#EpiLipidNet

Egon Willighagenegonw@social.edu.nl
2024-05-15

The second topic brought to our attention is the mzQC, with this preprint: biologists.social/@biorxivprep #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-15

Only the highest level indicates enough evidence on the double bond location and the stereochemistry. That this is a thing is shown by the article which I posted about earlier today: social.edu.nl/@egonw/112444260 #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-15

NH reminds us why we do FAIR, for the I and the R. Why? Ideally reusability, but we can settle for now interpretability.

He then talks us through various approaches on how to annotated experimentally measured lipids with identifiers and their certainty.

E.g. the scoring levels reflecting how much evidence have for the structural detail #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-15

jumping to the last #epilipidnet session, another few interesting talks, like the previous session, very practical. There is a lot of great lipids use cases in the clinic heading our way.

I cannot, however, not post about @TheLipidHoff's talk, the last one of the day and whole meeting: "Proposition of a scoring system for data quality assessment in MS-based #lipidomics"

Egon Willighagenegonw@social.edu.nl
2024-05-15

this article (onlinelibrary.wiley.com/doi/10) corrects the chemical structure of DATâ‚‚ (HT Matt from LIPID MAPS)

It cites five articles that had the wrong structure: "This means that a number of studies provides an incorrect structure of mycolipanolic acid and DATâ‚‚. [9, 20, 21, 39]"

I annotated these citations with CiTO intentions and created a nanopublication: w3id.org/np/RApE4XpLLnxs3HtbYD #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-15

one main point they bring up is that using [M+Ag]+ a lot of MS properties improve, making metabolites a lot easier to detect, see e.g. scholia.toolforge.org/work/Q12 #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-15

the third #epilipidnet meeting day has started,with a keynote by Prof. Ingela Lanekoff (#UppsalaUniversitet) focussing on new technologies to measure metabolites. Her @wdscholia page: scholia.toolforge.org/author/Q

Egon Willighagenegonw@social.edu.nl
2024-05-14

after the coffee break we continue with the #epilipidnet session on #lipidomics in health and disease (well, we say a lot of that already, but then again, human health does involve a lot of research funding). Here ceramides, like Cer(16:0) though not the class but a specific instance was shown on the slide (basically, wrong identifier; but this only stresses that we rather have some redundant/overlapping info than too little, leaving us to guessing).

Egon Willighagenegonw@social.edu.nl
2024-05-14

if you wonder why #epilipidnet WG4 was missing, that's the WG where we're involved. Florian Gruber (the chair) presented some recent work on lipids in our skins and how cholesterol modulates restructuring of the membranes and the tissue structure. I (co-chair) presented the @wikipathways work (tho I see I should not have left out the @bridgedb slide) and the state of the #lipids portal (lipids.wikipathways.org/).

Egon Willighagenegonw@social.edu.nl
2024-05-14

WG5 is the dissemination WG. Again, plenty of papers, but the games are particularly interesting. Lipodrome, Burn Your Fats! are two of them. #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-14

WG3 is now presenting. One of the things shown by Alex Dickens (Turku) is results for validation of a mass scale device to measure blood lipids (#bileAcids).

Are we going to see a new era of diagnostics in human health? #epilipidnet

Egon Willighagenegonw@social.edu.nl
2024-05-14

#epilipidnet WG2 showed their work, with lots of joint articles between participants.

I have to say, the #bioinformatics and #cheminformatics of all this knew knowledge gives me the right levels of excitement and challenge

Egon Willighagenegonw@social.edu.nl
2024-05-14

the second #epilipidnet meeting day just started. WG1 now presents. Lots about sharing protocols, the model system workshop last September, and the importance of identifier mapping

Egon Willighagenegonw@social.edu.nl
2024-05-14

I am attending the #epilipidnet meeting this week, about #lipidomics Yesterday we had the young researcher session, the first half of the poster session, and three keynotes: about the Maillard reactions in beer brewing (and we tasted the synthesized chemicals), tips for making good figures, and a lot about how the lipidome seems to do great to diagnose (early) obesity and diabetes. Even the organ origin of lipids in blood was discussed.

BiGCaT Bioinformaticsbigcat_UM@social.edu.nl
2024-04-17

in collaboration with MaCSBio we today start the first #EpiLipidNET training school on Data Analysis Techniques for preprocessed Lipidomics data. This includes the #openscience @wikipathways and @bridgedb projects. See this earlier post: social.edu.nl/@bigcat_UM/11202

BiGCaT Bioinformaticsbigcat_UM@social.edu.nl
2024-03-13

Today is the last day to register for the upcoming #EpiLipidNET Training School on Data Analysis Techniques for preprocessed #Lipidomics data. linkedin.com/posts/deniseslent

BiGCaT Bioinformaticsbigcat_UM@social.edu.nl
2024-03-02

Join the upcoming #EpiLipidNET Training School on Data Analysis Techniques for preprocessed Lipidomics data. The school is organized as a 3-day event from the 17th until the 19th of April, including various educational and training activities. maastrichtuniversity.nl/events (more details in replies)

EpiLipidNET logo  (orange, with the name and above and below that something that resembles networks or graphs) with the CA19105 COST action grant ID and full name "Pan European Network in Lipidomics and EpiLipidomics".
Egon Willighagenegonw@social.edu.nl
2024-01-15
Egon Willighagenegonw@social.edu.nl
2023-08-15

the other session is about "Nutraceutical Lipids, Proteins and Biopeptides", and quite relevant to our #EpiLipidNET project. Enjoying the slides. #ACSFall2023

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