Principal Investigator/Program Director (Last, First, Middle):

Hide, Winston, Alexander

 

BIOGRAPHICAL SKETCH

Provide the following information for the key personnel and other significant contributors in the order listed on Form Page 2.
Follow this format for each person.  DO NOT EXCEED FOUR PAGES.

 

NAME

Winston Hide

POSITION TITLE

Professor of Genomics and Bioinformatics

 

 

EDUCATION/TRAINING  (Begin with baccalaureate or other initial professional education, such as nursing, and include postdoctoral training.)

INSTITUTION AND LOCATION

DEGREE

(if applicable)

YEAR(s)

FIELD OF STUDY

University of Wales, Cardiff

 

B.Sc (Hons)

 

1981

 

Zoology

 

Temple University, Philadelphia

 

M.A.

 

1985

 

Molecular Genetics

 

Temple University, Philadelphia

 

Ph.D

 

1991

 

Molecular Genetics

 

Baylor College of Medicine, Houston

 

Post Doctoral

 

1991

 

Molecular Evolution

 

University of Texas

Post Doctoral

1991

Molecular Evolution

Smithsonian Natural History Museum, DC

 

Post Doctoral

 

1992

Molecular Evolution

 

University of Houston, Houston

 

Post Doctoral

 

1994

Algorithm Development

 

Baylor College of Medicine, Houston

Post Doctoral

 

1993

Genomics

 

A. Positions and Honours

 

April 1994 -May 1995       MasPar Computer Corporation Director; Genome Science Market Development. Direction, growth and development of high performance parallel computing and bioinformatics.    

May 1995-Dec 1995          RW Johnson PRI (Johnson and Johnson Pharmaceuticals). Consultant; design and implementation of large scale systems for drug discovery and genome analysis.

January 1996-present          South African National Bioinformatics Institute.  Director and Professor of Genomics and Bioinformatics. Establishment of capacity in Africa for bioinformatics research and information dissemination related to disease.

December 2003 – present    Ludwig Institute for Cancer Research, Kerr International Fellow.

June 2003 – present           South African AIDS Vaccine Initiative. Director of Bioinformatics.

June 2003 – present           Centre for the AIDS programme of Research in South Africa. Director of Bioinformatics and Executive board member.

November 2004 – present   Japanese Genome Network. Project leader, gene expression technologies.

 

HONORS

December 1991               Discover Magazine: Top fifty scientific discoveries of 1991.

February 1998                 National  Presidents Award, Foundation for Research Development, South Africa.

December 1999               Member of University of Western Cape Senate.

January 2001                  Appointed Professor of Genomics and Bioinformatics, University Western Cape.

 

January 1996-present                    Established Africas first Bioinformatics Institute: South African National Bioinformatics Institute. University of Western Cape.  Director. Establishment of Africa's first institute devoted to genomics and bioinformatics. Development of research, education, training, database and software development and biotechnology locally and internationally.

January 1996- present                   Established Africas first European Molecular Biology Network Node. SANBI. Director of South African Node. Responsible for the training, development and deployment of genome bioinformatics to researchers in Southern  Africa.

November 2001-present                Established Africas first World Health Organisation African Regional Training Centre for Bioinformatics. Director. Responsible for the development of bioinformatics capacity development in tropical disease genomics and bioinformatics in Africa.

August 2001 – present                  Won the first committed MRC Unit to health bioinformatics in Africa

August 2002 – present                  Established Africas first National Bioinformatics Network.  Lead founder and developer of the  National Bioinformatics Network of centres in South Africa.

June 2002 – present                     Established Africas first large scale bioinformatics for HIV programme:Centre for the AIDS programme of research in South Africa. Director of Bioinformatics and executive board member

January 2002 – January 2005         First African to be elected to the board of directors of the International Society for Computational Biology   

January 2003 – present                 Established Africas first accredited graduate programme in Bioinformatics.

September 2003 – present             Co-founder of Africas first National Centre for High Performance Computing : Steering committee executive member.

February 2004                             Co-founder of Africas first Society for Computational Biology and Bioinformatics

 

 

 

INTERNATIONAL COMMITTEES

International Society for Computational Biology  Member of board of directors and Education committee Chair. 2001-2005.

World Health Organisation/Tropical Disease Research  Advisor on bioinformatics and applied genomics 2003.

World Health Organisation/Tropical Disease Research Executive committee member for Glossina genome sequencing project 2004-2005.

 

B. Recent Selected Peer reviewed publications Selected from a total of 47 publications.

 

1.     The FANTOM Consortium. The Transcriptional Landscape of the Mammalian Genome. Science. September 2, 2005; 309(5740):1559-63.
 
2.     Hide W.A., Isokpehi R.D. Positive selection scanning of parasite DNA sequences. Methods in Molecular Biology. in: Parasite Genomics Protocols. Sara Melville Ed. Humana Press (Totowa, New Jersey) 2004;270:127-50.
 
3.     Serap Aksoy, Matt Berriman, Neil Hall, Masahira Hattori, Winston Hide, Michael J. Lehane. A case for Glossina genome project. Trends in Parasitology, Volume 21, Issue 3 , March 2005, Pages 107-111  2005.
 
4.     Davila AM, Majiwa PA, Grisard EC, Aksoy S, Hide W. Response to Hertz-Fowler and Berriman: Continuing tsetse and Trypanosoma genome sequencing projects. Trends in Parasitology. 2004 Jul;20(7):309-10.
 

5.      Abdool Karim; Miriam Adhikari; Hoosen Coovadia; Anna Coutsoudis; Stanley Thula, Winston Hide, Carolyn Williamson. Vertical HIV transmission in South Africa: translating research into policy and practice. Lancet. 2002 Mar 23;359(9311):992-3.

6.     Wagied Davids, Junaid Gamieldien, David Liberles and Winston Hide. Positive selection scanning reveals decoupling of enzymatic activities of carbamoyl phosphate synthetase in H. pylori. Journal of  Molecular Evolution. 2002 Apr;54(4):458-64.

7.     Vincent VanBuren, Yulan Piao, Dawood B. Dudekula, Yong Qian, Mark G. Carter, Patrick R. Martin, Carole A. Stagg, Uwem C. Bassey, Kazuhiro Aiba, Toshio Hamatani, George J. Kargul, Amber G. Luo, Janet Kelso, Winston Hide, and Minoru S.H. Ko. . Assembly, Verification, and Initial Annotation of the NIA Mouse 7.4K cDNA Clone Set. Genome Research. 2002 Dec;12(12):1999-2003.

8.     Kelso J, Visagie J, Theiler G, Christoffels A, Bardien S, Smedley D, Otgaar D, Greyling G, Jongeneel CV, McCarthy MI, Hide T, Hide W. eVOC: A Controlled Vocabulary for Unifying Gene Expression Data. Genome Research. 2003 Jun;13(6):1222-30.

9.     Mark I McCarthy, Damian Smedley and Winston Hide. New methods for finding disease-susceptibility genes: impact and potential. Genome Biology. 2003;4(10):119. Epub 2003 Sep 19.

10.   Helena Brentani, Otvia L. Caballero, Anamaria A. Camargo, Aline M. da Silva, Wilson Arajo da Silva Junior, Emmanuel Dias Neto, Marco Grivet, Arthur Gruber, Pedro Edson Moreira Guimaraes, Winston Hide, Christian Iseli, C. Victor Jongeneel, Janet Kelso, Maria Aparecida Nagai, Elida Paula Benquique Ojopi, Elisson C. Osorio, Eduardo M.R. Reis , Gregory J. Riggins, Andrew John George Simpson, Sandro de Souza, Brian J. Stevenson, Robert L. Strausberg, Eloiza H. Tajara, Sergio Verjovski-Almeida. Marcio Luis Acencio, Mrio Henrique Bengtson, Fabiana F. Bettoni, Walter F. Bodmer, Marcelo R.S. Briones, Luiz Paulo Camargo, Webster Cavenee, Janete M. Cerutti, Lus Eduardo Coelho Andrade, Paulo Csar Costa dos Santos, Israel Tojal da Silva, Marcos Roberto H. Estcio, Frank B. Furnari, Milton Faria Junior, Pedro A.F. Galante, Gustavo S. Guimaraes, Adriano Jesus Holanda, Edna Teruko Kimura, Maarten R Leerkes, Xin Lu, Rui M. B. Maciel, Elizabeth A. L. Martins, Katlin Brauer Massirer, Analy S.A. Melo, Carlos Alberto Mestriner, Elisabete Cristina Miracca, Leandro Lorenco Miranda, Francisco G. Nobrega, Paulo S  Oliveira, Apu C.M. Paquola, Jos Rodrigo C. Pandolfi, Maria Ins de Moura Campos Pardini, Fabio Passetti, John Quackenbush, Beatriz Schnabel, Mari Cleide Sogayar, Jorge E Souza, Sandro R. Valentini, Andre C Zaiats. Elisabete Jorge Amaral, Liliane A. T. Arnaldi, Amlia Goes de Arajo, Simone Aparecida de Bessa, David C. Bicknell, Maria Eugenia Ribeiro de Camaro, Dirce Maria Carraro, Helaine Carrer, Alex F. Carvalho, Christian Colin, Fernando Costa, Maria Cristina Ramos Costa, Cyntia Curcio, Ismael Dale Cotrim Guerreiro da Silva, Neusa Pereira da Silva, Mrcia Dellamano, Hamza El-Dorry, Enilza Maria Espreafico, Ari Jos Scattone Ferreira, Cristiane Ayres Ferreira, Maria Angela H.Z. Fortes, Angelita Habr Gama, Daniel Giannella-Neto, Maria Lcia C.C. Giannella, Ricardo R. Giorgi, Gustavo Henrique Goldman, Maria Helena S. Goldman, Christine Hackel, Paulo Lee Ho, Elza Myiuki Kimura, Luiz Paulo Kowalski, Jose E Krieger, Luciana C. C. Leite, Ademar Lopes, Ana Mercedes S.C. Luna, Alan Mackay, Suely Kazue Nagahashi Mari, Adriana Aparecida Marques, Waleska K. Martins, Andr Montagnini, Mario Mouro Neto, Ana Lucia T. O. Nascimento, A. Munro Neville, Marina P. Nobrega, Mike J. OHare, Audrey Yumi Otsuka, Anna Izabel Ruas de Melo, Maria Luisa Pa-Larson, Gonalo Guimares Pereira, Neusa Pereira da Silva, Joo Bosco Pesquero, Juliana Gilbert Pessoa, Paula Rahal, Claudia Aparecida Rainho,  Vanderlei Rodrigues, Silvia Regina Rogatto, Camila Malta Romano, Janana Gusmo Romeiro, Benedito Mauro Rossi, Monica Rusticci, Renata Guerra de S, Simone Cristina Sant'Anna, Mriam L. Sarmazo, Teresa Cristina de Lima e Silva, Fernando Augusto Soares, Maria de Ftima Sonati, Josane de Freitas Sousa , Diana Queiroz, Valria Valente, Andr Luiz Vettore,  Fabiola Elizabeth Villanova, Marco Antonio Zago, Heloisa Zalcberg. The Generation and Utilization of a Cancer Oriented Representation of the Human Transcriptome, Using Expressed Sequence Tags. Proceedings of the  National Academy of  Sciences U S A. 2003 Nov 11;100(23):13418-23.

11.   Winston Hide, Damian Smedley, Mark McCarthy and Janet Kelso. Application of eVOC: controlled vocabularies for unifying gene expression data . BIOLOGIES: issue N11-12. Comptus Rendus Biology. 2003 Oct-Nov;326(10-11):1089-96.

12.   (Isokpehi, RD, Hide, W.A. Integrative Analysis of Intraerythrocytic differentially expressed transcripts yields novel insights into the biology of Plasmodium falciparum. Malaria Journal, 2003. Nov 14;2(1):38.

13.   Yun Ping Lim, Jan-Olov Hoog, Phyllis Gardner, Shoba Ranganathan, Siv Andersson, Subramanian Subbiah, Tin Wee Tan, Winston Hide and Anthony S. Weiss. The S-star Trial Bioinformatics Course. An online Learning Success. Biochemistry and Molecular Biology Education 2003. 31(1): 20-23.

14.   Alexei A. Sharov, Yulan Piao, Ryo Matoba, Dawood B. Dudekula, Yong Qian, Vincent VanBuren, Geppino Falco, Patrick R. Martin, Carole A. Stagg, Uwem C. Bassey, Yuxia Wang, Mark G. Carter, Toshio Hamatani, Kazuhiro Aiba, Hidenori Akutsu, Lioudmila Sharova, Tetsuya S. Tanaka, Wendy L. Kimber, Toshiyuki Yoshikawa, Saied A. Jaradat, Serafino Pantano, Ramaiah Nagaraja, Kenneth R. Boheler, Dennis Taub, Richard J. Hodes,, Dan L. Longo, David Schlessinger, Jonathan Keller, Emily Klotz, Garnett Kelsoe, Akihiro Umezawa, Angelo L. Vescovi, Janet Rossant, Tilo Kunath, Brigid L.M. Hogan Anna Curci, Michele DUrso, Janet Kelso, Winston Hide, and Minoru S.H. Ko. Transcriptome analysis of the early mouse embryo. Public Library of Science Biology. 2003 Dec; 1(3): e74.

15.   Swart EC, Hide WA, Seoighe, C. FRAGS: estimation of coding sequence substitution rates from fragmentary data. Estienne BMC Bioinformatics 2004, Jan 29;5(1):8.
 
16.   Imanishi T, Itoh T, Suzuki Y, O'Donovan C, Fukuchi S, Koyanagi KO, Barrero RA, Tamura T, Yamaguchi-Kabata Y, Tanino M, Yura K, Miyazaki S, Ikeo K, Homma K, Kasprzyk A, Nishikawa T, Hirakawa M, Thierry-Mieg J, Thierry-Mieg D, Ashurst J, Jia L, Nakao M, Thomas MA, Mulder N, Karavidopoulou Y, Jin L, Kim S, Yasuda T, Lenhard B, Eveno E, Suzuki Y, Yamasaki C, Takeda J, Gough C, Hilton P, Fujii Y, Sakai H, Tanaka S, Amid C, Bellgard M, Bonaldo Mde F, Bono H, Bromberg SK, Brookes AJ, Bruford E, Carninci P, Chelala C, Couillault C, de Souza SJ, Debily MA, Devignes MD, Dubchak I, Endo T, Estreicher A, Eyras E, Fukami-Kobayashi K, Gopinath GR, Graudens E, Hahn Y, Han M, Han ZG, Hanada K, Hanaoka H, Harada E, Hashimoto K, Hinz U, Hirai M, Hishiki T, Hopkinson I, Imbeaud S, Inoko H, Kanapin A, Kaneko Y, Kasukawa T, Kelso J, Kersey P, Kikuno R, Kimura K, Korn B, Kuryshev V, Makalowska I, Makino T, Mano S, Mariage-Samson R, Mashima J, Matsuda H, Mewes HW, Minoshima S, Nagai K, Nagasaki H, Nagata N, Nigam R, Ogasawara O, Ohara O, Ohtsubo M, Okada N, Okido T, Oota S, Ota M, Ota T, Otsuki T, Piatier-Tonneau D, Poustka A, Ren SX, Saitou N, Sakai K, Sakamoto S, Sakate R, Schupp I, Servant F, Sherry S, Shiba R, Shimizu N, Shimoyama M, Simpson AJ, Soares B, Steward C, Suwa M, Suzuki M, Takahashi A, Tamiya G, Tanaka H, Taylor T, Terwilliger JD, Unneberg P, Veeramachaneni V, Watanabe S, Wilming L, Yasuda N, Yoo HS, Stodolsky M, Makalowski W, Go M, Nakai K, Takagi T, Kanehisa M, Sakaki Y, Quackenbush J, Okazaki Y, Hayashizaki Y, Hide W, Chakraborty R, Nishikawa K, Sugawara H, Tateno Y, Chen Z, Oishi M, Tonellato P, Apweiler R, Okubo K, Wagner L, Wiemann S, Strausberg RL, Isogai T, Auffray C, Nomura N, Gojobori T, Sugano S. Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones. (2004). Public Library of Science Biology. 2004 Jun;2(6):e162. Epub 2004 Apr 20.
 
17.   N. Tiffin, J. Kelso, A. Powell, H. Pan, V. Bajic, W. Hide. Integration of Text- and Data Mining Using Ontologies Successfully Selects Disease Gene Candidates. Nucleic Acids Research, 2005 33(5): 1544-1552
 
18.   Ptitsyn A, Hide W. (2005) CLU: a new algorithm for EST clustering.BMC Bioinformatics. 2005 Jul 15;6 Suppl 2:S3
 
 
19.   Alexander Mehrle, Heiko Rosenfelder, Ingo Schupp, Coral del Val, Dorit Arlt, Florian Hahne, Stephanie Bechtel, Jeremy Simpson, Oliver Hofmann, Winston Hide, Karl-Heinz Glatting1, Wolfgang Huber, Rainer Pepperkok, Annemarie Poustka and Stefan Wiemann . The LIFEdb database in 2006. Nucleic Acids Research 2006 34 (Database Issue):D415-D418; doi:10.1093/nar/gkj13
20.   Vladimir B. Bajic, Sin Lam Tan, Alan Christoffels, Christian Schonbach, Leonard Lipovich, Liang Yang, Oliver Hofmann, Adele Kruger, Winston Hide, Chikatoshi Kai, Jun Kawai, David A. Hume, Piero Carninci, Yoshihide Hayashizaki. Mice and Men: Their Promoter Properties. PLOS Genetics, April 2006. Volume 2 , Issue 4.
 
21.   Nicola Tiffin, . Euan Adie , Frances Turner , . Han G. Brunner , Marc A. van Driel , Martin Oti , . Nuria Lopez-Bigas , . Christos Ouzounis , Carolina Perez-Iratxeta , . Miguel A. Andrade-Navarro , Adebowale Adeyemo , Mary Elizabeth Patti, Winston Hide Computational disease gene identification: a concert of methods prioritises type 2 diabetes and obesity candidate genes. Nucleic Acids Research. In press
 

 

 

PUBLISHED DATABASES AND SOFTWARE

 

STACKdb Sequence Tag Alignment and Consensus Knowledgebase  www.sanbi.ac.za/Dbases.html July 1997-present.

stackPACK transcript reconstruction and analysis system  www.sanbi.ac.za/CODES July  2000 - Present

eVOC standardised gene expression term vocabulary. www.evocontology.org  November 2002-present