization patternsAnatoly Urisman
Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94143, USA
Genome Biol 6:R78. 2005..We demonstrate the application of the algorithm to viral detection in a set of clinical samples and discuss its relevance to other metagenomic applications...
- VersaCount: customizable manual tally software for cell countingCharles C Kim
Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94158, USA
Source Code Biol Med 5:1. 2010..Traditionally, hand tally counters have been used to track event counts. Although this method is adequate, there are a number of inefficiencies which arise when managing large numbers of samples or large sample sizes...
- Gene expression patterns during adaptation of a helminth parasite to different environmental nichesEmmitt R Jolly
California Institute for Quantitative Biomedical Research QB3 of the University of California, San Francisco, San Francisco, CA 94158 USA
Genome Biol 8:R65. 2007..We report a global transcriptional analysis of how this parasite alters gene regulation to adapt to three distinct environments...
- Modulation of host gene expression by the constitutively active G protein-coupled receptor of Kaposi's sarcoma-associated herpesvirusAndrew G Polson
Department of Microbiology and Immunology, University of California, San Francisco, California 94143-0414, USA
Cancer Res 62:4525-30. 2002....
- A role for the protease falcipain 1 in host cell invasion by the human malaria parasiteDoron C Greenbaum
Department of Pharmaceutical Chemistry, Veterans Affairs Medical Center, University of California, San Francisco, CA 94143, USA
Science 298:2002-6. 2002..These results demonstrate a specific role for falcipain 1 in host cell invasion and establish a potential new target for antimalarial therapeutics...
- Viral infection in acute exacerbation of idiopathic pulmonary fibrosisSharon Chao Wootton
UC San Francisco UC Berkeley Joint Graduate Group in Bioengineering, University of California, Berkeley, California, USA
Am J Respir Crit Care Med 183:1698-702. 2011..An acute exacerbation of idiopathic pulmonary fibrosis is an episode of acute respiratory worsening without an identifiable etiology. Occult viral infection has been proposed as a possible cause of acute exacerbation...
- Fzf1p regulates an inducible response to nitrosative stress in Saccharomyces cerevisiaeAaron Sarver
Chemistry and Chemical Biology Graduate Program, University of California, San Francisco, San Francisco, CA 94143, USA
Mol Biol Cell 16:4781-91. 2005..Our results suggest that the presence of *NO or *NO derivatives activates Fzf1p leading to transcriptional induction of a discrete set of target genes that function to protect the cell from *NO-mediated stress...
- A new threat to honey bees, the parasitic phorid fly Apocephalus borealisAndrew Core
Department of Biology, San Francisco State University, San Francisco, California, United States of America
PLoS ONE 7:e29639. 2012..Understanding details of phorid infection may shed light on similar hive abandonment behaviors seen in CCD...
- Achalasia and viral infection: new insights from veterinary medicineDon Ganem
Department of Medicine, University of California, San Francisco, CA 94143, USA
Sci Transl Med 2:33ps24. 2010..These findings demonstrate that viruses can induce achalasia-like pathophysiology and have renewed interest in the search for infectious agents in this enigmatic human disease...
- Novel Anti-Malarials by Combinatorial PharmacogenomicsJoseph DeRisi; Fiscal Year: 2006..The work will be accomplished by the cooperation of of two academic labs, Kip Guy and Joseph DeRisi, and two industrial partners, GenoSpectra, Inc., and Stanford Research Institute (SRI), Inc...