Bioinformatics and Computation

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2015年

Presentation file introducer date paper video
Jiangning Song, Hao Tan, Mingjun Wang, Geoffrey I. Webb, Tatsuya Akutsu. "TANGLE: Two-Level Support Vector Regression Approach for Protein Backbone Torsion Angle Prediction from Primary Sequences". PLoS ONE, Vol. 7 Issue 2, p1 (2012) 黃鼎耀 Jan. 13
Z.S. Peng and H.F. Ting. "Time and Space Efficient Algorithms for Constrained Sequence Alignment". CIAA 2004, LNCS 3317, pp. 237–246, 2005 詹德勝 Jan. 13
Hsin-Chuan Yuan(袁信全). "Protein Backbone Reconstruction with Tool Preference Classification and Feature Selection". 袁信全 Jan. 13
Maxime Crochemore, Gad M. Landau, Michal Ziv-Ukelson. "Re-Use Dynamic Programming for Sequence Alignment: An Algorithmic Toolkit". String Algorithmics, pp. 19-59 (2005) 徐子強 Jan. 28
Burkhard Morgenstern, Kornelie Frech, Andreas Dress, Thomas Werner. "DIALIGN: Finding local similarities by multiple sequence alignment". BIOINFORMATICS Vol15 no.3 1999 pp. 211-218 何文娟 Jan. 28
S. Cenk Sahinalp, Murat Tasan, Jai Macker, Z. Meral Ozsoyoglu. "Distance based indexing for string proximity search". Data Engineering, 2003. Proceedings. 19th International Conference on pp.125 - 136 蔡曜州 Jan. 28
Paola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Guillaume Fertin, Raffaella Rizzi, and Stephane Vialette. "Exemplar Longest Common Subsequence". IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, VOL. 4, NO. 4, OCTOBER-DECEMBER 2007 PP.535-543 林憲良 Feb.03
Sergio Luján-Mora. "An Algorithm for Computing the Invariant Distance from Word Position". Technical report. June 2000. 周展億 Feb.03
Anthony Bagnall and Jason Lines. "An Experimental Evaluation of Nearest Neighbour Time Series Classification". arXiv:1406.4757v1 [cs.LG] 18 Jun 2014 郭冠呈 Feb.03
Chi-Yuan Yeh, Chi-Wei Huang, Shie-Jue Lee. "A multiple-kernel support vector regression approach for stock". Expert Systems with Applications 38 (2011) 2177–2186 黃鼎耀 Feb.09
AHM Mahfuzur Rahman and M. Sohel Rahman. "Effective Sparse Dynamic Programming Algorithms for Merged and Block Merged LCS Problems". JOURNAL OF COMPUTERS, VOL. 9, NO. 8, AUGUST 2014 詹德勝 Feb.09
Yu-Hsin Kuan, Chung-Ming Kuo, and Nai-Chung Yang . "Color-Based Image Salient Region Segmentation Using Novel Region Merging Strategy ". IEEE TRANSACTIONS ON MULTIMEDIA, VOL. 10, NO. 5, pp. 832-845, AUGUST 2008 孫才洺 Feb.09
Fard,A; Manda,S; Ramaswamy, L; Miller,J.A. "Effective caching techniques for accelerating pattern matching queries". 2014 IEEE International Conference on Big Data,P.491–P.499 何文娟 Feb.25
Qingguo Wang, Mian Pan, Yi Shang, and Dmitry Korkin. "A Fast Heuristic Search Algorithm for Finding the Longest Common Subsequence of Multiple Strings". Conference: Proceedings of the Twenty-Fourth AAAI Conference on Artificial Intelligence, AAAI 2010, Atlanta, Georgia, USA, July 11-15, 2010 周展億 Feb.25
Ronald I. Greenberg. "Computing the Number of Longest Common Subsequences". http://www.cs.luc.edu/~rig ,Jan 2003 詹皇廷 Feb.25
Zhisong Fu, Harish Kumar Dasari, Bradley Bebee, Martin Berzins, Bryan Thompson. "Parallel Breadth First Search on GPU Clusters". 2014, IEEE International Conference on Big Data,pp110-118 蔡曜州 Mar.02
Gad M. Landau, Michal Ziv-Ukelson. "On the Common Substring Alignment Problem". Journal of Algorithms 41, pp. 338-359 (2001) 徐子強 Mar.02
Lexiang Ye, Eamonn Keogh. "Time Series Shapelets: A New Primitive for Data Mining". Proceeding KDD '09 Proceedings of the 15th ACM SIGKDD international conference on Knowledge discovery and data mining Pages 947-956 (2009) 郭冠呈 Mar.02
Zvi Gotthilf, Danny Hermelin, Gad M. Landau, and Moshe Lewenstein. "Restricted LCS". String Processing and Information Retrieval Lecture Notes in Computer Science Volume 6393,,pp. 250-257(2010) 林憲良 Mar.10
Sun WU, Udi MANBER *, Gene MYERS * *. "An O(NP) Sequence Comparison Algorithm". Information Processing Letters 35 (1990) 317-323 詹德勝 Mar.10
Hiromasa Kaneko, Kimito Funatsu. "Fast optimization of hyperparameters for support vector regression models with highly predictive ability". Chemometrics and Intelligent Laboratory Systems 142 (2015) pp. 64–69 黃鼎耀 Mar.10
Yoav Freund and Robert E. Schapire. "A Decision-Theoretic Generalization of On-Line Learning and an Application to Boosting". journal of computer and system sciences, Vol. 55, pp. 119-139,1997 何秋誼 Mar.17
Jin Wook Kim, Amihood Amir, Gad M. Landau, Kunsoo Park. "Computing similarity of run-length encoded strings with affine gap penalty". Theoretical Computer Science, Volume 395, Issues 2–3, 1 May 2008, Pages 268–282 詹皇廷 Mar.23
Gad M. Landau, Eugene W. Myers, Jeanette P. Schmidt. "Incremental String Comparison". SIAM J. Comput., Vol. 27, No. 2, pp. 557-582 (1998) 徐子強 Mar.31
Lin Li, Yu Qiao. "Flower Image Retrieval with Category Attributes". 2014 4th IEEE International Conference on Information Science and Technology (ICIST) 孫才洺 Mar.31
Christian Blum, Maria J. Blesa, Manuel López-Ibáñez. "Beam search for the longest common subsequence problem". Computers and Operations Research, Volume 36, pp. 3178-3186 (2009) 林憲良 Apr.07
Jason Lines, Luke M. Davis, Jon Hills, Anthony Bagnall. "A Shapelet Transform for Time Series Classification". Proceedings of the 18th International Conference on Knowledge Discovery in Data and Data Mining P.289-P.297(2012) 何文娟 Apr.07
Nan-Ying Liang, Guang-Bin Huang, P. Saratchandran, N. Sundararajan. "A Fast and Accurate Online Sequential Learning Algorithm for Feedforward Networks". IEEE TRANSACTIONS ON NEURAL NETWORKS, VOL. 17, NO. 6, NOVEMBER PP.1411 – 1423(2006) 蔡曜州 Apr.21
Krisztian Buza, Alexandros Nanopoulos, and Lars Schmidt-Thieme. "INSIGHT: Efficient and Effective Instance Selection for Time-Series Classification". Proceedings of the 15th Pacific-Asia Conference on Advances in Knowledge Discovery and Data Mining pp. 149-160 (2011) 郭冠呈 Apr.21
Hao Chen, Sastry S. Duriy, Vasanth Balay, Nilton T. Bilay, Canturk Isciy and Ayse K. Coskun. "Detecting and Identifying System Changes in the Cloud via Discovery by Example". IEEE International Conference on Big Data,pp.90 - 99(2014) 蔡曜州 Apr.28
Wei Zhao, Tao Tao, Enrico Zio. "Parameters Tuning in Support Vector Regression for Reliability Forecasting". CHEMICAL ENGINEERING TRANSACTIONS VOL. 33,pp.523-528 (2013) 黃鼎耀 Apr.28
Haim Kaplan, Nira Shafrir. "The Greedy Algorithm for Edit Distance with Moves". Information Processing ,Letters 97,pp.23–27(2006) 周展億 Apr.28
Paola Bonizzoni, Gianluca Della Vedova, Riccardo Dondi, Yuri Pirola. "Variants of constrained longest common subsequence". Information Processing Letters, Volume 110, pp.877–881(2010) 林憲良 May.05
Costas S. Iliopoulos and M. Sohel Rahman. "New Efficient Algorithms for LCS and Constrained LCS Problem". Information Processing Letters, vol 106, pp.13–18(2008) 詹德勝 May.05
Rui Ham, Lei Nie, Moustafa M Ghanem, Yike Guo. "Elastic Algorithms for Guaranteeing Quality Monotonicity in Big Data Mining". 2013 IEEE International Conference on Big Data, Santa Clara, CA, USA 5-9 Oct, pp. 45-50(2013) 徐子強 May.05
Timo Ojala, Matti Pietikäinen and Topi Mäenpää. "Multiresolution Gray-Scale and Rotation Invariant Texture Classification with Local Binary Patterns". IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE, VOL. 24, NO. 7, pp.971-988(2002) 孫才洺 May.12
Yin Hong, Yang Shuqiang, Ma Shaodong, Liu Fei, Chen Zhikun. "A Novel Parallel Scheme for Fast Similarity Search in Large Time Series". China Communication,Volume 12 ,Issue 2, pp.129 -140(2015) 何文娟 May.12
Donald E. Knuth, James H. Morris, Jr., and Vaughan R. Pratt. "Fast Pattern Matching in Strings". SIAM Journal on Computing,Volume 6, Issues 2,pp.323-350(1977) 詹皇廷 May.12
Hai-Jun Rong, Yew-Soon Ong, Ah-Hwee Tan, Zexuan Zhu. "A fast pruned-extreme learning machine for classification problem". Neurocomputing, Volume 72, pp.359-366(2008) 蔡曜州 May.18
Landau, G.M., Vishkin, U.. "Efficient String Matching in The Presence of Errors". Foundations of Computer Science, 26th Annual Symposium on,Pages 126-136(1985) 詹皇廷 June 16
Toan Thang Ta, Cheng-Yao Lin and Chin Lung Lu. "An Efficient Algorithm for Computing Non-overlapping Inversion and Transposition Distance". The 32nd Workshop on Combinatorial Mathematics and Computation Theory ,pp.55~61(2015) 徐子強 June 16
Said S. Adi, Marília D.V. Braga, Cristina G. Fernandes, Carlos E. Ferreira, Fábio Viduani Martinez, Marie-France Sagot, Marco A. Stefanes, Christian Tjandraatmadja, Yoshiko Wakabayashi. "Repetition-free longest common subsequence". Discrete Applied Mathematics, volume 158, pp.1315~1324(2010) 林憲良 June 16
Landau, G.M., Vishkin, U.. "Efficient String Matching in The Presence of Errors". Foundations of Computer Science, 26th Annual Symposium on,Pages 126-136(1985) 詹皇廷 June 23
David Jacobs. "Correlation and Convolution". Class Notes for CMSC 426(2005) 何文娟 June 30
Leonardo C. Martinez, Diego N. da Hora, Joao R. de M. Palotti Wagner Meira Jr., Gisele L. Pappa Federal University of Minas Gerais. "From an Artificial Neural Network to a Stock Market Day-Trading System: A Case Study on the BM&F BOVESPA". Proceedings of International Joint Conference on Neural Networks (IJCNN) pp.2006 – 2013(2009) 蔡曜州 June 30
Yi-Pu Guo , Yung-Hsing Peng and Chang-Biau Yang. "Efficient Algorithms for the Flexible Longest Common Subsequence Problem". The 31st Workshop on Combinatorial Mathematics and Computation Theory,pp. 1-8 (2014) 林必祥 June 30
Kamala Krithivasan, R. Sitalakshmi. "Efficient Two-Dimensional Pattern Matching in the Presence of Errors". Information Sciences, Volume 43, Issue 3, Pages 169–184(1987) 詹皇廷 July 07
David Liben-Nowell, Erik Vee, An Zhu. "Finding Longest Increasing and Common Subsequences in Streaming Data". Journal of Combinatorial Optimization Volume 11, Issue 2, pp 155-175(2006)  林憲良 July 14
EUGENE W. MYERS. "An O(ND) Difference Algorithm and Its Variations". Algorithmica, vol. 1, no. 2, pp. 251-266 (1986) 徐子強 July 21
Anelia Angelova, Shenghuo Zhu, Yuanqing Lin. "Image segmentation for large-scale subcategory flower recognition". 2013 IEEE Workshop on Applications of Computer Vision (WACV), pp. 39-43, 15-17 Jan. (2013) 孫才洺 July 21
Kin-pong Chan ,Ada Wai-chee Fu. "Efficient Time Series Matching by Wavelets". Proceedings of the 15th International Conference on Data, P.126 – P.133(1999) 何文娟 July 28
Hanchuan Peng, Member, IEEE, Fuhui Long, and Chris Ding. "Feature Selection Based on Mutual Information Criteria of Max-Dependency Max-Relevance and Min-Redundancy". Pattern Analysis and Machine Intelligence, IEEE Transactions on, pp.1226 - 1238(2005) 蔡曜州 Aug. 04
Jiaoyun Yang, Yun Xu, Yi Shang. "An Efficient Parallel Algorithm for Longest Common Subsequence Problem on GPUs". Proceedings of The World Congress on Engineering, pp. 499-504 (2010) 林必祥 Aug. 11
Costas S. Iliopoulos, M. Sohel Rahman, and Wojciech Rytter. "Algorithms for Two Versions of LCS Problem for Indeterminate Strings". Journal of Combinatorial Mathematics and Combinatorial Computing, Volume 71, pp. 155-172(2009) 林憲良 Aug. 11
WILLIAM J. MASEK, MICHAEL S. PATESON. "A Faster Algorithm Computing String Edit Distances". Journal of Computer and System Sciences Volume 20, Issue 1, Pages 18–31(1980) 何文娟 Aug. 25
Augusto F. Vellozo, Carlos E. R. Alves and Alair Pereira do Lago. "Alignment with Non-overlapping Inversions in O(n3)-Time". Algorithms in Bioinformatics, Volume 4175 of the series Lecture Notes in Computer Science, pp 186-196(2006) 徐子強 Aug. 25
Anelia Angelova, Shenghuo Zhu, Yuanqing Lin. "Image segmentation for large-scale subcategory flower recognition". 2013 IEEE Workshop on Applications of Computer Vision (WACV), pp. 39-43(2013) 孫才洺 Aug. 25
Chien-Feng Huang, Tsung-Nan Hsieh, Bao Rong Chang, Chih-Hsiang Chang. "A Comparative Study of Stock Scoring using Regression and Genetic-based Linear Models". 2011 IEEE International Conference on Granular Computing pp. 268 - 273 蔡曜州 Sept. 01
OSAMU GOTOH. "Optional Sequence Alignment Allowing For Long Gaps". Bulletin of Mathematical Biology, Vol. 52, No. 3, pp. 359—373(1990) 林憲良 Sept. 01
Kuo-Si Huang, Chang-Biau Yang, Kuo-Tsung Tseng, Yung-Hsing Peng, Hsing-Yen Ann. "Dynamic programming algorithms for the mosaic longest common subsequence problem". Information Processing Letters, 30th, pp.99-103(2007) 林必祥 Sept. 08
ESKO UKKONEN. "Algorithms for Approximate String Matching". Information and Control, Volume 64, Issues 1–3, pp.100-118(1985) 何文娟 Sept. 08
Domenico Cantone, Salvatore Cristofaro, Simone Faro. "Efficient string-matching allowing for non-overlapping inversions". Theoretical Computer Science, Vol. 483, pp. 85–95 (2013) 徐子強 Sept. 15
Andy Nguyen. "Solving Cyclic Longest Common Subsequence in Quadratic Time". Department of Computer Science, Stanford University August 17(2012) 洪祥懷 Sept. 15
Andy Nguyen. "Solving Cyclic Longest Common Subsequence in Quadratic Time". Department of Computer Science, Stanford University August 17(2012) 洪祥懷 Sept. 23
Luoyan HU, Kejing LI . "Image Texture Recognition Based on Median Filtering and Hough Transform". International Conference on Industrial and Information Systems, pp. 267-270(2009) 孫才洺 Sept. 23
RYAN SULLIVAN, ALLAN TIMMERMANN, HALBERT WHITE. "Data-Snooping, Technical Trading Rule Performance, and the Bootstrap". THE JOURNAL OF FINANCE, Volume 54, Issue 5, pp. 1647 - 1691(1999) 蔡曜州 Sept. 30
John Kececioglu and David Sankoff. "Exact and approximation algorithms for the inversion distance between two chromosomes". 93 Proceedings of the 4th Annual Symposium on Combinatorial Pattern Matching, pp.87-105(1993) 林憲良 Sept. 30
Qingguo Wang, Dmitry Korkin and Yi Shang. "Efficient Dominant Point Algorithms for the Multiple Longest Common Subsequence (MLCS) Problem". Proceedings of the 21st International Joint Conference on Artificial Intelligence, pp.1494-1499(2009) 林必祥 Oct. 07
H. Bunke, J. Csirik. "Edit distance of run-length coded strings". Proceedings of the 1992 ACM/SIGAPP Symposium on Applied computing,p.137-143(1992) 何文娟 Oct. 07
Domenico Cantone, Salvatore Cristofaro, Simone Faro. "Efficient string-matching allowing for non-overlapping inversions". Theoretical Computer Science, Vol. 483, pp. 85–95 (2013) 徐子強 Oct. 07
James W. Hunt and Thomas G. Szymanski. "A Fast Algorithm for Computing Longest Common Subsequences". Communications of the ACM, Volume 20, pp.350-353(1977) 黃士展 Oct. 13
D.S. Hirschberg. "A Linear Space Algorithm for Computing Maximal Common Subsequences". Communications of the ACM , Volume 18, Number 6, pp.341-343(1975) 賴駿豪 Oct. 13
Charles F. Van Loan. "The ubiquitous Kronecker product". Journal of Computational and Applied Mathematics, 123, pp. 85-100(2000) 邱宣宗 Oct. 30
R.S. BIRD. "Two-Dimensional Pattern Matching". Information Processing Letters, Volume 6, Issues 5, Pages 168-170(1977) 洪書凱 Oct. 30
Antonella Basso, Stefania Funari. "A data envelopment analysis approach to measure the mutual fund performance". European Journal of Operational Research, pp. 477 - 492(2000) 蔡曜州 Oct. 27
David A. Christie and Robert W. Irving. "Sorting Strings by Reversals and by Transpositions ". SIAM Journal on Discrete Mathematics, Vol. 14, No. 2, pp.193~206( 2001) 林憲良 Nov. 03
Vahagn Minasyan. "A New Algorithm for the Longest Common Subsequence Problem ". International Journal “Information Theories and Applications”, Vol. 17, Number 3, pp. 226-234(2010) 洪祥懷 Nov. 03
Domenico Cantone, Simone Faro, Emanuele Giaquinta. "Approximate String Matching Allowing for Inversions and Translocations". Proceedings of Prague Stringology Conference 2010, pp. 37-51 徐子強 Nov. 03
Yu-Mei Pan and Chia-Tung Lee. "Application of the A* Algorithm to Solve the Longest Common Subsequence from Fragments Problem". The 23rd Workshop on Combinatorial Mathematics and Computation Theory pp.240-245(2006) 林必祥 Nov. 11
Jens Gregor, Michael G. Thomason. "Dynamic Programming Alignment of Sequences Representing Cyclic Patterns". IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE, VOL. 15, NO. 2, pp. 129-135(1993) 何文娟 Nov. 11
Edward M. McCreight. "A Space-Economical Suffix Tree Construction Algorithm". Journal of the Association for Computing Machinery, Vol. 23, No. 2, April 1976, pp. 262-272. (1976) 賴駿豪 Nov. 24
Costas S. Iliopoulos, Marcin Kubica, M. Sohel Rahman, Tomasz Waleń. "Algorithms for Computing the Longest Parameterized Common Subsequence". Combinatorial Pattern Matching, Volume 4580 of the series Lecture Notes in Computer Science, pp 265-273(2007) 詹皇廷 Nov. 24
Hélène Touzet. "Tree edit distance with gaps". Information Processing Letters Volume 85, Issue 3, pp. 123–129(2003) 邱宣宗 Dec.01
Xuyu Xiang, Dafang Zhang, Jiaohua Qin. "A New Algorithm for the Longest Common Subsequence Problem". International Conference on Computational Intelligence and Security Workshops, pp.112 - 115(2007) 黃士展 Dec.01
Thiago Raymon Cruz Cacique da Costa , Rodolfo Toríbio Nazário , Gabriel Soares Zica Bergo , Vinicius Amorim Sobreiro, Herbert Kimura. "Trading System based on the use of technical analysis: A computational experiment". Journal of Behavioral and Experimental Finance, pp.42-55(2015) 蔡曜州 Dec.01
Vineet Bafna and Pavel A. Pevzner. "Genome Rearrangements and Sorting by Reversals". SIAM J. COMPUT, Vol. 25, No. 2, pp. 272-289(1996) 林憲良 Dec.16
Tomasz Górecki and Maciej Łuczak. "Non-isometric Transforms in Time Series Classification using DTW". Knowledge-Based Systems, Vol. 61, pp 98–108(2014) 洪祥懷 Dec.16
Tomasz Gorecki. "Using derivatives in a longest common subsequence dissimilarity measure for time series classification". Pattern Recognition, Letters 45,pp.99-105(2014) 洪書凱 Dec.16
Esko Ukkonen . "On-line construction of suffix trees". Algorithmica, Vol. 14, No. 3, pp. 249-260, (1995) 賴駿豪 Dec.23
C. E. R. Alves, E. N. C´aceres, S. W. Song. "Sequential and Parallel Algorithms for the All-Substrings Longest Common Subsequence Problem". Technical Report RT-MAC-2003-03, Department of Computer Science, Institute of Mathematics and Statistics, University of São Paulo (2003) 林必祥 Dec.23
Abdullah N. Arslan. "Regular expression constrained sequence alignment". Journal of Discrete Algorithms, Volume 5, Issue 4, Pages 647–661(2007) 何文娟 Dec.29
         

 

1998 1999 2000 2001 2002 2003 2004 2005 2006 2007 2008 2009 2010 2011 2012 2013 2014 2015 2016 2017 2018