[go: up one dir, main page]
More Web Proxy on the site http://driver.im/
Skip to main content
Springer Nature Link
Log in

Bioinformatics Tools for HIV-1 Identification in Southern Brazilian States

  • Conference paper
Advances in Bioinformatics and Computational Biology (BSB 2005)

Part of the book series: Lecture Notes in Computer Science ((LNBI,volume 3594))

Included in the following conference series:

  • 727 Accesses

Abstract

HIV/AIDS pandemic affected 39.4 million people at the end of 2004, spreading at the rate of 15.000 new infections per day [1]. Although Brazil ranks in fourth in number of reported AIDS cases, limited information concerning the molecular diversity of HIV-1 circulating subtypes is known [3]. Southern Brazil has a particular HIV-1 epidemic, whereas subtype B dominates other regions of the country and subtype C reported cases are rare, in southern states the subtypes C and B have equivalent proportions, and the subtype C seems to be growing up since it was first described in Porto Alegre city, capital of Rio Grande do Sul (RS), at 90’s.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

Similar content being viewed by others

References

  1. AIDS Epidemic Update 2004 (2004), http://www.unaids.org/bangcock2004/report.html

  2. Brindeiro, R.M., Diaz, R.S., Sabino, E.C., Morgado, M.G., Pires, I.L., Brígido, L., Dantas, M.C., Barreira, D., Teixeira, P.R., Tanuri, A.: Brazilian Network for HIV Drug Resistance Survaillance (HIV-BResNet): a survey of chronically infected individuals. AIDS 17(7), 1063–1069 (2003)

    Article  Google Scholar 

  3. de Martínez, A.M.B., Barbosa, E.F., Ferreira, P.C.P., Cardoso, F.A., Silveira, J., Sassi, G., da Silva, C.M., Mendonça-Signorini, V., de Figueiredo Antunes, C.M.: Molecular Epidemiology of HIV-1 in Rio Grande, RS, Brazil. Revista da Sociedade Brasileira de Medicina Tropical 35(5), 471–476 (2002)

    Article  Google Scholar 

  4. Tom, A.: BioEdit: a User-Friendly Biological sequence Alignment Editor and Analysis Program for Windows 95/98/NT. Nucl. Acids. Symp. Ser. 41, 95–98 (1999)

    Google Scholar 

  5. Hasegawa, M., Kishino, H., Yano, T.: Dating of the Human-Ape Splitting by a Molecular Clock of Mitochondrial DNA. Journal of Molecular Evolution 21, 160–174 (1985)

    Article  Google Scholar 

  6. Huelsenbeck, J.P., Crandall, K.A.: Phylogeny Estimation and Hipotesis Testing Using Maximum Likelihood. Annual Review of Ecology and Systematics 28, 437–466 (1997)

    Article  Google Scholar 

  7. Los Alamos National Laboratory, New Mexico, USA. Theoretical Biology and Biophysics Group HIV Sequence database, http://hiv-med.lanl.gov

  8. Salminem, J.K.C.M., Burke, D.S., McCutchan, F.E.: Identification of Recombination Breakpoints in HIV-1 by Bootscanning. AIDS Research and Human Retroviruses 11, 1423–1425 (1995)

    Article  Google Scholar 

  9. Osmanov, S., Pattou, C., Walker, N., SchwardlSnder, B., Esparza, J.: The WHO-UNAIDS Network for HIV Isolation, and Characterization. Estimated Global Distribution and Regional Spread of HIV-1 Genetic Subtypes in the Year 2000. Journal of Acquired Immune Deficiency Syndromes 29(2), 184–190 (2002)

    Google Scholar 

  10. Page, R.D.M.: TreeView: An Aplication to Display Phylogenetic Trees on Personal Computers. Computer Applications in the Biosciences 12, 1423–1425 (1996)

    Google Scholar 

  11. Posada, D., Crandall, K.A.: MODELTEST: Testing the Model of DNA Substitution. Bioinformatics 14(9), 817–818 (1998)

    Article  Google Scholar 

  12. Soares, E.A.J.M., Santos, R.P., Pellegrini, J.A., Sprinz, E., Tanuri, A., Soares, M.A.: Epidemiologic and Molecular Characterization of Human Immunodeficiency Virus Type 1 in Southern Brazil. Journal of Acquired Immune Deficiency Syndromes 34(5), 520–526 (2003)

    Article  Google Scholar 

  13. Swofford, D.: PAUP 4.0: Phylogenetic Analysis Using Parsimony (and Other Methods). Technical report, Sunderland, MA:Sinauer Associates (1999)

    Google Scholar 

  14. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., Higgins, D.G.: The Clustal_X Windows Interface: Flexible Strategies for Multiple Sequence Alignment Aided by Quality Analysis Tools. Nucleic Acids Research 25(24), 4876–4882 (1997)

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Centro de Desenvolvimento Científico e Tecnológico, Fundação Estadual de Produção e Pesquisa em Saúde, Porto Alegre, RS, Brazil

    Ardala Breda, Cláudia Lemelle Fernandes, Sabrina Esteves de Matos Almeida, Maria Lúcia Rosa Rossetti & Elizabeth Cortez-Herrera

  2. Laboratório de Bioinformática, Modelagem e Simulação de Biossistemas, Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre, RS, Brazil

    Ardala Breda & Cláudia Lemelle Fernandes

  3. Instituto Adolfo Lutz, São Paulo, SP, Brazil

    Heitor Moreira Franco, Rosângela Rodrigues & Luís Fernando Brígido

  4. Programa Nacional de DST/AIDS, Ministério da Saúde, Brazil

    Luís Fernando Brígido

Authors
  1. Ardala Breda
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Cláudia Lemelle Fernandes
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Sabrina Esteves de Matos Almeida
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Heitor Moreira Franco
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Maria Lúcia Rosa Rossetti
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Rosângela Rodrigues
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Luís Fernando Brígido
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Elizabeth Cortez-Herrera
    View author publications

    You can also search for this author in PubMed Google Scholar

Editor information

Editors and Affiliations

  1. Department of Computer Science, Virginia Bioinformatics Institute and Virginia Polytechnic Institute and State University, Bioinformatics 1, Box 0477, 24060-0477, Blacksburg, VA, USA

    João Carlos Setubal

  2. Instituto de Quimica, Departamento de Bioquimica, Universidade de Sao Paulo, Av. Prof. Lineu Prestes 748, 05508-000, Sao Paulo, SP, Brazil

    Sergio Verjovski-Almeida

Rights and permissions

Reprints and permissions

Copyright information

© 2005 Springer-Verlag Berlin Heidelberg

About this paper

Cite this paper

Breda, A. et al. (2005). Bioinformatics Tools for HIV-1 Identification in Southern Brazilian States. In: Setubal, J.C., Verjovski-Almeida, S. (eds) Advances in Bioinformatics and Computational Biology. BSB 2005. Lecture Notes in Computer Science(), vol 3594. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11532323_31

Download citation

  • DOI: https://doi.org/10.1007/11532323_31

  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-540-28008-8

  • Online ISBN: 978-3-540-31861-3

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics

Search

Navigation