Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR

Robert D Olson; Rida Assaf; Thomas Brettin; Neal Conrad; Clark Cucinell; James j Davis; Donald m Dempsey; Allan Dickerman; Emily m Dietrich; Ronald w Kenyon; Mehmet Kuscuoglu; Elliot j Lefkowitz; Jian Lu; Dustin Machi; Catherine Macken; Chunhong Mao; Anna Niewiadomska; Marcus Nguyen; Gary J Olsen; Jamie c Overbeek; Bruce Parrello; Victoria Parrello; Jacob s Porter; Gordon d Pusch; Maulik Shukla; Indresh Singh; Lucy Stewart; Gene Tan; Chris Thomas; Margo Vanoeffelen; Veronika Vonstein; Zachary s Wallace; Andrew s Warren; Alice r Wattam; Fangfang Xia; Hyunseung Yoo; Yun Zhang; Christian m Zmasek; Richard h Scheuermann; Rick l Stevens

doi:10.1093/nar/gkac1003

Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR

Robert D Olson, Rida Assaf, Thomas Brettin, Neal Conrad, Clark Cucinell, James j Davis, Donald m Dempsey, Allan Dickerman, Emily m Dietrich, Ronald w Kenyon, Mehmet Kuscuoglu, Elliot j Lefkowitz, Jian Lu, Dustin Machi, Catherine Macken, Chunhong Mao, Anna Niewiadomska, Marcus Nguyen, Gary J Olsen, Jamie c OverbeekBruce Parrello, Victoria Parrello, Jacob s Porter, Gordon d Pusch, Maulik Shukla, Indresh Singh, Lucy Stewart, Gene Tan, Chris Thomas, Margo Vanoeffelen, Veronika Vonstein, Zachary s Wallace, Andrew s Warren, Alice r Wattam, Fangfang Xia, Hyunseung Yoo, Yun Zhang, Christian m Zmasek, Richard h Scheuermann, Rick l Stevens

Research output: Contribution to journal › Article › peer-review

Abstract

The National Institute of Allergy and Infectious Diseases (NIAID) established the Bioinformatics Resource Center (BRC) program to assist researchers with analyzing the growing body of genome sequence and other omics-related data. In this report, we describe the merger of the PAThosystems Resource Integration Center (PATRIC), the Influenza Research Database (IRD) and the Virus Pathogen Database and Analysis Resource (ViPR) BRCs to form the Bacterial and Viral Bioinformatics Resource Center (BV-BRC) https://www.bv-brc.org/. The combined BV-BRC leverages the functionality of the bacterial and viral resources to provide a unified data model, enhanced web-based visualization and analysis tools, bioinformatics services, and a powerful suite of command line tools that benefit the bacterial and viral research communities.

Original language	English (US)
Article number	gkac1003
Pages (from-to)	D678-D689
Journal	Nucleic acids research
Volume	51
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkac1003
State	Published - Jan 6 2023

ASJC Scopus subject areas

Genetics

Online availability

10.1093/nar/gkac1003

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Olson, R. D., Assaf, R., Brettin, T., Conrad, N., Cucinell, C., Davis, J., Dempsey, D., Dickerman, A., Dietrich, E., Kenyon, R., Kuscuoglu, M., Lefkowitz, E., Lu, J., Machi, D., Macken, C., Mao, C., Niewiadomska, A., Nguyen, M., Olsen, GJ., ... Stevens, R. (2023). Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic acids research, 51(D1), D678-D689. Article gkac1003. https://doi.org/10.1093/nar/gkac1003

Olson, RD, Assaf, R, Brettin, T, Conrad, N, Cucinell, C, Davis, J, Dempsey, D, Dickerman, A, Dietrich, E, Kenyon, R, Kuscuoglu, M, Lefkowitz, E, Lu, J, Machi, D, Macken, C, Mao, C, Niewiadomska, A, Nguyen, M, Olsen, GJ, Overbeek, J, Parrello, B, Parrello, V, Porter, J, Pusch, G, Shukla, M, Singh, I, Stewart, L, Tan, G, Thomas, C, Vanoeffelen, M, Vonstein, V, Wallace, Z, Warren, A, Wattam, A, Xia, F, Yoo, H, Zhang, Y, Zmasek, C, Scheuermann, R & Stevens, R 2023, 'Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR', Nucleic acids research, vol. 51, no. D1, gkac1003, pp. D678-D689. https://doi.org/10.1093/nar/gkac1003

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abstract = "The National Institute of Allergy and Infectious Diseases (NIAID) established the Bioinformatics Resource Center (BRC) program to assist researchers with analyzing the growing body of genome sequence and other omics-related data. In this report, we describe the merger of the PAThosystems Resource Integration Center (PATRIC), the Influenza Research Database (IRD) and the Virus Pathogen Database and Analysis Resource (ViPR) BRCs to form the Bacterial and Viral Bioinformatics Resource Center (BV-BRC) https://www.bv-brc.org/. The combined BV-BRC leverages the functionality of the bacterial and viral resources to provide a unified data model, enhanced web-based visualization and analysis tools, bioinformatics services, and a powerful suite of command line tools that benefit the bacterial and viral research communities.",

author = "Olson, {Robert D} and Rida Assaf and Thomas Brettin and Neal Conrad and Clark Cucinell and James j Davis and Donald m Dempsey and Allan Dickerman and Emily m Dietrich and Ronald w Kenyon and Mehmet Kuscuoglu and Elliot j Lefkowitz and Jian Lu and Dustin Machi and Catherine Macken and Chunhong Mao and Anna Niewiadomska and Marcus Nguyen and Gary J Olsen and Jamie c Overbeek and Bruce Parrello and Victoria Parrello and Jacob s Porter and Gordon d Pusch and Maulik Shukla and Indresh Singh and Lucy Stewart and Gene Tan and Chris Thomas and Margo Vanoeffelen and Veronika Vonstein and Zachary s Wallace and Andrew s Warren and Alice r Wattam and Fangfang Xia and Hyunseung Yoo and Yun Zhang and Christian m Zmasek and Richard h Scheuermann and Rick l Stevens",

note = "Federal funds from the National Institute of Allergy and Infectious Diseases, National Institutes of Health, Department of Health and Human Services [75N93019C00076 to R.L.S. and R.H.S., U24AI162625 to E.J.L.]. Funding for open access charge: UC indirects.",

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AU - Olson, Robert D

AU - Assaf, Rida

AU - Brettin, Thomas

AU - Conrad, Neal

AU - Cucinell, Clark

AU - Davis, James j

AU - Dempsey, Donald m

AU - Dickerman, Allan

AU - Dietrich, Emily m

AU - Kenyon, Ronald w

AU - Kuscuoglu, Mehmet

AU - Lefkowitz, Elliot j

AU - Lu, Jian

AU - Machi, Dustin

AU - Macken, Catherine

AU - Mao, Chunhong

AU - Niewiadomska, Anna

AU - Nguyen, Marcus

AU - Olsen, Gary J

AU - Overbeek, Jamie c

AU - Parrello, Bruce

AU - Parrello, Victoria

AU - Porter, Jacob s

AU - Pusch, Gordon d

AU - Shukla, Maulik

AU - Singh, Indresh

AU - Stewart, Lucy

AU - Tan, Gene

AU - Thomas, Chris

AU - Vanoeffelen, Margo

AU - Vonstein, Veronika

AU - Wallace, Zachary s

AU - Warren, Andrew s

AU - Wattam, Alice r

AU - Xia, Fangfang

AU - Yoo, Hyunseung

AU - Zhang, Yun

AU - Zmasek, Christian m

AU - Scheuermann, Richard h

AU - Stevens, Rick l

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Y1 - 2023/1/6

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