Vera van Noort

Get started by using the notebook on google colab

GitHub - sverwimp/AFragmenter: Protein domain segmentation based on PAE values Protein domain segmentation based on PAE values. Contribute to sverwimp/AFragmenter development by creating an account on GitHub.

Code available on github GitHub - sverwimp/AFragmenter: Protein domain segmentation based on PAE values share.google/BpLVdAP8pZ5A...

Want control over segmentation of your protein into domains? Now out in #bioinformatics AFragmenter academic.oup.com/bioinformati... @sverwimp.bsky.social @roblavigne.bsky.social

Fold first, ask later: structure-informed function annotation of Pseudomonas phage proteins Phages, the viruses of bacteria, harbor an incredibly diverse repertoire of proteins capable of manipulating their bacterial hosts, inspiring many medical and biotechnological applications. However, t...

Fold first, ask later: structure-informed function annotation of Pseudomonas phage proteins

Structural predictions to improve #phage genome annotation!

@hannelorelongin.bsky.social @gbouras13.bsky.social y.social @susiegriggo.bsky.social @veravannoort.bsky.social

www.biorxiv.org/content/10.1...

hu.MAP3.0: atlas of human protein complexes by integration of >25,000 proteomic experiments | Molecular Systems Biology imageimagehu.MAP3.0 integrates mass spectrometry experiments to identify human protein complexes. Using this resource, this study characterizes covariation of complexes, identifies mutually exclusive ...

Very excited that our work describing hu.MAP3.0 is published in @molsystbiol.org. Here we use machine learning to integrate >25k mass spectrometry experiments to place ~70% of human proteins into 15k protein complexes.

www.embopress.org/doi/full/10....

Looking for a new colleague at the faculty of bioscience engineering www.biw.kuleuven.be/m2s/cmpg/job...

Kregen andere promotoren ook bericht dat ze hun aanbeveling bij @fwovlaanderen.bsky.social niet hadden ingediend terwijl ze dit wel hadden gedaan? #onnodigestress

Zelf nooit hulp gehad, ouders vroegen zelfs niet of ik huiswerk had, ook niet naar resultaten. Nu moeten wij wel helpen, leerstof en opdrachten die mee naar huis komen zijn vaak zo complex dat zelfs wij er moeite mee hebben (2 ouders met PhD).

Check out our preprint on optimal growth temperature prediction #machinelearning #ai #bioprospecting #extremophiles

Would love to read, the pdf on biorxiv seems to be corrupted.

A new #StarterPack with scientist specialized in microbial bioinformatics - #MicroBioInf.
Please comment if you would like to be added: go.bsky.app/5h7VaGm

Looking forward to the discussions!

Lively discussions and live demos of new bioinformatics tools from multi-omics integration to protein structure visualization

Positive vibes among the master students presenting results of their hard work this semester at the poster session of the Integrated Bioinformatics Project at KU Leuven.

Fast and scalable pangenome inference, core genome inference and subsampling to representative genomes. #comparativegenomics #microbiology applied to over 31,000 lactobacillales genomes!

SCARAP: scalable cross-species comparative genomics of prokaryotes AbstractMotivation. Much of prokaryotic comparative genomics currently relies on two critical computational tasks: pangenome inference and core genome infe

Early xmas present, now out in Bioinformatics. SCARAP developed by Stijn Wittouck in collaboration with Sarah Lebeer. PanGenome analysis brought to your laptop academic.oup.com/bioinformati...

Structure of the Pseudomonas aeruginosa PAO1 Type IV pilus
Finally out in PLOS Pathogens. Congrats Hannah Ochner and co-authors. @mrclmb.bsky.social

journals.plos.org/plospathogen...

GitHub - AndrewRadev/protein-runway: Integrated Bioinformatics Project Integrated Bioinformatics Project. Contribute to AndrewRadev/protein-runway development by creating an account on GitHub.

This Project Protein Runway sets proteins in the spotlight. The code is available through github.com/AndrewRadev/... . Publication will follow soon. #OpenScience #Bioinformatics #ProteinStructures #MolecularDynamics rant over and out. (n/n)

In the next phase additional domain segmentation methods will be implemented. In addition will use this to simulate and understand protein movements in more detail. (3/n)

This phase is about visualization of protein dynamics, where proteins are first segmented into shapes followed by showing normal modes of the trajectories with help of Blender. Different segmentation algorithms were implemented in an OOP framework, to ensure extendability (2/n)

Small rant. Funding rejected again. Quoting the reviewers "very ambitiius and original", "innovative" but "concerns .. about expertise". This semester, I started on the initial phase of this project nevertheless with a group of Master students and superhappy with results so far! (1/n)

In our ab initio modeling group at imec we have two new PhD positions open

www.imec-int.com/en/work-at-i...

www.imec-int.com/en/work-at-i...

application deadline is December 15th.