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Gideon Lapidoth

dblp:241/1947 · DBLP profile ↗
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1ranked-venue papers
1as first author
0since 2021 · last 2019
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1 · 1 first-author

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 2 heaviest of 2, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › protein structure prediction
antibody structure prediction
0.412019
AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains · Bioinform. 2019
Bioinformatics and computational biology
protein structure prediction
0.412019
AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains · Bioinform. 2019

Methods — techniques the papers use, named apart from their topics

monte carlo search · 0.4backbone conformation sampling · 0.4
YearPublicationVenuePosition
2019 AbPredict 2: a server for accurate and unstrained structure prediction of antibody variable domains
abstract
SUMMARY: Methods for antibody structure prediction rely on sequence homology to experimentally determined structures. Resulting models may be accurate but are often stereochemically strained, limiting their usefulness in modeling and design workflows. We present the AbPredict 2 web-server, which instead of using sequence homology, conducts a Monte Carlo-based search for low-energy combinations of backbone conformations to yield accurate and unstrained antibody structures. AVAILABILITY AND IMPLEMENTATION: We introduce several important improvements over the previous AbPredict implementation: (i) backbones and sidechains are now modeled using ideal bond lengths and angles, substantially reducing stereochemical strain, (ii) sampling of the rigid-body orientation at the light-heavy chain interface is improved, increasing model accuracy and (iii) runtime is reduced 20-fold without compromising accuracy, enabling the implementation of AbPredict 2 as a fully automated web-server (http://abpredict.weizmann.ac.il). Accurate and unstrained antibody model structures may in some cases obviate the need for experimental structures in antibody optimization workflows.
Gideon Lapidoth, Jake Parker, Jaime Prilusky, Sarel Jacob Fleishman
Bioinform.1