Diarrhoea (.xlsx)

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Parameter_values

	parameter_name	value	Notes/References	Unnamed: 3	Target values for 12 monthly incidence rate	Unnamed: 5	Unnamed: 6
0	base_inc_rate_diarrhoea_by_rotavirus	[0.175245863,0.097007598,0.009324]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.175245863	0.097007598	0.009324
1	base_inc_rate_diarrhoea_by_shigella	[0.117936461999999,0.078794104,0.093018]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.117936461999999	0.078794104	0.093018
2	base_inc_rate_diarrhoea_by_adenovirus	[0.0586618,0.058661803,0.006438]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.0586618	0.058661803	0.006438
3	base_inc_rate_diarrhoea_by_cryptosporidium	[0.030886699,0.0117923629999999,0.004662]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.030886699	0.0117923629999999	0.004662
4	base_inc_rate_diarrhoea_by_campylobacter	[0.098663257,0.027915478,0.004884]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.098663257	0.027915478	0.004884
5	base_inc_rate_diarrhoea_by_ETEC	[0.27925146,0.170477152,0.019758]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.27925146	0.170477152	0.019758
6	base_inc_rate_diarrhoea_by_sapovirus	[0.100972179,0.132603114,0.00555]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.100972179	0.132603114	0.00555
7	base_inc_rate_diarrhoea_by_norovirus	[0.204864004,0.066146727,0.000888]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.204864004	0.066146727	0.000888
8	base_inc_rate_diarrhoea_by_astrovirus	[0.054208352,0.035974076,0.001332]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.054208352	0.035974076	0.001332
9	base_inc_rate_diarrhoea_by_tEPEC	[0.0608224569999999,0.022716889,0.001998]	Platts-Mills et al 2018, Liu et al, 2016, Nasin, et al. 2019		0.0608224569999999	0.022716889	0.001998
10	rr_diarrhoea_HHhandwashing	0.7	Wolf et al. 2018
11	rr_diarrhoea_improved_sanitation	0.75	Wolf et al. 2018
12	rr_diarrhoea_clean_water	0.67	Wolf et al. 2018
13	rr_diarrhoea_exclusive_vs_partial_breastfeeding_<6mo	1.68	Lamberti et al. 2011
14	rr_diarrhoea_exclusive_vs_no_breastfeeding_<6mo	2.65	Lamberti et al. 2011
15	rr_diarrhoea_any_vs_no_breastfeeding_6_11mo	1.32	Lamberti et al. 2011
16	rr_diarrhoea_untreated_HIV	5.4	Groome and Madhi 2011
17	rr_diarrhoea_SAM	1.2	Black et al. 2013
18
19	proportion_AWD_in_rotavirus	0.97668	Platts-Mills et al 2018
20	proportion_AWD_in_shigella	0.861942	Platts-Mills et al 2018
21	proportion_AWD_in_adenovirus	0.950061	Platts-Mills et al 2018
22	proportion_AWD_in_cryptosporidium	0.970984	Platts-Mills et al 2018
23	proportion_AWD_in_campylobacter	0.896768	Platts-Mills et al 2018
24	proportion_AWD_in_ETEC	0.950465	Platts-Mills et al 2018
25	proportion_AWD_in_sapovirus	0.966385	Platts-Mills et al 2018
26	proportion_AWD_in_norovirus	0.961643	Platts-Mills et al 2018
27	proportion_AWD_in_astrovirus	0.974147	Platts-Mills et al 2018
28	proportion_AWD_in_tEPEC	0.961485	Platts-Mills et al 2018
29
30	prob_dehydration_by_rotavirus	0.153093	Platts-Mills et al 2018
31	prob_dehydration_by_shigella	0.102962	Platts-Mills et al 2018
32	prob_dehydration_by_adenovirus	0.079524	Platts-Mills et al 2018
33	prob_dehydration_by_cryptosporidium	0.121458	Platts-Mills et al 2018
34	prob_dehydration_by_campylobacter	0.072808	Platts-Mills et al 2018
35	prob_dehydration_by_ETEC	0.075925	Platts-Mills et al 2018
36	prob_dehydration_by_sapovirus	0.10364	Platts-Mills et al 2018
37	prob_dehydration_by_norovirus	0.090728	Platts-Mills et al 2018
38	prob_dehydration_by_astrovirus	0.122776	Platts-Mills et al 2018
39	prob_dehydration_by_tEPEC	0.113362	Platts-Mills et al 2018
40	probability_of_severe_dehydration_if_some_dehydration	0.167	Levine et al. 2016
41
42	prob_prolonged_diarr_rotavirus	0.117706	Platts-Mills et al 2018
43	prob_prolonged_diarr_shigella	0.165342	Platts-Mills et al 2018
44	prob_prolonged_diarr_adenovirus	0.116406	Platts-Mills et al 2018
45	prob_prolonged_diarr_cryptosporidium	0.169134	Platts-Mills et al 2018
46	prob_prolonged_diarr_campylobacter	0.152206	Platts-Mills et al 2018
47	prob_prolonged_diarr_ETEC	0.114177	Platts-Mills et al 2018
48	prob_prolonged_diarr_sapovirus	0.133209	Platts-Mills et al 2018
49	prob_prolonged_diarr_norovirus	0.118223	Platts-Mills et al 2018
50	prob_prolonged_diarr_astrovirus	0.13511	Platts-Mills et al 2018
51	prob_prolonged_diarr_tEPEC	0.190845	Platts-Mills et al 2018
52	prob_prolonged_to_persistent_diarr	0.2866	Moore et al. 2010
53	rr_bec_persistent_age>6mo	0.26	Ochoa et al. 2009
54	rr_bec_persistent_HIV	1.7	* dummy
55	rr_bec_persistent_SAM	1.7	* dummy
56	rr_bec_persistent_stunted	33.3	Schilling et al 2017
57	min_dur_acute	1	* definitional
58	min_dur_prolonged	5	* definitional
59	min_dur_persistent	13	* definitional
60	max_dur_persistent	30	* definitional
61
62	prob_fever_by_rotavirus	0.384925	Platts-Mills et al 2018
63	prob_fever_by_shigella	0.319876	Platts-Mills et al 2018
64	prob_fever_by_adenovirus	0.271513	Platts-Mills et al 2018
65	prob_fever_by_cryptosporidium	0.322385	Platts-Mills et al 2018
66	prob_fever_by_campylobacter	0.312807	Platts-Mills et al 2018
67	prob_fever_by_ETEC	0.258931	Platts-Mills et al 2018
68	prob_fever_by_sapovirus	0.292276	Platts-Mills et al 2018
69	prob_fever_by_norovirus	0.251071	Platts-Mills et al 2018
70	prob_fever_by_astrovirus	0.195905	Platts-Mills et al 2018
71	prob_fever_by_tEPEC	0.384547	Platts-Mills et al 2018
72	prob_vomiting_by_rotavirus	0.471793	Platts-Mills et al 2018
73	prob_vomiting_by_shigella	0.209852	Platts-Mills et al 2018
74	prob_vomiting_by_adenovirus	0.308677	Platts-Mills et al 2018
75	prob_vomiting_by_cryptosporidium	0.243581	Platts-Mills et al 2018
76	prob_vomiting_by_campylobacter	0.218669	Platts-Mills et al 2018
77	prob_vomiting_by_ETEC	0.283139	Platts-Mills et al 2018
78	prob_vomiting_by_sapovirus	0.303154	Platts-Mills et al 2018
79	prob_vomiting_by_norovirus	0.299343	Platts-Mills et al 2018
80	prob_vomiting_by_astrovirus	0.276018	Platts-Mills et al 2018
81	prob_vomiting_by_tEPEC	0.285661	Platts-Mills et al 2018
82
83	adjustment_factor_on_cfr	3.75	Can be used in fitting.
84	case_fatality_rate_AWD	0.0015	To be calibrated. Guideline values: Bhandari et al 1992 (0.0056); GBD 2016 paper (0.0015)
85	rr_diarr_death_bloody	7.6	Relative CFR for bloody versus non-bloody diarrhoea, per Bhandari et al., 1992
86	rr_diarr_death_age24to59mo	0.38	Walker et al. 2013
87	rr_diarr_death_if_duration_longer_than_13_days	0.0035	* dummy
88	rr_diarr_death_severe_dehydration	3.45	Levine et al. 2020
89	rr_diarr_death_untreated_HIV	5.05	Acacio et al. 2016
90	rr_diarr_death_SAM	4.13	Acacio et al. 2016
91	rr_diarr_death_alri	3.51	Acacio et al. 2016
92	rr_diarr_death_cryptosporidium	2.14	Acacio et al. 2016
93	rr_diarr_death_shigella	2.8	Tickell et al. 2017
94
95	sensitivity_severe_dehydration_visual_inspection	0.77	Levine et al. 2016
96	specificity_severe_dehydration_visual_inspection	0.67	Levine et al. 2016
97	prob_hospitalization_on_danger_signs	0.7	* dummy
98
99	prob_WHOPlanC_cures_dehydration_if_severe_dehydration	0.9	* dummy
100	prob_ORS_cures_dehydration_if_severe_dehydration	0.721	Pulungsih et al 1992
101	prob_ORS_cures_dehydration_if_non_severe_dehydration	0.93	Munos et al. 2010
102	prob_antibiotic_cures_dysentery	0.99	Traa et al. 2010
103	number_of_days_reduced_duration_with_zinc	1	Lazzerini and Wanzira et al 2016
104	days_between_treatment_and_cure	5
105
106	rr_severe_dehydration_due_to_rotavirus_with_R1_under1yo	0.63	Soares-Weiser et al. 2019
107	rr_severe_dehydration_due_to_rotavirus_with_R1_over1yo	0.35	Soares-Weiser et al. 2019