Search Results - "Kuiken, Carla"

Nomenclature and numbering of the hepatitis C virus by Kuiken, Carla, Simmonds, Peter

“…International standardization and coordination of the nomenclature of variants of hepatitis C virus (HCV) is increasingly needed as more is discovered about…”
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The Los Alamos hepatitis C sequence database by Kuiken, Carla, Yusim, Karina, Boykin, Laura, Richardson, Russell

“…Motivation: The hepatitis C virus (HCV) is a significant threat to public health worldwide. The virus is highly variable and evolves rapidly, making it an…”
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A jumping profile Hidden Markov Model and applications to recombination sites in HIV and HCV genomes by Schultz, Anne-Kathrin, Zhang, Ming, Leitner, Thomas, Kuiken, Carla, Korber, Bette, Morgenstern, Burkhard, Stanke, Mario

“…Jumping alignments have recently been proposed as a strategy to search a given multiple sequence alignment A against a database. Instead of comparing a…”
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Whole Genome Pyrosequencing of Rare Hepatitis C Virus Genotypes Enhances Subtype Classification and Identification of Naturally Occurring Drug Resistance Variants by Newman, Ruchi M., Kuntzen, Thomas, Weiner, Brian, Berical, Andrew, Charlebois, Patrick, Kuiken, Carla, Murphy, Donald G., Simmonds, Peter, Bennett, Phil, Lennon, Niall J., Birren, Bruce W., Zody, Michael C., Allen, Todd M., Henn, Matthew R.

“…Background. Infection with hepatitis C virus (HCV) is a burgeoning worldwide public health problem, with 170 million infected individuals and an estimated 20…”
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Ancient co-speciation of simian foamy viruses and primates by Switzer, William M, Salemi, Marco, Shanmugam, Vedapuri, Gao, Feng, Cong, Mian-er, Kuiken, Carla, Bhullar, Vinod, Beer, Brigitte E, Vallet, Dominique, Gautier-Hion, Annie, Tooze, Zena, Villinger, Francois, Holmes, Edward C, Heneine, Walid

“…Although parasite-host co-speciation is a long-held hypothesis, convincing evidence for long-term co-speciation remains elusive, largely because of small…”
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Designing and testing broadly-protective filoviral vaccines optimized for cytotoxic T-lymphocyte epitope coverage by Fenimore, Paul W, Muhammad, Majidat A, Fischer, William M, Foley, Brian T, Bakken, Russell R, Thurmond, James R, Yusim, Karina, Yoon, Hyejin, Parker, Michael, Hart, Mary Kate, Dye, John M, Korber, Bette, Kuiken, Carla

“…We report the rational design and in vivo testing of mosaic proteins for a polyvalent pan-filoviral vaccine using a computational strategy designed for the…”
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Towards Viral Genome Annotation Standards, Report from the 2010 NCBI Annotation Workshop by Brister, James Rodney, Bao, Yiming, Kuiken, Carla, Lefkowitz, Elliot J, Le Mercier, Philippe, Leplae, Raphael, Madupu, Ramana, Scheuermann, Richard H, Schobel, Seth, Seto, Donald, Shrivastava, Susmita, Sterk, Peter, Zeng, Qiandong, Klimke, William, Tatusova, Tatiana

“…Improvements in DNA sequencing technologies portend a new era in virology and could possibly lead to a giant leap in our understanding of viral evolution and…”
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Hepatitis C virus complete genome sequences identified from China representing subtypes 6k and 6n and a novel, as yet unassigned subtype within genotype 6 by Lu, Ling, Nakano, Tatsunori, Li, Chunhua, Fu, Yongshui, Miller, Steve, Kuiken, Carla, Robertson, Betty H, Hagedorn, Curt H

“…1 Division of Gastroenterology/Hepatology, Department of Medicine, University of Kansas Medical Center, 4035 Delp, MS 1023, Kansas City, KS 66160, USA 2…”
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Comparative analysis of hepatitis C virus phylogenies from coding and non-coding regions: the 5' untranslated region (UTR) fails to classify subtypes by Hraber, Peter T, Fischer, William, Bruno, William J, Leitner, Thomas, Kuiken, Carla

“…The duration of treatment for HCV infection is partly indicated by the genotype of the virus. For studies of disease transmission, vaccine design, and…”
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Hepatitis C Virus Genotype 1a NS5A Pretreatment Sequence Variation and Viral Kinetics in African American and White Patients by Layden-Almer, Jennifer E., Kuiken, Carla, Ribeiro, Ruy M., Kunstman, Kevin J., Perelson, Alan S., Layden, Thomas J., Wolinsky, Steven M.

“…In hepatitis C virus (HCV) infection, race is a determinant of treatment response and interferon (IFN) effectiveness. Here, we investigated whether there were…”
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Expanded classification of hepatitis C virus into 7 genotypes and 67 subtypes: Updated criteria and genotype assignment web resource by Smith, Donald B., Bukh, Jens, Kuiken, Carla, Muerhoff, A. Scott, Rice, Charles M., Stapleton, Jack T., Simmonds, Peter

“…The 2005 consensus proposal for the classification of hepatitis C virus (HCV) presented an agreed and uniform nomenclature for HCV variants and the criteria…”
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Evolution of Syncytium-Inducing and Non-Syncytium-Inducing Biological Virus Clones in Relation to Replication Kinetics during the Course of Human Immunodeficiency Virus Type 1 Infection by van 't Wout, A B, Blaak, H, Ran, L J, Brouwer, M, Kuiken, C, Schuitemaker, H

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Evidence for human leukocyte antigen heterozygote advantage against hepatitis C virus infection by Hraber, Peter, Kuiken, Carla, Yusim, Karina

“…Outcomes of infection with hepatitis C virus (HCV) vary widely, from asymptomatic clearance to chronic infection, leading to complications that include…”
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Recent evolutionary history of human immunodeficiency virus type 1 subtype B--response by Smith, Una R, Kuiken, Carla, Korber, Bette T

“…The year of origin estimated by Lukashov and Goudsmit for HIV-1 subtype B is 1976 (95% CI, 1974-1977); this is significantly different from our prior estimate,…”
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Characterization of Novel Simian Immunodeficiency Viruses from Red-Capped Mangabeys from Nigeria (SIVrcmNG409 and -NG411) by Beer, B E, Foley, B T, Kuiken, C L, Tooze, Z, Goeken, R M, Brown, C R, Hu, J, St Claire, M, Korber, B T, Hirsch, V M

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Structure and Function of CC-Chemokine Receptor 5 Homologues Derived from Representative Primate Species and Subspecies of the Taxonomic Suborders Prosimii and Anthropoidea by Kunstman, Kevin J, Puffer, Bridget, Korber, Bette T, Kuiken, Carla, Smith, Una R, Kunstman, Jennifer, Stanton, Jennifer, Agy, Michael, Shibata, Riri, Yoder, Anne D, Pillai, Satish, Doms, Robert W, Marx, Preston, Wolinsky, Steven M

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Increasing Antigenic and Genetic Diversity of the V3 Variable Domain of the Human Immunodeficiency Virus Envelope Protein in the Course of the AIDS Epidemic by KUIKEN, C. L, ZWART, G, BAAN, E, COUTINHO, R. A, VAN DEN HOEK, J. A. R, GOUDSMIT, J

“…Population-wide variation in genomic RNA of human immunodeficiency virus type 1 (HIV-1) encompassing the V3 loop of the envelope protein was studied in serum…”
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Analysis of the Temporal Relationship between Human Immunodeficiency Virus Type 1 Quasispecies in Sequential Blood Samples and Various Organs Obtained at Autopsy by van't Wout, A B, Ran, L J, Kuiken, C L, Kootstra, N A, Pals, S T, Schuitemaker, H

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Polyvalent vaccines for optimal coverage of potential T-cell epitopes in global HIV-1 variants by Korber, Bette T, Fischer, Will, Perkins, Simon, Theiler, James, Bhattacharya, Tanmoy, Yusim, Karina, Funkhouser, Robert, Kuiken, Carla, Haynes, Barton, Letvin, Norman L, Walker, Bruce D, Hahn, Beatrice H

“…HIV-1/AIDS vaccines must address the extreme diversity of HIV-1. We have designed new polyvalent vaccine antigens comprised of sets of 'mosaic' proteins,…”
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Antiviral drug‐resistant HBV: Standardization of nomenclature and assays and recommendations for management by Lok, Anna S., Zoulim, Fabien, Locarnini, Stephen, Bartholomeusz, Angeline, Ghany, Marc G., Pawlotsky, Jean‐Michel, Liaw, Yun‐Fan, Mizokami, Masashi, Kuiken, Carla

“…Substantial advances have been made in the treatment of chronic hepatitis B in the past decade. Approved treatments for chronic hepatitis B include 2…”
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