List of works - Alexander Zelikovsky

1.25-Approximation Algorithm for Steiner Tree Problem with Distances 1 and 2

2SNP: scalable phasing based on 2-SNP haplotypes.

scientific article

A Clinical Trial with Pyridinolcarbamate in the Treatment of Patients with Obstructive Diseases of the Peripheral Arteries ⬇️

scientific article published on January 1, 1973

A novel method for signal transduction network inference from indirect experimental evidence.

scientific article published in September 2007

Accurate viral population assembly from ultra-deep sequencing data

scientific article

Analysis of heterogeneous genomic samples using image normalization and machine learning

scientific article published on 21 December 2020

Antibody Response to Lyme Disease Spirochetes in the Context of VlsE-Mediated Immune Evasion.

scientific article

Association testing by haplotype-sharing methods applicable to whole-genome analysis

scientific article

Author Correction: Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

scientific article published on 04 September 2020

Automated quality control for a molecular surveillance system

scientific article published on 22 October 2018

Benchmarking of computational error-correction methods for next-generation sequencing data

scientific article published on 17 March 2020

Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates

scientific article

Combinatorial search methods for multi-SNP disease association

scientific article published on 01 January 2006

Computational Approaches to Detect Illicit Drug Ads and Find Vendor Communities Within Social Media Platforms

scientific article published on 05 March 2020

Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling

scientific article published on 29 October 2014

Consolidating software tools for DNA microarray design and manufacturing.

scientific article published in January 2004

Delineating Surface Epitopes of Lyme Disease Pathogen Targeted by Highly Protective Antibodies of New Zealand White Rabbits

scientific article published on 23 July 2019

Efficient Approximate Kernel Based Spike Sequence Classification

scientific article published on 14 September 2022

Efficient error correction for next-generation sequencing of viral amplicons

scientific article

Eleven grand challenges in single-cell data science

scientific article published on 07 February 2020

Estimation of alternative splicing isoform frequencies from RNA-Seq data ⬇️

scientific article

Family trio phasing and missing data recovery.

scientific article

Fast Bootstrapping-Based Estimation of Confidence Intervals of Expression Levels and Differential Expression from RNA-Seq Data.

scientific article

Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants

scientific article published on 22 October 2018

GaussianCpG: a Gaussian model for detection of CpG island in human genome sequences

scientific article

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications

scientific article published on 01 July 2011

Guest editors' introduction to the special section on bioinformatics research and applications

scientific article published in July 2008

Guest editors' introduction to the special section on bioinformatics research and applications.

scientific article published in November 2013

Guest editors' introduction.

scientific article

Guest editors’ introduction to the special section on bioinformatics research and applications

scientific article published in July 2012

HapIso: An Accurate Method for the Haplotype- Specific Isoforms Reconstruction From Long Single-Molecule Reads

scientific article

ILP-based maximum likelihood genome scaffolding

scientific article

Identification of Surface Epitopes Associated with Protection against Highly Immune-Evasive VlsE-Expressing Lyme Disease Spirochetes

scientific article published on 23 July 2018

Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire

scientific article

Improved transcriptome quantification and reconstruction from RNA-Seq reads using partial annotations.

scientific article published in January 2011

Inference of clonal selection in cancer populations using single-cell sequencing data

scientific article published on 01 July 2019

Inference of genetic relatedness between viral quasispecies from sequencing data.

scientific article published on 6 December 2017

Inference of mutability landscapes of tumors from single cell sequencing data

scientific article published on 30 November 2020

Inferring viral quasispecies spectra from 454 pyrosequencing reads.

scientific article

Informative SNP selection methods based on SNP prediction.

scientific article published in March 2007

Laparoscopy in the prevention of unnecessary appendicectomies: A prospective study ⬇️

scientific article published on 01 June 1982

Linear reduction methods for tag SNP selection.

scientific article published in January 2004

MLR-tagging: informative SNP selection for unphased genotypes based on multiple linear regression.

scientific article published on 7 August 2006

Messages from the Chairs

MetNetAligner: a web service tool for metabolic network alignments.

scientific article published on 4 May 2009

Multiple linear regression for index SNP selection on unphased genotypes.

scientific article published in January 2006

New Zealand White Rabbits Effectively Clear Borrelia burgdorferi B31 despite the Bacterium's Functional vlsE Antigenic Variation System

scientific article published on 20 June 2019

Preface: 14th International Symposium on Bioinformatics Research and Applications (ISBRA 2018)

scientific article published on 01 August 2019

Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

scientific article published on 19 June 2020

QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.

scientific article published in January 2018

Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows

scientific article

Repeat-aware evaluation of scaffolding tools

scientific article published on 01 August 2018

ScaffMatch: scaffolding algorithm based on maximum weight matching

scientific article published on 17 April 2015

Scalable heuristics for design of DNA probe arrays.

scientific article

Searching High-Order SNP Combinations for Complex Diseases Based on Energy Distribution Difference

scientific article published on May 2015

Special Issue Preface: 13th International Symposium on BioinformaticsResearch and Applications (ISBRA 2017)

scientific article published on 01 March 2018

Systematic benchmarking of omics computational tools

scientific article published on 27 March 2019

TRIP: a method for novel transcript reconstruction from paired-end RNA-seq reads

scholarly article by Serghei Mangul et al published 2012 in BMC Bioinformatics

Telescope: an interactive tool for managing large-scale analysis from mobile devices

scientific article published on 01 January 2020

Transcriptome assembly and quantification from Ion Torrent RNA-Seq data.

scientific article

List of works by Alexander Zelikovsky

1.25-Approximation Algorithm for Steiner Tree Problem with Distances 1 and 2

2SNP: scalable phasing based on 2-SNP haplotypes.

A Clinical Trial with Pyridinolcarbamate in the Treatment of Patients with Obstructive Diseases of the Peripheral Arteries ⬇️

A novel method for signal transduction network inference from indirect experimental evidence.

Accurate viral population assembly from ultra-deep sequencing data

Analysis of heterogeneous genomic samples using image normalization and machine learning

Antibody Response to Lyme Disease Spirochetes in the Context of VlsE-Mediated Immune Evasion.

Association testing by haplotype-sharing methods applicable to whole-genome analysis

Author Correction: Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

Automated quality control for a molecular surveillance system

Benchmarking of computational error-correction methods for next-generation sequencing data

Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates

Combinatorial search methods for multi-SNP disease association

Computational Approaches to Detect Illicit Drug Ads and Find Vendor Communities Within Social Media Platforms

Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling

Consolidating software tools for DNA microarray design and manufacturing.

Delineating Surface Epitopes of Lyme Disease Pathogen Targeted by Highly Protective Antibodies of New Zealand White Rabbits

Efficient Approximate Kernel Based Spike Sequence Classification

Efficient error correction for next-generation sequencing of viral amplicons

Eleven grand challenges in single-cell data science

Estimation of alternative splicing isoform frequencies from RNA-Seq data ⬇️

Family trio phasing and missing data recovery.

Fast Bootstrapping-Based Estimation of Confidence Intervals of Expression Levels and Differential Expression from RNA-Seq Data.

Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants

GaussianCpG: a Gaussian model for detection of CpG island in human genome sequences

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications

Guest editors' introduction to the special section on bioinformatics research and applications

Guest editors' introduction to the special section on bioinformatics research and applications.

Guest editors' introduction.

Guest editors’ introduction to the special section on bioinformatics research and applications

HapIso: An Accurate Method for the Haplotype- Specific Isoforms Reconstruction From Long Single-Molecule Reads

ILP-based maximum likelihood genome scaffolding

Identification of Surface Epitopes Associated with Protection against Highly Immune-Evasive VlsE-Expressing Lyme Disease Spirochetes

Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire

Improved transcriptome quantification and reconstruction from RNA-Seq reads using partial annotations.

Inference of clonal selection in cancer populations using single-cell sequencing data

Inference of genetic relatedness between viral quasispecies from sequencing data.

Inference of mutability landscapes of tumors from single cell sequencing data

Inferring viral quasispecies spectra from 454 pyrosequencing reads.

Informative SNP selection methods based on SNP prediction.

Laparoscopy in the prevention of unnecessary appendicectomies: A prospective study ⬇️

Linear reduction methods for tag SNP selection.

MLR-tagging: informative SNP selection for unphased genotypes based on multiple linear regression.

Messages from the Chairs

MetNetAligner: a web service tool for metabolic network alignments.

Multiple linear regression for index SNP selection on unphased genotypes.

New Zealand White Rabbits Effectively Clear Borrelia burgdorferi B31 despite the Bacterium's Functional vlsE Antigenic Variation System

Preface: 14th International Symposium on Bioinformatics Research and Applications (ISBRA 2018)

Profiling immunoglobulin repertoires across multiple human tissues using RNA sequencing

QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.

Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows

Repeat-aware evaluation of scaffolding tools

ScaffMatch: scaffolding algorithm based on maximum weight matching

Scalable heuristics for design of DNA probe arrays.

Searching High-Order SNP Combinations for Complex Diseases Based on Energy Distribution Difference

Special Issue Preface: 13th International Symposium on BioinformaticsResearch and Applications (ISBRA 2017)

Systematic benchmarking of omics computational tools

TRIP: a method for novel transcript reconstruction from paired-end RNA-seq reads

Telescope: an interactive tool for managing large-scale analysis from mobile devices

Transcriptome assembly and quantification from Ion Torrent RNA-Seq data.