Background Capacity Development of Applied Epidemiologists (CDAE, 36-months programme, seeks to create a networked cohort of highly competent professional with master’s degree in Epidemiology or Biostatistics (EPI fellows) and strengthens the supervision capacity of targeted universities to effectively deliver programmes in Epidemiology or Biostatistics. In this paper, we describe the progress made, challenges encountered, and lessons learned.

Methods The African Population and Health Research Center leads the programme in partnership with Amref International University (private university) and Jaramogi Oginga Odinga University of Science and Technology (public university), both in Kenya, and Lund University in Sweden. We conducted a highly competitive and rigorous recruitment process which attracted highly qualified applicants from diverse backgrounds.

Results We received 706 applications from 21 countries from which 15 EPI fellows were admitted. They completed their course work and participated in two Joint Seminars, designed their research proposals, defended, and received ethical approval (collection of data is ongoing). Concurrently, 20 supervisors were trained on quality supervision for two weeks to ensure EPI fellows received adequate support and guidance throughout the programme. The programme however encountered several challenges including: high number of qualified applicants but limited funding, adherence to timelines, unequal learning conditions, and difficulty in reaching out to other stakeholders. Some lessons included: high demand for the programme in Sub-Saharan Africa (SSA), concurrent training of EPI fellows and supervisors provides interaction opportunity, expansion need for the programme, and greater synergy in collaborations (academia and industry).

Conclusion CDAE is critical for strengthening public health systems in SSA. This programme provides a blueprint for other countries seeking to build the capacity of their public health workforce. As we draw near the end of the programme, “what next” discussions are ongoing. Our programme demonstrates the importance of public-private partnerships and drawing synergies from various institutions to deliver seasoned epidemiologist.