Ben Kellman

What is the most appropriate platform for roasting a #bioinformatics colleague?

You simply put them on BLAST

Important work! Generally we either think about specialized glycan binding proteins (lectins) or we don't think about glycans.

Canner et al help us see the massive world proteins, 35-40%, that also bind glycans!

Thanks Sam for bringing glycan-protein interactions into focus!

Sorry I don't run the list. Usually, it's the first person on the list.

#Medsky update: I've added label support to the following feeds:

Family Medicine: bsky.app/profile/meds...
Cardiology: bsky.app/profile/meds...
Int Medicine: bsky.app/profile/meds...
Nephrology: bsky.app/profile/meds...
Gastro: bsky.app/profile/meds...
Rheum: bsky.app/profile/meds...

Boltz-1: Open source (MIT license) protein + PPI + PLI structure prediction method performs on par with AlphaFold3 by Gabriel Corso, Barzilay et al. & Genesis Therapeutics
Blog-post jclinic.mit.edu/boltz-1/
Technical report: t.co/px0spnTA0S
Model and code: github.com/jwohlwend/boltz

Important numbers to know for the difficult years ahead.

Also worth asking if the "next dollar" will yield similar returns. How much more would we need to invest in research to see less than a 250% return?

Cancer biology
go.bsky.app/7xTwrrn

5/5 Manuscript two functionalizes the discovered glycan-genetic encoding to an easy-to-use and accurate neural network, the INterloping Saccharide Neural Network Extrapolation (InSaNNe), for predicting glycans on the membranes
www.biorxiv.org/content/10.1...

4/5 Manuscript one details the discovery of the “GlycoTemplate,” the protein structural constraints on glycan biosynthesis.
www.biorxiv.org/content/10.1...

3/5 Glycosylation, like all biosynthesis, depends on environmental conditions. However, in contrast to non-templated glycan biosynthesis, we have discovered a comprehensive mapping of protein structure to specific glycosylation events.

2/5 Glycosylation is classically considered to be non-templated. Classically, glycans are determined by the cellular environment and NOT the genome.

Thanks and yes of course, I'll pass his name along there.

Single cell
go.bsky.app/GmS1cH

Hi Rod, I'm a new immunoligist at Ragon with some published work in vaccine and humoral immunity. Would you consider adding me?

Love your list! Im not a card carrying structural bio person but i think my main project is relevant to the space (predicting glycans from protein structure). Would you consider adding me and/or my former pi (bsky.app/profile/nate...) to your list?

Love your list! Im not a card carrying structural bio person but i think my main project is relevant to the space (predicting glycans from protein structure). Would you consider adding me and my former pi (bsky.app/profile/nate...) to your list?

More structural bio
bsky.app/starter-pack...

bsky.app/starter-pack...

Data Science Ai Ml Infrastructure - Bluesky Directory A curated collection of all things relating to the Blue Sky social media platform.

AI
blueskydirectory.com/starter-pack...

Immunology
bsky.app/starter-pack...

bsky.app/starter-pack...

bsky.app/starter-pack...

bsky.app/starter-pack...

bsky.app/starter-pack...

Biostatistics
bsky.app/starter-pack...

bsky.app/starter-pack...

Structural bio
bsky.app/starter-pack...

bioinformatics and comp bio

bsky.app/starter-pack...

bsky.app/starter-pack...

bsky.app/starter-pack...

biotech

bsky.app/starter-pack...

bsky.app/starter-pack...

bsky.app/starter-pack... ...

glycotime

bsky.app/starter-pack...

bsky.app/starter-pack...), ...

Starter Packs - Bluesky Directory A curated collection of all things relating to the Blue Sky social media platform.

My starter packs
(1) handy list of all (blueskydirectory.com/starter-packs), ...

Mammalian cell-based production of glycans, glycopeptides and glycomodules - Nature Communications Access to defined human glycans is crucial for biomedical research. Here, authors report Glycocarriers, a mammalian cell-based method for the sustainable and scalable production of O-, N-glycans, and ...

New bit of work from CCG, with our newest cellular framework - GlycoCarrier
www.nature.com/articles/s41...

A B cell screen against endogenous retroviruses identifies glycan-reactive IgM that recognizes a broad array of enveloped viruses Profiling of ERV-reactive B-1 cells in mice reveals natural antibodies against terminal N-acetylglucosamine on multiple viral envelope proteins.

A B cell screen against endogenous retroviruses identifies glycan-reactive IgM that recognizes a broad array of enveloped viruses www.science.org/doi/full/10....

Download our database of 313 different postdoctoral fellowships.

For each entry, we provide link to funder, description, amount, deadline, and eligibility criteria (e.g. citizenship).

Download our database here: research.jhu.edu/rdt/funding-...

Partner and I got an icecream maker. Tldr, we think we can make some weird icecream with a bit of help from glycans!

Will share if it's good or weird.

Reposting for continuity... I believe we discovered a comprehensive mapping from protein structure to glycan structure, a genetic encoding for specific glycans, and a new paradigm in extracellular biology.
www.biorxiv.org/content/10.1...