Publication

Title: RegaDB: Community-driven data management and analysis for infectious diseases
Authors: Libin P, Beheydt G, Deforche K, Imbrechts S, Ferreira F, Van Laethem K, Theys K, Carvalho AP, Cavaco Silva J, Lapadula G, Torti P, Assel M, Wesner S, Snoeck J, Ruelle J, De Bel A, Lacor P, De Munter P, Van Wijngaerden E, Zazzi M, Kaiser R, Ayouba A, Peeters M, de Oliveira T, Alcantara L, Grossman Z, Sloot P, Otelea D, Paraschiv S, Boucher C, Camacho R, and Vandamme AM.
Journal: Bioinformatics,29 (11):1477-1480, doi: 10.1093/bioinformatics/btst162 (2013)

Abstract

Summary: RegaDB is a free and open source data management and analysis environment for infectious diseases. RegaDB allows clinicians to store, manage and analyze patient data, including viral genetic sequences. Moreover, RegaDB provides researchers with a mechanism to collect data in a uniform format and offers them a canvas to make newly developed bioinformatics tools available to clinicians and virologists through a user friendly interface.

Availability and implementation: Source code, binaries and documentation are available on http://regaweb.med.kuleuven.be/software/regadb/ RegaDB is written in the Java programming language, using a web-service oriented architecture.

Opportunities for researchers: Another example of the utility of RegaDB is the collaborative database used within the Southern African Treatment and Resistance Network (SATuRN). This network has 24 member institutions working in Southern Africa, the region at the epicenter of the HIV epidemic. Currently there are more than ten institutions using the SATuRN RegaDB for patient data management, data curation and research. Under SATuRN, more than 7,000 genotypes with treatment and monitoring data has been collected. Using the built-in customized report and query functionality, data of specific attributes is selected, analyzed and used to answer specific clinical and research questions (Manasa et al. 2012, de Oliveira et al. 2010). In addition, members of the SATuRN project recently published a book (Rossouw, Lessells & de Oliveira 2013) containing a series of case studies used for training. More than 1,450 physicians and nurses have been trained through conferences, workshops and online web-tutorials RegaDB: Community-driven data management and analysis for infectious diseases.

Download: Full text paper

Citation: Libin P, Beheydt G, Deforche K, Imbrechts S, Ferreira F, Van Laethem K, Theys K, Carvalho AP, Cavaco Silva J, Lapadula G, Torti P, Assel M, Wesner S, Snoeck J, Ruelle J, De Bel A, Lacor P, De Munter P, Van Wijngaerden E, Zazzi M, Kaiser R, Ayouba A, Peeters M, de Oliveira T, Alcantara L, Grossman Z, Sloot P, Otelea D, Paraschiv S, Boucher C, Camacho R, and Vandamme AM. RegaDB: Community-driven data management and analysis for infectious diseases Bioinformatics,29 (11):1477-1480, doi: 10.1093/bioinformatics/btst162 (2013).

Media Coverage of this Publication:

BOOK REVIEW - HIV & TB Drug Resistance & Clinical Management Case Book - Southern African Journal of HIV Medicine - 2013-06-20

by Sigaloff & Hamers, The Southern African Journal of HIV Medicine, Book Review on the HIV & TB Drug Resistance & Clinical Management Case Book by Rossouw, Lessells and de Oliveira

Case book tackles HIV and TB drug resistance - Zululand Observer - 2013-04-15

By Jonathan Davis, 15 April 2013 - Researchers from the Africa Centre for Health and Population Research near Mtubatuba have published a important book to help rural doctors, nurses and pharmacists working on the frontline of the country's interlinked HIV and tuberculosis (TB) pandemics manage increasing levels of resistance to the drugs needed to fight the diseases.

SATuRN will have a session at the 17th Rural Health Conference - RUDASA - 2013-03-31

The 17th Annual Rural Health Conference will be held in St. Lucia, KwaZulu-Natal, South Africa, from 8 to 10 August 2013. SATuRN will have a session (approximately 2-3 hours) in the conference and will distribute the HIV & TB Drug Resistance and Clinical Management Case Book.

University of Pretoria and partners launch a book - University of Pretoria - 2013-03-19

By Sanku Tsunke, Pretoria, 19 March 2013. Drug resistance is one of the main challenges confronting HIV and TB programmes in Africa. Facing these challenges requires an understanding of how drug resistance develops, as well as up-to-date knowledge of how to diagnose and manage drug resistance in HIV and TB patients.

Casebook aims to curb drug resistance - PretoriaNews - 2013-03-19

Pretoria News - 19 March 2013, DOCTORS from the University of Pretoria (UP) and University of KwaZulu-Natal (UKZN) have stepped up to the challenge of providing a clinical management casebook for health care workers treating patients with HIV and TB drug resistance.

BOOK ON MANAGEMENT OF HIV AND TB DRUG RESISTANCE LAUNCHED - UKZNonline - 2013-03-16

HIV and TB: Drug Resistance and Clinical Management Case Book - a book co-authored by two academics from the Africa Centre for Health and Population Studies - has been presented to frontline health workers at a workshop in northern KwaZulu-Natal.

Transferring Critical Knowledge and Skills to Frontline Medical Personnel Fighting the HIV & TB epidemics in rural South Africa - UKZN - 2013-03-15

UKZN's Africa Centre for Health and Population Studies, based in the College of health Sciences, has once again made huge strides in HIV management. Recently, the Centre's, Dr Richard Lessells and Dr Tulio de Oliveira together with the University of Pretoria's, Dr. Theresa Rossouw; launched a book entitled, 'HIV and TB: Drug Resistance and Clinical Management Case Book'.

Universiteit van Pretoria en vennote stel boek vry oor weerstand teen middels wat gebruik word om MIV en tuberkulose te bekamp - Universiteit van Pretoria - 2013-03-15

Weerstand teen medikasie is een van die belangrikste struikelblokke wat programme om MIV en tuberkulose in Afrika te bestry te bowe moet kom. Om hierdie uitdagings die hoof te bied, word 'n begrip vereis van hoe weerstand teen die middels tot stand kom, sowel as vertroudheid met die jongste metodes om weerstand teen die medikasie in MIV- en tuberkulosepasiente te diagnoseer en bestuur.

PRESS RELEASE: Book Launch: HIV and TB Drug Resistance & Clinical Management Case Book - Africa Centre - 2013-03-06

Prof Eric Buch, Dean of the Faculty of Health Sciences at the University of Pretoria, in partnership with European Delegation to South Africa, MRC Inflammation and Immunity Unit and the Africa Centre for Health and Population Studies, UKZN, invite members of the media to attend the launch of the 'HIV and TB Resistance & Clinical Management Case Book' that is authored by Dr Theresa Rossouw of UP and Drs Richard Lessells and Tulio de Oliveira of the Africa Centre for Health and Population Studies. The details are as follows:

Invitation to the launch of the HIV and TB drug resistance & clinical management case book - University of Pretoria - 2013-03-05

University of Pretoria invites you to attend the launch of the publication HIV and TB resistance & clinical management case book. The invitation is writen in three official South African languages: Afrikaans, English and Sepedi.

HIV/TB Drug Resistance and Clinical Management Workshop & Book Launch, Ghost Mountain Inn, Mkuze, South Africa, 7-8 Mar 2013 - SATuRN - 2013-02-18

Organised by the Africa Centre for Health and Population Studies and Southern African Treatment and Resistance Network (SATuRN) in collaboration with the uMkhanyakude District Health Office. This workshop is aimed at developing knowledge and skills around the prevention and management of drug resistance and treatment failure in both HIV and TB.

Video & TV Coverage of this Publication:

SATuRN/BioAfrica Reports on this Publication

SATuRN and Khethimpilo HIV Drug Resistance and Clinical Management Workshop Report, Durban, 11-12 July 2013

SATuRN 2013 report, date: 2013-08-01

Dean Solomon and Tulio de Oliveira

SATuRN Collaborates on a Successful Molecular Diagnostics in HIV/AIDS and Tuberculosis in Zimbabwe, 6-9 Aug 2013