{"generated_at":"2026-10-02T15:47:27Z","language":"en","note":"The portal collects no primary data; it republishes open data from public institutions. Read `limits` before drawing conclusions — it says what the data cannot tell you.","portal":{"catalogue":"https://pathogens-dev.vm.cesnet.cz/en/about/data/","name":"Pathogen Portal CZ","url":"https://pathogens-dev.vm.cesnet.cz/"},"sources":[{"coverage":"2018–2025","download_url":"https://datanzis.uzis.gov.cz/data/NR-27-ISIN/NR-27-01/Otevrena-data-NR-27-01-infekcni-nemoci.csv","format":"CSV + CSVW metadata","granularity":"month × region × ICD-10 diagnosis × age × sex","id":"uzis-isin","landing_page":"https://www.nzip.cz/data/2621-infekcni-nemoci-otevrena-data","licence":{"name":"volný přístup (otevřená data ÚZIS)","url":"https://data.gov.cz/podmínky-užití/volný-přístup/"},"limits":"Does not include COVID-19, tuberculosis, syphilis, gonorrhoea or HIV — these have their own registers. Since July 2025 some cases arrive through a new reporting channel (EWS), so series are not directly comparable across that break.","name":"Infectious diseases in Czechia (ISIN)","publisher":"ÚZIS ČR","update_frequency":"annual (the January 2026 file ends in December 2025)","used_on":[{"title":"Infectious Diseases — ISIN dashboard","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases/"},{"title":"Signals — anomaly detection","url":"https://pathogens-dev.vm.cesnet.cz/en/signals/"},{"title":"Infectious Diseases — Childhood/airborne","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-childhood/"},{"title":"Infectious Diseases — Gastrointestinal/foodborne","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-gastro/"},{"title":"Infectious Diseases — Hepatitis","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-hepatitis/"},{"title":"Infectious Diseases — Rare severe","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-rare/"},{"title":"Infectious Diseases — Skin/contact","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-skin/"},{"title":"Infectious Diseases — Tick- and animal-borne","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-vector/"},{"title":"Infectious Diseases — Other","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-other/"}]},{"coverage":"1994–2025","download_url":"https://datanzis.uzis.gov.cz/data/NR-29-RPN/NR-29-01/Otevrena-data-NR-29-01-pohlavni-nemoci.csv","format":"CSV + CSVW metadata","granularity":"year × district of residence × diagnosis × age × sex","id":"uzis-rpn","landing_page":"https://www.nzip.cz/data/2639-pohlavni-nemoci-otevrena-data","licence":{"name":"volný přístup (otevřená data ÚZIS)","url":"https://data.gov.cz/podmínky-užití/volný-přístup/"},"limits":"Only syphilis, gonorrhoea and lymphogranuloma venereum. Notified cases also rise with testing intensity; HIV is not available as open data.","name":"Register of Sexually Transmitted Diseases","publisher":"ÚZIS ČR","update_frequency":"annual","used_on":[{"title":"Infectious Diseases — Sexually transmitted","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-sti/"}]},{"coverage":"2000–2024","download_url":"https://datanzis.uzis.gov.cz/data/NR-30-RTBC/NR-30-01/Otevrena-data-NR-30-01-tuberkuloza-epidemiologie.csv","format":"CSV + CSVW metadata","granularity":"year and quarter × region × age × country of birth","id":"uzis-rtbc","landing_page":"https://www.nzip.cz/data/2671-tuberkuloza-epidemiologie-otevrena-data","licence":{"name":"volný přístup (otevřená data ÚZIS)","url":"https://data.gov.cz/podmínky-užití/volný-přístup/"},"limits":"Around 430 cases a year nationwide — differences between regions and years are largely chance. Country of birth is neither citizenship nor place of infection.","name":"Tuberculosis Register","publisher":"ÚZIS ČR","update_frequency":"annual, with a one-year lag","used_on":[{"title":"Infectious diseases — Tuberculosis","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases-tbc/"}]},{"coverage":"since March 2020","format":"CSV, API","granularity":"day; by dataset age, region, vaccination status","id":"mzcr-covid","landing_page":"https://onemocneni-aktualne.mzcr.cz/api/v2/covid-19","licence":{"name":"otevřená data MZČR","url":"https://onemocneni-aktualne.mzcr.cz/api/v2/covid-19"},"limits":"Testing strategy changed over time, so case counts from different periods are not comparable. Some datasets are archival. Since mid-August 2026 only tens of PCR tests a week are reported; most positive cases come from antigen tests.","name":"COVID-19 in Czechia — open datasets","publisher":"MZČR / ÚZIS ČR","update_frequency":"daily","used_on":[{"title":"COVID-19 Surveillance","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/covid19-surveillance/"},{"title":"COVID-19 — Age and vaccination","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/covid-demographics/"}]},{"coverage":"seasons 2012/13–present; weekly from 2024/25","format":"PDF (týdenní zprávy, sezónní archivy)","granularity":"week × virus; week × region","id":"szu-respiratory","landing_page":"https://szu.gov.cz/publikace-szu/data/akutni-respiracni-infekce-chripka/","licence":{"name":"neuvedena — zveřejněné zprávy SZÚ, uvádíme zdroj"},"limits":"Data are read from PDFs; no machine-readable export exists. Detection counts grow with testing volume and are not directly comparable between seasons. Seasons 2022/23–2023/24 are no longer online at the source; we keep them in the repository.","name":"Virological surveillance of influenza and respiratory viruses","publisher":"SZÚ — Národní referenční laboratoř pro chřipku","update_frequency":"weekly, year-round","used_on":[{"title":"Influenza and respiratory viruses","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/influenza-surveillance/"},{"title":"Influenza — regional surveillance","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/influenza-regional/"}]},{"coverage":"ILI/ARI since 2009/10; laboratory detections since 1997","format":"CSV (xMart API)","granularity":"week; ILI/ARI also by age group","id":"who-fluid-flunet","landing_page":"https://www.who.int/tools/flunet","licence":{"name":"neuvedena u datové sady — podmínky WHO, uvádíme zdroj"},"limits":"ILI and ARI are clinical diagnoses from a subset of practices, not laboratory-confirmed influenza. The covered population changes (abruptly in 2025/26). Not reported over the summer. The number of laboratory specimens tested is comparable only from the 2021/22 season on.","name":"WHO FluID and FluNet — Czech reports","publisher":"WHO","update_frequency":"weekly; delayed out of season","used_on":[{"title":"Influenza and respiratory viruses","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/influenza-surveillance/"}]},{"coverage":"Czechia since week 25/2022","download_url":"https://github.com/EU-ECDC/Respiratory_viruses_weekly_data","format":"CSV (GitHub)","granularity":"week × indicator × age group","id":"ecdc-erviss","landing_page":"https://erviss.org/","licence":{"name":"neuvedena v repozitáři — podmínky ECDC, uvádíme zdroj"},"limits":"The same Czech reports as WHO FluID, only fresher. International comparison is hampered by differing definitions and reporting delays. The number of specimens tested for SARS-CoV-2 changes its meaning in week 34/2026 and does not continue the earlier series.","name":"ERVISS — European respiratory surveillance","publisher":"ECDC / WHO Europe","update_frequency":"weekly","used_on":[{"title":"Influenza and respiratory viruses","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/influenza-surveillance/"},{"title":"COVID-19 Surveillance","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/covid19-surveillance/"}]},{"coverage":"since October 2024","download_url":"https://github.com/european-modelling-hubs/RespiCast-SyndromicIndicators","format":"CSV (GitHub)","granularity":"weekly round × target week × 23 quantiles","id":"ecdc-respicast","landing_page":"https://respicast.ecdc.europa.eu/","licence":{"name":"neuvedena — před veřejným použitím ověřit u provozovatele hubu"},"limits":"A forecast, not a measurement. For Czechia it is ~15% better than the simplest reference model, but its intervals are narrower than claimed (the 95% band contained 85% of outcomes) and it does not see the onset of a wave.","name":"RespiCast — ILI and ARI forecasts","publisher":"ECDC, ISI Foundation, LSHTM","update_frequency":"weekly","used_on":[]},{"coverage":"2000–2025","format":"CSV (DataStat API, sada PORKR01)","granularity":"year × region × sex","id":"csu-population","landing_page":"https://data.csu.gov.cz/","licence":{"name":"otevřená data ČSÚ","url":"https://csu.gov.cz/otevrena-data"},"limits":"As of 31 December, not mid-year; the difference is tenths of a percent. Age structure is not yet included, so incidences are not age-standardised.","name":"Population by region","publisher":"ČSÚ","update_frequency":"annual","used_on":[{"title":"Infectious Diseases — ISIN dashboard","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/infectious-diseases/"}]},{"coverage":"2020 – October 2022","format":"CSV","granularity":"day","id":"ecdc-covid","landing_page":"https://www.ecdc.europa.eu/en/covid-19/data","licence":{"name":"ECDC — volné použití s uvedením zdroje"},"limits":"A closed series, kept for historical reasons only.","name":"ECDC — COVID-19, historical series for Czechia","publisher":"ECDC","update_frequency":"source no longer published","used_on":[{"title":"COVID-19 Surveillance","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/covid19-surveillance/"}]},{"coverage":"—","format":"link","granularity":"—","id":"external","landing_page":"https://nextstrain.org/","licence":{"name":"podle provozovatele — data nepřebíráme, jen odkazujeme"},"limits":"They run on third-party servers outside the portal's control. The phylogenetic trees are not specific to Czechia. SZÚ wastewater data have no machine-readable export.","name":"External dashboards (Nextstrain, SZÚ wastewater)","publisher":"Nextstrain · SZÚ","update_frequency":"set by the operator","used_on":[{"title":"SARS-CoV-2 Phylogeny (Nextstrain)","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/nextstrain-sarscov2/"},{"title":"Influenza Phylogeny (Nextstrain)","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/nextstrain-influenza/"},{"title":"Wastewater Monitoring","url":"https://pathogens-dev.vm.cesnet.cz/en/dashboards/wastewater-monitoring/"}]}]}