TY - JOUR AU - Taguchi, Y. H. AU - Iwadate, M. AU - Umeyama, H. PY - 2015 DA - 2015// TI - Principal component analysis-based unsupervised feature extraction applied to in silico drug discovery for posttraumatic stress disorder-mediated heart disease JO - BMC Bioinforma VL - 16 UR - https://doi.org/10.1186/s12859-015-0574-4 DO - 10.1186/s12859-015-0574-4 ID - Taguchi2015 ER - TY - CHAP AU - Taguchi, Y. -. h. AU - Iwadate, M. AU - Umeyama, H. AU - Murakami, Y. AU - Okamoto, A. ED - Wang, B. ED - Li, R. ED - Perrizo, W. PY - 2015 DA - 2015// TI - Heuristic principal component analysis-aased unsupervised feature extraction and its application to bioinformatics BT - Big Data Analytics in Bioinformatics and Healthcare PB - IGI global CY - Pennsylvania ID - Taguchi2015 ER - TY - CHAP AU - Taguchi, Y. -. h. AU - Okamoto, A. ED - Shibuya, T. ED - Kashima, H. ED - Sese, J. ED - Ahmad, S. PY - 2012 DA - 2012// TI - Principal component analysis for bacterial proteomic analysis BT - Pattern Recognition in Bioinformatics. LNCS, vol. 7632 PB - Springer CY - New York ID - Taguchi2012 ER - TY - JOUR AU - Murakami, Y. AU - Toyoda, H. AU - Tanahashi, T. AU - Tanaka, J. AU - Kumada, T. AU - Yoshioka, Y. AU - Kosaka, N. AU - Ochiya, T. AU - Taguchi, Y. H. PY - 2012 DA - 2012// TI - Comprehensive miRNA expression analysis in peripheral blood can diagnose liver disease JO - PLoS ONE VL - 7 UR - https://doi.org/10.1371/journal.pone.0048366 DO - 10.1371/journal.pone.0048366 ID - Murakami2012 ER - TY - JOUR AU - Ishida, S. AU - Umeyama, H. AU - Iwadate, M. AU - Taguchi, Y. H. PY - 2014 DA - 2014// TI - Bioinformatic screening of autoimmune disease genes and protein structure prediction with FAMS for drug discovery JO - Protein Pept Lett VL - 21 UR - https://doi.org/10.2174/09298665113209990052 DO - 10.2174/09298665113209990052 ID - Ishida2014 ER - TY - JOUR AU - Taguchi, Y. H. AU - Murakami, Y. PY - 2013 DA - 2013// TI - Principal component analysis based feature extraction approach to identify circulating microRNA biomarkers JO - PLoS ONE VL - 8 UR - https://doi.org/10.1371/journal.pone.0066714 DO - 10.1371/journal.pone.0066714 ID - Taguchi2013 ER - TY - JOUR AU - Kinoshita, R. AU - Iwadate, M. AU - Umeyama, H. AU - Taguchi, Y. H. PY - 2014 DA - 2014// TI - Genes associated with genotype-specific DNA methylation in squamous cell carcinoma as candidate drug targets JO - BMC Syst Biol VL - 8 Suppl 1 UR - https://doi.org/10.1186/1752-0509-8-S1-S4 DO - 10.1186/1752-0509-8-S1-S4 ID - Kinoshita2014 ER - TY - JOUR AU - Taguchi, Y. H. AU - Murakami, Y. PY - 2014 DA - 2014// TI - Universal disease biomarker: can a fixed set of blood microRNAs diagnose multiple diseases? JO - BMC Res Notes VL - 7 UR - https://doi.org/10.1186/1756-0500-7-581 DO - 10.1186/1756-0500-7-581 ID - Taguchi2014 ER - TY - JOUR AU - Murakami, Y. AU - Tanahashi, T. AU - Okada, R. AU - Toyoda, H. AU - Kumada, T. AU - Enomoto, M. AU - Tamori, A. AU - Kawada, N. AU - Taguchi, Y. H. AU - Azuma, T. PY - 2014 DA - 2014// TI - Comparison of Hepatocellular Carcinoma miRNA Expression Profiling as Evaluated by Next Generation Sequencing and Microarray JO - PLoS ONE VL - 9 UR - https://doi.org/10.1371/journal.pone.0106314 DO - 10.1371/journal.pone.0106314 ID - Murakami2014 ER - TY - JOUR AU - Umeyama, H. AU - Iwadate, M. AU - Taguchi, Y. H. PY - 2014 DA - 2014// TI - TINAGL1 and B3GALNT1 are potential therapy target genes to suppress metastasis in non-small cell lung cancer JO - BMC Genomics VL - 15 Suppl 9 UR - https://doi.org/10.1186/1471-2164-15-S9-S2 DO - 10.1186/1471-2164-15-S9-S2 ID - Umeyama2014 ER - TY - CHAP AU - Taguchi, Y. -. h. PY - 2014 DA - 2014// TI - Integrative analysis of gene expression and promoter methylation during reprogramming of a non-small-cell lung cancer cell line using principal component analysis-based unsupervised feature extraction BT - Intelligent Computing in Bioinformatics. LNCS, vol. 8590 PB - Springer CY - Heidelberg ID - Taguchi2014 ER - TY - JOUR AU - Taguchi, Y. H. PY - 2016 DA - 2016// TI - Identification of more feasible microRNA-mRNA interactions within multiple cancers using principal component analysis based unsupervised feature extraction JO - Int J Mol Sci. VL - 17 UR - https://doi.org/10.3390/ijms17050696 DO - 10.3390/ijms17050696 ID - Taguchi2016 ER - TY - JOUR AU - Tu, B. P. AU - Kudlicki, A. AU - Rowicka, M. AU - McKnight, S. L. PY - 2005 DA - 2005// TI - Logic of the yeast metabolic cycle: temporal compartmentalization of cellular processes JO - Science VL - 310 UR - https://doi.org/10.1126/science.1120499 DO - 10.1126/science.1120499 ID - Tu2005 ER - TY - JOUR AU - Reimand, J. AU - Arak, T. AU - Vilo, J. PY - 2011 DA - 2011// TI - g:Profiler–a web server for functional interpretation of gene lists (2011 update) JO - Nucleic Acids Res VL - 39 UR - https://doi.org/10.1093/nar/gkr378 DO - 10.1093/nar/gkr378 ID - Reimand2011 ER - TY - JOUR AU - Szklarczyk, D. AU - Franceschini, A. AU - Wyder, S. PY - 2015 DA - 2015// TI - STRING v10: protein-protein interaction networks, integrated over the tree of life JO - Nucleic Acids Res VL - 43 UR - https://doi.org/10.1093/nar/gku1003 DO - 10.1093/nar/gku1003 ID - Szklarczyk2015 ER - TY - JOUR AU - Santos, A. AU - Wernersson, R. AU - Jensen, L. J. PY - 2015 DA - 2015// TI - Cyclebase 3.0: a multi-organism database on cell-cycle regulation and phenotypes JO - Nucleic Acids Res VL - 43 UR - https://doi.org/10.1093/nar/gku1092 DO - 10.1093/nar/gku1092 ID - Santos2015 ER - TY - JOUR AU - de Lichtenberg, U. AU - Wernersson, R. AU - Jensen, T. S. AU - Nielsen, H. B. AU - Fausbøll, A. AU - Schmidt, P. AU - Hansen, F. B. AU - Knudsen, S. AU - Brunak, S. PY - 2005 DA - 2005// TI - New weakly expressed cell cycle-regulated genes in yeast JO - Yeast VL - 22 UR - https://doi.org/10.1002/yea.1302 DO - 10.1002/yea.1302 ID - de Lichtenberg2005 ER - TY - JOUR AU - Pic, A. AU - Lim, F. L. AU - Ross, S. J. AU - Veal, E. A. AU - Johnson, A. L. AU - Sultan, M. R. AU - West, A. G. AU - Johnston, L. H. AU - Sharrocks, A. D. AU - Morgan, B. A. PY - 2000 DA - 2000// TI - The forkhead protein Fkh2 is a component of the yeast cell cycle transcription factor SFF JO - EMBO J VL - 19 UR - https://doi.org/10.1093/emboj/19.14.3750 DO - 10.1093/emboj/19.14.3750 ID - Pic2000 ER - TY - JOUR AU - Bulmer, R. AU - Pic-Taylor, A. AU - Whitehall, S. K. AU - Martin, K. A. AU - Millar, J. B. AU - Quinn, J. AU - Morgan, B. A. PY - 2004 DA - 2004// TI - The forkhead transcription factor Fkh2 regulates the cell division cycle of Schizosaccharomyces pombe JO - Eukaryot Cell VL - 3 UR - https://doi.org/10.1128/EC.3.4.944-954.2004 DO - 10.1128/EC.3.4.944-954.2004 ID - Bulmer2004 ER - TY - JOUR AU - Cho, R. J. AU - Campbell, M. J. AU - Winzeler, E. A. AU - Steinmetz, L. AU - Conway, A. AU - Wodicka, L. AU - Wolfsberg, T. G. AU - Gabrielian, A. E. AU - Landsman, D. AU - Lockhart, D. J. AU - Davis, R. W. PY - 1998 DA - 1998// TI - A genome-wide transcriptional analysis of the mitotic cell cycle JO - Mol Cell VL - 2 UR - https://doi.org/10.1016/S1097-2765(00)80114-8 DO - 10.1016/S1097-2765(00)80114-8 ID - Cho1998 ER - TY - JOUR AU - Gauthier, N. P. AU - Larsen, M. E. AU - Wernersson, R. AU - de Lichtenberg, U. AU - Jensen, L. J. AU - Brunak, S. AU - Jensen, T. S. PY - 2008 DA - 2008// TI - Cyclebase.org–a comprehensive multi-organism online database of cell-cycle experiments JO - Nucleic Acids Res VL - 36 ID - Gauthier2008 ER - TY - JOUR AU - Balakrishnan, R. AU - Park, J. AU - Karra, K. AU - Hitz, B. C. AU - Binkley, G. AU - Hong, E. L. AU - Sullivan, J. AU - Micklem, G. AU - Cherry, J. M. PY - 2012 DA - 2012// TI - YeastMine–an integrated data warehouse for Saccharomyces cerevisiae data as a multipurpose tool-kit JO - Database (Oxford) VL - 2012 UR - https://doi.org/10.1093/database/bar062 DO - 10.1093/database/bar062 ID - Balakrishnan2012 ER - TY - JOUR AU - Zuberi, K. AU - Franz, M. AU - Rodriguez, H. AU - Montojo, J. AU - Lopes, C. T. AU - Bader, G. D. AU - Morris, Q. PY - 2013 DA - 2013// TI - GeneMANIA prediction server 2013 update JO - Nucleic Acids Res VL - 41 UR - https://doi.org/10.1093/nar/gkt533 DO - 10.1093/nar/gkt533 ID - Zuberi2013 ER - TY - JOUR AU - Benjamini, Y. AU - Hochberg, Y. PY - 1995 DA - 1995// TI - Controlling the false discovery rate: A practical and powerful approach to multiple testing JO - J R Stat Soc Ser B Methodol VL - 57 ID - Benjamini1995 ER - TY - JOUR AU - Huang, d. a. W. AU - Sherman, B. T. AU - Lempicki, R. A. PY - 2009 DA - 2009// TI - Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources JO - Nat Protoc VL - 4 UR - https://doi.org/10.1038/nprot.2008.211 DO - 10.1038/nprot.2008.211 ID - Huang2009 ER - TY - JOUR AU - Nakahira, Y. AU - Katayama, M. AU - Miyashita, H. AU - Kutsuna, S. AU - Iwasaki, H. AU - Oyama, T. AU - Kondo, T. PY - 2004 DA - 2004// TI - Global gene repression by KaiC as a master process of prokaryotic circadian system JO - Proc Natl Acad Sci USA VL - 101 UR - https://doi.org/10.1073/pnas.0307411100 DO - 10.1073/pnas.0307411100 ID - Nakahira2004 ER - TY - JOUR AU - Tamayo, P. AU - Slonim, D. AU - Mesirov, J. AU - Zhu, Q. AU - Kitareewan, S. AU - Dmitrovsky, E. AU - Lander, E. S. AU - Golub, T. R. PY - 1999 DA - 1999// TI - Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation JO - Proc Natl Acad Sci USA VL - 96 UR - https://doi.org/10.1073/pnas.96.6.2907 DO - 10.1073/pnas.96.6.2907 ID - Tamayo1999 ER - TY - JOUR AU - Rowicka, M. AU - Kudlicki, A. AU - Tu, B. P. AU - Otwinowski, Z. PY - 2007 DA - 2007// TI - High-resolution timing of cell cycle-regulated gene expression JO - Proc Natl Acad Sci USA VL - 104 UR - https://doi.org/10.1073/pnas.0706022104 DO - 10.1073/pnas.0706022104 ID - Rowicka2007 ER - TY - CHAP AU - Schiilkopf, B. PY - 2001 DA - 2001// TI - The kernel trick for distances BT - Advances in Neural Information Processing Systems 13: Proceedings of the 2000 Conference PB - MIT Press CY - Cambridge, USA ID - Schiilkopf2001 ER - TY - JOUR AU - Hyvärinen, A. PY - 1999 DA - 1999// TI - Fast and robust fixed-point algorithms for independent component analysis JO - IEEE Trans Neural Netw VL - 10 UR - https://doi.org/10.1109/72.761722 DO - 10.1109/72.761722 ID - Hyvärinen1999 ER - TY - JOUR AU - Taguchi, Y. H. PY - 2015 DA - 2015// TI - Identification of aberrant gene expression associated with aberrant promoter methylation in primordial germ cells between E13 and E16 rat F3 generation vinclozolin lineage JO - BMC Bioinforma VL - 16 Suppl 18 UR - https://doi.org/10.1186/1471-2105-16-S18-S16 DO - 10.1186/1471-2105-16-S18-S16 ID - Taguchi2015 ER - TY - STD TI - Taguchi YH, Iwadate M, Umeyama H. Heuristic principal component analysis-based unsupervised feature extraction and its application to gene expression analysis of amyotrophic lateral sclerosis data sets. In: Computational Intelligence in Bioinformatics and Computational Biology (CIBCB), 2015 IEEE Conference On: 2015. p. 1–10, doi:10.1109/CIBCB.2015.7300274. UR - http://dx.doi.org/10.1109/CIBCB.2015.7300274 ID - ref32 ER - TY - JOUR AU - Murakami, Y. AU - Kubo, S. AU - Tamori, A. AU - Itami, S. AU - Kawamura, E. AU - Iwaisako, K. AU - Ikeda, K. AU - Kawada, N. AU - Ochiya, T. AU - Taguchi, Y. H. PY - 2015 DA - 2015// TI - Comprehensive analysis of transcriptome and metabolome analysis in Intrahepatic Cholangiocarcinoma and Hepatocellular Carcinoma JO - Sci Rep VL - 5 UR - https://doi.org/10.1038/srep16294 DO - 10.1038/srep16294 ID - Murakami2015 ER - TY - BOOK PY - 2014 DA - 2014// TI - R: A Language and Environment for Statistical Computing PB - R Foundation for Statistical Computing CY - Vienna ID - ref34 ER - TY - JOUR AU - Chris Fraley, A. E. R. PY - 2002 DA - 2002// TI - Model-based clustering, discriminant analysis, and density estimation JO - J Am Stat Assoc VL - 97 UR - https://doi.org/10.1198/016214502760047131 DO - 10.1198/016214502760047131 ID - Chris Fraley2002 ER -