@Article{Kermack1991, author = {Kermack, W. and McKendrick, A.}, journal = {Bulletin of Mathematical Biology}, title = {Contributions to the mathematical theory of epidemics-I}, year = {1991}, number = {1-2}, pages = {33-35}, volume = {53}, } @Article{giddy2019, author = {Giddy, Julia Kathryn}, journal = {African Geographical Review}, title = {The influence of e-hailing apps on urban mobilities in South Africa}, year = {2019}, number = {3}, pages = {227--239}, volume = {38}, } @Article{czegledy2004, author = {Czegl{\'e}dy, Andr{\'e} P}, journal = {City \& Society}, title = {Getting Around Town: transportation and the built environment in post-apartheid South Africa}, year = {2004}, number = {2}, pages = {63--92}, volume = {16}, } @InProceedings{deBeer2019, author = {{d}e Beer, LR}, booktitle = {Proceedings of the Southern African Transport Conference}, title = {Strategic assessment of the impact of the priority infrastructure on the perfomance of minibus-taxi services in the context of South Africa}, year = {2019}, } @TechReport{StatsSA2017, author = {{}StatsSA}}, institution = {Statistics South Africa}, title = {Inequality Trends in South Africa: A multidimensional diagnostic of inequality}, year = {2017}, } @Article{maphumulo2019, author = {Maphumulo, Winnie T and Bhengu, Busisiwe R}, journal = {Curationis}, title = {Challenges of quality improvement in the healthcare of South Africa post-apartheid: A critical review}, year = {2019}, number = {1}, pages = {1--9}, volume = {42}, } @Article{pillay2009, author = {Pillay, Rubin}, journal = {Human resources for Health}, title = {Work satisfaction of professional nurses in South Africa: a comparative analysis of the public and private sectors}, year = {2009}, number = {1}, pages = {1--10}, volume = {7}, } @Article{gray2019, author = {Gray, Andy and Vawda, Yousuf}, journal = {South African Health Review}, title = {Health legislation and policy}, year = {2019}, number = {1}, pages = {3--16}, volume = {2019}, publisher = {Health Systems Trust (HST)}, } @TechReport{CC2018, author = {{Competition Commission}}, institution = {Pretoria: Competition Commission}, title = {Health Market Inquiry: Final Findings and Recommendations Report}, year = {2018}, } @Article{bloor2006, author = {Bloor, Karen and Hendry, Vivien and Maynard, Alan}, journal = {Journal of the Royal Society of Medicine}, title = {Do we need more doctors?}, year = {2006}, number = {6}, pages = {281--287}, volume = {99}, } @Article{woolf2020, author = {Woolf, Steven H and Chapman, Derek A and Sabo, Roy T and Weinberger, Daniel M and Hill, Latoya}, journal = {Journal of the American Medical Association}, title = {Excess deaths from COVID-19 and other causes, March-April 2020}, year = {2020}, number = {5}, pages = {510--513}, volume = {324}, publisher = {American Medical Association}, } @Article{woolf2013, author = {Woolf, SE and Joubert, Johan W}, journal = {Cities}, title = {A people-centred view on paratransit in South Africa}, year = {2013}, pages = {284--293}, volume = {35}, } @TechReport{woolf2014, author = {Woolf, S. and J. Joubert}, institution = {University of Pretoria, South Africa}, title = {A look at paratransit in South Africa}, year = {2014}, } @TechReport{jennings2017, author = {Jennings, Gail, and Roger Behrens}, institution = {Swedish National Road and Transport Research Institute (VTI)}, title = {The Case for Investing in Paratransit: strategies for regulation and reform}, year = {2017}, number = {01720253}, } @Article{schalekamp2010, author = {Schalekamp, Herrie and Behrens, Roger}, journal = {Research in Transportation Economics}, title = {Engaging paratransit on public transport reform initiatives in South Africa: A critique of policy and an investigation of appropriate engagement approaches}, year = {2010}, number = {1}, pages = {371--378}, volume = {29}, } @Article{chiloane2016, author = {Chiloane-Tsoka, Germinah Evelyn}, journal = {Problems and Perspectives in Management}, title = {Factors affecting the implementation of the taxi Recapitalisation Project: the Department of Transport}, year = {2016}, number = {14, Iss. 4}, pages = {25--32}, } @Article{andrews2013, author = {Andrews, Jason R and Morrow, Carl and Wood, Robin}, journal = {American journal of epidemiology}, title = {Modeling the role of public transportation in sustaining tuberculosis transmission in South Africa}, year = {2013}, number = {6}, pages = {556--561}, volume = {177}, } @Article{bassett2017, author = {Bassett, Ingrid V and Coleman, Sharon M and Giddy, Janet and Bogart, Laura M and Chaisson, Christine E and Ross, Douglas and Flash, Moses JE and Govender, Tessa and Walensky, Rochelle P and Freedberg, Kenneth A and others}, journal = {Journal of Acquired Immune Deficiency Syndromes (1999)}, title = {Barriers to care and 1-year mortality among newly diagnosed HIV-infected people in Durban, South Africa}, year = {2017}, number = {4}, pages = {432}, volume = {74}, } @Article{bruns2020, author = {Bruns, Debra Pettit and Kraguljac, Nina Vanessa and Bruns, Thomas R}, journal = {Journal of Transcultural Nursing}, title = {COVID-19: Facts, Cultural Considerations, and Risk of Stigmatization}, year = {2020}, number = {4}, pages = {326--332}, volume = {31}, } @Article{choonara2016, author = {Choonara, Shakira and Eyles, John}, journal = {BMJ Global ealth}, title = {Out of control: profit-seeking behaviour, unnecessary medical procedures and rising costs of private medical care in South Africa}, year = {2016}, number = {1}, pages = {e000013}, volume = {1}, } @TechReport{david2018, author = {David, Anda and Guilbert, Nathalie and Hamaguchi, Nobuaki and Higashi, Yudai and Hino, Hiroyuki and Leibbrandt, Murray and Shifa, Muna}, institution = {University of Cape Town, South Africa}, title = {Spatial poverty and inequality in South Africa: A municipality level analysis}, year = {2018}, } @Article{ezeh2017, author = {Ezeh, Alex and Oyebode, Oyinlola and Satterthwaite, David and Chen, Yen-Fu and Ndugwa, Robert and Sartori, Jo and Mberu, Blessing and Melendez-Torres, Gerardo J and Haregu, Tilahun and Watson, Samuel I and others}, journal = {The Lancet}, title = {The history, geography, and sociology of slums and the health problems of people who live in slums}, year = {2017}, number = {10068}, pages = {547--558}, volume = {389}, } @Article{fransman2019, author = {Fransman, Tina and Yu, Derek}, journal = {Development Southern Africa}, title = {Multidimensional poverty in South Africa in 2001--16}, year = {2019}, number = {1}, pages = {50--79}, volume = {36}, } @TechReport{finn2014, author = {Finn, Arden and Leibbrandt, Murray and Oosthuizen, Morn{\'e}}, institution = {WIDER Working Paper}, title = {Poverty, inequality, and prices in post-apartheid South Africa}, year = {2014}, } @Article{lucas2011, author = {Lucas, Karen}, journal = {Journal of Transport Geography}, title = {Making the connections between transport disadvantage and the social exclusion of low income populations in the Tshwane Region of South Africa}, year = {2011}, number = {6}, pages = {1320--1334}, volume = {19}, } @Article{lynch2017, author = {Lynch, Elizabeth A and Cadilhac, Dominique A and Luker, Julie A and Hillier, Susan L}, journal = {Topics in Stroke Rehabilitation}, title = {Inequities in access to inpatient rehabilitation after stroke: an international scoping review}, year = {2017}, number = {8}, pages = {619--626}, volume = {24}, } @Article{smit2017, author = {Smit, Suzanne and Musango, Josephine Kaviti and Kovacic, Zora and Brent, Alan C}, journal = {Cities}, title = {Conceptualising slum in an urban African context}, year = {2017}, pages = {107--119}, volume = {62}, } @Article{walters2013, author = {Walters, Jackie}, journal = {Research in Transportation Economics}, title = {Overview of public transport policy developments in South Africa}, year = {2013}, number = {1}, pages = {34--45}, volume = {39}, } @Article{Ngonghala2020, author = {CN Ngonghala and E Iboi and S Eikenberry and M Scotch and CR MacIntyre and MH Bonds and AB Gumel}, journal = {Mathematical Biosciences}, title = {Mathematical assessment of the impact of non-pharmaceutical interventions on curtailing the 2019 novel Coronavirus}, year = {2020}, volume = {325}, } @TechReport{IHMEMarch2020, author = {{IHME}, institution = {COVID-19 health service utilization forecasting team.}, title = {Forecasting COVID-19 impact on hospital bed-days, ICU-days, ventilator days and deaths by US state in the next 4 months.}, year = {2020}, doi = {https://www.medrxiv.org/content/10.1101/2020.03.27.20043752v1}, } @Article{Ruiyun2020, author = {R Li and S Pei and B Chen and Y Song and T Zhang and W Yang, J Shaman}, journal = {Science}, title = {Substantial undocumented infection facilitates the rapid dissemination of novel coronavirus (SARS-CoV-2)}, year = {2020}, number = {6490}, pages = {489-493}, volume = {368}, } @TechReport{NICDMay2020, author = {{NICD}}, institution = {National Institute of Communicable Diseases}, title = {Clinical Management of Suspected or Confirmed Covid-19 Disease Version 4}, year = {May 2020}, } @TechReport{ImprMarch2020, author = {Ferguson, N and Laydon, D and Nedjati Gilani, G and Imai, N and Ainslie, K and Baguelin, M}, institution = {Imperial College COVID-19 Response Team}, title = {Report 9: Impact of non-pharmaceutical interventions (NPIs) to reduce COVID19 mortality and healthcare demand}, year = {2020}, } @Article{tang2020, author = {Tang, Biao and Bragazzi, Nicola Luigi and Li, Qian and Tang, Sanyi and Xiao, Yanni and Wu, Jianhong}, journal = {Infectious Disease Modelling}, title = {An updated estimation of the risk of transmission of the novel coronavirus (2019-nCov)}, year = {2020}, pages = {248--255}, volume = {5}, publisher = {Elsevier}, } @Article{palmieri2020clinical, author = {Palmieri, Luigi and Vanacore, Nicola and Donfrancesco, Chiara and Lo Noce, Cinzia and Canevelli, Marco and Punzo, Ornella and Raparelli, Valeria and Pezzotti, Patrizio and Riccardo, Flavia and Bella, Antonio and others}, journal = {The Journals of Gerontology: Series A}, title = {Clinical characteristics of hospitalized individuals dying with COVID-19 by age group in Italy}, year = {2020}, number = {9}, pages = {1796--1800}, volume = {75}, publisher = {Oxford University Press US}, } @InBook{leRoux2020, author = {le Roux, A and Cooper, AK and Ludick, C and Arnold, KA and Mans, G}, chapter = {Creating a set of high-resolution vulnerability indicators to support the disaster management response to the COVID-19 pandemic in South Africa}, title = {COVID-19: Geospatial Information and Community Resilience}, year = {2020}, } @Article{reno2020, author = {Reno, Chiara and Lenzi, Jacopo and Navarra, Antonio and Barelli, Eleonora and Gori, Davide and Lanza, Alessandro and Valentini, Riccardo and Tang, Biao and Fantini, Maria Pia}, journal = {Journal of Clinical Medicine}, title = {Forecasting COVID-19-associated hospitalizations under different levels of social distancing in Lombardy and Emilia-Romagna, Northern Italy: results from an extended SEIR compartmental model}, year = {2020}, number = {5}, pages = {1492}, volume = {9}, publisher = {Multidisciplinary Digital Publishing Institute}, } @Article{bohning2020, author = {B{\"o}hning, Dankmar and Rocchetti, Irene and Maruotti, Antonello and Holling, Heinz}, journal = {International Journal of Infectious Diseases}, title = {Estimating the undetected infections in the Covid-19 outbreak by harnessing capture--recapture methods}, year = {2020}, pages = {197--201}, volume = {97}, publisher = {Elsevier}, } @Article{wu2020substantial, author = {Wu, SL and Mertens, AN and Crider, YS and Nguyen, A and Pokpongkiat, NN and Djajadi, S and Seth, A and Hsiang, MS and Colford, JM and Reingold, A et al}, journal = {Nature Communications}, title = {Substantial underestimation of SAR-CoV-2 infection in the United States}, year = {2020}, pages = {1-10}, volume = {11}, } @Article{barrett2020estimation, author = {Barrett, Kali and Khan, Yasin A and Mac, Stephen and Ximenes, Raphael and Naimark, David MJ and Sander, Beate}, journal = {Canadian Medical Association Journal}, title = {Estimation of COVID-19--induced depletion of hospital resources in Ontario, Canada}, year = {2020}, number = {24}, pages = {E640--E646}, volume = {192}, publisher = {Can Med Assoc}, } @Article{jehi2020development, author = {Jehi, Lara and Ji, Xinge and Milinovich, Alex and Erzurum, Serpil and Merlino, Amy and Gordon, Steve and Young, James B and Kattan, Michael W}, journal = {PloS One}, title = {Development and validation of a model for individualized prediction of hospitalization risk in 4,536 patients with COVID-19}, year = {2020}, number = {8}, pages = {e0237419}, volume = {15}, publisher = {Public Library of Science San Francisco, CA USA}, } @Article{anguelov2020big, author = {Anguelov, Roumen and Banasiak, Jacek and Bright, Chelsea and Lubuma, Jean and Ouifki, Rachid}, journal = {Biomath}, title = {The big unknown: The asymptomatic spread of COVID-19}, year = {2020}, number = {1}, pages = {1--11}, volume = {9}, } @TechReport{StatsSA2011, author = {{StatsSA}}, institution = {Statistics South Africa}, title = {Use of health facilities and levels of selected health conditions in South Africa: Findings from the General Household Survey.}, year = {2011}, } @Article{russell2020estimating, author = {Russell, Timothy W and Hellewell, Joel and Jarvis, Christopher I and Van Zandvoort, Kevin and Abbott, Sam and Ratnayake, Ruwan and Flasche, Stefan and Eggo, Rosalind M and Edmunds, W John and Kucharski, Adam J and others}, journal = {Eurosurveillance}, title = {Estimating the infection and case fatality ratio for coronavirus disease (COVID-19) using age-adjusted data from the outbreak on the Diamond Princess cruise ship, February 2020}, year = {2020}, number = {12}, pages = {2000256}, volume = {25}, publisher = {European Centre for Disease Prevention and Control}, } @Article{woolf2020excess, author = {Woolf, Steven H and Chapman, Derek A and Sabo, Roy T and Weinberger, Daniel M and Hill, Latoya}, journal = {Jama}, title = {Excess deaths from COVID-19 and other causes, March-April 2020}, year = {2020}, number = {5}, pages = {510--513}, volume = {324}, publisher = {American Medical Association}, } @Article{faust2020assessment, author = {Faust, Jeremy Samuel and Del Rio, Carlos}, journal = {Journal of the American Medical Association Internal Medicine}, title = {Assessment of deaths from COVID-19 and from seasonal influenza}, year = {2020}, number = {8}, pages = {1045--1046}, volume = {180}, publisher = {American Medical Association}, } @Article{weinberger2020estimation, author = {Weinberger, Daniel M and Chen, Jenny and Cohen, Ted and Crawford, Forrest W and Mostashari, Farzad and Olson, Don and Pitzer, Virginia E and Reich, Nicholas G and Russi, Marcus and Simonsen, Lone and others}, journal = {JAMA Internal Medicine}, title = {Estimation of excess deaths associated with the COVID-19 pandemic in the United States, March to May 2020}, year = {2020}, number = {10}, pages = {1336--1344}, volume = {180}, publisher = {American Medical Association}, } @TechReport{bradshaw2020, author = {Bradshaw, D., and Laubscher, R., and Dorrington, R., and Groenewald, P. and Moultrie, T.,}, institution = {Burden of Disease Research Unit, South African Medical Research Council.}, title = {Report on Weekly Deaths in South Africa: 1 January-8 December 2020 (Week 49).}, year = {2020}, } @Article{ni2020detection, author = {Ni, Ling and Ye, Fang and Cheng, Meng-Li and Feng, Yu and Deng, Yong-Qiang and Zhao, Hui and Wei, Peng and Ge, Jiwan and Gou, Mengting and Li, Xiaoli and others}, journal = {Immunity}, title = {Detection of SARS-CoV-2-specific humoral and cellular immunity in COVID-19 convalescent individuals}, year = {2020}, number = {6}, pages = {971--977}, volume = {52}, publisher = {Elsevier}, } @TechReport{SAMay2020, author = {{NCID}}, institution = {National Institute for Communicable Diseases (NICD)}, title = {Estimating cases for COVID-19 in South Africa Update: 19 May 2020}, year = {2020}, note = {[Accessed 16 November 2020]}, doi = {\url{www.nicd.ac.za/wp-content/uploads/2020/05/SACMC_19052020_slides-for-MoH-media-briefing.pdf}}, howpublished = {South African Covid-19 Modelling Consortium}, } @Article{thiede2020spatial, author = {Thiede, Renate and Abdelatif, Nada and Fabris-Rotelli, Inger and Manjoo-Docrat, Raeesa and Holloway, Jennifer and van Rensburg, Charl Janse and Debba, Pravesh and Dudeni-Tlhone, Nontembeko and Kimmie, Zaid and Roux, Alize le}, journal = {arXiv preprint arXiv:2012.06301}, title = {Spatial variation in the basic reproduction number of COVID-19: A systematic review}, year = {2020}, } @InProceedings{turner2020examining, author = {Turner-Musa, Jocelyn and Ajayi, Oluwatoyin and Kemp, Layschel}, booktitle = {Healthcare}, title = {Examining social determinants of health, stigma, and COVID-19 disparities}, year = {2020}, number = {2}, organization = {Multidisciplinary Digital Publishing Institute}, pages = {168}, volume = {8}, } @Article{roelen2020covid, author = {Roelen, Keetie and Ackley, Caroline and Boyce, Paul and Farina, Nicolas and Ripoll, Santiago}, journal = {The European Journal of Development Research}, title = {COVID-19 in LMICS: the need to place stigma front and centre to its response}, year = {2020}, number = {5}, pages = {1592--1612}, volume = {32}, publisher = {Springer}, } @Article{tizzoni2014use, author = {Tizzoni, Michele and Bajardi, Paolo and Decuyper, Adeline and King, Guillaume Kon Kam and Schneider, Christian M and Blondel, Vincent and Smoreda, Zbigniew and Gonz{\'a}lez, Marta C and Colizza, Vittoria}, journal = {PLoS Computational Biology}, title = {On the use of human mobility proxies for modeling epidemics}, year = {2014}, number = {7}, pages = {e1003716}, volume = {10}, publisher = {Public Library of Science}, } @Article{fronteira2021sars, author = {Fronteira, In{\^e}s and Sidat, Mohsin and Magalh{\~a}es, Jo{\~a}o Paulo and de Barros, Fernando Passos Cupertino and Delgado, Ant{\'o}nio Pedro and Correia, Tiago and Daniel-Ribeiro, Cl{\'a}udio Tadeu and Ferrinho, Paulo}, journal = {One Health}, title = {The SARS-CoV-2 pandemic: A syndemic perspective}, year = {2021}, pages = {100228}, publisher = {Elsevier}, } @Article{sattenspiel1995structured, author = {Lisa Sattenspiel and Klaus Dietz}, journal = {Mathematical Biosciences}, title = {A structured epidemic model incorporating geographic mobility among regions}, year = {1995}, issn = {0025-5564}, number = {1}, pages = {71-91}, volume = {128}, doi = {https://doi.org/10.1016/0025-5564(94)00068-B}, url = {https://www.sciencedirect.com/science/article/pii/002555649400068B}, } @Article{getz2019adequacy, author = {Getz WM, Salter R, Mgbara W.}, journal = {Philosophical Transactions of the Royal Society B}, title = {Adequacy of SEIR models when epidemics have spatial structure: Ebola in Sierra Leone. 374:}, year = {2019}, number = {20180282}, } @Article{rost2020early, author = {Rost, G and Bartha, FA and Bogya, N and Boldog, P and Dénes, A and Ferenci, T and Horváth, K.J. and Juhasz, A. and Nagy, C. and Tekeli, T. and Vizi, Z. and Oroszi, B.}, journal = {Viruses}, title = {Early Phase of the COVID-19 Outbreak in Hungary and Post-Lockdown Scenarios}, year = {2020}, number = {708}, volume = {12}, } @Article{arandiga2020spatial, author = {Arandiga, F and Baeza, A and Cordero-Carrion, I and Donat, R and Marti, MC and Mulet, P and Yanez, DF}, journal = {Mathematics}, title = {A Spatial-Temporal Model for the Evolution of the COVID-19 Pandemic in Spain Including Mobility}, year = {2020}, number = {1677}, volume = {8}, } @Article{peixoto2020modelling, author = {Peixoto PS and Marcondes D and Peixoto C and Oliva SM}, journal = {PLOS ONE}, title = {Modeling future spread of infections via mobile geolocation data and population dynamics. An application to COVID-19 in Brazil}, year = {2020}, volume = {15(7): e0235732.}, } @TechReport{SASeptember2020, author = {{NCID}}, institution = {National Institute for Communicable Diseases (NICD)}, title = {Estimating cases for COVID-19 in South Africa. Assessment of alternative scenarios.}, year = {2020}, howpublished = {South African COVID-19 Modelling Consortium.}, } @TechReport{Matlala2017, author = {Matlala, M., Bannister, M., and Mochotlhi, D.,}, institution = {Department of Water and Sanitation, South Africa}, title = {Sustainable Development Goal 6 –Water and Sanitation Integrated Monitoring}, year = {2017}, address = {Available from www.sdg6monitoring.org/country-experience/south-africa/}, note = {[Accessed: 30 March 2021]}, } @TechReport{StatsSA2016, author = {{StatsSA}}, title = {Water and Sanitation: In-depth analysis of the General Household Survey 2002–2015 and Community Survey 2016 data}, institution = {Statistics South Africa}, year = {2016}, } @TechReport{NCID202045, author = {{NICD}}, title = {COVID-19 Testing Summary for Week 45}, year = {2020}, institution = {National Institute for Communicable Diseases}, } @TechReport{NCID2020Hospital, author = {{NCID}}, title = {COVID-19 Daily Sentinel Hospital Surveillance report.}, year = {2020}, institution = {National Institute for Communicable Diseases}, } @TechReport{Moultrie2020, author = {Moultrie, T., et al.}, institution = {NICD}, title = {Excess deaths: additional measures and approaches to understanding COVID-19 related mortality in South Africa.}, year = {2020}, }