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1

Adaptive edge weighting for graph-based learning algorithms

Karasuyama, Masayuki, Mamitsuka, Hiroshi

Journal:

Machine Learning

Year:

2017

Language:

english

File:

PDF, 1.76 MB

english, 2017

2

Predicting peptides that bind to MHC molecules using supervised learning of hidden markov models

Hiroshi Mamitsuka

Journal:

Proteins: Structure, Function, and Bioinformatics

Year:

1998

Language:

english

File:

PDF, 186 KB

english, 1998

3

Efficiently miningδ-tolerance closed frequent subgraphs

Ichigaku Takigawa, Hiroshi Mamitsuka

Journal:

Machine Learning

Year:

2011

Language:

english

File:

PDF, 1.22 MB

english, 2011

4

On network-based kernel methods for protein-protein interactions with applications in protein functions prediction

Limin Li, Waiki Ching, Yatming Chan, Hiroshi Mamitsuka

Journal:

Journal of Systems Science and Complexity

Year:

2010

Language:

english

File:

PDF, 478 KB

english, 2010

5

Predicting Protein Secondary Structure Using Stochastic Tree Grammars

Naoki Abe, Hiroshi Mamitsuka

Journal:

Machine Learning

Year:

1997

Language:

english

File:

PDF, 441 KB

english, 1997

6

Multiple Graph Label Propagation by Sparse Integration

Karasuyama, Masayuki, Mamitsuka, Hiroshi

Journal:

IEEE Transactions on Neural Networks and Learning Systems

Year:

2013

Language:

english

File:

PDF, 3.41 MB

english, 2013

7

Selecting Graph Cut Solutions via Global Graph Similarity

Nguyen, Canh Hao, Wicker, Nicolas, Mamitsuka, Hiroshi

Journal:

IEEE Transactions on Neural Networks and Learning Systems

Year:

2014

Language:

english

File:

PDF, 316 KB

english, 2014

8

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 1807 (Methods and Protocols) ||

Mamitsuka, Hiroshi

Year:

2018

Language:

english

File:

PDF, 8.19 MB

english, 2018

9

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 1807 (Methods and Protocols) || Analyzing Tandem Mass Spectra Using the DRIP Toolkit: Training, Searching, and Post-Processing

Mamitsuka, Hiroshi

Year:

2018

Language:

english

File:

PDF, 848 KB

english, 2018

10

FullMeSH: Improving Large-Scale MeSH Indexing with Full Text

Dai, Suyang, You, Ronghui, Lu, Zhiyong, Huang, Xiaodi, Mamitsuka, Hiroshi, Zhu, Shanfeng, Murphy, Robert

Journal:

Year:

2019

File:

PDF, 1.48 MB

2019

11

Learning on Hypergraphs with Sparsity

Nguyen, Hao Canh, Mamitsuka, Hiroshi

Journal:

IEEE Transactions on Pattern Analysis and Machine Intelligence

Year:

2020

File:

PDF, 2.89 MB

2020

12

A spectral approach to clustering numerical vectors as nodes in a network

Motoki Shiga, Ichigaku Takigawa, Hiroshi Mamitsuka

Journal:

Pattern Recognition

Year:

2011

Language:

english

File:

PDF, 1.17 MB

english, 2011

13

Finding the maximum common subgraph of a partial k-tree and a graph with a polynomially bounded number of spanning trees

Atsuko Yamaguchi, Kiyoko F. Aoki, Hiroshi Mamitsuka

Journal:

Information Processing Letters

Year:

2004

Language:

english

File:

PDF, 147 KB

english, 2004

14

Selecting features in microarray classification using ROC curves

Hiroshi Mamitsuka

Journal:

Pattern Recognition

Year:

2006

Language:

english

File:

PDF, 362 KB

english, 2006

15

TAP Hunter: a SVM-based system for predicting TAP ligands using local description of amino acid sequence

Tze Hau Lam, Hiroshi Mamitsuka, Ee Chee Ren, Joo Chuan Tong

Journal:

Immunome Research

Year:

2010

Language:

english

File:

PDF, 895 KB

english, 2010

16

A markov classification model for metabolic pathways

Timothy Hancock, Hiroshi Mamitsuka

Journal:

Algorithms for Molecular Biology

Year:

2010

Language:

english

File:

PDF, 292 KB

english, 2010

17

HAMSTER: visualizing microarray experiments as a set of minimum spanning trees

Raymond Wan, Larisa Kiseleva, Hajime Harada, Hiroshi Mamitsuka, Paul Horton

Journal:

Source Code for Biology and Medicine

Year:

2009

Language:

english

File:

PDF, 390 KB

english, 2009

18

Active ensemble learning: Application to data mining and bioinformatics

Hiroshi Mamitsuka, Naoki Abe

Journal:

Systems and Computers in Japan

Year:

2007

Language:

english

File:

PDF, 343 KB

english, 2007

19

Query-learning-based iterative feature-subset selection for learning from high-dimensional data sets

Hiroshi Mamitsuka

Journal:

Knowledge and Information Systems

Year:

2006

Language:

english

File:

PDF, 1.18 MB

english, 2006

20

Prediction of MHC Class I Binding Peptides by a Query Learning Algorithm Based on Hidden Markov Models

Keiko Udaka, Hiroshi Mamitsuka, Yukinobu Nakaseko, Naoki Abe

Journal:

Journal of Biological Physics

Year:

2002

Language:

english

File:

PDF, 126 KB

english, 2002

21

Clustering genes with expression and beyond

Motoki Shiga, Hiroshi Mamitsuka

Journal:

Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery

Year:

2011

Language:

english

File:

PDF, 338 KB

english, 2011

22

Computational intelligence in solving bioinformatics problems

Krzysztof J. Cios, Hiroshi Mamitsuka, Tomomasa Nagashima, Ryszard Tadeusiewicz

Journal:

Artificial Intelligence in Medicine

Year:

2005

Language:

english

File:

PDF, 114 KB

english, 2005

23

Finding the biologically optimal alignment of multiple sequences

Hiroshi Mamitsuka

Journal:

Artificial Intelligence in Medicine

Year:

2005

Language:

english

File:

PDF, 323 KB

english, 2005

24

Informatic innovations in glycobiology: relevance to drug discovery

Hiroshi Mamitsuka

Journal:

Drug Discovery Today

Year:

2008

Language:

english

File:

PDF, 489 KB

english, 2008

25

Field independent probabilistic model for clustering multi-field documents

Shanfeng Zhu, Ichigaku Takigawa, Jia Zeng, Hiroshi Mamitsuka

Journal:

Information Processing & Management

Year:

2009

Language:

english

File:

PDF, 259 KB

english, 2009

26

Ensemble approaches for improving HLA Class I-peptide binding prediction

Xihao Hu, Hiroshi Mamitsuka, Shanfeng Zhu

Journal:

Journal of Immunological Methods

Year:

2011

Language:

english

File:

PDF, 174 KB

english, 2011

27

Efficient semi-supervised learning on locally informative multiple graphs

Motoki Shiga, Hiroshi Mamitsuka

Journal:

Pattern Recognition

Year:

2012

Language:

english

File:

PDF, 1.17 MB

english, 2012

28

Predicting implicit associated cancer genes from OMIM and MEDLINE by a new probabilistic model

Shanfeng Zhu, Yasushi Okuno, Gozoh Tsujimoto, Hiroshi Mamitsuka

Journal:

BMC Systems Biology

Year:

2007

Language:

english

File:

PDF, 170 KB

english, 2007

29

Mining from protein–protein interactions

Hiroshi Mamitsuka

Journal:

Wiley Interdisciplinary Reviews: Data Mining and Knowledge Discovery

Year:

2012

Language:

english

File:

PDF, 294 KB

english, 2012

30

Understanding the substrate specificity of conventional calpains

Sorimachi, Hiroyuki, Mamitsuka, Hiroshi, Ono, Yasuko

Journal:

Biological Chemistry

Year:

2012

Language:

english

File:

PDF, 1.95 MB

english, 2012

31

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Discovering Interacting Domains and Motifs in Protein–Protein Interactions

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 580 KB

english, 2013

32

A new dissimilarity measure for comparing labeled graphs

Wicker, Nicolas, Nguyen, Canh Hao, Mamitsuka, Hiroshi

Journal:

Linear Algebra and its Applications

Year:

2013

Language:

english

File:

PDF, 324 KB

english, 2013

33

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Global Alignment of Protein–Protein Interaction Networks

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 130 KB

english, 2013

34

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Supervised Inference of Gene Regulatory Networks from Positive and Unlabeled Examples

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 170 KB

english, 2013

35

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Structure Learning for Bayesian Networks as Models of Biological Networks

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 179 KB

english, 2013

36

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Dense Module Enumeration in Biological Networks

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 217 KB

english, 2013

37

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Mining Regulatory Network Connections by Ranking Transcription Factor Target Genes Using Time Series Expression Data

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 345 KB

english, 2013

38

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Mining Frequent Subtrees in Glycan Data Using the Rings Glycan Miner Tool

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 329 KB

english, 2013

39

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Identifying Pathways of Coordinated Gene Expression

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 643 KB

english, 2013

40

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Gene Set/Pathway Enrichment Analysis

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 590 KB

english, 2013

41

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Localization Prediction and Structure-Based In Silico Analysis of Bacterial Proteins: With Emphasis on Outer Membrane Proteins

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 571 KB

english, 2013

42

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Construction of Functional Linkage Gene Networks by Data Integration

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 247 KB

english, 2013

43

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Analysis Strategy of Protein–Protein Interaction Networks

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 2.29 MB

english, 2013

44

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Data Mining in the MetaCyc Family of Pathway Databases

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 678 KB

english, 2013

45

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Chemogenomic Approaches to Infer Drug–Target Interaction Networks

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 202 KB

english, 2013

46

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Genome-Wide Association Studies

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 259 KB

english, 2013

47

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Viral Genome Analysis and Knowledge Management

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 221 KB

english, 2013

48

[Methods in Molecular Biology] Data Mining for Systems Biology Volume 939 || Molecular Network Analysis of Diseases and Drugs in KEGG

Mamitsuka, Hiroshi, DeLisi, Charles, Kanehisa, Minoru

Year:

2013

Language:

english

File:

PDF, 859 KB

english, 2013

49

Efficient Semisupervised MEDLINE Document Clustering With MeSH-Semantic and Global-Content Constraints

Gu, Jun, Feng, Wei, Zeng, Jia, Mamitsuka, Hiroshi, Zhu, Shanfeng

Journal:

IEEE Transactions on Cybernetics

Year:

2013

Language:

english

File:

PDF, 1.50 MB

english, 2013

50

Graph mining: procedure, application to drug discovery and recent advances

Takigawa, Ichigaku, Mamitsuka, Hiroshi

Journal:

Drug Discovery Today

Year:

2013

Language:

english

File:

PDF, 449 KB

english, 2013

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