Do you have transcriptomics data & want to understand a regulatory signalling network?
We present CARNIVAL, a method to integrate biological knowledge & transcriptomics to infer sample-specific causal networks https://www.nature.com/articles/s41540-019-0118-z - @AnikaLiuu@twitter.com, @Pan_Panuwat@twitter.com & @email@example.com et. al
New preprint from our lab. PAMOGK: A Pathway Graph Kernel based Multi-Omics Clustering Approach for Discovering Cancer Patient Subgroups: https://www.biorxiv.org/content/10.1101/834168v1
So, apparently protein phosphorylation on "non-canonical" (i.e. not S/T/Y) amino acids is far more common in vertebrates than usually appreciated. This opens things up... https://www.embopress.org/doi/abs/10.15252/embj.2018100847
🚨JOB ALERT🚨We're recruiting up to two Research Fellows! Join our interdisciplinary research team, we use quantitative techniques to address important biological, biomedical and clinical research questions. Deadline for applications 18 Nov
Scientific knowledge is drowning in a flood of research - a great comic-metaphor about how #research has changed along the years, from few meticulously thought projects to a frency of data collection and obession on quantity over quality... https://massivesci.com/articles/chaos-in-the-brickyard-comic-matteo-farinella/ vía @firstname.lastname@example.org
Our article about phenotypic effects of variants in TRIM21 is now online: https://elifesciences.org/articles/48339. For 22 1000G variants, we tested their effect on protein stability, ligand binding, viral neutralization, innate immune signaling and protein expression.
I have two questions for experimental biologists working on protein kinases:
1) How likely is it that a 'kinase-dead' mutant will still have residual catalytic activity?
2) Why is it that the K72 mutant (PKA numbering) has been used more often historically than D166? Thanks
Whoever programmed the elevators at work made an off-by-one error for the floor announcements. #classic
I'm beginning to think that I don't want to be on a topic-specific Mastodon instance. No complaints about this server; I just don't want to think about which posts are on-topic and which are off-topic.
Right, I finally set up forwarding from my Mastodon account (@brandoninvergo) to my Twitter account. I generally won't be logging to Twitter anymore if I can help it.
My new favorite site:
Very interesting work: P. falciparum commits to sexual development by linking metabolism of a host-derived lipid to its transcriptional regulation. #malaria
"Sub-minute Phosphoregulation of Cell Cycle Systems during Plasmodium Gamete Formation" #malaria #phosphoproteomics #cellsignaling #plasmodium
How #malaria parasites reproduce: new insights
Life in the fast lane: rapid reproduction in #malaria parasites
I am a post-doc at the European Bioinformatics Institute. I am broadly interested in evolutionary systems biology and the dynamics and function of cellular signaling pathways.
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