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Kenta Nakai
Weihang Zhang Yang Cui Bowen Liu Martin Loza Sung-Joon Park Kenta Nakai HyGAnno: hybrid graph neural network-based cell type annotation for single-cell ATAC sequencing data. 2024 25 Briefings Bioinform. 3 https://doi.org/10.1093/bib/bbae152 db/journals/bib/bib25.html#ZhangCLLPN24
Zhongshen Li Junru Jin Wenjia He Wentao Long Haoqing Yu Xin Gao 0001 Kenta Nakai Quan Zou 0001 Leyi Wei CoraL: interpretable contrastive meta-learning for the prediction of cancer-associated ncRNA-encoded small peptides. 2023 September 24 Briefings Bioinform. 6 https://doi.org/10.1093/bib/bbad352 db/journals/bib/bib24.html#LiJHLYGNZW23 streams/journals/bib
Wenze Ding Kenta Nakai Haipeng Gong Protein design via deep learning. 2022 23 Briefings Bioinform. 3 https://doi.org/10.1093/bib/bbac102 https://www.wikidata.org/entity/Q112687941 db/journals/bib/bib23.html#DingNG22
Ruheng Wang Junru Jin Quan Zou 0001 Kenta Nakai Leyi Wei Predicting protein-peptide binding residues via interpretable deep learning. 3351-3360 2022 38 Bioinform. 13 https://doi.org/10.1093/bioinformatics/btac352 db/journals/bioinformatics/bioinformatics38.html#WangJZNW22
Kenta Nakai Leyi Wei Recent Advances in the Prediction of Subcellular Localization of Proteins and Related Topics. 2022 2 Frontiers Bioinform. https://doi.org/10.3389/fbinf.2022.910531 db/journals/fbinf/fbinf2.html#NakaiW22
Shu Liu Fujio Toriumi Xin Zeng Mao Nishiguchi Kenta Nakai SignedS2V: Structural Embedding Method for Signed Networks. 337-349 2022 COMPLEX NETWORKS (1) https://doi.org/10.1007/978-3-031-21127-0_28 conf/complexnetworks/2022-1 db/conf/complexnetworks/complexnetworks2022-1.html#LiuTZNN22
Sung-Joon Park Kenta Nakai OpenContami: a web-based application for detecting microbial contaminants in next-generation sequencing data. 3021-3022 2021 37 Bioinform. 18 https://doi.org/10.1093/bioinformatics/btab101 db/journals/bioinformatics/bioinformatics37.html#ParkN21
Hao Jia Sung-Joon Park Kenta Nakai A semi-supervised deep learning approach for predicting the functional effects of genomic non-coding variations. 128 2021 22-S BMC Bioinform. 6 https://doi.org/10.1186/s12859-021-03999-8 db/journals/bmcbi/bmcbi22S.html#JiaPN21
Shoba Ranganathan Michael Gribskov Kenta Nakai Christian Schönbach Encyclopedia of Bioinformatics and Computational Biology - Volume 1 Elsevier 2019 978-0-12-811432-2 https://www.sciencedirect.com/referencework/9780128114322/encyclopedia-of-bioinformatics-and-computational-biology#book-description db/reference/bioinf/ebcb2019-1.html Shoba Ranganathan Michael Gribskov Kenta Nakai Christian Schönbach Encyclopedia of Bioinformatics and Computational Biology - Volume 2 Elsevier 2019 978-0-12-811432-2 https://www.sciencedirect.com/referencework/9780128114322/encyclopedia-of-bioinformatics-and-computational-biology#book-description db/reference/bioinf/ebcb2019-2.html Shoba Ranganathan Michael Gribskov Kenta Nakai Christian Schönbach Encyclopedia of Bioinformatics and Computational Biology - Volume 3 Elsevier 2019 978-0-12-811432-2 https://www.sciencedirect.com/referencework/9780128114322/encyclopedia-of-bioinformatics-and-computational-biology#book-description db/reference/bioinf/ebcb2019-3.html Kenta Nakai Kenichiro Imai Prediction of Protein Localization. 53-59 2019 Encyclopedia of Bioinformatics and Computational Biology (2) https://doi.org/10.1016/b978-0-12-809633-8.20270-7 reference/bioinf/2019-2 db/reference/bioinf/ebcb2019-2.html#NakaiI19 Kenta Nakai Prediction of Protein-Binding Sites in DNA Sequences. 447-451 2019 Encyclopedia of Bioinformatics and Computational Biology (3) https://doi.org/10.1016/b978-0-12-809633-8.20131-3 reference/bioinf/2019-3 db/reference/bioinf/ebcb2019-3.html#Nakai19
Phit Ling Tan Yosvany López Kenta Nakai Ashwini Patil TimeXNet Web: identifying cellular response networks from diverse omics time-course data. 3764-3765 2018 34 Bioinform. 21 https://doi.org/10.1093/bioinformatics/bty393 https://www.wikidata.org/entity/Q88677810 db/journals/bioinformatics/bioinformatics34.html#TanLNP18
Myungjin Moon Kenta Nakai Integrative analysis of gene expression and DNA methylation using unsupervised feature extraction for detecting candidate cancer biomarkers. 1850006:1-1850006:20 2018 16 J. Bioinform. Comput. Biol. 2 https://doi.org/10.1142/S0219720018500063 https://www.wikidata.org/entity/Q52642430 db/journals/jbcb/jbcb16.html#MoonN18
Jinyan Li 0001 Kenta Nakai Yun Zheng Kengo Sato Limsoon Wong Introduction to Selected Papers from GIW2018. 1802005:1-1802005:2 2018 16 J. Bioinform. Comput. Biol. 6 https://doi.org/10.1142/S0219720018020055 https://www.wikidata.org/entity/Q90925875 db/journals/jbcb/jbcb16.html#LiNZSWYZZK18
Ayako Suzuki Shin Kawano Toutai Mituyama Mikita Suyama Yae Kanai Katsuhiko Shirahige Hiroyuki Sasaki Katsushi Tokunaga Katsuya Tsuchihara Sumio Sugano Kenta Nakai Yutaka Suzuki DBTSS/DBKERO for integrated analysis of transcriptional regulation. D229-D238 2018 46 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkx1001 https://www.wikidata.org/entity/Q47160144 db/journals/nar/nar46.html#SuzukiKMSKSSTTS18
Matija Brozovic Christelle Dantec Justine Dardaillon Delphine Dauga Emmanuel Faure Mathieu Gineste Alexandra Louis Magali Naville Kazuhiro R. Nitta Jacques Piette Wendy Reeves Céline Scornavacca Paul Simion Renaud Vincentelli Maelle Bellec Sameh Ben Aicha Marie Fagotto Marion Guéroult-Bellone Maximilian Haeussler Edwin Jacox Elijah K. Lowe Mickaël Mendez Alexis Roberge Alberto Stolfi Rui Yokomori C. Titus Brown Christian Cambillau Lionel A. Christiaen Frédéric Delsuc Emmanuel J. P. Douzery Rémi Dumollard Takehiro Kusakabe Kenta Nakai Hiroki Nishida Yutaka Satou Billie J. Swalla Michael Veeman Jean-Nicolas Volff Patrick Lemaire ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets. D718-D725 2018 46 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkx1108 https://www.wikidata.org/entity/Q46259534 db/journals/nar/nar46.html#BrozovicDDDFGLN18
Josep Basha Gutierrez Kenta Nakai A study on the application of topic models to motif finding algorithms. 129-138 2016 17 BMC Bioinform. S-19 https://doi.org/10.1186/s12859-016-1364-3 https://www.wikidata.org/entity/Q36268679 db/journals/bmcbi/bmcbi17S.html#GutierrezN16
Sung-Joon Park Yusuke Komiyama Hirofumi Suemori Akihiro Umezawa Kenta Nakai OpenTein: a database of digital whole-slide images of stem cell-derived teratomas. 1000-1004 2016 44 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkv1096 https://www.wikidata.org/entity/Q35819507 db/journals/nar/nar44.html#ParkKSUN16
Yosvany López Kenta Nakai Ashwini Patil HitPredict version 4: comprehensive reliability scoring of physical protein-protein interactions from more than 100 species. 2015 2015 Database J. Biol. Databases Curation https://doi.org/10.1093/database/bav117 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4691340/ https://www.wikidata.org/entity/Q38398015 db/journals/biodb/biodb2015.html#LopezNP15
Ayako Suzuki Hiroyuki Wakaguri Riu Yamashita Shin Kawano Katsuya Tsuchihara Sumio Sugano Yutaka Suzuki Kenta Nakai DBTSS as an integrative platform for transcriptome, epigenome and genome sequence variation data. 87-91 2015 43 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gku1080 https://www.wikidata.org/entity/Q30868314 db/journals/nar/nar43.html#SuzukiWYKTSSN15
Sung-Joon Park Katsuhiko Shirahige Miho Ohsugi Kenta Nakai DBTMEE: a database of transcriptome in mouse early embryos. 771-776 2015 43 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gku1001 https://www.wikidata.org/entity/Q42172389 db/journals/nar/nar43.html#ParkSON15
Josep Basha Gutierrez Martin C. Frith Kenta Nakai A Genetic Algorithm for Motif Finding Based on Statistical Significance. 438-449 2015 IWBBIO (1) https://doi.org/10.1007/978-3-319-16483-0_43 conf/iwbbio/2015-1 db/conf/iwbbio/iwbbio2015-1.html#GutierrezFN15
Ashwini Patil Kenta Nakai TimeXNet: Identifying active gene sub-networks using time-course gene expression profiles. S2 2014 8 BMC Syst. Biol. S-4 https://doi.org/10.1186/1752-0509-8-S4-S2 https://www.wikidata.org/entity/Q35529692 db/journals/bmcsb/bmcsb8S.html#PatilN14
Yosvany López Ashwini Patil Kenta Nakai Identification of novel motif patterns to decipher the promoter architecture of co-expressed genes in Arabidopsis thaliana. S10 2013 7 BMC Syst. Biol. S-3 https://doi.org/10.1186/1752-0509-7-S3-S10 https://www.wikidata.org/entity/Q35098935 db/journals/bmcsb/bmcsb7S.html#LopezPN13
Ashwini Patil Yutaro Kumagai Kuo-ching Liang Yutaka Suzuki Kenta Nakai Linking Transcriptional Changes over Time in Stimulated Dendritic Cells to Identify Gene Networks Activated during the Innate Immune Response. 2013 9 PLoS Comput. Biol. 11 https://doi.org/10.1371/journal.pcbi.1003323 https://www.wikidata.org/entity/Q35045380 db/journals/ploscb/ploscb9.html#PatilKLSN13
Kouichi Kimura Asako Koike Kenta Nakai A Bit-Parallel Dynamic Programming Algorithm Suitable for DNA Sequence Alignment. 2012 10 J. Bioinform. Comput. Biol. 4 https://doi.org/10.1142/S0219720012500023 https://www.wikidata.org/entity/Q43531571 db/journals/jbcb/jbcb10.html#KimuraKN12
Riu Yamashita Sumio Sugano Yutaka Suzuki Kenta Nakai DBTSS: DataBase of Transcriptional Start Sites progress report in 2012. 150-154 2012 40 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkr1005 https://www.wikidata.org/entity/Q24619908 db/journals/nar/nar40.html#YamashitaSSN12
Ashwini Patil Shunsuke Teraguchi Huy Dinh Kenta Nakai Daron M. Standley Functional Annotation of Intrinsically Disordered Domains by Their Amino Acid Content Using IDD Navigator. 164-175 2012 Pacific Symposium on Biocomputing http://psb.stanford.edu/psb-online/proceedings/psb12/patil.pdf conf/psb/2012 db/conf/psb/psb2012.html#PatilTDNS12
Sung-Joon Park Kenta Nakai A regression analysis of gene expression in ES cells reveals two gene classes that are significantly different in epigenetic patterns. S50 2011 12 BMC Bioinform. S-1 https://doi.org/10.1186/1471-2105-12-S1-S50 https://www.wikidata.org/entity/Q33827050 db/journals/bmcbi/bmcbi12S.html#ParkN11
Ashwini Patil Kenta Nakai Haruki Nakamura HitPredict: a database of quality assessed protein-protein interactions in nine species. 744-749 2011 39 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkq897 https://www.wikidata.org/entity/Q24608927 db/journals/nar/nar39.html#PatilNN11
Kouichi Kimura Asako Koike Kenta Nakai Seed-Set Construction by Equi-entropy Partitioning for Efficient and Sensitive Short-Read Mapping. 151-162 2011 WABI https://doi.org/10.1007/978-3-642-23038-7_14 conf/wabi/2011 db/conf/wabi/wabi2011.html#KimuraKN11
Christian Schönbach Kenta Nakai Tin Wee Tan Shoba Ranganathan InCoB2010 - 9<sup>th </sup>International Conference on Bioinformatics at Tokyo, Japan, September 26-28, 2010. S1 2010 11 BMC Bioinform. S-7 https://doi.org/10.1186/1471-2105-11-S7-S1 https://www.wikidata.org/entity/Q33755556 db/journals/bmcbi/bmcbi11S.html#SchonbachNTR10
Kohji Okamura Kazuaki A. Matsumoto Kenta Nakai Gradual transition from mosaic to global DNA methylation patterns during deuterostome evolution. S2 2010 11 BMC Bioinform. S-7 https://doi.org/10.1186/1471-2105-11-S7-S2 https://www.wikidata.org/entity/Q33755584 db/journals/bmcbi/bmcbi11S.html#OkamuraMN10
Riu Yamashita Hiroyuki Wakaguri Sumio Sugano Yutaka Suzuki Kenta Nakai DBTSS provides a tissue specific dynamic view of Transcription Start Sites. 98-104 2010 38 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkp1017 https://www.wikidata.org/entity/Q39775538 db/journals/nar/nar38.html#YamashitaWSSN10
Nicolas Sierro Yuko Makita Michiel J. L. de Hoon Kenta Nakai DBTBS: a database of transcriptional regulation in <i>Bacillus subtilis</i> containing upstream intergenic conservation information. 93-96 2008 36 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkm910 https://www.wikidata.org/entity/Q42095702 db/journals/nar/nar36.html#SierroMHN08
Hiroyuki Wakaguri Riu Yamashita Yutaka Suzuki Sumio Sugano Kenta Nakai DBTSS: database of transcription start sites, progress report 2008. 97-101 2008 36 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkm901 https://www.wikidata.org/entity/Q43032565 db/journals/nar/nar36.html#WakaguriYSSN08
Takeshi Obayashi Kengo Kinoshita Kenta Nakai Masayuki Shibaoka Shinpei Hayashi Motoshi Saeki Daisuke Shibata Kazuki Saito Hiroyuki Ohta ATTED-II: a database of co-expressed genes and <i>cis</i> elements for identifying co-regulated gene groups in <i>Arabidopsis</i>. 863-869 2007 35 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkl783 https://www.wikidata.org/entity/Q41813918 db/journals/nar/nar35.html#ObayashiKNSHSSSO07
Toshiyuki Okumura Hiroki Makiguchi Yuko Makita Riu Yamashita Kenta Nakai Melina II: a web tool for comparisons among several predictive algorithms to find potential motifs from promoter regions. 227-231 2007 35 Nucleic Acids Res. Web-Server-Issue https://doi.org/10.1093/nar/gkm362 https://www.wikidata.org/entity/Q42431987 db/journals/nar/nar35.html#OkumuraMMYN07
Paul Horton Keun-Joon Park Takeshi Obayashi Naoya Fujita Hajime Harada C. J. Adams-Collier Kenta Nakai WoLF PSORT: protein localization predictor. 585-587 2007 35 Nucleic Acids Res. Web-Server-Issue https://doi.org/10.1093/nar/gkm259 https://www.wikidata.org/entity/Q24684530 db/journals/nar/nar35.html#HortonPOFHAN07
Riu Yamashita Yutaka Suzuki Hiroyuki Wakaguri Katsuki Tsuritani Kenta Nakai Sumio Sugano DBTSS: DataBase of Human Transcription Start Sites, progress report 2006. 86-89 2006 34 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkj129 https://www.wikidata.org/entity/Q25256696 db/journals/nar/nar34.html#YamashitaSWTNS06
Nicolas Sierro Takehiro Kusakabe Keun-Joon Park Riu Yamashita Kengo Kinoshita Kenta Nakai DBTGR: a database of tunicate promoters and their regulatory elements. 552-555 2006 34 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkj064 https://www.wikidata.org/entity/Q25257914 db/journals/nar/nar34.html#SierroKPYKN06
Paul Horton Keun-Joon Park Takeshi Obayashi Kenta Nakai Protein Subcellular Localisation Prediction with WoLF PSORT. 39-48 2006 conf/apbc/2006 APBC http://www.comp.nus.edu.sg/~wongls/psZ/apbc2006/138.pdf db/conf/apbc/apbc2006.html#HortonPON06
Kikuya Kato Riu Yamashita Ryo Matoba Morito Monden Shinzaburo Noguchi Toshihisa Takagi Kenta Nakai Cancer gene expression database (CGED): a database for gene expression profiling with accompanying clinical information of human cancer tissues. 533-536 2005 33 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gki117 https://www.wikidata.org/entity/Q24797391 db/journals/nar/nar33.html#KatoYMMNTN05
Michiel J. L. de Hoon Yuko Makita Kenta Nakai Satoru Miyano Prediction of Transcriptional Terminators in <i>Bacillus subtilis</i> and Related Species. 2005 1 PLoS Comput. Biol. 3 https://doi.org/10.1371/journal.pcbi.0010025 https://www.wikidata.org/entity/Q24813507 db/journals/ploscb/ploscb1.html#HoonMNM05
Yuko Makita Michiel J. L. de Hoon Naotake Ogasawara Satoru Miyano Kenta Nakai Bayesian Joint Prediction of Associated Transcription Factors in Bacillus subtilis. 2005 conf/psb/2005 Pacific Symposium on Biocomputing http://psb.stanford.edu/psb-online/proceedings/psb05/makita.pdf db/conf/psb/psb2005.html#MakitaHOMN05
Yutaka Suzuki Riu Yamashita Matsuyuki Shirota Yuta Sakakibara Joe Chiba Junko Mizushima-Sugano Alexander E. Kel Takahiro Arakawa Piero Carninci Jun Kawai Yoshihide Hayashizaki Toshihisa Takagi Kenta Nakai Sumio Sugano Large-scale collection and characterization of promoters of human and mouse genes. 2004 4 Silico Biol. 4 http://content.iospress.com/articles/in-silico-biology/isb00146 http://www.bioinfo.de/isb/abstracts/04/0036.html db/journals/isb/isb4.html#SuzukiYSSCMKACKHTNS04 429-444
Yuko Makita Mitsuteru Nakao Naotake Ogasawara Kenta Nakai BTBS: database of transcriptional regulation in Bacillus subtilis and its contribution to comparative genomics. 75-77 2004 32 Nucleic Acids Res. Database-Issue db/journals/nar/nar32.html#MakitaNON04 https://doi.org/10.1093/nar/gkh074 https://www.wikidata.org/entity/Q40403367
Yutaka Suzuki Riu Yamashita Sumio Sugano Kenta Nakai BTSS, DataBase of Transcriptional Start Sites: progress report 2004. 78-81 2004 32 Nucleic Acids Res. Database-Issue db/journals/nar/nar32.html#SuzukiYSN04 https://doi.org/10.1093/nar/gkh076 https://www.wikidata.org/entity/Q40403378
Hideo Bannai Heikki Hyyrö Ayumi Shinohara Masayuki Takeda Kenta Nakai Satoru Miyano An O(N<sup>2</sup>) Algorithm for Discovering Optimal Boolean Pattern Pairs. 159-170 2004 1 IEEE ACM Trans. Comput. Biol. Bioinform. 4 https://doi.org/10.1109/TCBB.2004.36 https://doi.ieeecomputersociety.org/10.1109/TCBB.2004.36 https://dl.acm.org/doi/10.1109/TCBB.2004.36 https://www.wikidata.org/entity/Q51930675 db/journals/tcbb/tcbb1.html#BannaiHSTNM04
Shunsuke Inenaga Hideo Bannai Heikki Hyyrö Ayumi Shinohara Masayuki Takeda Kenta Nakai Satoru Miyano Finding Optimal Pairs of Cooperative and Competing Patterns with Bounded Distance. 32-46 https://doi.org/10.1007/978-3-540-30214-8_3 2004 conf/dis/2004 Discovery Science db/conf/dis/dis2004.html#InenagaBHSTNM04 Michiel J. L. de Hoon Yuko Makita Seiya Imoto Kazuo Kobayashi Naotake Ogasawara Kenta Nakai Satoru Miyano Predicting gene regulation by sigma factors in Bacillus subtilis from genome-wide data. 101-108 2004 conf/ismb/2004 ISMB/ECCB (Supplement of Bioinformatics) https://doi.org/10.1093/bioinformatics/bth927 https://www.wikidata.org/entity/Q30945352 db/conf/ismb/ismb2004.html#HoonMIKONM04 Natalia Polouliakh Michiko Konno Paul Horton Kenta Nakai Parameter Landscape Analysis for Common Motif Discovery Programs. 79-87 https://doi.org/10.1007/978-3-540-32280-1_8 2004 conf/recomb/2004rrg Regulatory Genomics db/conf/recomb/rrg2004.html#PolouliakhKHN04 Hideo Bannai Heikki Hyyrö Ayumi Shinohara Masayuki Takeda Kenta Nakai Satoru Miyano Finding Optimal Pairs of Patterns. 450-462 https://doi.org/10.1007/978-3-540-30219-3_38 2004 conf/wabi/2004 WABI db/conf/wabi/wabi2004.html#BannaiHSTNM04
Natalia V. Poluliakh Toshihisa Takagi Kenta Nakai MELINA: motif extraction from promoter regions of potentially co-regulated genes. 423-424 2003 19 Bioinform. 3 db/journals/bioinformatics/bioinformatics19.html#PoluliakhTN03 https://doi.org/10.1093/bioinformatics/btf872 https://www.wikidata.org/entity/Q72991737
Jennifer L. Gardy Cory Spencer Ke Wang 0001 Martin Ester Gábor E. Tusnády István Simon Sujun Hua Katalin de Fays Christophe G. Lambert Kenta Nakai Fiona S. L. Brinkman PSORT-B: improving protein subcellular localization prediction for Gram-negative bacteria. 3613-3617 2003 31 Nucleic Acids Res. 13 db/journals/nar/nar31.html#GardySWETSHFLNB03 https://doi.org/10.1093/nar/gkg602 https://www.wikidata.org/entity/Q24671890
Sascha Ott Yoshinori Tamada Hideo Bannai Kenta Nakai Satoru Miyano Intrasplicing - Analysis of Long Intron Sequences. 339-350 2003 conf/psb/2003 Pacific Symposium on Biocomputing http://psb.stanford.edu/psb-online/proceedings/psb03/ott.pdf db/conf/psb/psb2003.html#OttTBNM03
Hideo Bannai Yoshinori Tamada Osamu Maruyama Kenta Nakai Satoru Miyano Extensive feature detection of N-terminal protein sorting signals. 298-305 2002 18 Bioinform. 2 db/journals/bioinformatics/bioinformatics18.html#BannaiTMNM02 https://doi.org/10.1093/bioinformatics/18.2.298 https://www.wikidata.org/entity/Q34114269
Yutaka Suzuki Riu Yamashita Kenta Nakai Sumio Sugano DBTSS: DataBase of human Transcriptional Start Sites and full-length cDNAs. 328-331 2002 30 Nucleic Acids Res. 1 db/journals/nar/nar30.html#SuzukiYNS03 https://doi.org/10.1093/nar/30.1.328 https://www.wikidata.org/entity/Q30782690
Hideaki Mizuno Yoshimasa Tanaka Kenta Nakai Akinori Sarai ORI-GENE: gene classification based on the evolutionary tree. 167-173 2001 17 Bioinform. 1 db/journals/bioinformatics/bioinformatics17.html#MizunoTNS01 https://doi.org/10.1093/bioinformatics/17.2.167 https://www.wikidata.org/entity/Q48685075
Takahiro Ishii Ken-ichi Yoshida Goro Terai Yasutaro Fujita Kenta Nakai DBTBS: a database of Bacillus subtilis promoters and transcription factors. 278-280 2001 29 Nucleic Acids Res. 1 db/journals/nar/nar29.html#IshiiYTFN01 https://doi.org/10.1093/nar/29.1.278 https://www.wikidata.org/entity/Q30454239
Hideo Bannai Yoshinori Tamada Osamu Maruyama Kenta Nakai Satoru Miyano Views: Fundamental Building Blocks in the Process of Knowledge Discovery. 233-238 2001 conf/flairs/2001 FLAIRS db/conf/flairs/flairs2001.html#BannaiTMNM01 http://www.aaai.org/Library/FLAIRS/2001/flairs01-045.php
Tetsushi Yada Mitsuteru Nakao Yasushi Totoki Kenta Nakai Modeling and predicting transcriptional units of <$O_SSF>Escherichia coli<$C_SSF>genes using hidden Markov models. 987-993 1999 15 Bioinform. 12 db/journals/bioinformatics/bioinformatics15.html#YadaNTN99 https://doi.org/10.1093/bioinformatics/15.12.987 https://www.wikidata.org/entity/Q40771103
Tetsushi Yada Yasushi Totoki Masato Ishikawa Kiyoshi Asai Kenta Nakai Automatic extraction of motifs represented in the hidden Markov model from a number of DNA sequences. 317-325 1998 14 Bioinform. 4 db/journals/bioinformatics/bioinformatics14.html#YadaTIAN98 https://doi.org/10.1093/bioinformatics/14.4.317 https://www.wikidata.org/entity/Q32060619
Paul Horton Kenta Nakai Better Prediction of Protein Cellular Localization Sites with the it k Nearest Neighbors Classifier. 147-152 1997 conf/ismb/1997 ISMB db/conf/ismb/ismb1997.html#HortonN97 http://www.aaai.org/Library/ISMB/1997/ismb97-022.php Tetsushi Yada Yasushi Totoki Takahiro Ishii Kenta Nakai Functional Prediction of B. subtilis Genes from Their Regulatory Sequences. 354-357 1997 conf/ismb/1997 ISMB db/conf/ismb/ismb1997.html#YadaTIN97 http://www.aaai.org/Library/ISMB/1997/ismb97-054.php Paul Horton Kenta Nakai A Probabilistic Classification System for Predicting the Cellular Localization Sites of Proteins. 109-115 1996 conf/ismb/1996 ISMB db/conf/ismb/ismb1996.html#HortonN96 http://www.aaai.org/Library/ISMB/1996/ismb96-012.php Kenta Nakai Yeast. 1996 August https://doi.org/10.24432/C5KG68 UCI Machine Learning Repository streams/repo/ucimlr Kenta Nakai Ecoli. 1996 August https://doi.org/10.24432/C5388M UCI Machine Learning Repository streams/repo/ucimlr
Kenta Nakai T. Tokimori A. Ogiwara Ikuo Uchiyama T. Niiyama Gnome - an Internet-based sequence analysis tool. 547-550 1994 10 Comput. Appl. Biosci. 5 db/journals/bioinformatics/bioinformatics10.html#NakaiTOUN94 https://doi.org/10.1093/bioinformatics/10.5.547 https://www.wikidata.org/entity/Q72425168
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