Multiclass cancer classification by support vector machines with class-wise optimized genes and probability estimates.
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[1] K. Chou,et al. ProtIdent: a web server for identifying proteases and their types by fusing functional domain and sequential evolution information. , 2008, Biochemical and biophysical research communications.
[2] Tijl De Bie,et al. Kernel-based data fusion for gene prioritization , 2007, ISMB/ECCB.
[3] Kuo-Chen Chou,et al. Identification of proteases and their types. , 2009, Analytical biochemistry.
[4] Kuo-Chen Chou,et al. HIVcleave: a web-server for predicting human immunodeficiency virus protease cleavage sites in proteins. , 2008, Analytical biochemistry.
[5] Li M Fu,et al. Multi‐class cancer subtype classification based on gene expression signatures with reliability analysis , 2004, FEBS letters.
[6] Kuo-Chen Chou,et al. MemType-2L: a web server for predicting membrane proteins and their types by incorporating evolution information through Pse-PSSM. , 2007, Biochemical and biophysical research communications.
[7] H. D. Brunk,et al. AN EMPIRICAL DISTRIBUTION FUNCTION FOR SAMPLING WITH INCOMPLETE INFORMATION , 1955 .
[8] Shinzaburo Noguchi,et al. mRNA expression level of estrogen‐inducible gene, α1‐antichymotrypsin, is a predictor of early tumor recurrence in patients with invasive breast cancers , 2004, Cancer science.
[9] Isabelle Guyon,et al. Comparison of classifier methods: a case study in handwritten digit recognition , 1994, Proceedings of the 12th IAPR International Conference on Pattern Recognition, Vol. 3 - Conference C: Signal Processing (Cat. No.94CH3440-5).
[10] Constantin F. Aliferis,et al. A comprehensive evaluation of multicategory classification methods for microarray gene expression cancer diagnosis , 2004, Bioinform..
[11] J. Mesirov,et al. Chemosensitivity prediction by transcriptional profiling , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[12] T. Poggio,et al. Multiclass cancer diagnosis using tumor gene expression signatures , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[13] Kiichiro Noda,et al. Cytopathologic and Clinicopathologic Features of Ovarian Hepatoid Carcinoma , 2003, Acta Cytologica.
[14] K. Chou,et al. Energy-optimized structure of antifreeze protein and its binding mechanism. , 1992, Journal of molecular biology.
[15] Bing Niu,et al. Predicting subcellular localization with AdaBoost Learner. , 2008, Protein and peptide letters.
[16] Kuo-Chen Chou,et al. Signal-CF: a subsite-coupled and window-fusing approach for predicting signal peptides. , 2007, Biochemical and biophysical research communications.
[17] E. Boerwinkle,et al. Feature (gene) selection in gene expression-based tumor classification. , 2001, Molecular genetics and metabolism.
[18] H.-B. Shen,et al. Euk-PLoc: an ensemble classifier for large-scale eukaryotic protein subcellular location prediction , 2007, Amino Acids.
[19] J Yavelow,et al. Alpha 1-antitrypsin blocks the release of transforming growth factor-alpha from MCF-7 human breast cancer cells. , 1997, The Journal of clinical endocrinology and metabolism.
[20] K. Chou,et al. Hum-PLoc: a novel ensemble classifier for predicting human protein subcellular localization. , 2006, Biochemical and biophysical research communications.
[21] K. Chou,et al. Cell-PLoc: a package of Web servers for predicting subcellular localization of proteins in various organisms , 2008, Nature Protocols.
[22] M. Ringnér,et al. Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks , 2001, Nature Medicine.
[23] Xin Yao,et al. Gene selection algorithms for microarray data based on least squares support vector machine , 2006, BMC Bioinformatics.
[24] Christian A. Rees,et al. Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. , 1999, Proceedings of the National Academy of Sciences of the United States of America.
[25] K. Chou,et al. Recent progress in protein subcellular location prediction. , 2007, Analytical biochemistry.
[26] Tang-Yi Tsao,et al. Hepatoid Carcinoma of the Ovary: Immunohistochemical Finding of One Case and Literature Review , 2007 .
[27] Sayan Mukherjee,et al. An Analytical Method for Multiclass Molecular Cancer Classification , 2003, SIAM Rev..
[28] John Platt,et al. Probabilistic Outputs for Support vector Machines and Comparisons to Regularized Likelihood Methods , 1999 .
[29] Zhanchao Li,et al. Using Chou's amphiphilic pseudo-amino acid composition and support vector machine for prediction of enzyme subfamily classes. , 2007, Journal of theoretical biology.
[30] Cristian R. Munteanu,et al. Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices. , 2008, Journal of theoretical biology.
[31] J. Katz,et al. α1-Antitrypsin Blocks the Release of Transforming Growth Factor-α from MCF-7 Human Breast Cancer Cells1 , 1997 .
[32] E. Lander,et al. MLL translocations specify a distinct gene expression profile that distinguishes a unique leukemia , 2002, Nature Genetics.
[33] Jason Weston,et al. Gene Selection for Cancer Classification using Support Vector Machines , 2002, Machine Learning.
[34] R. Ghossein,et al. Molecular detection of micrometastases and circulating tumor cells in melanoma prostatic and breast carcinomas. , 2000, In vivo.
[35] Chih-Jen Lin,et al. LIBSVM: A library for support vector machines , 2011, TIST.
[36] L. Penland,et al. Use of a cDNA microarray to analyse gene expression patterns in human cancer , 1996, Nature Genetics.
[37] J. Welsh,et al. Molecular classification of human carcinomas by use of gene expression signatures. , 2001, Cancer research.
[38] K. Chou,et al. Prediction of protein structural classes. , 1995, Critical reviews in biochemistry and molecular biology.
[39] K. Chou,et al. EzyPred: a top-down approach for predicting enzyme functional classes and subclasses. , 2007, Biochemical and biophysical research communications.
[40] Stephen Tomlinson,et al. The effect of dexamethasone on human mucin 1 expression and antibody‐dependent complement sensitivity in a prostate cancer cell line in vitro and in vivo , 2004, Immunology.
[41] Ron Kohavi,et al. A Study of Cross-Validation and Bootstrap for Accuracy Estimation and Model Selection , 1995, IJCAI.
[42] K. Chou. Structural bioinformatics and its impact to biomedical science. , 2004, Current medicinal chemistry.
[43] Xiaoyong Zou,et al. Predicting protein structural class based on multi-features fusion. , 2008, Journal of theoretical biology.
[44] D. Rudnick,et al. CONCISE REVIEW IN MECHANISMS OF DISEASE Alpha-1-Antitrypsin Deficiency: A New Paradigm for Hepatocellular Carcinoma in Genetic Liver Disease , 2005 .
[45] Christian A. Rees,et al. Systematic variation in gene expression patterns in human cancer cell lines , 2000, Nature Genetics.
[46] K. Chou,et al. Recent advances in QSAR and their applications in predicting the activities of chemical molecules, peptides and proteins for drug design. , 2008, Current protein & peptide science.
[47] Yoonkyung Lee,et al. Classification of Multiple Cancer Types by Multicategory Support Vector Machines Using Gene Expression Data , 2003, Bioinform..
[48] Liang Liu,et al. Predicting membrane protein types with bragging learner. , 2008, Protein and peptide letters.
[49] Tao Li,et al. A comparative study of feature selection and multiclass classification methods for tissue classification based on gene expression , 2004, Bioinform..
[50] Chih-Jen Lin,et al. A comparison of methods for multiclass support vector machines , 2002, IEEE Trans. Neural Networks.
[51] A. Haitel,et al. Expression of aquaporins and PAX-2 compared to CD10 and cytokeratin 7 in renal neoplasms: a tissue microarray study , 2005, Modern Pathology.
[52] Geoffrey J McLachlan,et al. Selection bias in gene extraction on the basis of microarray gene-expression data , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[53] George Karypis,et al. Building multiclass classifiers for remote homology detection and fold recognition , 2006, BMC Bioinformatics.
[54] Ganesan Pugalenthi,et al. Predicting protein structural class by SVM with class-wise optimized features and decision probabilities. , 2008, Journal of theoretical biology.
[55] R. Tibshirani,et al. Diagnosis of multiple cancer types by shrunken centroids of gene expression , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[56] J. Mesirov,et al. Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. , 1999, Science.
[57] Vladimir Vapnik,et al. Statistical learning theory , 1998 .
[58] Wei Chu,et al. Multi-category Classification by Soft-Max Combination of Binary Classifiers , 2003, Multiple Classifier Systems.
[59] K. Chou,et al. Signal-3L: A 3-layer approach for predicting signal peptides. , 2007, Biochemical and biophysical research communications.
[60] Ryan M. Rifkin,et al. In Defense of One-Vs-All Classification , 2004, J. Mach. Learn. Res..
[61] K. Chou,et al. Unified QSAR approach to antimicrobials. Part 3: first multi-tasking QSAR model for input-coded prediction, structural back-projection, and complex networks clustering of antiprotozoal compounds. , 2008, Bioorganic & medicinal chemistry.
[62] Bianca Zadrozny,et al. Transforming classifier scores into accurate multiclass probability estimates , 2002, KDD.
[63] Tony E Godfrey,et al. A Combination of Molecular Markers Accurately Detects Lymph Node Metastasis in Non–Small Cell Lung Cancer Patients , 2006, Clinical Cancer Research.
[64] K. Chou,et al. Euk-mPLoc: a fusion classifier for large-scale eukaryotic protein subcellular location prediction by incorporating multiple sites. , 2007, Journal of proteome research.
[65] Tao Peng,et al. Serum proteomic-based analysis of pancreatic carcinoma for the identification of potential cancer biomarkers. , 2007, Biochimica et biophysica acta.
[66] Kimberly F. Sellers,et al. Systematic Variation in Genetic Microarray Data , 2004 .
[67] Alexander J. Smola,et al. Advances in Large Margin Classifiers , 2000 .
[68] Kuo-Chen Chou,et al. Ensemble classifier for protein fold pattern recognition , 2006, Bioinform..
[69] Sayan Mukherjee,et al. Classifying Microarray Data Using Support Vector Machines , 2003 .
[70] Janie Roberson,et al. Interobserver variability , 2002, Cancer.
[71] A. Gazdar,et al. Interobserver variability in histopathologic subtyping and grading of pulmonary adenocarcinoma , 1993, Cancer.
[72] K. Chou. Prediction of human immunodeficiency virus protease cleavage sites in proteins. , 1996, Analytical biochemistry.
[73] C. Domeniconi,et al. An Evaluation of Gene Selection Methods for Multi-class Microarray Data Classification , 2004 .
[74] Peter Brossart,et al. Immunologic and clinical responses after vaccinations with peptide-pulsed dendritic cells in metastatic renal cancer patients. , 2006, Cancer research.
[75] Marina Vannucci,et al. Gene selection: a Bayesian variable selection approach , 2003, Bioinform..