Article Inclusion & Exclusion

If you're unsure as to whether to extract data from an article because of the nature of the article itself, please refer to the inclusion and exclusion criteria below.

INCLUSION CRITERIA:

• Language: English
• Form/Study Type: peer-reviewed, original research (but please tag all systematic reviews and meta-analyses in Covidence, before excluding them)
• Participants/Population: human (genomic studies with animal samples are allowed provided that the majority of samples are human)
• Contents: any one of the following

1. Mention of any human outbreak that has concluded -- size, year, location, duration, spatial scale (local, regional, national, international)​
2. Mathematical or statistical model of transmission​
3. Measures/estimates of human: R, R0, Rt, r, Re, growth rate, generation time, serial interval, incubation/latent period, other human delays, CFR, attack rate, mutation rate, substitution rate, evolutionary rate, overdispersion, risk factors (risk and the measure), seroprevalence
4. Relative transmission contribution from human-to-human versus zoonotic​, mosquito delays, mosquito reproduction numbers

Note: studies that mention concluded human outbreaks (and associated descriptors) are included even if there is no transmission model or parameters of interest

EXCLUSION CRITERIA:

• Language: non-English
• Form/Study Type: posters, conference proceedings, correspondence, literature reviews, meta-analyses (but please tag all systematic reviews and meta-analyses in Covidence!), abstract-only
• Participants/Population: in-vitro studies, solely animal studies (except possibly for MERS and similar pathogens)
• Case studies with less than 10 cases

ZIKA-SPECIFIC:

• Studies with mosquito-specific reproduction numbers, extrinsic incubation period, risk factors for microcephaly, Guillain-Barre syndrome, and other neurological symptoms, Zika congenital syndrome/microcephaly risk, and miscarriage rate were included

TBC BY PATHOGEN:

• Should (clinical) case reports and/or case series be included (these might be worth considering for diseases with limited data)?
• Should animal studies be included?
• What are accidental outbreaks​?
• What animal parameters (if any) should be extracted? e.g., R, R0, Rt, r, Re, growth rate, mutation rate ...