2008 |
29 | EE | Hisanori Kiryu,
Taishin Kin,
Kiyoshi Asai:
Rfold: an exact algorithm for computing local base pairing probabilities.
Bioinformatics 24(3): 367-373 (2008) |
2007 |
28 | EE | Kinya Okada,
Kiyoshi Asai,
Masanori Arita:
Flow Model of the Protein-protein Interaction Network for Finding Credible Interactions.
APBC 2007: 317-326 |
27 | EE | Yasubumi Sakakibara,
Kiyoshi Asai,
Kengo Sato:
Stem Kernels for RNA Sequence Analyses.
BIRD 2007: 278-291 |
26 | EE | Tsuyoshi Kato,
Hisashi Kashima,
Masashi Sugiyama,
Kiyoshi Asai:
Multi-Task Learning via Conic Programming.
NIPS 2007 |
25 | EE | Hisanori Kiryu,
Yasuo Tabei,
Taishin Kin,
Kiyoshi Asai:
Murlet: a practical multiple alignment tool for structural RNA sequences.
Bioinformatics 23(13): 1588-1598 (2007) |
24 | EE | Hisanori Kiryu,
Taishin Kin,
Kiyoshi Asai:
Robust prediction of consensus secondary structures using averaged base pairing probability matrices.
Bioinformatics 23(4): 434-441 (2007) |
23 | EE | Yasubumi Sakakibara,
Kris Popendorf,
Nana Ogawa,
Kiyoshi Asai,
Kengo Sato:
Stem Kernels for RNA Sequence Analyses.
J. Bioinformatics and Computational Biology 5(5): 1103-1122 (2007) |
22 | EE | Taishin Kin,
Kouichirou Yamada,
Goro Terai,
Hiroaki Okida,
Yasuhiko Yoshinari,
Yukiteru Ono,
Aya Kojima,
Yuki Kimura,
Takashi Komori,
Kiyoshi Asai:
fRNAdb: a platform for mining/annotating functional RNA candidates from non-coding RNA sequences.
Nucleic Acids Research 35(Database-Issue): 145-148 (2007) |
2006 |
21 | EE | Yasuo Tabei,
Koji Tsuda,
Taishin Kin,
Kiyoshi Asai:
SCARNA: fast and accurate structural alignment of RNA sequences by matching fixed-length stem fragments.
Bioinformatics 22(14): 1723-1729 (2006) |
20 | EE | Michiaki Hamada,
Koji Tsuda,
Taku Kudo,
Taishin Kin,
Kiyoshi Asai:
Mining frequent stem patterns from unaligned RNA sequences.
Bioinformatics 22(20): 2480-2487 (2006) |
2005 |
19 | EE | Tsuyoshi Kato,
Koji Tsuda,
Kiyoshi Asai:
Selective integration of multiple biological data for supervised network inference.
Bioinformatics 21(10): 2488-2495 (2005) |
18 | EE | Hisanori Kiryu,
Taku Oshima,
Kiyoshi Asai:
Extracting relations between promoter sequences and their strengths from microarray data.
Bioinformatics 21(7): 1062-1068 (2005) |
17 | EE | Kinya Okada,
Shigehiko Kanaya,
Kiyoshi Asai:
Accurate extraction of functional associations between proteins based on common interaction partners and common domains.
Bioinformatics 21(9): 2043-2048 (2005) |
2004 |
16 | EE | Tsuyoshi Kato,
Koji Tsuda,
Kentaro Tomii,
Kiyoshi Asai:
A New Variational Framework for Rigid-Body Alignment.
SSPR/SPR 2004: 171-179 |
15 | | Koji Tsuda,
Shinsuke Uda,
Taishin Kin,
Kiyoshi Asai:
Minimizing the Cross Validation Error to Mix Kernel Matrices of Heterogeneous Biological Data.
Neural Processing Letters 19(1): 63-72 (2004) |
2003 |
14 | EE | Shusuke Saeki,
Kiyoshi Asai,
Katsutoshi Takahashi,
Yutaka Ueno,
Katsunori Isono,
Hitoshi Iba:
GA-Based Inference of Euler Angles for Single Particle Analysis.
GECCO 2003: 2288-2300 |
13 | EE | Koji Tsuda,
Shotaro Akaho,
Kiyoshi Asai:
The em Algorithm for Kernel Matrix Completion with Auxiliary Data.
Journal of Machine Learning Research 4: 67-81 (2003) |
2002 |
12 | | Masanori Arita,
Koji Tsuda,
Kiyoshi Asai:
Modeling splicing sites with pairwise correlations.
ECCB 2002: 27-34 |
11 | | Koji Tsuda,
Taishin Kin,
Kiyoshi Asai:
Marginalized kernels for biological sequences.
ISMB 2002: 268-275 |
10 | EE | Koji Tsuda,
Shotaro Akaho,
Kiyoshi Asai:
Approximating Incomplete Kernel Matrices by the em Algorithm
CoRR cs.LG/0211007: (2002) |
2000 |
9 | | Masanori Arita,
Kiyoshi Asai,
Takaaki Nishioka:
Reconstructing Metabolic Pathways with New Enzyme Classification.
German Conference on Bioinformatics 2000: 99-106 |
1998 |
8 | | 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.
Bioinformatics 14(4): 317-325 (1998) |
1997 |
7 | | Yutaka Ueno,
Kiyoshi Asai:
A New Plug-In Software Architecture Applied for a Portable Molecular Structure Browser.
ISMB 1997: 329-332 |
1994 |
6 | | Masayuki Akahoshi,
Kentaro Onizuka,
Masato Ishikawa,
Kiyoshi Asai:
A Three-Dimensional Animation System for Protein Folding Simulation.
HICSS (5) 1994: 173-182 |
5 | | Kentaro Onizuka,
Hiroshi Tsuda,
Masato Ishikawa,
Akira Aiba,
Kiyoshi Asai,
Katunobu Ito:
Protein Structure Prediction Based on Multi-Level Description.
HICSS (5) 1994: 355-364 |
4 | | Kentaro Onizuka,
Masayuki Akahosi,
Masato Ishikawa,
Kiyoshi Asai:
The Multi-Scale 3D-1D Compatibility Scoring for Inverse Protein Folding Protein.
ISMB 1994: 314-321 |
1993 |
3 | | Kentaro Onizuka,
Stephen T. C. Wong,
Masato Ishikawa,
Kiyoshi Asai:
A Multi-Level Description Scheme of Protein Conformation.
ISMB 1993: 301-309 |
2 | | Hidetoshi Tanaka,
Masato Ishikawa,
Kiyoshi Asai,
Akihiko Konagaya:
Hidden Markov Models and Iterative Aligners: Study of Their Equivalence and Possibilities.
ISMB 1993: 395-401 |
1 | | Kiyoshi Asai,
Satoru Hayamizu,
Ken'ichi Handa:
Prediction of protein secondary structure by the hidden Markov model.
Computer Applications in the Biosciences 9(2): 141-146 (1993) |