Short Linear Motif team

SIMBA, a novel quantitative intracellular peptide binding assay, is now on BioRxiv. It excels at saturation mutagenesis studies to define SLiM-binding determinants. This collaboration with the Pryciak group at UMass is the first of many, so keep a look out biorxiv.org/content/10.110…

Congratulations to @IfigeniaT42 and Iza on the publication of CompariPSSM - a PSSM–PSSM comparison tool for motif-binding determinant analysis. This part of Ifigenia's her recently completed PhD work and her first first author paper. Check it out here: academic.oup.com/bioinformatics…

Have you ever wondered how many of the human SLiMs are required for cell viability? We mutated them all to find out in another extremely fun collaboration with the @NilssonLabCph group. The results are now on bioRxiv biorxiv.org/content/10.110…. Check it out!

Great collaboration with the @DaveyLab on defining short linear motifs required for cell fitness using base editor screens. Hundreds of novel functional SLiMs to explore! A proteome-wide dependency map of protein interaction motifs biorxiv.org/content/10.110…

Excited to present a new docking motif for IKK (Inhibitor of κB (IκB) kinase)! A great collaboration with the Zanier lab at the ESBS showed a YDDΦxΦ motif in IκBα, IκBβ and p100 recruits IKK. nature.com/articles/s4146…

And a web server is available here: slim.icr.ac.uk/projects/fastp…

Hazem's FaSTPACE paper is out, a novel tool for rapid peptide alignment and motif extraction! It's fast enough to tackle 1000s of peptides - just what's needed to tackle the recent explosion in high-throughput peptide discovery methods. Read here: academic.oup.com/nargab/article…

Our new paper with the @Ivarssonlab & @NilssonLabCph teams characterising mutations in intrinsically disordered regions on a proteome-wide scale! We show numerous examples of disease-causing SNVs making and breaking SLiMs in work driven by Johanna Kliche. embopress.org/doi/full/10.10…

There's an associated database to make it easier to explore the data. Check it out here slim.icr.ac.uk/cell_cycle/

Our work on protein/phosphorylation abundance changes through the cell cycle is on bioRxiv. Very much an ICR Division of Cancer Biology project (Thanks to @jc4_jyoti @MansfeldLab @PinesLab teams). All pushed to completion by Camilla, Ifigenia and Theo. tinyurl.com/ccprofiles

Cool work from @duxin_lab on Pol Kappa. Happy that my lab together with @DaveyLab could contribute with base editing screening in cells. Catalytic and non-catalytic functions of DNA polymerase kappa in translesion DNA synthesis biorxiv.org/content/10.110…

@fugueur @PhloxBooks Thanks for a super evening. Looking forward to getting started on the book. And thank you Phlox for letting us chat way past closing time. As promised here's the link to the photo of Pink Floyd from Wooburn Green Cricket Club sfae.com/Artists/Storm-…

Sat around a table in @PhloxBooks Leyton tonight talking to a wonderful group of people about Welcome to New London. What a great evening

We have an open PhD position applying mass spectrometry-based approaches to peptide interactomics for motif discovery. It's an exciting interdisciplinary project with the Choudhary lab for someone with a strong computational background. Details here: icr.ac.uk/studying-and-t…

Latest screen exploring how #disease-associated #SNVs in IDRs affect SLiM-based #protein-protein #interactions is now up on bioRxiv. Another fun collaboration with the @Ivarssonlab/@NilssonLabCph labs driven by the amazing team of Johanna and Leandro. disq.us/t/4j32bsx

The servers are all back online after their little summer holiday. Everything has been upgraded and there may be a few issues so let us know if you see anything odd.

Our resources (ProViz, PSSMSearch, SLiMSearch, xProtCAS, etc) will be down for a couple of days for updates to the server. Sorry if anyone is in need of some summer motif hunting. But hopefully most of you are on holidays.

Minimum Information About Disorder Experiments (MIADE) guidelines provide community recommendations on the minimum information that should be reported with experiments that structurally characterize intrinsically disordered proteins or regions. @DaveyLab nature.com/articles/s4159…

Time to get the disordered protein field a bit more ordered! We propose guidelines on how to describe IDP experiments to better serve experimental researchers, computational biologists, and database/method developers. This was a fun community wide effort led by @DaveyLab

There has been a revolution in the complexity of the experiments characterising the structural properties of IDRs. This revolution has not been reflected by advances in the data standardisation of the field. Now is the time to put those foundational concepts in place.

The idea is simple. The growing understanding of the significance of IDRs by researchers outside the IDP field has increased the importance of making high quality, unambiguous and understandable IDP data accessible to the wider community.

The MIADE paper defining minimum information guidelines for the structural IDP field is out today in @naturemethods. I'm so thankful to the MIADE team, @_BalintMeszaros, Kim, @NPalopoli, Fede, Andras and Eduardo, for helping push the project to completion. rdcu.be/dfWJw