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List of works by Haim Ashkenazy

A Simulation-Based Approach to Statistical Alignment

scientific article published on 01 March 2019

ASAP - A Webserver for Immunoglobulin-Sequencing Analysis Pipeline

Broad phylogenetic analysis of cation/proton antiporters reveals transport determinants

scientific article published in Nature Communications

CoPAP: Coevolution of presence-absence patterns

scientific article published on 8 June 2013

Commensal Pseudomonas protect Arabidopsis thaliana from a coexisting pathogen via multiple lineage-dependent mechanisms

scientific article published on 11 December 2021

Commensal Pseudomonas strains facilitate protective response against pathogens in the host plant

scientific article published on 24 February 2022

ConSurf 2010: calculating evolutionary conservation in sequence and structure of proteins and nucleic acids

scientific article (publication date: July 2010)

ConSurf 2016: an improved methodology to estimate and visualize evolutionary conservation in macromolecules

scientific article

ConSurf-DB: An accessible repository for the evolutionary conservation patterns of the majority of PDB proteins

scientific article published on 22 November 2019

ConTemplate Suggests Possible Alternative Conformations for a Query Protein of Known Structure

scientific article

Deep Panning: steps towards probing the IgOme

scientific article

FastML: a web server for probabilistic reconstruction of ancestral sequences

scientific article

GLOOME: gain loss mapping engine

scientific article published on 27 September 2010

GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters

scientific article published on 16 April 2015

GUIDANCE: a web server for assessing alignment confidence scores.

scientific article

Genetic variation, environment and demography intersect to shape Arabidopsis defense metabolite variation across Europe

scientific article published in 2021

Hidden conformations in protein structures

scientific article

Indel reliability in indel-based phylogenetic inference

scientific article

Inferring Indel Parameters using a Simulation-based Approach

scientific article

Inferring Rates and Length-Distributions of Indels Using Approximate Bayesian Computation

scientific article

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data

scientific article

MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data.

scientific article published on 23 November 2010

Multiple Sequence Alignment Averaging Improves Phylogeny Reconstruction

scientific article published on 01 January 2019

Optimal data collection for correlated mutation analysis

scientific article

Peptides modulating conformational changes in secreted chaperones: from in silico design to preclinical proof of concept

scientific article published on 05 August 2009

Phage display peptide libraries: deviations from randomness and correctives

scientific article published on 6 February 2018

PredictProtein--an open resource for online prediction of protein structural and functional features

scientific article

Protein stability: a single recorded mutation aids in predicting the effects of other mutations in the same amino acid site

scientific article published on 13 October 2011

Reducing phylogenetic bias in correlated mutation analysis

scientific article

SpartaABC: a web server to simulate sequences with indel parameters inferred using an approximate Bayesian computation algorithm

scientific article published on 29 April 2017

TraitRateProp: a web server for the detection of trait-dependent evolutionary rate shifts in sequence sites

scientific article published on 27 April 2017

Uncovering the co-evolutionary network among prokaryotic genes

scientific article published on September 2012

Using ConTemplate and the PDB to explore conformational space: on the detection of rare protein conformations

scientific article

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