Add IDTk in the corresponding pages (#1559)

* Add IDTk in the corresponding pages Add IDTk link in: - Human pathogen data - COVID-19 Data Portal * Update COVID-19 Data Portal page Update COVID-19 Data Portal page with IDTk link * Update human_pathogen_genomics.md * Update pages/tool_assembly/covid19_data_portal.md Co-authored-by: Federico Bianchini <[email protected]> * Update covid19_data_portal.md --------- Co-authored-by: Federico Bianchini <[email protected]>
elixir-europe · Dec 14, 2024 · 58195e6 · 58195e6
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diff --git a/pages/tool_assembly/covid19_data_portal.md b/pages/tool_assembly/covid19_data_portal.md
@@ -12,7 +12,7 @@ description: The COVID-19 Data Portal brings together relevant datasets for shar
 
 ## What is the European COVID-19 Data Portal?
 
-The European COVID-19 Data Portal is part of the European COVID-19 Data Platform, which was launched to facilitate the urgent need to share and analyse COVID-19 data and thus accelerate research that will provide responses and build solutions, such as vaccines, treatments and public health interventions. The Platform comprises three core components, the SARS-CoV-2 Data Hubs, the Federated European Genome-phenome Archive and the COVID-19 Data Portal. The COVID-19 Data Portal brings together and continuously updates relevant COVID-19 datasets from a breadth of analytical platforms. Data are submitted using the SARS-CoV-2 Data Hubs functions or via other major centres of biomedical data. The data available from the COVID-19 Data Portal cover raw and assembled viral and human sequences, protein structures, proteomics, gene and protein expression data, compound screening, metabolomics and imaging data (from {% tool "elixir-core-data-resources" %} and other databases); COVID-19-relevant literature publications and pre-prints are also integrated. The aim is to have a wide variety of open data from across the globe systematised and easily accessible to researchers following FAIR principles. The European COVID-19 Data Platform enables national data producers to share biomolecular data with the international scientific community, making these data available for reuse. Ultimately it aims to allow for rapid analysis and dissemination to inform research, public health and health communities and in an evidenced-based manner.
+The European COVID-19 Data Portal is part of the European COVID-19 Data Platform, which was launched to facilitate the urgent need to share and analyse COVID-19 data. The portal accelerates research that will provide responses and build solutions, such as vaccines, treatments and public health interventions. The Platform comprises three core components: the SARS-CoV-2 Data Hubs, the Federated European Genome-phenome Archive and the COVID-19 Data Portal. The COVID-19 Data Portal brings together and continuously updates relevant COVID-19 datasets from a breadth of analytical platforms. Data are submitted using the SARS-CoV-2 Data Hubs functions or via other major centres of biomedical data. The data available from the COVID-19 Data Portal cover raw and assembled viral and human sequences, protein structures, proteomics, gene and protein expression data, compound screening, metabolomics and imaging data (from {% tool "elixir-core-data-resources" %} and other databases); COVID-19-relevant literature publications and pre-prints are also integrated. The aim is to have a wide variety of open data from across the globe systematised and easily accessible to researchers following the FAIR principles. The European COVID-19 Data Platform enables national data producers to share biomolecular data with the international scientific community, making these data available for reuse. Ultimately, it aims to allow for rapid analysis and dissemination to inform research, public health and health communities in an evidence-based manner. For detailed information on managing infectious disease data, you can always refer to the {% tool "idtk" %}.
 
 {% include image.html file="covid19_page.png" caption="The COVID-19 Data Portal data flow schematic, showing collation, indexing, integration and user-access functions." alt="COVID-19 Data Portal" %}
 

diff --git a/pages/your_domain/human_pathogen_genomics.md b/pages/your_domain/human_pathogen_genomics.md
@@ -49,6 +49,7 @@ While the objects of interest in this domain are pathogens, the data is usually
 * Ensure that the project’s procedures conform with good practices for handling [human data](human_data). In particular, the following sections of the RDMkit:
   * [Planning for projects with human data](human_data#planning-for-projects-with-human-data)
   * [Processing and analysing human data](human_data#processing-and-analysing-human-data)
+* You can also check the practices included in the {% tool "idtk" %} related to the management of human and pathogen data in the context of infectious diseases.
 
 #### Isolate pathogen from host information
 * Depending on the pathogen and how it interacts with the host or the methods applied, it can be possible to generate clean isolates that do not contain host-related material. Data produced from a clean isolate could potentially be handled with fewer restrictions, while other data will be considered to be [sensitive](data_sensitivity) and will need [protection](data_security).