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Simplitigs as an efficient and scalable representation of de Bruijn graphs

Genome Biology, 2021-04, Vol.22 (1), p.96-96, Article 96

2021

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Evolution of biosequence search algorithms: a brief survey

Bioinformatics, 2019-10, Vol.35 (19), p.3547-3552

2019

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Space-efficient representation of genomic k-mer count tables

Algorithms for molecular biology, 2022-03, Vol.17 (1), p.5-15, Article 5

2022

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Special Issue on Computer Science Symposium in Russia (2019)

Theory of computing systems, 2021-04, Vol.65 (3), p.441-443

2021

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Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing

Nature microbiology, 2020-03, Vol.5 (3), p.455-464

2020

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Diversity of Monomers in Nonribosomal Peptides: towards the Prediction of Origin and Biological Activity

Journal of Bacteriology, 2010-10, Vol.192 (19), p.5143-5150

2010

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Minimal Absent Words in a Sliding Window and Applications to On-Line Pattern Matching

Fundamentals of Computation Theory, 2017, p.164-176

2017

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Computer Science - Theory and Applications: 14th International Computer Science Symposium in Russia, CSR 2019, Novosibirsk, Russia, July 1-5, 2019, Proceedings

1st Edition 2019, 2019

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Improved hit criteria for DNA local alignment

BMC bioinformatics, 2004-10, Vol.5 (1), p.149-149, Article 149

2004

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Set-Min Sketch: A Probabilistic Map for Power-Law Distributions with Application to k -Mer Annotation

Journal of computational biology, 2022-02, Vol.29 (2), p.140-154

2022

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Spaced seeds improve k-mer-based metagenomic classification

Bioinformatics (Oxford, England), 2015-11, Vol.31 (22), p.3584-3592

2015

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Diversity and structure of PIF/Harbinger-like elements in the genome of Medicago truncatula

BMC genomics, 2007-11, Vol.8 (1), p.409-409

2007

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Full-Fledged Real-Time Indexing for Constant Size Alphabets

Algorithmica, 2017-10, Vol.79 (2), p.387-400

2017

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A unifying framework for seed sensitivity and its application to subset seeds

Journal of bioinformatics and computational biology, 2006-04, Vol.4 (2), p.553-569

2006

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On-line construction of position heaps

Journal of discrete algorithms (Amsterdam, Netherlands), 2013-05, Vol.20 (May), p.3-11

Kucherov, Gregory

2013

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On maximal repetitions of arbitrary exponent

Information processing letters, 2010-03, Vol.110 (7), p.252-256

2010

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Minimally overlapping words for sequence similarity search

Bioinformatics, 2021-04, Vol.36 (22-23), p.5344-5350

2021

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Combinatorial Pattern Matching: 20th Annual Symposium, CPM 2009 Lille, France, June 22-24, 2009 Proceedings

2009 edition., 2009

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Optimal bounds for computing α-gapped repeats

Information and computation, 2019-10, Vol.268, p.104434, Article 104434

2019

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SIGffRid: A tool to search for sigma factor binding sites in bacterial genomes using comparative approach and biologically driven statistics

BMC bioinformatics, 2008-01, Vol.9 (1), p.73-73, Article 73

2008

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YASS: enhancing the sensitivity of DNA similarity search

Nucleic acids research, 2005-07, Vol.33 (Web Server issue), p.W540-W543

2005

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Approximate string matching using a bidirectional index

Theoretical computer science, 2016-07, Vol.638, p.145-158

2016

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Phase Transition in Count Approximation by Count-Min Sketch with Conservative Updates

Algorithms and Complexity, 2023, Vol.13898, p.232-246

2023

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Back-translation for discovering distant protein homologies in the presence of frameshift mutations

Algorithms for molecular biology, 2010-01, Vol.5 (1), p.6-6, Article 6

2010

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Using cascading Bloom filters to improve the memory usage for de Brujin graphs

Algorithms for molecular biology, 2014-02, Vol.9 (1), p.2-2, Article 2

2014

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Simplitigs as an efficient and scalable representation of de Bruijn graphs

Evolution of biosequence search algorithms: a brief survey

Space-efficient representation of genomic k-mer count tables

Special Issue on Computer Science Symposium in Russia (2019)

Rapid inference of antibiotic resistance and susceptibility by genomic neighbour typing

Diversity of Monomers in Nonribosomal Peptides: towards the Prediction of Origin and Biological Activity

Minimal Absent Words in a Sliding Window and Applications to On-Line Pattern Matching

Computer Science - Theory and Applications: 14th International Computer Science Symposium in Russia, CSR 2019, Novosibirsk, Russia, July 1-5, 2019, Proceedings

Improved hit criteria for DNA local alignment

Set-Min Sketch: A Probabilistic Map for Power-Law Distributions with Application to k -Mer Annotation

Spaced seeds improve k-mer-based metagenomic classification

Diversity and structure of PIF/Harbinger-like elements in the genome of Medicago truncatula

Full-Fledged Real-Time Indexing for Constant Size Alphabets

A unifying framework for seed sensitivity and its application to subset seeds

On-line construction of position heaps

On maximal repetitions of arbitrary exponent

Minimally overlapping words for sequence similarity search

Combinatorial Pattern Matching: 20th Annual Symposium, CPM 2009 Lille, France, June 22-24, 2009 Proceedings

Optimal bounds for computing α-gapped repeats

SIGffRid: A tool to search for sigma factor binding sites in bacterial genomes using comparative approach and biologically driven statistics

YASS: enhancing the sensitivity of DNA similarity search

Approximate string matching using a bidirectional index

Phase Transition in Count Approximation by Count-Min Sketch with Conservative Updates

Back-translation for discovering distant protein homologies in the presence of frameshift mutations

Using cascading Bloom filters to improve the memory usage for de Brujin graphs

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