From 185766e9fbb546060feeee5c9cad0675339dc92b Mon Sep 17 00:00:00 2001 From: Ziip-dev <62331138+Ziip-dev@users.noreply.github.com> Date: Tue, 7 May 2024 13:58:27 +0200 Subject: [PATCH] Modify serology data visualisations Change data visualisation sources from Vega-Lite to Plotly. --- .../english/dashboards/serology-statistics.md | 25 ++++++++++--------- .../svenska/dashboards/serology-statistics.md | 25 ++++++++++--------- 2 files changed, 26 insertions(+), 24 deletions(-) diff --git a/content/english/dashboards/serology-statistics.md b/content/english/dashboards/serology-statistics.md index f381adce..d5e965ce 100644 --- a/content/english/dashboards/serology-statistics.md +++ b/content/english/dashboards/serology-statistics.md @@ -14,6 +14,7 @@ menu: aliases: - /data_types/health_data/serology-statistics/ dashboards_topics: [COVID-19, Infectious diseases] +plotly: true ---
@@ -51,10 +52,14 @@ The number of SARS-CoV-2 serology tests completed by the SciLifeLab Autoimmunity Scroll the plot sideways to view all of the data.
-
-
+
+
{{< plotly json="https://blobserver.dc.scilifelab.se/blob/weekly_serology_tests.json" height="550px" >}}
+**Download the data:** [Serology-testing-statistics-dataset-20202021.csv](https://blobserver.dc.scilifelab.se/blob/Serology-testing-statistics-dataset-20202021.csv) + +**Code used to produce plot:** [Script to produce plot](https://github.com/ScilifelabDataCentre/pathogens-portal-visualisations/blob/main/serology/weekly-serology-tests.py). + ## Cumulative serology tests The cumulative number of positive, negative, and research & development (R&D) SARS-CoV-2 serology tests completed over time at the SciLifeLab Autoimmunity and Serology Profiling unit. @@ -63,10 +68,14 @@ The cumulative number of positive, negative, and research & development (R&D) SA Scroll the plot sideways to view all of the data.
-
-
+
+
{{< plotly json="https://blobserver.dc.scilifelab.se/blob/cumulative_serology_tests.json" height="550px" >}}
+**Download the data:** [Serology-testing-statistics-dataset-20202021.csv](https://blobserver.dc.scilifelab.se/blob/Serology-testing-statistics-dataset-20202021.csv) + +**Code used to produce plot:** [Script to produce plot](https://github.com/ScilifelabDataCentre/pathogens-portal-visualisations/blob/main/serology/cumulative-serology-tests.py). + #### About serology testing at the Autoimmunity and Serology Profiling unit Early in the COVID-19 pandemic, work was initiated to [develop a serological assay](https://www.scilifelab.se/capabilities/pandemic-laboratory-preparedness/pandemic-response/other-scilifelab-efforts/serology/) for large scale testing of plasma and serum samples for antibodies against SARS-CoV-2. The work was undertaken by three research groups at [the Department of Protein Science, KTH Royal Institute of Technology (KTH)](https://www.kth.se/pro) and the [Autoimmunity and Serology Profiling unit](https://www.scilifelab.se/facilities/autoimmunity-profiling/) at [SciLifeLab](https://www.scilifelab.se). @@ -74,11 +83,3 @@ Early in the COVID-19 pandemic, work was initiated to [develop a serological ass By comparing and combining a large number of variants of SARS-CoV-2 proteins as antigens, a [highly sensitive and specific multiplex bead-based assay](https://doi.org/10.1002/cti2.1312) was established. The high-throughput assay can be used to process up to 8000 samples per week. The vast majority of samples analysed to date originated from healthcare personnel, population-based studies, personnel in the pharmaceutical and biotechnology industry, and from within multiple research collaborations. Collaborators and sample providers include the community study at Danderyd University Hospital ([see news involving a follow-up study at Danderyd University Hospital](https://www.scilifelab.se/news/four-out-of-five-still-have-antibodies-against-sars-cov-2)), Karolinska University Hospital, Uppsala University Hospital, Skåne University Hospital, Örebro University Hospital, Sophiahemmet Hospital, Public Health Agency of Sweden, RISE (Research Institutes of Sweden), AstraZeneca, Cytiva, SVPH, Karolinska Institutet, KTH, Uppsala University, and Lund University. Check out the [Autoimmunity and Serology Profiling unit page](https://www.scilifelab.se/units/autoimmunity-profiling/) on the SciLifeLab website to find out more about the unit itself. Publications produced by studies making use of the unit are available in the [SciLifeLab Infrastructure Publications database](https://publications.scilifelab.se/label/Autoimmunity%20and%20Serology%20Profiling). - - - - - - - - diff --git a/content/svenska/dashboards/serology-statistics.md b/content/svenska/dashboards/serology-statistics.md index 58bde2dd..f9bd68bb 100644 --- a/content/svenska/dashboards/serology-statistics.md +++ b/content/svenska/dashboards/serology-statistics.md @@ -9,6 +9,7 @@ menu: name: SARS-CoV-2 antikoppstester som utförts av SciLifeLab aliases: - /sv/data_types/health_data/serology-statistics/ +plotly: true ---
@@ -46,10 +47,14 @@ Antalet SARS-CoV-2 serologitester som SciLifeLab Autoimmunity and Serology Profi Att rotera mobiltelefonen kan förbättra grafens layout
-
-
+
+
{{< plotly json="https://blobserver.dc.scilifelab.se/blob/weekly_serology_tests.json" height="550px" >}}
+**Ladda ner data:** [Serology-testing-statistics-dataset-20202021.csv](https://blobserver.dc.scilifelab.se/blob/Serology-testing-statistics-dataset-20202021.csv) + +**Kod som används för att producera plot:** [Skript för att producera plot](https://github.com/ScilifelabDataCentre/pathogens-portal-visualisations/blob/main/serology/weekly-serology-tests.py). + ## Kumulativa serologiska tester Det kumulativa antalet positiva, negativa och forsknings- och utvecklingstester (R&D) av SARS-CoV-2-serologi som slutförts över tid vid SciLifeLab Autoimmunity and Serology Profiling-enheten. @@ -58,10 +63,14 @@ Det kumulativa antalet positiva, negativa och forsknings- och utvecklingstester Att rotera mobiltelefonen kan förbättra grafens layout
-
-
+
+
{{< plotly json="https://blobserver.dc.scilifelab.se/blob/cumulative_serology_tests.json" height="550px" >}}
+**Ladda ner data:** [Serology-testing-statistics-dataset-20202021.csv](https://blobserver.dc.scilifelab.se/blob/Serology-testing-statistics-dataset-20202021.csv) + +**Kod som används för att producera plot:** [Skript för att producera plot]](https://github.com/ScilifelabDataCentre/pathogens-portal-visualisations/blob/main/serology/cumulative-serology-tests.py). + #### Om serologisk testning vid enheten för Autoimmunity and Serology Profiling Tidigt under covid-19-pandemin inleddes arbetet med att [utveckla en serologisk analys](https://www.scilifelab.se/capabilities/pandemic-laboratory-preparedness/pandemic-response/other-scilifelab-efforts/serology/) för storskalig testning av plasma- och serumprover för antikroppar mot SARS-CoV-2. Arbetet utfördes av tre forskargrupper vid [institutionen för proteinvetenskap, Kungliga Tekniska Högskolan (KTH)](https://www.kth.se/sv/pro/protein-science-1.784558) och [enheten för autoimmunitet och serologisk profilering](https://www.scilifelab.se/facilities/autoimmunity-profiling/) vid [SciLifeLab](https://www.scilifelab.se). @@ -69,11 +78,3 @@ Tidigt under covid-19-pandemin inleddes arbetet med att [utveckla en serologisk Genom att jämföra och kombinera ett stort antal varianter av SARS-CoV-2-proteiner som antigener etablerades en [mycket känslig och specifik så kallad multiplex bead-based assay](https://doi.org/10.1002/cti2.1312). Assayen med hög kapacitet kan användas för att bearbeta upp till 8000 prover per vecka. De allra flesta prover som hittills har analyserats kommer från vårdpersonal, befolkningsbaserade studier, personal inom läkemedels- och bioteknikindustrin samt från flera olika forskningssamarbeten. Samarbetspartners och provleverantörer inkluderar samhällsstudien vid Danderyds universitetssjukhus ([se nyhet om uppföljningsstudie vid Danderyds universitetssjukhus](https://www.scilifelab.se/news/four-out-of-five-still-have-antibodies-against-sars-cov-2)), Karolinska universitetssjukhuset, Akademiska sjukhuset i Uppsala, Skånes universitetssjukhus, Universitetssjukhuset Örebro, Sophiahemmet, Folkhälsomyndigheten, RISE (Research Institutes of Sweden), AstraZeneca, Cytiva, SVPH, Karolinska Institutet, KTH, Uppsala universitet och Lunds universitet. Kolla in [Autoimmunity and Serology Profiling unit page](https://www.scilifelab.se/units/autoimmunity-profiling/) på SciLifeLabs webbplats för att få reda på mer om själva enheten. Publikationer som producerats av studier som använder enheten finns tillgängliga i databasen [SciLifeLab Infrastructure Publications](https://publications.scilifelab.se/label/Autoimmunity%20and%20Serology%20Profiling). - - - - - - - -