MinnaLehvaslaiho

A couple of words onHIV at SANBI : A couple of words on HIV at SANBI Minna Lehväslaiho SANBI, University of the Western Cape Workshop on the Representation of Phenotypes Stanford 1-Dec-2006


1 December 2006World AIDS day : 1 December 2006 World AIDS day


Some South African statistics : Some South African statistics 2005: 5.5 million out of 47 million population was living with HIV (12%) HIV prevalence among pregnant women: 1990: 0.8% (The first national antenatal survey) 1993: 4.3% 1996: 12.2% 1997: 17.0% 1999: 22.4% 2001: 24.8% 2003: 27.9%. 2005: 30.2%


Some South African statistics : Some South African statistics Survey in 2004: South Africans spend more time at funerals than having their hair cut, shopping or having a braai. Survey in 2004: more than twice as many people had been to a funeral in the past month than had been to a wedding.


Why? : Why? Vice president’s prevention: take a shower Health minister’s cure: Garlic, lemons and African potatoes. The most prevalent strain in Africa is the C strain which is more aggressive and more easily spreads via heterosexual contact than the B strain found in Europe and US. C strain: Africa -> South America C strain: Africa -> India -> China


What’s being done : What’s being done Organizations such the International Red Cross and Red Crescent focus on prevention, care, treatment, and fighting stigma and discrimination Government South African National Bioinformatics Institute: CAPRISA http://www.caprisa.org/ and SAAVI http://www.saavi.org.za/


MID : MID The Molecular Integration Database for HIV data Purpose: to integrate HIV biomedical information created by several laboratories into one query enabled interface The level of organization in MID is that it is a relational database with a BIoMart query interface and a glossary of terms. Potential for developing and contributing to host/pathogen ontology Heikki@sanbi.ac.za


eVOC : eVOC Built as ontologies for human gene expression, to unify gene expression data eVOC Pathology describes the pathological state of the tissue from which the sample was prepared http://www.evocontology.org/


PML : PML Polymorphism Markup Language Project, PML OMG Standard for Sequence variation and genotyping. It’s created in collaboration with SNP and sequence variation databases. PML tries to be able to interface to ontologies used in healthcare. www.openpml.org (not active yet) or contact Heikki@sanbi.ac.za


Describing HIV : Describing HIV Infection / diagnosis / progress / treatment Patient information / tissue samples / pathogen information Medication


SANBI Contributors : SANBI Contributors Allan Kamau Adele Kruger Alan Powell Ulf Schafer Anelda Boardman Minna Lehväslaiho Heikki Lehväslaiho Oliver Hofmann Win Hide