List of works - Max A. Alekseyev

10. Making Walks Count: From Silent Circles to Hamiltonian Cycles

5. Solving the Tower of Hanoi with Random Moves

A Computational Method for the Rate Estimation of Evolutionary Transpositions ⬇️

A Unified ILP Framework for Genome Median, Halving, and Aliquoting Problems Under DCJ

Are there rearrangement hotspots in the human genome?

scientific article

Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads

Assembling single-cell genomes and mini-metagenomes from chimeric MDA products

scientific article

BayesHammer: Bayesian clustering for error correction in single-cell sequencing ⬇️

scientific article published on January 21, 2013

Breakpoint graphs and ancestral genome reconstructions

scientific article published on 13 February 2009

CAMSA: A tool for comparative analysis and merging of scaffold assemblies

CAMSA: a tool for comparative analysis and merging of scaffold assemblies

scientific article published on 6 December 2017

Colored de Bruijn graphs and the genome halving problem

scientific article published on January 2007

Combinatorial Scoring of Phylogenetic Networks ⬇️

scholarly article by Nikita Alexeev & Max A. Alekseyev published 2016 in Lecture Notes in Computer Science

Combinatorial Scoring of Phylogenetic Trees and Networks Based on Homoplasy-Free Characters

scientific article published on 22 August 2018

Comparative genomics meets topology: a novel view on genome median and halving problems

scientific article

Comparative genomics reveals birth and death of fragile regions in mammalian evolution

scientific article published on 30 November 2010

Computing solutions to the congruence1n+2n+⋯+nn≡p(modn)

scholarly article by Max A. Alekseyev et al published June 2018 in Discrete Applied Mathematics

Decoding Synteny Blocks and Large-Scale Duplications in Mammalian and Plant Genomes

article

Decoding the Genomic Architecture of Mammalian and Plant Genomes: Synteny Blocks and Large-scale Duplications

article

Estimation of the true evolutionary distance under the fragile breakage model

scientific article

Estimation of the true evolutionary distance under the fragile breakage model

article

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

scientific article published on 02 January 2020

Generalized Hultman Numbers and Cycle Structures of Breakpoint Graphs ⬇️

scientific article published on 3 January 2017

Generalized Hultman Numbers and the Distribution of Multi-break Distances

Genome Halving Problem Revisited

Implicit Transpositions in Shortest DCJ Scenarios

Limited Lifespan of Fragile Regions in Mammalian Evolution

Linearization of Median Genomes Under the Double-Cut-and-Join-Indel Model.

scientific article published on 6 June 2019

Linearization of Median Genomes under DCJ

Mosquito genomics. Highly evolvable malaria vectors: the genomes of 16 Anopheles mosquitoes

scientific article published on 27 November 2014

Multi-break Rearrangements: From Circular to Linear Genomes

Multi-break rearrangements and breakpoint re-uses: from circular to linear genomes

scientific article published in October 2008

Multi-break rearrangements and chromosomal evolution

Multi-genome Scaffold Co-assembly Based on the Analysis of Gene Orders and Genomic Repeats

article

On pairwise distances and median score of three genomes under DCJ

scientific article

On problem of orienting ordered scaffolds

On the Intersections of Fibonacci, Pell, and Lucas Numbers

On the Minimal Teaching Sets of Two-Dimensional Threshold Functions

On the Number of Two-Dimensional Threshold Functions

Orientation of Ordered Scaffolds

Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly

Pathset graphs: a novel approach for comprehensive utilization of paired reads in genome assembly

scientific article published on 17 July 2012

Phylogenetic analysis of genome rearrangements among five mammalian orders

scientific article

Reconstruction of Ancestral Genomes in Presence of Gene Gain and Loss

scientific article published on 17 February 2016

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

scientific article

Scaffold assembly based on genome rearrangement analysis

scientific article published on 3 March 2015

Splicing graphs and EST assembly problem

scientific article published in January 2002

TRAIL-Based High Throughput Screening Reveals a Link between TRAIL-Mediated Apoptosis and Glutathione Reductase, a Key Component of Oxidative Stress Response

scientific article

Transcriptome sequencing based annotation and homologous evidence based scaffolding of Anguilla japonica draft genome

scientific article published on 11 January 2016

Weighted Genomic Distance Can Hardly Impose a Bound on the Proportion of Transpositions

article by Shuai Jiang & Max A. Alekseyev published 2011 in Lecture Notes in Computer Science

Weighted de Bruijn Graphs for the Menage Problem and Its Generalizations ⬇️

article published in 2016

List of works by Max A. Alekseyev

10. Making Walks Count: From Silent Circles to Hamiltonian Cycles

5. Solving the Tower of Hanoi with Random Moves

A Computational Method for the Rate Estimation of Evolutionary Transpositions ⬇️

A Unified ILP Framework for Genome Median, Halving, and Aliquoting Problems Under DCJ

Are there rearrangement hotspots in the human genome?

Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads

Assembling single-cell genomes and mini-metagenomes from chimeric MDA products

BayesHammer: Bayesian clustering for error correction in single-cell sequencing ⬇️

Breakpoint graphs and ancestral genome reconstructions

CAMSA: A tool for comparative analysis and merging of scaffold assemblies

CAMSA: a tool for comparative analysis and merging of scaffold assemblies

Colored de Bruijn graphs and the genome halving problem

Combinatorial Scoring of Phylogenetic Networks ⬇️

Combinatorial Scoring of Phylogenetic Trees and Networks Based on Homoplasy-Free Characters

Comparative genomics meets topology: a novel view on genome median and halving problems

Comparative genomics reveals birth and death of fragile regions in mammalian evolution

Computing solutions to the congruence1n+2n+⋯+nn≡p(modn)

Decoding Synteny Blocks and Large-Scale Duplications in Mammalian and Plant Genomes

Decoding the Genomic Architecture of Mammalian and Plant Genomes: Synteny Blocks and Large-scale Duplications

Estimation of the true evolutionary distance under the fragile breakage model

Estimation of the true evolutionary distance under the fragile breakage model

Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies

Generalized Hultman Numbers and Cycle Structures of Breakpoint Graphs ⬇️

Generalized Hultman Numbers and the Distribution of Multi-break Distances

Genome Halving Problem Revisited

Implicit Transpositions in Shortest DCJ Scenarios

Limited Lifespan of Fragile Regions in Mammalian Evolution

Linearization of Median Genomes Under the Double-Cut-and-Join-Indel Model.

Linearization of Median Genomes under DCJ

Mosquito genomics. Highly evolvable malaria vectors: the genomes of 16 Anopheles mosquitoes

Multi-break Rearrangements: From Circular to Linear Genomes

Multi-break rearrangements and breakpoint re-uses: from circular to linear genomes

Multi-break rearrangements and chromosomal evolution

Multi-genome Scaffold Co-assembly Based on the Analysis of Gene Orders and Genomic Repeats

On pairwise distances and median score of three genomes under DCJ

On problem of orienting ordered scaffolds

On the Intersections of Fibonacci, Pell, and Lucas Numbers

On the Minimal Teaching Sets of Two-Dimensional Threshold Functions

On the Number of Two-Dimensional Threshold Functions

Orientation of Ordered Scaffolds

Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly

Pathset graphs: a novel approach for comprehensive utilization of paired reads in genome assembly

Phylogenetic analysis of genome rearrangements among five mammalian orders

Reconstruction of Ancestral Genomes in Presence of Gene Gain and Loss

SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing

Scaffold assembly based on genome rearrangement analysis

Splicing graphs and EST assembly problem

TRAIL-Based High Throughput Screening Reveals a Link between TRAIL-Mediated Apoptosis and Glutathione Reductase, a Key Component of Oxidative Stress Response

Transcriptome sequencing based annotation and homologous evidence based scaffolding of Anguilla japonica draft genome

Weighted Genomic Distance Can Hardly Impose a Bound on the Proportion of Transpositions

Weighted de Bruijn Graphs for the Menage Problem and Its Generalizations ⬇️

Whole Genome Duplications and Contracted Breakpoint Graphs