Supporting the development of biobanks in low and medium income countries

Abstract

Abstract:Biobanks are an organized collection of biological material and associated data. They are a fundamental resource for life science research and contribute to the development of pharmaceutical drugs, diagnostic markers and to a deeper understanding of the genetics that regulate the development of all life on earth.Biobanks are well established in High Income Countries (HIC) and are rapidly emerging in Low and Middle Income Countries (LMIC). Surveys among biobanks operating in a LMIC setting indicate that limited resources and short term funding tied to specific projects threaten the sustainability of the biobanks. Fit-for-purpose biobanks targeting major societal challenges such as HIV and Malaria provide an excellent basis for integrating biobanks with the available research communities in LMIC regions. But to become sustainable for the future it is important that biobanks become an integrated part of local research communities. To achieve this, the cost of operating biobanks must be lowered, templates must be developed to support local ethics committees and researchers must be given the opportunity to build experience in successfully operating biobank based research projects.The B3Africa consortium is based on these conclusions and set up to support biobank based research by creating a cost efficient Laboratory Information Management System (LIMS) for developing biobanks and also contribute to the training and capacity building in the local research community. The technical platform called the eB3Kit is open source and consists of a LIMS and a bioinformatics module based on the eBiokit that allow researchers to take control over the analysis of their own data. Along with the technical platform the consortium will also contribute training and support for the associated infrastructures necessary to regulate the ethical and legal implications of biobank based research.

Establishing an academic biobank in a resource-challenged environment

“…The eB3Kit Biobank in a Box (Bibbox) (Austria), available through B3Africa, provides an integrated biobanking and bioinformatics platform. [ 8 , 20 ] This system consists of seven integrated work packages that monitor all aspects of biobanking, from the ethical and regulatory requirements, hardware and software requirements, a LIMS and bioinformatics platform, relevant training and dissemination and searchable datasets linked with biospecimens. [ 20 ] Once the eBiokit is purchased, the software is free and tools are available in the Bibbox ecosystem for personal customisation.…”

“…[ 8 , 20 ] This system consists of seven integrated work packages that monitor all aspects of biobanking, from the ethical and regulatory requirements, hardware and software requirements, a LIMS and bioinformatics platform, relevant training and dissemination and searchable datasets linked with biospecimens. [ 20 ] Once the eBiokit is purchased, the software is free and tools are available in the Bibbox ecosystem for personal customisation. [ 8 , 20 ] Currently Bika is being implemented, but support will also be available for Open Specimen.…”

Advancing good governance in data sharing and biobanking - international aspects

“…Many attempts are being made to implement governance frameworks that are globally applicable, as well as safeguard the interests and address the concerns of all relevant parties. Such an effective framework needs to be fair, efficient, show accountability and, just as importantly, be sustainable in the long run (de Vries et al, 2017;Klingstrom et al, 2016).…”

Galaksio, a user friendly workflow-centric front end for Galaxy

“…This approach is currently being implemented in the B3Africa project using the eB3Kit which includes Galaksio and relies on these resources to connect the relatively light weight Mac Pro Server, commonly hosting the eB3Kit, to external computing resources (Klingstrom et al, 2016).…”