![](https://dblp.org/img/logo.ua.320x120.png)
![](https://dblp.org/img/dropdown.dark.16x16.png)
![](https://dblp.org/img/peace.dark.16x16.png)
Остановите войну!
for scientists:
![search dblp search dblp](https://dblp.org/img/search.dark.16x16.png)
![search dblp](https://dblp.org/img/search.dark.16x16.png)
default search action
Michiaki Hamada
Person information
Refine list
![note](https://dblp.org/img/note-mark.dark.12x12.png)
refinements active!
zoomed in on ?? of ?? records
view refined list in
export refined list as
2020 – today
- 2023
- [j39]Kengo Sato
, Michiaki Hamada
:
Recent trends in RNA informatics: a review of machine learning and deep learning for RNA secondary structure prediction and RNA drug discovery. Briefings Bioinform. 24(4) (2023) - [j38]Kaisei Hara, Natsuki Iwano, Tsukasa Fukunaga, Michiaki Hamada:
DeepRaccess: high-speed RNA accessibility prediction using deep learning. Frontiers Bioinform. 3 (2023) - [c2]Takahiro Mimori, Michiaki Hamada:
GeoPhy: Differentiable Phylogenetic Inference via Geometric Gradients of Tree Topologies. NeurIPS 2023 - [i2]Takahiro Mimori, Michiaki Hamada:
GeoPhy: Differentiable Phylogenetic Inference via Geometric Gradients of Tree Topologies. CoRR abs/2307.03675 (2023) - 2022
- [j37]Natsuki Iwano, Tatsuo Adachi, Kazuteru Aoki, Yoshikazu Nakamura, Michiaki Hamada
:
Generative aptamer discovery using RaptGen. Nat. Comput. Sci. 2(6): 378-386 (2022) - 2021
- [j36]Yukiteru Ono, Kiyoshi Asai, Michiaki Hamada
:
PBSIM2: a simulator for long-read sequencers with a novel generative model of quality scores. Bioinform. 37(5): 589-595 (2021) - [j35]Shion Hosoda
, Tsukasa Fukunaga, Michiaki Hamada
:
Umibato: estimation of time-varying microbial interaction using continuous-time regression hidden Markov model. Bioinform. 37(Supplement): 16-24 (2021) - [j34]Shitao Zhao, Michiaki Hamada
:
Multi-resBind: a residual network-based multi-label classifier for in vivo RNA binding prediction and preference visualization. BMC Bioinform. 22(1): 554 (2021) - 2020
- [j33]Yiqian Zhang, Michiaki Hamada
:
MoAIMS: efficient software for detection of enriched regions of MeRIP-Seq. BMC Bioinform. 21(1): 103 (2020)
2010 – 2019
- 2019
- [j32]Taro Matsutani
, Yuki Ueno, Tsukasa Fukunaga
, Michiaki Hamada
:
Discovering novel mutation signatures by latent Dirichlet allocation with variational Bayes inference. Bioinform. 35(22): 4543-4552 (2019) - [j31]Shimpei Nishida, Shun Sakuraba
, Kiyoshi Asai
, Michiaki Hamada
:
Estimating Energy Parameters for RNA Secondary Structure Predictions Using Both Experimental and Computational Data. IEEE ACM Trans. Comput. Biol. Bioinform. 16(5): 1645-1655 (2019) - 2018
- [j30]Taikai Takeda, Michiaki Hamada
:
Beyond similarity assessment: selecting the optimal model for sequence alignment via the Factorized Asymptotic Bayesian algorithm. Bioinform. 34(4): 576-584 (2018) - [j29]Yiqian Zhang, Michiaki Hamada
:
DeepM6ASeq: prediction and characterization of m6A-containing sequences using deep learning. BMC Bioinform. 19-S(19): 524:1-524:11 (2018) - [j28]Tsukasa Fukunaga, Michiaki Hamada
:
A Novel Method for Assessing the Statistical Significance of RNA-RNA Interactions Between Two Long RNAs. J. Comput. Biol. 25(9): 976-986 (2018) - 2017
- [j27]Michiaki Hamada
, Yukiteru Ono, Kiyoshi Asai, Martin C. Frith
:
Training alignment parameters for arbitrary sequencers with LAST-TRAIN. Bioinform. 33(6): 926-928 (2017) - [j26]Tsukasa Fukunaga, Michiaki Hamada
:
RIblast: an ultrafast RNA-RNA interaction prediction system based on a seed-and-extension approach. Bioinform. 33(17): 2666-2674 (2017) - 2016
- [j25]Goro Terai, Junichi Iwakiri
, Tomoshi Kameda, Michiaki Hamada
, Kiyoshi Asai:
Comprehensive prediction of lncRNA-RNA interactions in human transcriptome. BMC Genom. 17(S-1): 12 (2016) - [j24]Michiaki Hamada
, Yukiteru Ono, Hisanori Kiryu, Kengo Sato, Yuki Kato
, Tsukasa Fukunaga, Ryota Mori, Kiyoshi Asai:
Rtools: a web server for various secondary structural analyses on single RNA sequences. Nucleic Acids Res. 44(Webserver-Issue): W302-W307 (2016) - 2015
- [j23]Michiaki Hamada
, Yukiteru Ono, Ryohei Fujimaki, Kiyoshi Asai:
Learning chromatin states with factorized information criteria. Bioinform. 31(15): 2426-2433 (2015) - [j22]Kana Shimizu, Koji Nuida, Hiromi Arai, Shigeo Mitsunari, Nuttapong Attrapadung, Michiaki Hamada, Koji Tsuda, Takatsugu Hirokawa, Jun Sakuma, Goichiro Hanaoka, Kiyoshi Asai:
Privacy-preserving search for chemical compound databases. BMC Bioinform. 16(S18): S6 (2015) - [j21]Haruka Yonemoto, Kiyoshi Asai, Michiaki Hamada
:
A semi-supervised learning approach for RNA secondary structure prediction. Comput. Biol. Chem. 57: 72-79 (2015) - 2014
- [j20]Michiaki Hamada
:
Fighting against uncertainty: an essential issue in bioinformatics. Briefings Bioinform. 15(5): 748-767 (2014) - [j19]Edward Wijaya, Kana Shimizu, Kiyoshi Asai, Michiaki Hamada
:
Reference-free prediction of rearrangement breakpoint reads. Bioinform. 30(18): 2559-2567 (2014) - 2013
- [j18]Yukiteru Ono, Kiyoshi Asai, Michiaki Hamada
:
PBSIM: PacBio reads simulator - toward accurate genome assembly. Bioinform. 29(1): 119-121 (2013) - [j17]Junichi Iwakiri
, Tomoshi Kameda, Kiyoshi Asai, Michiaki Hamada
:
Analysis of base-pairing probabilities of RNA molecules involved in protein-RNA interactions. Bioinform. 29(20): 2524-2528 (2013) - [i1]Michiaki Hamada, Hisanori Kiryu, Wataru Iwasaki, Kiyoshi Asai:
Generalized Centroid Estimators in Bioinformatics. CoRR abs/1305.4339 (2013) - 2012
- [j16]Michiaki Hamada
, Kiyoshi Asai:
A Classification of Bioinformatics Algorithms from the Viewpoint of Maximizing Expected Accuracy (MEA). J. Comput. Biol. 19(5): 532-549 (2012) - [j15]Michiaki Hamada
:
Direct Updating of an RNA Base-Pairing Probability Matrix with Marginal Probability Constraints. J. Comput. Biol. 19(12): 1265-1276 (2012) - 2011
- [j14]Kengo Sato
, Yuki Kato
, Michiaki Hamada
, Tatsuya Akutsu
, Kiyoshi Asai:
IPknot: fast and accurate prediction of RNA secondary structures with pseudoknots using integer programming. Bioinform. 27(13): 85-93 (2011) - [j13]Michiaki Hamada
, Edward Wijaya, Martin C. Frith
, Kiyoshi Asai:
Probabilistic alignments with quality scores: an application to short-read mapping toward accurate SNP/indel detection. Bioinform. 27(22): 3085-3092 (2011) - [j12]Michiaki Hamada
, Kengo Sato
, Kiyoshi Asai:
Improving the accuracy of predicting secondary structure for aligned RNA sequences. Nucleic Acids Res. 39(2): 393-402 (2011) - [j11]Michiaki Hamada
, Koichiro Yamada, Kengo Sato
, Martin C. Frith
, Kiyoshi Asai:
CentroidHomfold-LAST: accurate prediction of RNA secondary structure using automatically collected homologous sequences. Nucleic Acids Res. 39(Web-Server-Issue): 100-106 (2011) - 2010
- [j10]Yuki Kato
, Kengo Sato
, Michiaki Hamada
, Yoshihide Watanabe, Kiyoshi Asai, Tatsuya Akutsu
:
RactIP: fast and accurate prediction of RNA-RNA interaction using integer programming. Bioinform. 26(18) (2010) - [j9]Martin C. Frith
, Michiaki Hamada
, Paul Horton:
Parameters for accurate genome alignment. BMC Bioinform. 11: 80 (2010) - [j8]Michiaki Hamada
, Kengo Sato
, Kiyoshi Asai:
Prediction of RNA secondary structure by maximizing pseudo-expected accuracy. BMC Bioinform. 11: 586 (2010) - [j7]Kengo Sato
, Michiaki Hamada, Toutai Mituyama
, Kiyoshi Asai, Yasubumi Sakakibara:
A Non-Parametric Bayesian Approach for Predicting RNA Secondary Structures. J. Bioinform. Comput. Biol. 8(4): 727-742 (2010)
2000 – 2009
- 2009
- [j6]Michiaki Hamada
, Hisanori Kiryu, Kengo Sato
, Toutai Mituyama
, Kiyoshi Asai:
Prediction of RNA secondary structure using generalized centroid estimators. Bioinform. 25(4): 465-473 (2009) - [j5]Michiaki Hamada
, Kengo Sato
, Hisanori Kiryu, Toutai Mituyama
, Kiyoshi Asai:
Predictions of RNA secondary structure by combining homologous sequence information. Bioinform. 25(12) (2009) - [j4]Michiaki Hamada
, Kengo Sato
, Hisanori Kiryu, Toutai Mituyama
, Kiyoshi Asai:
CentroidAlign: fast and accurate aligner for structured RNAs by maximizing expected sum-of-pairs score. Bioinform. 25(24): 3236-3243 (2009) - [j3]Kengo Sato
, Michiaki Hamada
, Kiyoshi Asai, Toutai Mituyama
:
CENTROIDFOLD: a web server for RNA secondary structure prediction. Nucleic Acids Res. 37(Web-Server-Issue): 277-280 (2009) - [c1]Kengo Sato
, Michiaki Hamada, Toutai Mituyama, Kiyoshi Asai, Yasubumi Sakakibara:
A Non-parametric Bayesian Approach for Predicting RNA Secondary Structures. WABI 2009: 286-297 - 2008
- [j2]Kiyoshi Asai, Hisanori Kiryu, Michiaki Hamada
, Yasuo Tabei, Kengo Sato
, Hiroshi Matsui, Yasubumi Sakakibara, Goro Terai, Toutai Mituyama
:
Software.ncrna.org: web servers for analyses of RNA sequences. Nucleic Acids Res. 36(Web-Server-Issue): 75-78 (2008) - 2006
- [j1]Michiaki Hamada
, Koji Tsuda, Taku Kudo, Taishin Kin, Kiyoshi Asai:
Mining frequent stem patterns from unaligned RNA sequences. Bioinform. 22(20): 2480-2487 (2006)
Coauthor Index
![](https://dblp.org/img/cog.dark.24x24.png)
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from ,
, and
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and
to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from .
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2024-07-09 21:11 CEST by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint