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1

Towards Viral Genome Annotation Standards, Report from the 2010 NCBI Annotation Workshop

Brister, James Rodney, Bao, Yiming, Kuiken, Carla, Lefkowitz, Elliot J., Mercier, Philippe Le, Leplae, Raphael, Madupu, Ramana, Scheuermann, Richard H., Schobel, Seth, Seto, Donald, Shrivastava, Susmi

Journal:

Year:

2010

Language:

english

File:

PDF, 81 KB

english, 2010

2

How to Name and Classify Your Phage: An Informal Guide

Adriaenssens, Evelien, Brister, J. Rodney

Journal:

Year:

2017

Language:

english

File:

PDF, 363 KB

english, 2017

3

Minimum Information about an Uncultivated Virus Genome (MIUViG)

Roux, Simon, Adriaenssens, Evelien M, Dutilh, Bas E, Koonin, Eugene V, Kropinski, Andrew M, Krupovic, Mart, Kuhn, Jens H, Lavigne, Rob, Brister, J Rodney, Varsani, Arvind, Amid, Clara, Aziz, Ramy K, B

Journal:

Nature Biotechnology

Year:

2018

Language:

english

File:

PDF, 1.15 MB

english, 2018

4

Strengthening the Interaction of the Virology Community with the International Committee on Taxonomy of Viruses (ICTV) by Linking Virus Names and Their Abbreviations to Virus Species

Calisher, Charles H, Briese, Thomas, Rodney Brister, J, Charrel, Rémi N, Dürrwald, Ralf, Ebihara, Hideki, Fulhorst, Charles F, Fú Gāo, George, Groschup, Martin H, Haddow, Andrew D, Hyndman, Timothy H,

Journal:

Systematic Biology

Year:

2018

Language:

english

File:

PDF, 392 KB

english, 2018

5

Adeno-Associated Virus Rep78/Rep68 Promotes Localized Melting of the Rep Binding Element in the Absence of Adenosine Triphosphate

Hua Jane Lou, J. Rodney Brister, Jianwei Jeffery Li, Weijun Chen, Nicholas Muzyczka, Weihong Tan

Journal:

Year:

2004

Language:

english

File:

PDF, 178 KB

english, 2004

6

Uniformity of rotavirus strain nomenclature proposed by the Rotavirus Classification Working Group (RCWG)

Jelle Matthijnssens, Max Ciarlet, Sarah M. McDonald, Houssam Attoui, Krisztián Bányai, J. Rodney Brister, Javier Buesa, Mathew D. Esona, Mary K. Estes, Jon R. Gentsch, Miren Iturriza-Gómara, Reimar Jo

Journal:

Archives of Virology

Year:

2011

Language:

english

File:

PDF, 3.63 MB

english, 2011

7

Multiple Origins of Replication Contribute to a Discontinuous Pattern of DNA Synthesis Across the T4 Genome During Infection

J. Rodney Brister, Nancy G. Nossal

Journal:

Journal of Molecular Biology

Year:

2007

Language:

english

File:

PDF, 1.30 MB

english, 2007

8

Origin Activation Requires both Replicative and Accessory Helicases during T4 Infection

J. Rodney Brister

Journal:

Journal of Molecular Biology

Year:

2008

Language:

english

File:

PDF, 983 KB

english, 2008

9

Microbial virus genome annotation—Mustering the troops to fight the sequence onslaught

Rodney Brister, J., Le Mercier, Phillippe, Hu, James C.

Journal:

Year:

2012

Language:

english

File:

PDF, 431 KB

english, 2012

10

Characterization of the adenoassociated virus Rep protein complex formed on the viral origin of DNA replication

Zengi Li, J.Rodney Brister, Dong-Soo Im, Nicholas Muzyczka

Journal:

Year:

2003

Language:

english

File:

PDF, 583 KB

english, 2003

11

Virus nomenclature below the species level: a standardized nomenclature for natural variants of viruses assigned to the familyFiloviridae

Jens H. Kuhn, Yiming Bao, Sina Bavari, Stephan Becker, Steven Bradfute, J. Rodney Brister, Alexander A. Bukreyev, Kartik Chandran, Robert A. Davey, Olga Dolnik, John M. Dye, Sven Enterlein, Lisa E. He

Journal:

Archives of Virology

Year:

2013

Language:

english

File:

PDF, 255 KB

english, 2013

12

Initiation of bacteriophage T4 DNA replication and replication fork dynamics: a review in the Virology Journal series on bacteriophage T4 and its relatives

Kenneth N Kreuzer, J Rodney Brister

Journal:

Virology Journal

Year:

2010

Language:

english

File:

PDF, 956 KB

english, 2010

13

Virus nomenclature below the species level: a standardized nomenclature for filovirus strains and variants rescued from cDNA

Kuhn, Jens H., Bào, Yīmíng, Bavari, Sina, Becker, Stephan, Bradfute, Steven, Brauburger, Kristina, Rodney Brister, J., Bukreyev, Alexander A., Caì, Yíngyún, Chandran, Kartik, Davey, Robert A., Dolnik,

Journal:

Archives of Virology

Year:

2014

Language:

english

File:

PDF, 217 KB

english, 2014

14

Solving the Problem: Genome Annotation Standards before the Data Deluge

Klimke, William, O'Donovan, Claire, White, Owen, Brister, J. Rodney, Clark, Karen, Fedorov, Boris, Mizrachi, Ilene, Pruitt, Kim D., Tatusova, Tatiana

Journal:

Standards in Genomic Sciences

Year:

2011

Language:

english

File:

PDF, 1009 KB

english, 2011

15

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

O'Leary, Nuala A., Wright, Mathew W., Brister, J. Rodney, Ciufo, Stacy, Haddad, Diana, McVeigh, Rich, Rajput, Bhanu, Robbertse, Barbara, Smith-White, Brian, Ako-Adjei, Danso, Astashyn, Alexander, Badr

Journal:

Nucleic Acids Research

Year:

2016

Language:

english

File:

PDF, 180 KB

english, 2016

16

Consensus statement: Virus taxonomy in the age of metagenomics

Simmonds, Peter, Adams, Mike J., Benkő, Mária, Breitbart, Mya, Brister, J. Rodney, Carstens, Eric B., Davison, Andrew J., Delwart, Eric, Gorbalenya, Alexander E., Harrach, Balázs, Hull, Roger, King, A

Journal:

Nature Reviews Microbiology

Year:

2017

Language:

english

File:

PDF, 653 KB

english, 2017

17

Database resources of the National Center for Biotechnology Information

Agarwala, Richa, Barrett, Tanya, Beck, Jeff, Benson, Dennis A, Bollin, Colleen, Bolton, Evan, Bourexis, Devon, Brister, J Rodney, Bryant, Stephen H, Canese, Kathi, Cavanaugh, Mark, Charowhas, Chad, Cl

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 558 KB

english, 2018

18

Database resources of the National Center for Biotechnology Information

Sayers, Eric W, Agarwala, Richa, Bolton, Evan E, Brister, J Rodney, Canese, Kathi, Clark, Karen, Connor, Ryan, Fiorini, Nicolas, Funk, Kathryn, Hefferon, Timothy, Holmes, J Bradley, Kim, Sunghwan, Kim

Journal:

Nucleic Acids Research

Year:

2018

Language:

english

File:

PDF, 511 KB

english, 2018

19

Virus Variation Resource – improved response to emergent viral outbreaks

Hatcher, Eneida L., Zhdanov, Sergey A., Bao, Yiming, Blinkova, Olga, Nawrocki, Eric P., Ostapchuck, Yuri, Schäffer, Alejandro A., Brister, J. Rodney

Journal:

Nucleic Acids Research

Year:

2017

Language:

english

File:

PDF, 2.31 MB

english, 2017

20

NCBI’s Virus Discovery Hackathon: Engaging Research Communities to Identify Cloud Infrastructure Requirements

Connor, Ryan, Brister, Rodney, Buchmann, Jan P., Deboutte, Ward, Edwards, Rob, Martí-Carreras, Joan, Tisza, Mike, Zalunin, Vadim, Andrade-Martínez, Juan, Cantu, Adrian, D’Amour, Michael, Efremov, Alex

Journal:

Year:

2019

Language:

english

File:

PDF, 3.50 MB

english, 2019

21

Database resources of the National Center for Biotechnology Information

Sayers, Eric W, Beck, Jeff, Brister, J Rodney, Bolton, Evan E, Canese, Kathi, Comeau, Donald C, Funk, Kathryn, Ketter, Anne, Kim, Sunghwan, Kimchi, Avi, Kitts, Paul A, Kuznetsov, Anatoliy, Lathrop, St

Journal:

Nucleic Acids Research

Year:

2019

Language:

english

File:

PDF, 1.34 MB

english, 2019

22

VADR: validation and annotation of virus sequence submissions to GenBank

SchÃ¤ffer, Alejandro A., Hatcher, Eneida L., Yankie, Linda, Shonkwiler, Lara, Brister, J. Rodney, Karsch-Mizrachi, Ilene, Nawrocki, Eric P.

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 770 KB

2020