TY - JOUR AU - Bhaskar, H. AU - Hoyle, D. C. AU - Singh, S. PY - 2005 DA - 2005// TI - Machine learning in bioinformatics: A brief survey and recommendations for practitioners JO - Computers in Biology and Medicine VL - 36 UR - https://doi.org/10.1016/j.compbiomed.2005.09.002 DO - 10.1016/j.compbiomed.2005.09.002 ID - Bhaskar2005 ER - TY - JOUR AU - Bernardes, J. AU - Fernandez, J. AU - Vasconcelos, A. PY - 2008 DA - 2008// TI - Structural descriptor database: a new tool for sequence based functional site prediction JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-492 DO - 10.1186/1471-2105-9-492 ID - Bernardes2008 ER - TY - JOUR AU - Klotz, C. AU - Aumont, M. C. AU - Leger, J. J. AU - Swynghedauw, B. PY - 1975 DA - 1975// TI - Human cardiac myosin ATPase and light subunits: A comparative study JO - Biochim Biophys VL - 386 UR - https://doi.org/10.1016/0005-2795(75)90289-5 DO - 10.1016/0005-2795(75)90289-5 ID - Klotz1975 ER - TY - CHAP AU - Price, N. C. ED - Pain, R. H. PY - 1994 DA - 1994// TI - Assembly of multi-subunit structure BT - Mechanisms of Protein Folding PB - Oxford University Press CY - New York ID - Price1994 ER - TY - JOUR AU - Corrales, F. J. AU - Fersht, A. R. PY - 1996 DA - 1996// TI - Kinetic significance of GroEL14ยท(GroES7)2 complexes in molecular chaperone activity JO - Folding & Design VL - 1 UR - https://doi.org/10.1016/S1359-0278(96)00040-5 DO - 10.1016/S1359-0278(96)00040-5 ID - Corrales1996 ER - TY - JOUR AU - Terry, B. F. AU - Richard, M. C. PY - 1998 DA - 1998// TI - Determination of protein-protein interactions by matrix-assisted laser desorption/ionization mass spectrometry JO - J Mass Spectrom VL - 33 UR - https://doi.org/3.0.CO;2-H DO - 3.0.CO;2-H ID - Terry1998 ER - TY - JOUR AU - Slama, P. AU - Filippis, I. AU - Lappe, M. PY - 2008 DA - 2008// TI - Detection of protein catalytic residues at high precision using local network properties JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-517 DO - 10.1186/1471-2105-9-517 ID - Slama2008 ER - TY - CHAP AU - Mephu Nguifo, E. AU - Sallantin, J. PY - 1993 DA - 1993// TI - Prediction of Primate Splice Junction Gene Sequences with a Cooperative Knowledge Acquisition System BT - ISMB ID - Mephu Nguifo1993 ER - TY - CHAP AU - Lemoine, E. AU - Merceron, D. AU - Sallantin, J. AU - Mephu Nguifo, E. PY - 1999 DA - 1999// TI - Improving the Efficiency of a User-Driven Learning System with Reconfigurable Hardware. Application to DNA Splicing BT - Pacific Symposium on Biocomputing ID - Lemoine1999 ER - TY - JOUR AU - Vignal, L. AU - D'Aubenton-Carafa, Y. AU - Lisacek, F. AU - Mephu Nguifo, E. AU - Rouze, P. AU - Quinqueton, J. AU - Thermes, C. PY - 1997 DA - 1997// TI - Exon prediction in eucaryotic genomes JO - Biochimie VL - 78 UR - https://doi.org/10.1016/0300-9084(96)84765-1 DO - 10.1016/0300-9084(96)84765-1 ID - Vignal1997 ER - TY - CHAP AU - Han, J. AU - Kamber, M. PY - 2006 DA - 2006// BT - Data Mining: Concepts and Techniques ID - Han2006 ER - TY - CHAP AU - Huan, L. AU - Motoda, H. PY - 1998 DA - 1998// BT - Feature Extraction, Construction and Selection: A Data Mining Perspective. ISBN: 978-0-7923-8196-9 PB - Kluwer Academic Publishers CY - Norwell, MA ID - Huan1998 ER - TY - JOUR AU - Nevill-Manning, C. G. AU - Wu, T. D. AU - Brutlag, D. L. PY - 1998 DA - 1998// TI - Highly specific protein sequence motifs for genome analysis JO - Proceedings of the National Academy of Sciences of the United States of America VL - 95 UR - https://doi.org/10.1073/pnas.95.11.5865 DO - 10.1073/pnas.95.11.5865 ID - Nevill-Manning1998 ER - TY - JOUR AU - Maddouri, M. AU - Elloumi, M. PY - 2004 DA - 2004// TI - Encoding of primary structures of biological macromolecules within a data mining perspective JO - Journal of Computer Science and Technology (JCST) VL - 19 UR - https://doi.org/10.1007/BF02944786 DO - 10.1007/BF02944786 ID - Maddouri2004 ER - TY - JOUR AU - Yongqiang, Z. AU - Zaki, M. J. PY - 2006 DA - 2006// TI - EXMOTIF: efficient structured motif extraction JO - Journal of Algorithms for Molecular Biology VL - 1 UR - https://doi.org/10.1186/1748-7188-1-21 DO - 10.1186/1748-7188-1-21 ID - Yongqiang2006 ER - TY - JOUR AU - Yongqiang, Z. AU - Zaki, M. J. PY - 2006 DA - 2006// TI - SMOTIF: efficient structured pattern and profile motif search JO - Journal of Algorithms for Molecular Biology VL - 1 UR - https://doi.org/10.1186/1748-7188-1-22 DO - 10.1186/1748-7188-1-22 ID - Yongqiang2006 ER - TY - JOUR AU - Lopes, F. AU - Martins, D. AU - Cesar, R. PY - 2008 DA - 2008// TI - Feature selection environment for genomic applications JO - BMC Bioinformatics VL - 9 UR - https://doi.org/10.1186/1471-2105-9-451 DO - 10.1186/1471-2105-9-451 ID - Lopes2008 ER - TY - CHAP AU - Saidi, R. AU - Maddouri, M. AU - Mephu Nguifo, E. PY - 2007 DA - 2007// TI - Biological Sequences Encoding for Supervised Classification BT - Intl. conf. on BioInformatics Research and Development (BIRD), TU Berlin, March 12-14, Springer-Verlag, LNBI 4414 ID - Saidi2007 ER - TY - JOUR AU - Henikoff, S. AU - Henikoff, J. G. PY - 1992 DA - 1992// TI - Amino acid substitution matrices from protein blocks JO - National Academy of Sciences, USA VL - 89 UR - https://doi.org/10.1073/pnas.89.22.10915 DO - 10.1073/pnas.89.22.10915 ID - Henikoff1992 ER - TY - JOUR AU - Altschul, S. F. AU - Gish, W. AU - Miller, W. AU - Myers, E. W. AU - Lipman, D. J. PY - 1990 DA - 1990// TI - Basic local alignment search tool JO - Journal of Molecular Biology VL - 215 UR - https://doi.org/10.1016/S0022-2836(05)80360-2 DO - 10.1016/S0022-2836(05)80360-2 ID - Altschul1990 ER - TY - CHAP AU - Leslie, C. AU - Eskin, E. AU - Noble, W. S. PY - 2002 DA - 2002// TI - The spectrum kernel: a string kernel for svm protein classification BT - Pacific Symposium on Biocomputing (PSB;) ID - Leslie2002 ER - TY - JOUR AU - Wang, J. T. L. AU - Marr, T. G. AU - Shasha, D. AU - Shapiro, B. A. AU - Chirn, G. W. PY - 1994 DA - 1994// TI - Discovering active motifs in sets of related protein sequences and using them for classification JO - Nucleic Acids Research VL - 22 UR - https://doi.org/10.1093/nar/22.14.2769 DO - 10.1093/nar/22.14.2769 ID - Wang1994 ER - TY - JOUR AU - Hui, L. C. K. AU - Crochemore, M. AU - Galil, Z. AU - Manber, U. PY - 1992 DA - 1992// TI - Combinatorial Pattern Matching JO - Lecture Notes in Computer Science in Apostolico, Springer-Verlag VL - 644 UR - https://doi.org/10.1007/3-540-56024-6_19 DO - 10.1007/3-540-56024-6_19 ID - Hui1992 ER - TY - JOUR AU - Zhang, C. T. AU - Chou, K. C. AU - Maggiora, G. M. PY - 1995 DA - 1995// TI - Predicting protein structural classes from amino acid composition: Application of fuzzy clustering JO - Protein Eng VL - 8 UR - https://doi.org/10.1093/protein/8.5.425 DO - 10.1093/protein/8.5.425 ID - Zhang1995 ER - TY - JOUR AU - Chou, K. C. AU - Cai, Y. D. PY - 2003 DA - 2003// TI - Predicting protein quaternary structure by pseudo amino acid composition JO - Proteins VL - 53 UR - https://doi.org/10.1002/prot.10500 DO - 10.1002/prot.10500 ID - Chou2003 ER - TY - JOUR AU - Zhang, S. W. AU - Pan, Q. AU - Zhang, H. C. AU - Zhang, Y. L. AU - Wang, H. Y. PY - 2003 DA - 2003// TI - Classification of protein quaternary structure with support vector machine JO - Bioinformatics VL - 19 UR - https://doi.org/10.1093/bioinformatics/btg331 DO - 10.1093/bioinformatics/btg331 ID - Zhang2003 ER - TY - JOUR AU - Zhou, G. P. PY - 1998 DA - 1998// TI - An intriguing controversy over protein structural class prediction JO - J Protein Chem VL - 17 UR - https://doi.org/10.1023/A:1020713915365 DO - 10.1023/A:1020713915365 ID - Zhou1998 ER - TY - JOUR AU - Finn, R. D. AU - Tate, J. AU - Mistry, J. AU - Coggill, P. C. AU - Sammut, J. S. AU - Hotz, H. R. AU - Ceric, G. AU - Forslund, K. AU - Eddy, S. R. AU - Sonnhammer, E. L. AU - Bateman, A. PY - 2008 DA - 2008// TI - The Pfam protein families database JO - Nucleic Acids Research VL - 36 UR - https://doi.org/10.1093/nar/gkm960 DO - 10.1093/nar/gkm960 ID - Finn2008 ER - TY - CHAP AU - Karp, R. AU - Miller, R. E. AU - Rosenberg, A. L. PY - 1972 DA - 1972// TI - Rapid Identification of Repeated Patterns in Strings, Trees and Arrays BT - 4th Symposium of Theory of Computing ID - Karp1972 ER - TY - JOUR AU - Malde, K. PY - 2008 DA - 2008// TI - The effect of sequence quality on sequence alignment JO - Bioinformatics VL - 24 UR - https://doi.org/10.1093/bioinformatics/btn052 DO - 10.1093/bioinformatics/btn052 ID - Malde2008 ER - TY - CHAP AU - Witten, I. H. AU - Eibe, F. PY - 2005 DA - 2005// BT - Data Mining: Practical machine learning tools and techniques PB - Morgan Kaufmann CY - San Francisco ID - Witten2005 ER - TY - JOUR AU - Yu, X. AU - Wang, C. AU - Li, Y. PY - 2006 DA - 2006// TI - Classification of protein quaternary structure by functional domain composition JO - BMC Bioinformatics VL - 7 UR - https://doi.org/10.1186/1471-2105-7-187 DO - 10.1186/1471-2105-7-187 ID - Yu2006 ER - TY - CHAP AU - Chou, P. Y. ED - Fasman, G. D. PY - 1989 DA - 1989// TI - Prediction of protein structural classes from amino acid composition BT - Prediction of Protein Structure and the Principles of Protein Conformation PB - Plenum Press CY - New York UR - https://doi.org/10.1007/978-1-4613-1571-1_12 DO - 10.1007/978-1-4613-1571-1_12 ID - Chou1989 ER - TY - JOUR AU - Nakashima, H. AU - Nishikawa, K. AU - Ooi, T. PY - 1986 DA - 1986// TI - The folding type of a protein is relevant to the amino acid composition JO - J Biochem VL - 99 ID - Nakashima1986 ER - TY - JOUR AU - Cai, Y. D. AU - Liu, X. J. AU - Xu, X. B. AU - Zhou, G. P. PY - 2001 DA - 2001// TI - Support vector machines for predicting protein structural class JO - BMC Bioinform VL - 2 UR - https://doi.org/10.1186/1471-2105-2-3 DO - 10.1186/1471-2105-2-3 ID - Cai2001 ER - TY - JOUR AU - Cai, Y. D. AU - Zhou, G. P. PY - 2000 DA - 2000// TI - Prediction of protein structural classes by neural network JO - Biochimie VL - 82 UR - https://doi.org/10.1016/S0300-9084(00)01161-5 DO - 10.1016/S0300-9084(00)01161-5 ID - Cai2000 ER - TY - JOUR AU - Feng, K. Y. AU - Cai, Y. D. AU - Chou, K. C. PY - 2005 DA - 2005// TI - Boosting classifier for predicting protein domain structural class JO - Biochem Biophys Res Commun VL - 334 UR - https://doi.org/10.1016/j.bbrc.2005.06.075 DO - 10.1016/j.bbrc.2005.06.075 ID - Feng2005 ER - TY - CHAP AU - Cao, Y. F. AU - Liu, S. AU - Zhang, L. D. AU - Qin, J. AU - Wang, J. AU - Tang, K. X. PY - 2006 DA - 2006// TI - Prediction of protein structural class with Rough Sets BT - BMC Bioinform ID - Cao2006 ER - TY - JOUR AU - Bairoch, A. AU - Apweiler, R. PY - 2000 DA - 2000// TI - The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 JO - Nucleic Acids Research VL - 28 UR - https://doi.org/10.1093/nar/28.1.45 DO - 10.1093/nar/28.1.45 ID - Bairoch2000 ER - TY - JOUR AU - Andreeva, A. AU - Howorth, D. AU - Brenner, S. E. AU - Hubbard, T. J. P. AU - Chothia, C. AU - Murzin, A. G. PY - 2004 DA - 2004// TI - SCOP database in 2004: refinements integrate structure and sequence family data JO - Nucl Acid Res VL - 32 UR - https://doi.org/10.1093/nar/gkh039 DO - 10.1093/nar/gkh039 ID - Andreeva2004 ER - TY - JOUR AU - Dayhoff, M. O. AU - Schwartz, R. M. AU - Orcutt, B. C. PY - 1978 DA - 1978// TI - A Model of Evolutionary Change in Proteins JO - National Biomedical Research Foundation, Washington DC VL - 5 ID - Dayhoff1978 ER - TY - JOUR AU - Zhang, S. W. AU - Pan, Q. AU - Zhang, H. C. AU - Shao, Z. C. AU - Shi, J. Y. PY - 2006 DA - 2006// TI - Prediction protein homooligomer types by pesudo amino acid composition: approached with an improved feature extraction and Naive Bayes feature fusion JO - Amino Acids VL - 30 UR - https://doi.org/10.1007/s00726-006-0263-8 DO - 10.1007/s00726-006-0263-8 ID - Zhang2006 ER - TY - JOUR AU - Song, J. AU - Tang, H. PY - 2004 DA - 2004// TI - Accurate classification of homodimeric vs other homooligomeric proteins using a new measure of information discrepancy JO - J Chem Inf Comput Sci VL - 44 UR - https://doi.org/10.1021/ci034288y DO - 10.1021/ci034288y ID - Song2004 ER - TY - JOUR AU - Chou, K. C. PY - 2000 DA - 2000// TI - Prediction of protein structural classes and subcellular locations JO - Curr Protein Peptide Sci VL - 1 UR - https://doi.org/10.2174/1389203003381379 DO - 10.2174/1389203003381379 ID - Chou2000 ER - TY - JOUR AU - Chou, K. C. AU - Cai, Y. D. PY - 2004 DA - 2004// TI - Predicting protein structural class by functional domain composition JO - Biochem Biophys Res Commun VL - 321 UR - https://doi.org/10.1016/j.bbrc.2004.07.059 DO - 10.1016/j.bbrc.2004.07.059 ID - Chou2004 ER - TY - CHAP AU - Mardia, K. V. AU - Kent, J. T. AU - Bibby, J. M. PY - 1979 DA - 1979// BT - Multivariate analysis PB - Academic Press CY - London ID - Mardia1979 ER - TY - JOUR AU - Chen, C. AU - Zhou, X. B. AU - Tian, Y. X. AU - Zhou, X. Y. AU - Cai, P. X. PY - 2006 DA - 2006// TI - Predicting protein structural class with pseudo-amino acid composition and support vector machine fusion network JO - Anal Biochem VL - 357 UR - https://doi.org/10.1016/j.ab.2006.07.022 DO - 10.1016/j.ab.2006.07.022 ID - Chen2006 ER - TY - JOUR AU - Chou, K. C. AU - Zhang, C. T. PY - 1995 DA - 1995// TI - Review: Prediction of protein structural classes JO - Crit Rev Biochem Mol Biol VL - 30 UR - https://doi.org/10.3109/10409239509083488 DO - 10.3109/10409239509083488 ID - Chou1995 ER - TY - JOUR AU - Zweig, M. H. AU - Campbell, G. PY - 1993 DA - 1993// TI - Receiver-operating characteristic (ROC) plots: a fundamental evaluation tool in clinical medicine JO - Clinical chemistry VL - 39 ID - Zweig1993 ER - TY - JOUR AU - Berman, H. M. AU - Westbrook, J. AU - Feng, Z. AU - Gilliland, G. AU - Bhat, T. N. AU - Weissig, H. AU - Shindyalov, I. N. AU - Bourne, P. E. PY - 2000 DA - 2000// TI - The Protein Data Bank JO - Nucleic Acids Res VL - 28 UR - https://doi.org/10.1093/nar/28.1.235 DO - 10.1093/nar/28.1.235 ID - Berman2000 ER - TY - JOUR AU - Sander, C. AU - Schneider, R. PY - 1991 DA - 1991// TI - Database of homology derived protein structure and the structural meaning of sequence alignment JO - Protein: Structure, Function and Genetic VL - 9 UR - https://doi.org/10.1002/prot.340090107 DO - 10.1002/prot.340090107 ID - Sander1991 ER -