AlexGW

Immunoinformatics Researcher.

[AlexGW @ALGW71]

@jordixiol Fair point

[alex rubinsteyn @iskander]

Napkin math on why your percentile rank thresholds for CD8+ T-cell epitope prediction are comically lax.

30mb exome -> let's say half is CDS -> 5M aa possible proteome.

Cut those up into 8-11mers -> 20M peptides
x 6 distinct MHC alleles -> 120M distinct possible pMHCs

(cont)

[Oxford Protein Informatics Group (OPIG) @OPIGlets]

OPIG Postdoc Alex Greenshields Watson's (@ALGW71) work on the ability of deep learning structure prediction to extrapolate & enrich the set of antibody canonical forms is now out @FrontImmunol.

You can read the article below:

https://t.co/pGVLFEkrXe

[Matt Raybould @mijr12]

Beautiful work by my colleague at OPIG immunoinformatics @ALGW71 -- on the ability of deep learning models starved of knowledge (e.g. an antibody canonical class) to extrapolate its existence from other training datapoints.

[AlexGW @ALGW71]

@Alan_Couzens Pro squash players now: Ali Farag, Joel Makin, Diego Elias and Paul Coll… Shorbagy is also so strong.

Historically the fitness of the Khans, Barrington & Hunt, Dittmar was legendary and more recently Gaultier & Matthew…

[Oxford Protein Informatics Group (OPIG) @OPIGlets]

Our manuscript describing the latest Therapeutic Antibody Profiler (TAP) protocol and contextualising the developability of lambda antibodies is now published at @CommsBio.
Work led by @mijr12

https://t.co/651oWdfATQ

[Matt Raybould @mijr12]

My colleage @AlissaHummer & I are organising a conference on Adaptive Immune Receptors: modelling and immunoinformatics, taking place this April 5th at Oxford University.

Invited Talks - Posters (+selected talks) - Networking

More info and registration: https://t.co/JbttNwVcTJ

[AlexGW @ALGW71]

@RolandDunbrack Massive thanks to @brennanaba and Prof Charlotte Deane and the whole OPIG team!

Hope people find this interesting, and feel free to get in touch with any questions.

Looking forward to presenting this work at #AET2023 on Wednesday this week!

11/11

[AlexGW @ALGW71]

Really happy to share our new study: Investigating the ability of deep learning-based structure prediction to extrapolate and/or enrich the set of antibody CDR canonical forms.

1/N

[bioRxiv Bioinfo @biorxiv_bioinfo]

Investigating the ability of deep learning-based structure prediction to extrapolate and/or enrich the set of antibody CDR canonical ... https://t.co/oKYbyfKnp9 #biorxiv_bioinfo

[AlexGW @ALGW71]

@RolandDunbrack The tools used to perform this study (ABodyBuilder2 and OAS) can be found on our website: https://t.co/7mwR5Nb98W

10/N

[bioRxiv Bioinfo @biorxiv_bioinfo]

Investigating the ability of deep learning-based structure prediction to extrapolate and/or enrich the set of antibody CDR canonical ... https://t.co/oKYbyfKnp9 #biorxiv_bioinfo