From 52270277caea58590201eb56485f958ccfcb7f53 Mon Sep 17 00:00:00 2001 From: Senthilkumar Panneerselvam Date: Wed, 5 Apr 2023 11:22:34 +0200 Subject: [PATCH 1/5] Available data march --- data/available_datasets.json | 119 ++++++++++++++++++++++++++++++++++- 1 file changed, 118 insertions(+), 1 deletion(-) diff --git a/data/available_datasets.json b/data/available_datasets.json index 6b7c48b54..071b1da0f 100644 --- a/data/available_datasets.json +++ b/data/available_datasets.json @@ -1,6 +1,123 @@ { - "last_updated": "2023-03-03", + "last_updated": "2023-04-05", "datasets": [ + { + "doi": "10.2807/1560-7917.ES.2023.28.11.2200673", + "available_items": [ + { + "type": "data", + "repo_name": "ENA", + "accession_number": "PRJEB58691", + "description": "Legionella isolates sequencing data", + "data_type": [ + "Genomics & transcriptomics data" + ], + "data_url": "https://www.ebi.ac.uk/ena/browser/view/PRJEB58691" + } + ], + "title": "Tap water as the source of a Legionnaires’ disease outbreak spread to several residential buildings and one hospital, Finland, 2020 to 2021", + "issue": "11", + "volume": "28", + "publisher": "European Centre for Disease Control and Prevention (ECDC)", + "published": "2023-03-16", + "author": [ + "Mentula S.", + "Kääriäinen S.", + "Jaakola S.", + "Niittynen M.", + "Airaksinen P." + ] + }, + { + "doi": "10.1016/j.tbench.2023.100088", + "available_items": [ + { + "type": "data", + "repo_name": "Mendeley Data", + "accession_number": "", + "description": "COVID19, Pneumonia and Normal Chest X-ray PA Dataset", + "data_type": [ + "Public health data" + ], + "data_url": "https://data.mendeley.com/datasets/mxc6vb7svm" + }, + { + "type": "code", + "repo_name": "GitHub", + "accession_number": "", + "description": "Scripts used in this project to analyse the datasets", + "data_type": [ + "Public health data" + ], + "data_url": "https://github.com/Asraf047/COVID19-CNN-RNN" + } + ], + "title": "Diagnosis of COVID-19 from X-rays using combined CNN-RNN architecture with transfer learning", + "issue": "4", + "volume": "2", + "publisher": "Elsevier BV", + "published": "2023-03-27", + "author": [ + "Islam M. M.", + "Islam M. Z.", + "Asraf A.", + "Al-Rakhami M. S.", + "Ding W." + ] + }, + { + "doi": "10.1371/journal.pgph.0001110", + "available_items": [ + { + "type": "data", + "repo_name": "FigShare", + "accession_number": "", + "description": "Fully anonymised data from two cross-sectional surveys", + "data_type": [ + "Public health data", + "Other data" + ], + "data_url": "https://figshare.com/articles/dataset/Community_survey_data_from_the_DClare_Project_Faridpur_District_Bangladesh/19337831/1" + } + ], + "title": "Changes in non-communicable diseases, diet and exercise in a rural Bangladesh setting before and after the first wave of COVID-19", + "issue": "9", + "volume": "2", + "publisher": "Public Library of Science (PLoS)", + "published": "2022-09-30", + "author": [ + "King C.", + "Shaha S. K.", + "Morrison J.", + "Ahmed N.", + "Kuddus A." + ] + }, + { + "doi": "10.1371/journal.pgph.0001204 ", + "available_items": [ + { + "type": "data", + "repo_name": "Zenodo", + "accession_number": "", + "description": "Municipal-level vaccination data compiled from several publicly available data sources", + "data_type": [ + "Public health data" + ], + "data_url": "https://zenodo.org/record/6983689#YvVPOHZBw2z" + } + ], + "title": "Variations in vaccination uptake: COVID-19 vaccination rates in Swedish municipalities", + "issue": "10", + "volume": "2", + "publisher": "Public Library of Science (PLoS)", + "published": "2022-10-20", + "author": [ + "Larsson E. C.", + "Wittberg E.", + "Lundåsen S. W." + ] + }, { "doi": "10.3390/ijerph20043642", "available_items": [ From 554752f5eeb57ecaa919cfe985485915147a140d Mon Sep 17 00:00:00 2001 From: LianeHughes <68756672+LianeHughes@users.noreply.github.com> Date: Thu, 6 Apr 2023 06:26:39 +0200 Subject: [PATCH 2/5] Add notice about vaccination message --- content/english/dashboards/vaccines.md | 5 +++++ content/svenska/dashboards/vaccines.md | 2 +- 2 files changed, 6 insertions(+), 1 deletion(-) diff --git a/content/english/dashboards/vaccines.md b/content/english/dashboards/vaccines.md index bd346f0f9..db2382a13 100644 --- a/content/english/dashboards/vaccines.md +++ b/content/english/dashboards/vaccines.md @@ -11,6 +11,11 @@ aliases: - /data_types/health_data/vaccines/ --- +
+  +  The data on this page is no longer updated at the data source. We are currently assessing the use of other data sources for vaccine data. Please see our RECOVAC dashboard for information on vaccine effectiveness and safety. +
+ ## General information on COVID-19 vaccines Over the last two years, the COVID-19 pandemic has challenged societies and healthcare systems worldwide. In response, vaccines and therapeautic treatments have been rapidly developed. To date (October 2022), the [European Medicines Agency (EMA)](https://www.ema.europa.eu/en) has approved six vaccines against COVID-19: diff --git a/content/svenska/dashboards/vaccines.md b/content/svenska/dashboards/vaccines.md index 2daedcb29..ff7a6d9ec 100644 --- a/content/svenska/dashboards/vaccines.md +++ b/content/svenska/dashboards/vaccines.md @@ -13,7 +13,7 @@ aliases: ---
  -  En svensk översättning av denna sida kommer inom kort. +  Uppgifterna på den här sidan uppdateras inte längre vid datakällan. Vi utvärderar för närvarande användningen av andra datakällor för vaccindata. Se vår RECOVAC dashboard för mer information om vaccin effektivitet och säkerhet (denna dashboard är endast tillgänglig på engelska).
## General information on COVID-19 vaccines From ebc6a603eafce7c4849d66b5f79a52678d955bd3 Mon Sep 17 00:00:00 2001 From: LianeHughes <68756672+LianeHughes@users.noreply.github.com> Date: Thu, 6 Apr 2023 06:33:12 +0200 Subject: [PATCH 3/5] add wastewater event --- data/events.json | 11 +++++++++++ 1 file changed, 11 insertions(+) diff --git a/data/events.json b/data/events.json index 2671cff03..7248b8f11 100644 --- a/data/events.json +++ b/data/events.json @@ -99,6 +99,17 @@ "event_url": "https://www.uac.uu.se/calendar/event/?eventId=77720", "description": "Webinar from the Uppsala Antibiotic Center by the keynote speaker indicated. Please see the website for more details closer to the event date. No registration needed unless indicated otherwise on the Uppsala Antibiotic Center page." }, + { + "title": "Drugs, pharmaceuticals and contaminants: What wastewater can reveal about your neighbours", + "type": "Seminar", + "date_start": "2023-05-03", + "time_start": "12:00", + "time_end": "12:45", + "venue": "Stockholm", + "organisers": "WaterCentre at KTH", + "event_url": "https://www.kth.se/form/watercentre-kth-lunch-seminar-3-may-2023", + "description": "Are you interested in Water Research? Join WaterCentre@KTH's lunch seminar with Lluís Corominas from Catalan Institute for Water Research (ICRA)." + }, { "title": "Vad innebär den nya biobankslagen", "type": "Webinar", From a18131068c34144cdf0835d39d78a6e517b90022 Mon Sep 17 00:00:00 2001 From: LianeHughes <68756672+LianeHughes@users.noreply.github.com> Date: Thu, 6 Apr 2023 06:51:38 +0200 Subject: [PATCH 4/5] Removed non COVID data data and where data link not working --- data/available_datasets.json | 58 ++---------------------------------- 1 file changed, 3 insertions(+), 55 deletions(-) diff --git a/data/available_datasets.json b/data/available_datasets.json index 071b1da0f..bc1371d9f 100644 --- a/data/available_datasets.json +++ b/data/available_datasets.json @@ -1,33 +1,6 @@ { "last_updated": "2023-04-05", "datasets": [ - { - "doi": "10.2807/1560-7917.ES.2023.28.11.2200673", - "available_items": [ - { - "type": "data", - "repo_name": "ENA", - "accession_number": "PRJEB58691", - "description": "Legionella isolates sequencing data", - "data_type": [ - "Genomics & transcriptomics data" - ], - "data_url": "https://www.ebi.ac.uk/ena/browser/view/PRJEB58691" - } - ], - "title": "Tap water as the source of a Legionnaires’ disease outbreak spread to several residential buildings and one hospital, Finland, 2020 to 2021", - "issue": "11", - "volume": "28", - "publisher": "European Centre for Disease Control and Prevention (ECDC)", - "published": "2023-03-16", - "author": [ - "Mentula S.", - "Kääriäinen S.", - "Jaakola S.", - "Niittynen M.", - "Airaksinen P." - ] - }, { "doi": "10.1016/j.tbench.2023.100088", "available_items": [ @@ -35,9 +8,9 @@ "type": "data", "repo_name": "Mendeley Data", "accession_number": "", - "description": "COVID19, Pneumonia and Normal Chest X-ray PA Dataset", + "description": "COVID19, Pneumonia, and Normal Chest X-ray Posteroanterior Dataset", "data_type": [ - "Public health data" + "Health data" ], "data_url": "https://data.mendeley.com/datasets/mxc6vb7svm" }, @@ -47,7 +20,7 @@ "accession_number": "", "description": "Scripts used in this project to analyse the datasets", "data_type": [ - "Public health data" + "Health data" ], "data_url": "https://github.com/Asraf047/COVID19-CNN-RNN" } @@ -93,31 +66,6 @@ "Kuddus A." ] }, - { - "doi": "10.1371/journal.pgph.0001204 ", - "available_items": [ - { - "type": "data", - "repo_name": "Zenodo", - "accession_number": "", - "description": "Municipal-level vaccination data compiled from several publicly available data sources", - "data_type": [ - "Public health data" - ], - "data_url": "https://zenodo.org/record/6983689#YvVPOHZBw2z" - } - ], - "title": "Variations in vaccination uptake: COVID-19 vaccination rates in Swedish municipalities", - "issue": "10", - "volume": "2", - "publisher": "Public Library of Science (PLoS)", - "published": "2022-10-20", - "author": [ - "Larsson E. C.", - "Wittberg E.", - "Lundåsen S. W." - ] - }, { "doi": "10.3390/ijerph20043642", "available_items": [ From 2a6e0ff57fb7e902239c39de467c1d839992a3fc Mon Sep 17 00:00:00 2001 From: LianeHughes <68756672+LianeHughes@users.noreply.github.com> Date: Thu, 6 Apr 2023 07:44:03 +0200 Subject: [PATCH 5/5] add back in vaccines data --- data/available_datasets.json | 25 +++++++++++++++++++++++++ 1 file changed, 25 insertions(+) diff --git a/data/available_datasets.json b/data/available_datasets.json index bc1371d9f..65e98f20d 100644 --- a/data/available_datasets.json +++ b/data/available_datasets.json @@ -66,6 +66,31 @@ "Kuddus A." ] }, + { + "doi": "10.1371/journal.pgph.0001204", + "available_items": [ + { + "type": "data", + "repo_name": "Zenodo", + "accession_number": "", + "description": "Municipal-level vaccination data compiled from several publicly available data sources", + "data_type": [ + "Public health data" + ], + "data_url": "https://zenodo.org/record/6983689#YvVPOHZBw2z" + } + ], + "title": "Variations in vaccination uptake: COVID-19 vaccination rates in Swedish municipalities", + "issue": "10", + "volume": "2", + "publisher": "Public Library of Science (PLoS)", + "published": "2022-10-20", + "author": [ + "Larsson E. C.", + "Wittberg E.", + "Lundåsen S. W." + ] + }, { "doi": "10.3390/ijerph20043642", "available_items": [