Original post on fosstodon.org
the BridgeDb Tiwid project ("this is where identifiers die") collects outdated identifiers, and when known, provides information when the identifiers was retired (stopped working) and if there is a replacement identifier.
In the past week two new features got added. ORCIDs can now be provided […]
14.01.2025 10:48 — 👍 0 🔁 3 💬 0 📌 0
Figure 1 with the article showing a flow diagram, with the caption: "Collaborative network analysis workflow."
new paper: "A collaborative network analysis for the interpretation of transcriptomics data in Huntington’s disease" https://doi.org/10.1038/s41598-025-85580-4
"our study shows that collaborative network analysis approaches are well-suited to study rare […]
[Original post on social.edu.nl]
09.01.2025 11:43 — 👍 0 🔁 0 💬 0 📌 0
CEUR-WS.org/Vol-3890 - 15th International Conference on Semantic Web Applications and Tools for Health Care
and Life Sciences 2024
new conference proceedings: "BioDataFuse: Enhancing data interoperability through modular queries and knowledge graph construction" https://ceur-ws.org/Vol-3890/ https://ceur-ws.org/Vol-3890/paper-23.pdf
#rdf #sparql #bioinformatics #python
07.01.2025 03:51 — 👍 1 🔁 5 💬 1 📌 0
Metabolite BridgeDb ID Mapping Database (20241215)
BridgeDb ID mapping database for metabolites, using HMDB 5.0 (Release of April 2024), ChEBI (Release of December 2024), and Wikidata (15 December 2024) as data sources.
a new BridgeDb metabolite ID mapping database has been released, compatible with PathVisio 3.3: https://doi.org/10.6084/m9.figshare.28030427.v1
To support #sr24 #metakids pathway curation, see https://social.edu.nl/@egonw/113599062833652441
15.12.2024 19:44 — 👍 1 🔁 2 💬 0 📌 0
Original post on social.edu.nl
On Tuesday, December 3rd, 2024, our Department of Translational Genomics hosted its very first TGX Conference Day!
The event showcased the incredible research being conducted within our five key research lines:
🔬 Clinical Genomics
🥗 Nutrigenomics
🧪 In Vitro Assays
☣️ Toxicogenomics
💻 […]
14.12.2024 16:28 — 👍 0 🔁 2 💬 0 📌 0
Screenshot of our (linked) Serious Request "Kom in Action" landing page, showing our plans, including the new list (and at the bottom four existing pathways):
Welcome to the Serious Request 2024 - MetaKids page.
The Serious Request 2024 action is to raise funding for MetaKids, a Dutch foundation that aims for a world in which metabolic diseases can be treated or prevented and where no kid has to suffers from these diseases.
This WikiPathways actions aims to raise funding for the Serious Request 2024 action and in return we will work in December on improving the digitalized versions of the latest literature about the biological process that are behind or could perhaps explain these metabolic diseases.
This page lists the pathways we worked on during the action or are otherwise relevant to the work by the MetaKids foundation. We further have this project board to monitor the specific tasks, in an open notebook science sense. Also, a dedicated curation website is maintained.
See also the "WikiPathways in actie voor MetaKids" page where you can donate money for MetaKids.
Pathways planned to work on
- Pathways directly linked to diseases currently mentioned in research articles by United for Metabolic Diseases, e.g. WP4156
- Pathways describing mitochondrial processes
- Pathways not digitized in the book behind the IMD portal, see this table
Contact
Egon Willighagen and Martina Summer-Kutmon .
the Serious Request fundraiser is nearing. The DJs lock themselves up in just under two weeks and on the 16th I start a week long working on metabolic disease related pathways, joined by already three others: https://sr24.wikipathways.org/
But the preparation […]
[Original post on social.edu.nl]
05.12.2024 07:35 — 👍 0 🔁 4 💬 2 📌 0
Redirecting
the second:
- "Governance of advanced materials: Shaping a safe and sustainable future" https://doi.org/10.1016/j.impact.2024.100513 -> free PDF at https://cris.maastrichtuniversity.nl/en/publications/governance-of-advanced-materials-shaping-a-safe-and-sustainable-f
04.12.2024 11:32 — 👍 0 🔁 1 💬 0 📌 0
Original post on social.edu.nl
two publisher-version papers have become green Open Access via the Taverne clause:
- "A template wizard for the cocreation of machine-readable data-reporting to harmonize the evaluation of (nano)materials" https://doi.org/10.1038/s41596-024-00993-1 -> free PDF at […]
04.12.2024 11:31 — 👍 0 🔁 1 💬 1 📌 0
Original post on social.edu.nl
#introduction
This account is for the bioinformatics team at FHML, Maastricht University. You can find some of them on Mastodon:
- Susan Coort: @susancoort - Marvin Martens: @Marvin
But also some of the projects we have been involved in:
- BridgeDb: @bridgedb
- WikiPathways: @wikipathways
- […]
20.11.2024 10:12 — 👍 0 🔁 0 💬 0 📌 0
we have just enabled the Bridgy Fed bridge to Bluesky: https://bsky.app/profile/bigcat-UM.social.edu.nl.ap.brid.gy
20.11.2024 09:50 — 👍 0 🔁 2 💬 0 📌 0
