PUBLICATIONS
Neuner-Jehle N, Zeeb M, Thorball CW, Fellay J, Metzner KJ, Frischknecht P, Neumann K, Leeman C, Rauch A, Stöckle M, Huber M, Perreau M, Bernasconi E, Notter J, Hoffmann M, Leuzinger K, Günthard HF, Pasin C$, Kouyos RD$, and the Swiss HIV Cohort Study. Using viral diversity to identify HIV-1 variants under HLA-dependent selection in a systematic viral genome-wide screen. Plos Pathogens, 2024.
Pasin C, Garnia Nunez D, Kusejko K, Hachfeld A, Buvelot H, Cavassini M, Damonti L, Fux C, Martinez de Tejada B, Notter J, Trkola A, Günthard HF, Aebi-Popp K$, Kouyos RD$, Abela IA$, and the Swiss HIV Cohort Study. Impact of hormonal therapy on HIV-1 immune markers in cis women and gender minorities. HIV medicine, 2024.
Zeeb M, Pasin C, Cavassini M, Bieler-Aeschlimann M, Frischknecht P, Kusejko K, Fellay J, Blanquart F, Metzner KJ, Neumann K, Jörimann L, Tschumi J, Bernasconi E, Huber M, Kovari H, Leuzinger K, Notter J, Perreau M, Rauch A, Ramette A, Stöckle M, Yerly S, Günthard HF$, Kouyos RD$, and the Swiss HIV Cohort Study. Self-reported neurocognitive complaints in the Swiss HIV Cohort Study – a viral genome wide association study. Brain Communications, 2024.
Abela IA, Schwarzmüller M, Ulyte A, Radtke T, Haile SR, Ammann P, Raineri A, Rueegg S, Epp S, Verger C, Böni J, Manrique A, Audigé A, Huber M, Schreiber PW, Scheier T, Fher J, Weber J, Ruser P, Günthard HF, Kouyos RD, Puhan MA, Kriemler S, Trkola A, Pasin C. Cross-protective HCoV immunity reduces symptom development during SARS-CoV-2 infection. mBio, 2024.
Trepl J*, Pasin C*, Schneidawind D, Mueller NJ, Manz MG, Bankova AK$, Abela IA$. Evaluating tixagevimab/cilgavimab prophylaxis in allogeneic haematopoietic cell transplantation recipients for COVID‐19 prevention. British Journal of Haematology, 2024.
Abela IA*, Hauser A*, Schwarzmüller*, Pasin C*, Kusejko K, Epp S, Cavassini M, Battegay M, Rauch A, Calmy A, Notter J, Bernasconi E, Fux CA, Leuzinger K, Perreau M, Ramette A, Gottschalk J, Schindler E, Wepf A, Marconato M, Manz NG, Frey BM, Braun DL, Huber M, Günthard HF, Trkola A, Kouyos RD, and the Swiss HIV Cohort Study. Deciphering factors linked with reduced SARS-CoV-2 susceptibility in the Swiss HIV Cohort Study. The Journal of Infectious Diseases, 2024.
Teja T*, Labarile M*, Braun DL, Rauch A, Stöckle M, Cavassini M, Hoffmann M, Calmy A, Bernasconi E, Notter J, Pasin C$, Günthard HF$, Kouyos, RD$, and the Swiss HIV Cohort Study. Characterization and determinants of long-term immune recovery under suppressive antiretroviral therapy. JAIDS, 2024.
Maliqi L, Friedrich N, Glögl M, Schmutz S, Schmidt D, Rusert P, Schanz M, Zaheri M, Pasin C, Niklaus C, Foulkes C, Reinberg T, Dreier B, Abela IA, Peterhoff D, Hauser A, Kouyos RD, Günthard HF, van Gils MJ, Sanders RW, Wagner R, Plückthun A, Trkola A. Assessing immunogenicity barriers of the HIV-1 envelope trimer. npj Vaccines, 2023.
Pasin C, Consiglio CR, Huisman JS, de Lange A-MG, Peckham H, Vallejo-Yagüe E, Abela IA, Islander U, Neuner-Jehle N, Pujantell M, Roth O, Schirmer M, Tepekule B, Zeeb M, Hachfeld A, Aebi-Popp K, Kouyos RD$, Bonhoeffer S$. Sex and gender in infection and immunity: addressing the bottlenecks from basic science to public health and clinical applications. Royal Society Open Science, 2023.
Brown JA*, Hauser A*, Abela IA*, Pasin C, Epp S, Mohloanyane T, Nsakala BL, Trkola A, Labhardt ND$, Kouyos RD$, Günthard HF$. Seroprofiling of antibodies against endemic human coronaviruses and SARS-CoV-2 in an HIV cohort in Lesotho: correlates of antibody response and seropositivity. The Journal of Infectious Diseases, 2023.
Clairon Q, Pasin C, Balelli I, Thiébaut R, Prague M. Parameter estimation in nonlinear mixed effect models based on ordinary differential equations: an optimal control approach. Computational Statistics, 2023.
Labarile M, Loosli T, Zeeb M, Kusejko K, Huber M, Hirsch HH, Perreau M, Ramette A, Yerly S, Cavassini M, Battegay M, Rauch A, Calmy A, Notter J, Bernasconi E, Fux C, Günthard HF$, Pasin C$, Kouyos RD$, and the Swiss HIV Cohort Study. Quantifying and predicting ongoing HIV transmission dynamics in the Swiss HIV Cohort Study using a distance-based clustering approach. The Journal of Infectious Diseases, 2023.
Bankova A*, Pasin C*, Huang A, Cicin-Sain C, Epp S, Audigé A, Müller NJ, Nilsson J, Vilinovszki O, Nair G, Wolfensberger N, Hockl P, Schanz U, Trkola A, Kouyos RD, Hasse B, Zinkernagel AS, Manz MG, Abela IA$, Müller AMS$. Antibody response to a third SARS-CoV-2 vaccine dose in recipients of an allogeneic hematopoietic cell transplantation. British Journal of Haematology, 2023.
Chammartin F, Kusejko K, Pasin C, Trkola A, Briel M, Amico P, Stoeckle MP, Eichenberger AL, Hasse B, Braun DL, Schuurmans MM, Müller T, Tamm M, Mueller NJ, Rauch A, Koller MT, Günthard HF, Bucher HC, Speich B, Abela IA, and the Swiss HIV Cohort Study. Determinants of antibody response to SARS-CoV-2 mRNA vaccines in people living with HIV. AIDS, 2022.
Marconato M*, Abela IA*, Hauser A*, Schwarzmueller M, Katzensteiner R, Braun DL, Epp S, Audigé A, Weber J, Rusert P, Schindler E, Pasin C, West E, Boeni J, Kufner V, Huber M, Zaheri M, Schmutz S, Frey BM, Kouyos RD$, Gunthard HF$, Manz MG$, Trkola A$. Contribution of endogenous and exogenous antibodies to clearance of SARS-CoV-2 during convalescent plasma therapy. The Journal of Clinical Investigation, 2022.
Huang A*, Cicin-Sain C*, Pasin C*, Epp S, Audigé A, Müller NJ, Nilsson J, Bankova A, Wolfensberger N, Vilinovszki O, Nair G, Hockl P, Schanz U, Kouyos RD, Hasse B, Zinkernagel AS, Trkola A, Manz MG, Abela IA$, Müller AM$. Antibody Response to SARS-CoV-2 Vaccination in Patients Following Allogeneic Hematopoietic Cell Transplantation. Transplantation and Cellular Therapy, 2022.
Abela IA*, Pasin C*, Schwarzmüller M*, Epp S, Sickmann ME, Schanz ME, Rusert P, Weber J, Schmutz S, Audigé A, Maliqi L, Hunziker A, Hesselman MC, Niklaus CR, Gottschalk J, Schindler E, Wepf A, Karrer U, Wolfensberger A, Rampini SK, Meyer Sauteur PM, Berger C, Huber M, Böni J, Braun DL, Marconato M, Manz MG, Frey BM, Günthard HF$, Kouyos RD$, Trkola A$. Multifactorial seroprofiling dissects the contribution of pre-existing human coronaviruses responses to SARS-CoV-2 immunity. Nature Communications, 2021.
Macedo R*, Pasin C*, Ganetsky A*, Harle D, Wang XK, Belay K, Richman LP, Huffman AP, Vonderheide RH, Yates AJ, Porter DL, Wang Y, Zhang Y, Reshef R. Vitamin D deficiency after allogeneic hematopoietic cell transplantation promotes T-cell activation and is inversely associated with an EZH2-ID3 signature. Transplantation and Cellular Therapy, 2021.
Szabo PA, Dogra P, Gray JI, Wells SB, Connors TJ, Weisberg SP, Krupska I, Matsumoto R, Poon MML, Idzikowski E, Morris SE, Pasin C, Yates AJ, Ku A, Chait M, Davis-Porada J, Zhou J, Steinle M, Mackay S, Saqi A, Baldwin MR, Sims PA, Farber DL. Longitudinal profiling of respiratory and systemic immune responses reveals myeloid cell-driven lung inflammation in severe COVID-19. Immunity, 2021.
Pasin C, Moy RH, Reshef R, Yates AJ. Variable selection methods for predicting clinical outcomes following allogeneic hematopoietic cell transplantation. Scientific Reports, 2021.
Balelli I, Pasin C, Prague M, Crauste F, Van Effelterre T, Bockstal V, Solforosi L, Thiébaut R. A model for establishment, maintenance and reactivation of the immune response after vaccination against Ebola virus. Journal of Theoretical Biology. 2020 Mar 21:110254.
Pasin C, Balelli I, Van Effelterre T, Bockstal V, Solforosi L, Prague M, Douoguih M, Thiébaut R, for the EBOVAC1 consortium. Dynamics of the humoral immune response to a prime-boost Ebola vaccine: quantification and sources of variation. Journal of Virology, 2019 : JVI-00579.
Villain L, Commenges D, Pasin C, Prague M, Thiébaut R. Adaptive protocols based on predictions from a mechanistic model of the effect of IL7 on CD4 counts. Statistics in medicine. 2019 Jan 30;38(2):221-35.
Prague M, Jeffrey MG, Balelli I, Pasin C, Li JZ, Barouch DH, Whitney JB, Hill AL. Viral rebound kinetics following single and combination immunotherapy for HIV/SIV. BioRxiv (2019): 700401.
Pasin C, Dufour F, Villain L, Zhang H, Thiébaut R. Controlling IL-7 injections in HIV-infected patients. Bulletin of Mathematical Biology, 80(9): 23449-2377, 2018.
Gross L, Lhomme E, Pasin C, Richert L, Thiébaut R. Ebola vaccine development: Systematic review of pre-clinical and clinical studies, and meta-analysis of determinants of antibody response variability after vaccination. International Journal of Infectious Diseases, 74: 83-96, 2018
Pasin C, Halloran ME, Gilbert PB, Langevin E, Ochiai RL, Pitisuttithum P, Capeding MR, Carrasquilla G, Frago C, Cortés M, Chambonneau L, Moodie Z. Periods of high dengue transmission defined by rainfall do not impact efficacy of dengue vaccine in regions of endemic disease. PLOS ONE 13(12): e0207878, 2018.
Lhomme E, Richert L, Moodie Z, Pasin C, Kalams SA, Morgan C, Self S, De Rosa SC, Thiébaut R. Early CD4+ T cell responses are associated with subsequent CD8+ T cell responses to an rAd5-based prophylactic prime-boost HIV vaccine strategy. PLOS ONE. 2016 Apr 28;11(4):e0152952.
Steinwart I, Pasin C, Williamson R, Zhang S. Elicitation and identification of properties. In Conference on Learning Theory 2014 May 29 (pp. 482-526).