List of works - André Leier

A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction

scientific article published on 14 June 2019

Anomalous diffusion and multifractional Brownian motion: simulating molecular crowding and physical obstacles in systems biology

scientific article published in August 2012

Bastion3: a two-layer ensemble predictor of type III secreted effectors

scientific article published on 01 June 2019

Bastion6: a bioinformatics approach for accurate prediction of type VI secreted effectors.

scientific article published on 14 March 2018

Comprehensive assessment and performance improvement of effector protein predictors for bacterial secretion systems III, IV and VI.

scientific article

Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework

scientific article

Correction factors for boundary diffusion in reaction-diffusion master equations

scientific article published in October 2011

Cryptography with DNA binary strands

scientific article published on 01 June 2000

Delay chemical master equation: direct and closed-form solutions

scientific article published in July 2015

ESCRT-mediated vesicle concatenation in plant endosomes

scientific article published on 7 June 2017

Exact Product Formation Rates for Stochastic Enzyme Kinetics.

scientific article

Exact model reduction with delays: closed-form distributions and extensions to fully bi-directional monomolecular reactions

scientific article published on 2 April 2014

Generalized binomial tau-leap method for biochemical kinetics incorporating both delay and intrinsic noise

scientific article

Improved cytokine-receptor interaction prediction by exploiting the negative sample space

scientific article published on 31 October 2020

Integrative physical oncology

scientific article published on 18 August 2011

Knowledge-transfer learning for prediction of matrix metalloprotease substrate-cleavage sites

scientific article

Modelling and simulation techniques for membrane biology.

scientific article published on July 2007

Network topology and the evolution of dynamics in an artificial genetic regulatory network model created by whole genome duplication and divergence

scientific article published on 02 May 2006

Oscillatory regulation of Hes1: Discrete stochastic delay modelling and simulation

scientific article

POSSUM: a bioinformatics toolkit for generating numerical sequence feature descriptors based on PSSM profiles.

scientific article published in September 2017

PROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy.

scientific article

PeNGaRoo, a combined gradient boosting and ensemble learning framework for predicting non-classical secreted proteins

scientific article published on 01 February 2020

PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection

scientific article

Probability distributed time delays: integrating spatial effects into temporal models

scientific article

Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome

scientific article published on 01 December 2018

Receptor dimer stabilization by hierarchical plasma membrane microcompartments regulates cytokine signaling.

scientific article

Reduction of chemical reaction networks through delay distributions

scientific article published in March 2013

Stochastic adaptation and fold-change detection: from single-cell to population behavior

scientific article

Structure-based engineering of a pectate lyase with improved specific activity for ramie degumming.

scientific article published on 27 December 2016

Systematic analysis and prediction of type IV secreted effector proteins by machine learning approaches.

scientific article published on 27 November 2017

The Spatial Chemical Langevin Equation and Reaction Diffusion Master Equations: moments and qualitative solutions

scientific article published on 27 February 2015

iFeature: a python package and web server for features extraction and selection from protein and peptide sequences.

scientific article published on 8 March 2018

iLearn: an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data

scientific article published on 24 April 2019

List of works by André Leier

A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction

Anomalous diffusion and multifractional Brownian motion: simulating molecular crowding and physical obstacles in systems biology

Bastion3: a two-layer ensemble predictor of type III secreted effectors

Bastion6: a bioinformatics approach for accurate prediction of type VI secreted effectors.

Comprehensive assessment and performance improvement of effector protein predictors for bacterial secretion systems III, IV and VI.

Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework

Correction factors for boundary diffusion in reaction-diffusion master equations

Cryptography with DNA binary strands

Delay chemical master equation: direct and closed-form solutions

ESCRT-mediated vesicle concatenation in plant endosomes

Exact Product Formation Rates for Stochastic Enzyme Kinetics.

Exact model reduction with delays: closed-form distributions and extensions to fully bi-directional monomolecular reactions

Generalized binomial tau-leap method for biochemical kinetics incorporating both delay and intrinsic noise

Improved cytokine-receptor interaction prediction by exploiting the negative sample space

Integrative physical oncology

Knowledge-transfer learning for prediction of matrix metalloprotease substrate-cleavage sites

Modelling and simulation techniques for membrane biology.

Network topology and the evolution of dynamics in an artificial genetic regulatory network model created by whole genome duplication and divergence

Oscillatory regulation of Hes1: Discrete stochastic delay modelling and simulation

POSSUM: a bioinformatics toolkit for generating numerical sequence feature descriptors based on PSSM profiles.

PROSPERous: high-throughput prediction of substrate cleavage sites for 90 proteases with improved accuracy.

PeNGaRoo, a combined gradient boosting and ensemble learning framework for predicting non-classical secreted proteins

PhosphoPredict: A bioinformatics tool for prediction of human kinase-specific phosphorylation substrates and sites by integrating heterogeneous feature selection

Probability distributed time delays: integrating spatial effects into temporal models

Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome

Receptor dimer stabilization by hierarchical plasma membrane microcompartments regulates cytokine signaling.

Reduction of chemical reaction networks through delay distributions

Stochastic adaptation and fold-change detection: from single-cell to population behavior

Structure-based engineering of a pectate lyase with improved specific activity for ramie degumming.

Systematic analysis and prediction of type IV secreted effector proteins by machine learning approaches.

The Spatial Chemical Langevin Equation and Reaction Diffusion Master Equations: moments and qualitative solutions

iFeature: a python package and web server for features extraction and selection from protein and peptide sequences.

iLearn: an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data