Kryukov Kirill クリュコフキリル

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KRYUKOV Kirill クリュコフキリル

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Researcher Number	20806202
Other IDs
Affiliation (Current)	2025: 国立遺伝学研究所, ゲノム・進化研究系, 特命准教授
Affiliation (based on the past Project Information) *help	2022: 国立遺伝学研究所, Biological Networks Laboratory, 特命准教授 2021: 国立遺伝学研究所, Department of Informatics, 特命准教授 2020: 国立遺伝学研究所, ゲノム・進化研究系, 特命准教授 2017 – 2018: 東海大学, 医学部, 奨励研究員
Review Section/Research Field	Principal Investigator Basic Section 43060:System genome science-related / Life / Health / Medical informatics
Keywords	Principal Investigator Sequence analysis / DNA compression / Genome database / GenomeSync / NAF / Data compression / 生体生命情報学 / medical metagenomics / metagenomics / NGS … More / sequence analysis / metagenome / sequence / DNA / diagnostics / classification / NGS sequencing / Metagenome Less

Improving efficiency of sequence databases by applying the NAF formatPrincipal Investigator
- Principal Investigator
  
  Kryukov Kirill
- Project Period (FY)
  2020 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 43060:System genome science-related
- Research Institution
  National Institute of Genetics
Medical Sequence Classifier - a system for quick and accurate sequence-based diagnosticsPrincipal Investigator
- Principal Investigator
  
  KRYUKOV Kirill
- Project Period (FY)
  2017 – 2018
- Research Category
  
  Grant-in-Aid for Research Activity Start-up
- Research Field
  
  Life / Health / Medical informatics
- Research Institution
  Tokai University

All 2023 2022 2021 2020 2019 2018 2017

All Journal Article Presentation

[Journal Article] Nanopore sequencing data analysis of 16S rRNA genes using GenomeSync-GSTK system2023
- Author(s)
  Kirill Kryukov, Tadashi Imanishi, So Nakagawa
- Journal Title
  
  Methods in Molecular Biology
  
  Volume: 2632 Pages: 215-226
- DOI
  10.1007/978-1-0716-2996-3_15
- ISBN
  9781071629956, 9781071629963
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K06612
[Journal Article] MinION, a portable long-read sequencer, enables rapid vaginal microbiota analysis in a clinical setting2022
- Author(s)
  Komiya Shinnosuke、Matsuo Yoshiyuki、Nakagawa So、Morimoto Yoshiharu、Kryukov Kirill、Okada Hidetaka、Hirota Kiichi
- Journal Title
  
  BMC Medical Genomics
  
  Volume: 15 Issue: 1 Pages: 68-68
- DOI
  10.1186/s12920-022-01218-8
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K09339, KAKENHI-PROJECT-20H03776, KAKENHI-PROJECT-20K06612, KAKENHI-PROJECT-20K09419
[Journal Article] Efficient compression of SARS-CoV-2 genome data using Nucleotide Archival Format (NAF)2022
- Author(s)
  Kirill Kryukov, Lihua Jin, So Nakagawa
- Journal Title
  
  Patterns
  
  Volume: 3 Issue: 9 Pages: 100562-100562
- DOI
  10.1016/j.patter.2022.100562
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K06612
[Journal Article] Full-length 16S rRNA gene amplicon analysis of human gut microbiota using MinION? nanopore sequencing confers species-level resolution2021
- Author(s)
  Matsuo Yoshiyuki、Komiya Shinnosuke、Yasumizu Yoshiaki、Yasuoka Yuki、Mizushima Katsura、Takagi Tomohisa、Kryukov Kirill、Fukuda Aisaku、Morimoto Yoshiharu、Naito Yuji、Okada Hidetaka、Bono Hidemasa、Nakagawa So、Hirota Kiichi
- Journal Title
  
  BMC Microbiology
  
  Volume: 21 Issue: 1 Pages: 35-35
- DOI
  10.1186/s12866-021-02094-5
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K09339, KAKENHI-PROJECT-20K06612
[Journal Article] Metagenomic analysis of bacterial 16S rRNA sequences2021
- Author(s)
  Kirill Kryukov, So Nakagawa, Yoshiyuki Matsuo, Kiichi Hirota, Tadashi Imanishi
- Journal Title
  
  Experimental Medicine
  
  Volume: Dec 2021
- Data Source
  KAKENHI-PROJECT-20K06612
[Journal Article] Diagnosis of pleural empyema/parapneumonic effusion by next-generation sequencing2021
- Author(s)
  Shiraishi Yoshiki、Kryukov Kirill、Tomomatsu Katsuyoshi、Sakamaki Fumio、Inoue Shigeaki、Nakagawa So、Imanishi Tadashi、Asano Koichiro
- Journal Title
  
  Infectious Diseases
  
  Volume: 53 Issue: 6 Pages: 450-459
- DOI
  10.1080/23744235.2021.1892178
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K08893, KAKENHI-PROJECT-20K06612
[Journal Article] Rapid profiling of drug-resistant bacteria using DNA-binding dyes and a nanopore-based DNA sequencer2021
- Author(s)
  Ayumu Ohno, Kazuo Umezawa, Satomi Asai, Kirill Kryukov, So Nakagawa, Hayato Miyachi, Tadashi Imanishi
- Journal Title
  
  Scientific Reports
  
  Volume: 11 Issue: 1 Pages: 3436-3436
- DOI
  10.1038/s41598-021-82903-z
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K06612, KAKENHI-PROJECT-20K17196
[Journal Article] Sequence Compression Benchmark (SCB) database - a comprehensive evaluation of reference-free compressors for FASTA-formatted sequences2020
- Author(s)
  Kirill Kryukov, Mahoko Takahashi Ueda, So Nakagawa, Tadashi Imanishi
- Journal Title
  
  GigaScience
  
  Volume: 9 Issue: 7
- DOI
  10.1093/gigascience/giaa072
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K06612, KAKENHI-INTERNATIONAL-16K21723, KAKENHI-PUBLICLY-19H04843, KAKENHI-ORGANIZER-16H06429
[Journal Article] ナノポアDNAシークエンサーを用いた迅速な細菌同定法2020
- Author(s)
  大野　歩,　中川　草,　Kirill Kryukov,　今西　規
- Journal Title
  
  臨床化学
  
  Volume: 49 Pages: 265-270
- Data Source
  KAKENHI-PROJECT-20K06612
[Journal Article] Real-time diagnostic analysis of MinION-based metagenomic sequencing in clinical microbiology evaluation: a case report2019
- Author(s)
  Hiromasa Tanaka, Yoshiyuki Matsuo, So Nakagawa, Kenichiro Nishi, Akihisa Okamoto, Shinichi Kai, Teppei Iwai, Yoshiteru Tabata, Takeshi Tajima, Yuji Komatsu, Motohiko Satoh, Kirill Kryukov, Tadashi Imanishi, Kiichi Hirota
- Journal Title
  
  JA Clinical Reports
  
  Volume: 5 Issue: 1 Pages: 24-24
- DOI
  10.1186/s40981-019-0244-z
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H07123, KAKENHI-PROJECT-16K10975, KAKENHI-PROJECT-19K09339, KAKENHI-PROJECT-18K16501
[Journal Article] Nucleotide Archival Format (NAF) enables efficient lossless reference-free compression of DNA sequences2019
- Author(s)
  Kirill Kryukov, Mahoko Takahashi Ueda, So Nakagawa, Tadashi Imanishi
- Journal Title
  
  Bioinformatics
  
  Volume: in press Issue: 19 Pages: 3826-3828
- DOI
  10.1093/bioinformatics/btz144
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H07123
[Journal Article] Rapid bacterial identification by direct PCR amplification of 16S rRNA genes using the MinION nanopore sequencer2019
- Author(s)
  Shinichi Kai, Yoshiyuki Matsuo, So Nakagawa, Kirill Kryukov, Shino Matsukawa, Hiromasa Tanaka, Teppei Iwai, Tadashi Imanishi, Kiichi Hirota
- Journal Title
  
  FEBS Open Bio
  
  Volume: 9 Issue: 3 Pages: 548-557
- DOI
  10.1002/2211-5463.12590
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H07123, KAKENHI-PROJECT-16K10975, KAKENHI-PROJECT-19K09339
[Journal Article] Systematic survey of non-retroviral virus-like elements in eukaryotic genomes.2019
- Author(s)
  Kryukov K, Ueda MT, Imanishi T, Nakagawa S.
- Journal Title
  
  Virus Research
  
  Volume: 262 Pages: 30-36
- DOI
  10.1016/j.virusres.2018.02.002
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-INTERNATIONAL-16K21723, KAKENHI-ORGANIZER-16H06429, KAKENHI-PUBLICLY-17H05823, KAKENHI-PROJECT-17H07123
[Journal Article] Detection of pathogenic bacteria in the blood from sepsis patients using 16S rRNA gene amplicon sequencing analysis.2018
- Author(s)
  Watanabe N, Kryukov K, Nakagawa S, Takeuchi JS, Takeshita M, Kirimura Y, Mitsuhashi S, Ishihara T, Aoki H, Inokuchi S, Imanishi T, Inoue S
- Journal Title
  
  PLoS One
  
  Volume: 13 Issue: 8 Pages: e0202049-e0202049
- DOI
  10.1371/journal.pone.0202049
- NAID
  120006826803
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-18K08868, KAKENHI-PROJECT-17H07123, KAKENHI-PROJECT-16J40232, KAKENHI-PROJECT-17K15708
[Journal Article] A portable system for rapid bacterial composition analysis using a nanopore-based sequencer and laptop computer2017
- Author(s)
  Satomi Mitsuhashi, Kirill Kryukov, So Nakagawa, Junko S. Takeuchi, Yoshiki Shiraishi, Koichiro Asano, Tadashi Imanishi
- Journal Title
  
  Scientific Reports
  
  Volume: 7 Issue: 1 Pages: 5657-5657
- DOI
  10.1038/s41598-017-05772-5
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H07123, KAKENHI-PROJECT-16J40232, KAKENHI-PROJECT-17K15708
[Presentation] Sequence Data Compression. History, methods, best practices, perspectives.2021
- Author(s)
  Kirill Kryukov
- Organizer
  EvoGen Reading Club
- Invited
- Data Source
  KAKENHI-PROJECT-20K06612
[Presentation] GenomeSync and GSTK: Toolkit for precision analysis of medical metagenome sequence data2021
- Author(s)
  Kirill Kryukov
- Organizer
  Genome Analysis for Precision Medicine of Infectious Diseases, 2021
- Invited
- Data Source
  KAKENHI-PROJECT-20K06612
[Presentation] GenomeSync: streamlining access to current genome data2021
- Author(s)
  Kirill Kryukov
- Organizer
  Genome Concept Centennial Conference
- Invited
- Data Source
  KAKENHI-PROJECT-20K06612
[Presentation] NAF - data compression for next generation of genome databases2019
- Author(s)
  Kirill Kryukov, Mahoko Takahashi Ueda, So Nakagawa, Tadashi Imanishi
- Organizer
  Society of Genome Microbiology, Japan
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] GenomeSync - an automatically synchronizing local database of genome sequences2018
- Author(s)
  Kirill Kryukov, Tadashi Imanishi
- Organizer
  Molecular Biology Soeicty of Japan
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] Classifying metagenomic reads using GenomeSync and Genome Search Toolkit2018
- Author(s)
  Kirill Kryukov, Tadashi Imanishi
- Organizer
  The 91st Annual Meeting of Japanese Society for Bacteriology
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] Non-retroviral virus-like elements in eukaryotic genomes2018
- Author(s)
  Kirill Kryukov, Mahoko Takahashi Ueda, Tadashi Imanishi, So Nakagawa
- Organizer
  SMBE2018
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] Phylogenetic trees explain mysteries of complete genomes2018
- Author(s)
  Kirill Kryukov
- Organizer
  Neighbor-Joining Symposium in National Institute of Genetics, Mishima
- Invited
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] GenomeSync - an automatically synchronizing local database of genome sequences2017
- Author(s)
  Kirill Kryukov, Tadashi Imanishi
- Organizer
  NGS Field Meeting
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] Methods and databases for analyzing medical metagenomes2017
- Author(s)
  Kirill Kryukov
- Organizer
  AMED-JGRID Symposium
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] GenomeSync - a comprehensive auto-updating genome database and its applications2017
- Author(s)
  Kirill Kryukov
- Organizer
  NIG Biological Symposium
- Invited
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] A portable system for rapid bacterial composition analysis using MinION and laptop computer2017
- Author(s)
  Satomi Mitsuhashi, So Nakagawa, Kirill Kryukov, Tadashi Imanishi
- Organizer
  London Calling 2017
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] A portable system for rapid bacterial composition analysis using MinION and laptop computer2017
- Author(s)
  Satomi Mitsuhashi, Nana Asami, So Nakagawa, Kirill Kryukov, Tadashi Imanishi
- Organizer
  Second Technology Seminar on the MinION sequencing
- Data Source
  KAKENHI-PROJECT-17H07123
[Presentation] Detecting human contamination in genome assemblies2017
- Author(s)
  Kirill Kryukov, Tadashi Imanishi
- Organizer
  12th International Workshop on Advanced Genomics
- Data Source
  KAKENHI-PROJECT-17H07123

1. 渡邊伸央

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2. 井上茂亮

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3. 廣田喜一

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4. 松尾禎之

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5. 浅野浩一郎

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Kryukov Kirill クリュコフ キリル

KRYUKOV Kirill クリュコフ キリル

Research Projects

Research Products

Co-Researchers

Improving efficiency of sequence databases by applying the NAF formatPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Medical Sequence Classifier - a system for quick and accurate sequence-based diagnosticsPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

[Journal Article] Nanopore sequencing data analysis of 16S rRNA genes using GenomeSync-GSTK system2023

Author(s)

Journal Title

DOI

ISBN

Data Source

[Journal Article] MinION, a portable long-read sequencer, enables rapid vaginal microbiota analysis in a clinical setting2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Efficient compression of SARS-CoV-2 genome data using Nucleotide Archival Format (NAF)2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Full-length 16S rRNA gene amplicon analysis of human gut microbiota using MinION? nanopore sequencing confers species-level resolution2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Metagenomic analysis of bacterial 16S rRNA sequences2021

Author(s)

Journal Title

Data Source

[Journal Article] Diagnosis of pleural empyema/parapneumonic effusion by next-generation sequencing2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Rapid profiling of drug-resistant bacteria using DNA-binding dyes and a nanopore-based DNA sequencer2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Sequence Compression Benchmark (SCB) database - a comprehensive evaluation of reference-free compressors for FASTA-formatted sequences2020

Author(s)

Journal Title

DOI

Data Source

[Journal Article] ナノポアDNAシークエンサーを用いた 迅速な細菌同定法2020

Author(s)

Journal Title

Data Source

[Journal Article] Real-time diagnostic analysis of MinION-based metagenomic sequencing in clinical microbiology evaluation: a case report2019

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Nucleotide Archival Format (NAF) enables efficient lossless reference-free compression of DNA sequences2019

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Rapid bacterial identification by direct PCR amplification of 16S rRNA genes using the MinION nanopore sequencer2019

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Systematic survey of non-retroviral virus-like elements in eukaryotic genomes.2019

Author(s)

Journal Title

DOI

Kryukov Kirill クリュコフキリル

KRYUKOV Kirill クリュコフキリル

[Journal Article] ナノポアDNAシークエンサーを用いた迅速な細菌同定法2020