Splicing graphs and EST assembly problem. - Steffen Heber; Max A. Alekseyev; Sing-Hoi Sze; Haixu Tang; Pavel A. Pevzner (ISMB, 2002)

Genome Halving Problem Revisited. - Max A. Alekseyev; Pavel A. Pevzner (FSTTCS, 2004)

Multi-break Rearrangements: From Circular to Linear Genomes. - Max A. Alekseyev (RECOMB-CG, 2007)

Whole genome duplications, multi-break rearrangements, and genome halving problem. - Max A. Alekseyev; Pavel A. Pevzner (SODA, 2007)

Are There Rearrangement Hotspots in the Human Genome? - Max A. Alekseyev; Pavel A. Pevzner (PLoS Comput. Biol., 2007)

Whole Genome Duplications and Contracted Breakpoint Graphs. - Max A. Alekseyev; Pavel A. Pevzner (SIAM J. Comput., 2007)

Problem 11281. - Max A. Alekseyev; Emeric Deutsch (Am. Math. Mon., 2007)

Colored de Bruijn Graphs and the Genome Halving Problem. - Max A. Alekseyev; Pavel A. Pevzner (IEEE ACM Trans. Comput. Biol. Bioinform., 2007)

Multi-Break Rearrangements and Breakpoint Re-Uses: From Circular to Linear Genomes. - Max A. Alekseyev (J. Comput. Biol., 2008)

Multi-break rearrangements and chromosomal evolution. - Max A. Alekseyev; Pavel A. Pevzner (Theor. Comput. Sci., 2008)

Decoding Synteny Blocks and Large-Scale Duplications in Mammalian and Plant Genomes. - Qian Peng; Max A. Alekseyev; Glenn Tesler; Pavel A. Pevzner (WABI, 2009)

Counting Permutations with Two Displacement Values: 11281 [2007, 259]. - Max A. Alekseyev; John Henry Steelman (Am. Math. Mon., 2009)

Limited Lifespan of Fragile Regions in Mammalian Evolution. - Max A. Alekseyev; Pavel A. Pevzner (RECOMB-CG, 2010)

Decoding the Genomic Architecture of Mammalian and Plant Genomes: Synteny Blocks and Large-scale Duplications. - Max A. Alekseyev; Qian Peng; Pavel A. Pevzner; Glenn Tesler (Commun. Inf. Syst., 2010)

On the Number of Two-Dimensional Threshold Functions. - Max A. Alekseyev (SIAM J. Discret. Math., 2010)

Weighted Genomic Distance Can Hardly Impose a Bound on the Proportion of Transpositions. - Shuai Jiang; Max A. Alekseyev (RECOMB, 2011)

On the Intersections of Fibonacci, Pell, and Lucas Numbers. - Max A. Alekseyev (Integers, 2011)

On pairwise distances and median score of three genomes under DCJ. - Sergey Aganezov Jr.; Max A. Alekseyev (BMC Bioinform., 2012)

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing. - Anton Bankevich; Sergey Nurk; Dmitry Antipov; Alexey A. Gurevich; Mikhail Dvorkin; Alexander S. Kulikov; Valery M. Lesin; Sergey I. Nikolenko; Son K. Pham; Andrey D. Prjibelski; Alex Pyshkin; Alexander Sirotkin 001; et al. (J. Comput. Biol., 2012)

Assembling Genomes and Mini-metagenomes from Highly Chimeric Reads. - Sergey Nurk; Anton Bankevich; Dmitry Antipov; Alexey A. Gurevich; Anton I. Korobeynikov; Alla L. Lapidus; Andrey D. Prjibelsky; Alex Pyshkin; Alexander Sirotkin 001; Yakov Sirotkin; Ramunas Stepanauskas; Jeffrey S. McLean; et al. (RECOMB, 2013)

BayesHammer: Bayesian clustering for error correction in single-cell sequencing. - Sergey I. Nikolenko; Anton I. Korobeynikov; Max A. Alekseyev (BMC Genom., 2013)

On integral points on biquadratic curves and near multiples of squares in Lucas sequences. - Max A. Alekseyev (CoRR, 2013)

The average cardinality of the minimal teaching set of a threshold function on a two-dimensional rectangular grid. - Max A. Alekseyev; Marina G. Basova; Nikolai Yu. Zolotykh (CoRR, 2013)

Solving the Tower of Hanoi with Random Moves - Max A. Alekseyev; Toby Berger (CoRR, 2013)

Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products. - Sergey Nurk; Anton Bankevich; Dmitry Antipov; Alexey A. Gurevich; Anton I. Korobeynikov; Alla L. Lapidus; Andrey D. Prjibelski; Alex Pyshkin; Alexander Sirotkin 001; Yakov Sirotkin; Ramunas Stepanauskas; Scott R. Clingenpeel; et al. (J. Comput. Biol., 2013)

Pathset Graphs: A Novel Approach for Comprehensive Utilization of Paired Reads in Genome Assembly. - Son K. Pham; Dmitry Antipov; Alexander Sirotkin 001; Glenn Tesler; Pavel A. Pevzner; Max A. Alekseyev (J. Comput. Biol., 2013)

Linearization of Median Genomes under DCJ. - Shuai Jiang; Max A. Alekseyev (WABI, 2014)

Computing the (number of) inverses of Euler's totient and other multiplicative functions. - Max A. Alekseyev (CoRR, 2014)

On Integral Points on Biquadratic Curves and Near-Multiples of Squares in Lucas Sequences. - Max A. Alekseyev; Szabolcs Tengely (J. Integer Seq., 2014)

Generalized Hultman Numbers and the Distribution of Multi-break Distances. - Nikita Alexeev; Anna Pologova; Max A. Alekseyev (AlCoB, 2015)

Implicit Transpositions in Shortest DCJ Scenarios. - Shuai Jiang; Max A. Alekseyev (AlCoB, 2015)

Estimation of the true evolutionary distance under the fragile breakage model. - Nikita Alexeev; Max A. Alekseyev (ICCABS, 2015)

A Computational Method for the Rate Estimation of Evolutionary Transpositions. - Nikita Alexeev; Rustem Aidagulov; Max A. Alekseyev (IWBBIO (1), 2015)

Scaffold assembly based on genome rearrangement analysis. - Sergey Aganezov Jr.; Nadia Sitdykova; Max A. Alekseyev (Comput. Biol. Chem., 2015)

On the Minimal Teaching Sets of Two-Dimensional Threshold Functions. - Max A. Alekseyev; Marina G. Basova; Nikolai Yu. Zolotykh (SIAM J. Discret. Math., 2015)

Combinatorial Scoring of Phylogenetic Networks. - Nikita Alexeev; Max A. Alekseyev (COCOON, 2016)

Multi-genome Scaffold Co-assembly Based on the Analysis of Gene Orders and Genomic Repeats. - Sergey Aganezov Jr.; Max A. Alekseyev (ISBRA, 2016)

Weighted de Bruijn Graphs for the Menage Problem and Its Generalizations. - Max A. Alekseyev (IWOCA, 2016)

Comparative genomics meets topology: a novel view on genome median and halving problems. - Nikita Alexeev; Pavel Avdeyev; Max A. Alekseyev (BMC Bioinform., 2016)

Transcriptome sequencing based annotation and homologous evidence based scaffolding of Anguilla japonica draft genome. - Yu-Chen Liu; Sheng-Da Hsu; Chih-Hung Chou; Wei-Yun Huang; Yu-Hung Chen; Chia-Yu Liu; Guan-Jay Lyu; Shao-Zhen Huang; Sergey Aganezov Jr.; Max A. Alekseyev; Chung-Der Hsiao; Hsien-Da Huang (BMC Genom., 2016)

Making Walks Count: From Silent Circles to Hamiltonian Cycles. - Max A. Alekseyev; Gerard P. Michon (CoRR, 2016)

Reconstruction of Ancestral Genomes in Presence of Gene Gain and Loss. - Pavel Avdeyev; Shuai Jiang; Sergey Aganezov Jr.; Fei Hu; Max A. Alekseyev (J. Comput. Biol., 2016)

Computing the Inverses, their Power Sums, and Extrema for Euler's Totient and Other Multiplicative Functions. - Max A. Alekseyev (J. Integer Seq., 2016)

On problem of orienting ordered scaffolds. - Sergey Aganezov Jr.; Max A. Alekseyev (ICCABS, 2017)

Orientation of Ordered Scaffolds. - Sergey Aganezov Jr.; Max A. Alekseyev (RECOMB-CG, 2017)

A Unified ILP Framework for Genome Median, Halving, and Aliquoting Problems Under DCJ. - Pavel Avdeyev; Nikita Alexeev; Yongwu Rong; Max A. Alekseyev (RECOMB-CG, 2017)

CAMSA: a tool for comparative analysis and merging of scaffold assemblies. - Sergey Aganezov Jr.; Max A. Alekseyev (BMC Bioinform., 2017)

Generalized Hultman Numbers and Cycle Structures of Breakpoint Graphs. - Nikita Alexeev; Anna Pologova; Max A. Alekseyev (J. Comput. Biol., 2017)

Implicit Transpositions in DCJ Scenarios. - Pavel Avdeyev; Shuai Jiang; Max A. Alekseyev (BCB, 2018)

A Rapid Exact Solution for the Guided Genome Halving Problem. - Anton Nekhai; Maria Atamanova; Pavel Avdeyev; Max A. Alekseyev (BCB, 2018)

On partitions into squares of distinct integers whose reciprocals sum to 1. - Max A. Alekseyev (CoRR, 2018)

Combinatorial Scoring of Phylogenetic Trees and Networks Based on Homoplasy-Free Characters. - Nikita Alexeev; Max A. Alekseyev (J. Comput. Biol., 2018)

A Uniform Theory of Adequate Subgraphs for the Genome Median, Halving, and Aliquoting Problems. - Pavel Avdeyev; Maria Atamanova; Max A. Alekseyev (AlCoB, 2019)

Linearization of Ancestral Genomes with Duplicated Genes. - Pavel Avdeyev; Max A. Alekseyev (BCB, 2020)

A unified ILP framework for core ancestral genome reconstruction problems. - Pavel Avdeyev; Nikita Alexeev; Yongwu Rong; Max A. Alekseyev (Bioinform., 2020)

Computing solutions to the congruence 1n+2n+⋯+nn≡p(modn). - Max A. Alekseyev; José María Grau; Antonio M. Oller-Marcén (Discret. Appl. Math., 2020)

Orienting Ordered Scaffolds: Complexity and Algorithms. - Sergey Aganezov; Pavel Avdeyev; Nikita Alexeev; Yongwu Rong; Max A. Alekseyev (SN Comput. Sci., 2022)

On Computing Sets of Integers with Maximum Number of Pairs Summing to Powers of 2. - Max A. Alekseyev (IWOCA, 2024)

A family of permutationally invariant quantum codes. - Arda Aydin; Max A. Alekseyev; Alexander Barg (Quantum, 2024)

Enumeration of Payphone Permutations. - Max A. Alekseyev (Am. Math. Mon., 2024)