Xin hpv infection process

resources/ResourceFile_Cervical_Cancer/parameter_values.csv

@@ -52,4 +52,4 @@ months_to_next_appt_treated_less_than_12_mo_ago,3,local,1,36,vague prior,Missing
 months_to_next_appt_treated_12_to_36_mo_ago,6,local,1,36,vague prior,Missing
 months_to_next_appt_treated_36_to_60_mo_ago,12,local,1,36,vague prior,Missing
 palliative_care_interval_months,1,local,0.5,12,vague prior,Missing
-main_polling_frequency_months,1,undetermined,1,12,design decision,N/A
+main_polling_frequency_months,1,undetermined,1,12,design decision,N/A

resources/ResourceFile_HPV/parameter_values.csv

@@ -0,0 +1,24 @@
+parameter_name,value,param_label,prior_min,prior_max,prior_note,reference
+init_prev_hpv_hr1,0.1,undetermined,0,1,calibration,"Cubie HA, Morton D, Kawonga E, Mautanga M, Mwenitete I, Teakle N, Ngwira B, Walker H, Walker G, Kafwafwa S, Kabota B, Ter Haar R, Campbell C. HPV prevalence in women attending cervical screening in rural Malawi using the cartridge-based Xpert® HPV assay. J Clin Virol. 2017 Feb;87:1-4. doi: 10.1016/j.jcv.2016.11.014. "
+init_prev_hpv_hr2,0.15,undetermined,0,1,calibration,"Cubie HA, Morton D, Kawonga E, Mautanga M, Mwenitete I, Teakle N, Ngwira B, Walker H, Walker G, Kafwafwa S, Kabota B, Ter Haar R, Campbell C. HPV prevalence in women attending cervical screening in rural Malawi using the cartridge-based Xpert® HPV assay. J Clin Virol. 2017 Feb;87:1-4. doi: 10.1016/j.jcv.2016.11.014. "
+init_prev_hpv_hr3,0.15,undetermined,0,1,calibration,"Cubie HA, Morton D, Kawonga E, Mautanga M, Mwenitete I, Teakle N, Ngwira B, Walker H, Walker G, Kafwafwa S, Kabota B, Ter Haar R, Campbell C. HPV prevalence in women attending cervical screening in rural Malawi using the cartridge-based Xpert® HPV assay. J Clin Virol. 2017 Feb;87:1-4. doi: 10.1016/j.jcv.2016.11.014. "
+b_hpv,0.8,undetermined,0,1,calibration,N/A
+rr_hpv_hiv_no_art,2.6,undetermined,0,1,calibration,"Liu G, Sharma M, Tan N, Barnabas RV. HIV-positive women have higher risk of human papilloma virus infection, precancerous lesions, and cervical cancer. AIDS. 2018 Mar 27;32(6):795-808. doi: 10.1097/QAD.0000000000001765. PMID: 29369827; PMCID: PMC5854529."
+rr_hr1_vaccinated,0.1,undetermined,0,1,calibration,"Basu P, et al. Vaccine efficacy against persistent human papillomavirus (HPV) 16/18 infection at 10 years after one, two, and three doses of quadrivalent HPV vaccine in girls in India: a multicentre, prospective, cohort study. Lancet Oncol. 2021 Nov;22(11):1518-1529. doi: 10.1016/S1470-2045(21)00453-8. Epub 2021 Oct 8. Erratum in: Lancet Oncol. 2022 Jan;23(1):e16. doi: 10.1016/S1470-2045(21)00700-2. "
+rr_hr2_vaccinated,0.5,undetermined,0,1,calibration,N/A
+rr_hr3_vaccinated,0.8,undetermined,0,1,calibration,N/A
+rr_hpv_age50plus,0.5,undetermined,0,1,calibration,N/A
+median_clear_hr1,16,undetermined,0,1,calibration,"Muñoz N, Méndez F, Posso H, Molano M, van den Brule AJ, Ronderos M, Meijer C, Muñoz A; Instituto Nacional de Cancerologia HPV Study Group. Incidence, duration, and determinants of cervical human papillomavirus infection in a cohort of Colombian women with normal cytological results. J Infect Dis. 2004 Dec 15;190(12):2077-87. doi: 10.1086/425907. Epub 2004 Nov 22. PMID: 15551205."
+median_clear_hr2,14,undetermined,0,1,calibration,"Muñoz N, Méndez F, Posso H, Molano M, van den Brule AJ, Ronderos M, Meijer C, Muñoz A; Instituto Nacional de Cancerologia HPV Study Group. Incidence, duration, and determinants of cervical human papillomavirus infection in a cohort of Colombian women with normal cytological results. J Infect Dis. 2004 Dec 15;190(12):2077-87. doi: 10.1086/425907. Epub 2004 Nov 22. PMID: 15551205."
+median_clear_hr3,12,undetermined,0,1,calibration,"Muñoz N, Méndez F, Posso H, Molano M, van den Brule AJ, Ronderos M, Meijer C, Muñoz A; Instituto Nacional de Cancerologia HPV Study Group. Incidence, duration, and determinants of cervical human papillomavirus infection in a cohort of Colombian women with normal cytological results. J Infect Dis. 2004 Dec 15;190(12):2077-87. doi: 10.1086/425907. Epub 2004 Nov 22. PMID: 15551205."
+clear_shape,0.8,undetermined,0,1,calibration,N/A
+rr_clear_hiv_no_art,0.72,undetermined,0,1,calibration,"Liu G, Sharma M, Tan N, Barnabas RV. HIV-positive women have higher risk of human papilloma virus infection, precancerous lesions, and cervical cancer. AIDS. 2018 Mar 27;32(6):795-808. doi: 10.1097/QAD.0000000000001765.
+"
+age_mixing_within,0.7,undetermined,0,1,calibration,"Reed DM. Age-disparate and intergenerational sex partnerships and HIV: the role of gender norms among adolescent girls and young women in Malawi. BMC Public Health. 2024 Feb 22;24(1):575. doi: 10.1186/s12889-024-17868-5. 
+"
+age_mixing_adjacent,0.23,undetermined,0,1,calibration,"Reed DM. Age-disparate and intergenerational sex partnerships and HIV: the role of gender norms among adolescent girls and young women in Malawi. BMC Public Health. 2024 Feb 22;24(1):575. doi: 10.1186/s12889-024-17868-5. 
+"
+age_mixing_distant,0.07,undetermined,0,1,calibration,"Reed DM. Age-disparate and intergenerational sex partnerships and HIV: the role of gender norms among adolescent girls and young women in Malawi. BMC Public Health. 2024 Feb 22;24(1):575. doi: 10.1186/s12889-024-17868-5. 
+"
+hpv_event_frequency_months,6,undetermined,0,1,calibration,N/A
+persistent_threshold_months,12,undetermined,0,1,calibration,N/A