Bioinformatics and Computation

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2020年

Presentation file introducer date paper video
R. Ranjani Rani and D. Ramyachitra, Antlion optimization algorithm for pairwise structural alignment with bi-objective functions, Neural Computing and Applications, 31(19), 2019, 3139–3146. 蔡豐仰 Jan. 07
H.-T. Chan, C.-B. Yang, and Y.-H. Peng, “The generalized denitions of the twodimensional largest common substructure problems,” Proc. of the 33rd Workshop on Combinatorial Mathematics and Computation Theory, Taipei, Taiwan, pp. 1–12, 2016. 賴冠霖 Jan. 07
Z. Mehmood, T. Mahmood, and M. A. Javid, “Content-based image retrieval and semantic automatic image annotation based on the weighted average of triangular histograms using support vector machine,” Applied Intelligence, vol. 48, no. 1, pp. 166–181, 2017 李子旭 Jan. 07
Kurniawan D H and Munir R (2015), A New String Matching Algorithm Based on Logical Indexing, The 5th International Conference on Electrical Engineering and Informatics, Denpasar, Indonesia, pp. 394-399. 張育誠 Jan. 14
Lei Sha, Xiaodong Zhang, Feng Qian, Baobao Chang, and Zhifang Sui. 2018. A multi-view fusion neural network for answer selection. In Thirty-Second AAAI Conference on Artificial Intelligence. 陳佳琳 Jan. 14
Ratul Bhowmick, Ibrahim Sadek Bhuiyan, Sabir Hossain, Muhammad Kamal Hossen and Ahsan Sadee Tanim , An Approach for Improving Complexity of Longest Common Subsequence Problems using Queue and Divide-and-Conquer Method, 2019 1st International Conference on Advances in Science, Engineering and Robotics Technology (ICASERT), Dhaka, Bangladesh, Bangladesh, 3-5 May 2019. 吳篤承 Jan. 14
Ayad, L.A.K., Bernardini, G., Grossi, R., Iliopoulos, C.S., Pisanti, N., Pissis, S.P., Rosone, G.: Longest property-preserved common factor. In: 25th International Symposium on String Processing and Information Retrieval (SPIRE). pp. 42–49. Springer LNCS 11147 (2018). 李紹瑄 Jan. 21
Yang Y, et al. MiRGOFS: A GO-based functional similarity measure for miRNAs, with applications to the prediction of miRNA subcellular localization and miRNA-disease association. Bioinformatics. 2018. 呂政彥 Jan. 21
Levon Aslanyan, LCS Algorithm with Vector-markers, Institute for Informatics and Automation Problems of the National Academy of Science of Armenia. 蔡元修 Jan. 21
Y.T. Tsai, The Constrained Longest Common Subsequence Problem, Information Processing Letters 88, 2003, 173–176. 吳智愷 Feb. 18
Muhammad Rashed Alam and M. Sohel Rahman. The substring inclusion constraint longest common subsequence problem can be solved in quadratic time. Journal of Discrete Algorithms, 17:67–73, 2012. 宋恩安 Feb. 18
W. R. Pearson, “Selecting the right similarity-scoring matrix,” Current Protocols in Bioinformatics, vol. 43, pp. 3.5.1–3.5.9, 2013. 蔡豐仰 Feb. 18
Huang, Chaolin, et al. "Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China." The lancet 395.10223 (2020): 497-506. 張育誠 Feb. 25
Fici, Gabriele, et al. "A subquadratic algorithm for minimum palindromic factorization." Journal of Discrete Algorithms 28 (2014): 41-48. 賴冠霖 Feb. 25
Nakatsu, N., Kambayashi, Y., & Yajima, S. (1982). A longest common subsequence algorithm suitable for similar text strings. Acta Informatica, 18(2), 171-179. 李子旭 Feb. 25
SHIKDER, Rayhan, et al. An OpenMP-based tool for finding longest common subsequence in bioinformatics. BMC research notes, 2019, 12.1: 220. 蔡元修 Mar. 03
XUAN, Ping, et al. Prediction of microRNAs associated with human diseases based on weighted k most similar neighbors. PloS one, 2013, 8.8. 呂政彥 Mar. 03
INOUE, Takafumi, et al. Computing longest common square subsequences. In: 29th Annual Symposium on Combinatorial Pattern Matching, CPM 2018. Schloss Dagstuhl-Leibniz-Zentrum für Informatik, Dagstuhl Publishing, 2018. 李紹瑄 Mar. 03
Chen, Y. C., & Chao, K. M. (2011). On the generalized constrained longest common subsequence problems. Journal of Combinatorial Optimization, 21(3), 383-392. 吳篤承 Mar. 10
LI, Zhengxin, et al. Speed Up Similarity Search of Time Series Under Dynamic Time Warping. IEEE Access, 2019, 7: 163644-163653. 宋恩安 Mar. 10
LAI, Siwei, et al. Recurrent convolutional neural networks for text classification. In: Twenty-ninth AAAI conference on artificial intelligence. 2015. 陳佳琳 Mar. 10
DONG, Honghui, et al. Traffic speed estimation using mobile phone location data based on longest common subsequence. In: 2018 21st International Conference on Intelligent Transportation Systems (ITSC). IEEE, 2018. p. 2819-2824. 吳智愷 Mar. 17
Wang, X., Wang, L., & Zhu, D. (2019). Efficient Computation of Longest Common Subsequences with Multiple Substring Inclusive Constraints. Journal of Computational Biology, 26(9), 938-947. 張育誠 Mar. 17
Price, G. A., Crooks, G. E., Green, R. E., & Brenner, S. E. (2005). Statistical evaluation of pairwise protein sequence comparison with the Bayesian bootstrap. Bioinformatics, 21(20), 3824-3831. 蔡豐仰 Mar. 17
GEIZHALS, Sara H.; SOKOL, Dina. Finding maximal 2-dimensional palindromes. Information and Computation, 2019, 266: 161-172. 賴冠霖 Mar. 24
Alves, C. E. R., Cáceres, E. N., & Song, S. W. (2008). An all-substrings common subsequence algorithm. Discrete Applied Mathematics, 156(7), 1025-1035. 李紹瑄 Mar. 24
FERREIRA, Carlos E.; TJANDRAATMADJA, Christian. A branch-and-cut approach to the repetition-free longest common subsequence problem. Electronic Notes in Discrete Mathematics, 2010, 36: 527-534. 李子旭 Mar. 24
PEARSON, William R. Selecting the right similarity‐scoring matrix. Current protocols in bioinformatics, 2013, 43.1: 3.5. 1-3.5. 9. 蔡元修 Apr. 07
Li, G., Luo, J., Xiao, Q., Liang, C., Ding, P., & Cao, B. (2017). Predicting microrna-disease associations using network topological similarity based on deepwalk. Ieee Access, 5, 24032-24039. 呂政彥 Apr. 07
Chen, M., Jin, X., & Shen, D. (2011, June). Short text classification improved by learning multi-granularity topics. In Twenty-Second International Joint Conference on Artificial Intelligence. 陳佳琳 Apr. 07
YAMADA, Kohei, et al. Faster STR-EC-LCS Computation. In: International Conference on Current Trends in Theory and Practice of Informatics. Springer, Cham, 2020. p. 125-135. 吳篤承 Apr. 14
Apostolico, A., Landau, G. M., & Skiena, S. (1997). Matching for run-length encoded strings (pp. 348-356). IEEE. 宋恩安 Apr. 14
Neamatollahi, P., Hadi, M., & Naghibzadeh, M. (2020). Simple and Efficient Pattern Matching Algorithms for Biological Sequences. IEEE Access, 8, 23838-23846. 張育誠 Apr. 14
陳冠甫, Workload- and Resource-Aware List-Based Workflow Scheduling. 2019. PhD Thesis. 吳智愷 Apr. 21
LANDAU, Gad M.; ZIV-UKELSON, Michal. On the common substring alignment problem. Journal of Algorithms, 2001, 41.2: 338-359. 李紹瑄 Apr. 21
GREEN, RICHARD E.; BRENNER, STEVEN E. Bootstrapping and normalization for enhanced evaluations of pairwise sequence comparison. Proceedings of the IEEE, 2002, 90.12: 1834-1847. 蔡豐仰 Apr. 21
ZAHID, Saad Khan, et al. A novel structure of the Smith-Waterman Algorithm for efficient sequence alignment. In: 2015 Third International Conference on Digital Information, Networking, and Wireless Communications (DINWC). IEEE, 2015. p. 6-9. 蔡元修 May. 05
PEARSON, William R. An introduction to sequence similarity (“homology”) searching. Current protocols in bioinformatics, 2013, 42.1: 3.1. 1-3.1. 8. 李子旭 May. 05
FELBO, Bjarke, et al. Using millions of emoji occurrences to learn any-domain representations for detecting sentiment, emotion and sarcasm. arXiv preprint arXiv:1708.00524, 2017. 陳佳琳 May. 12
KWON, Yeondae, et al. Associated disease frequency-based measure for finding candidate target genes from the biomedical literature. In: 2011 International Conference on Complex, Intelligent, and Software Intensive Systems. IEEE, 2011. p. 524-529. 呂政彥 May. 12
ANN, Hsing-Yen, et al. A fast and simple algorithm for computing the longest common subsequence of run-length encoded strings. Information Processing Letters, 2008, 108.6: 360-364. 宋恩安 May. 12
TANG, Xiaolu, et al. On the origin and continuing evolution of SARS-CoV-2. National Science Review, 2020. 張育誠 May. 20
TOPCUOGLU, Haluk; HARIRI, Salim; WU, Min-You. Task scheduling algorithms for heterogeneous processors. In: Proceedings. Eighth Heterogeneous Computing Workshop (HCW'99). IEEE, 1999. p. 3-14. 吳智愷 May. 20
LANDAU, Gad M.; MYERS, Eugene W.; SCHMIDT, Jeanette P. Incremental string comparison. SIAM Journal on Computing, 1998, 27.2: 557-582. 李紹瑄 May. 27
HESS, Martin, et al. Addressing inaccuracies in BLOSUM computation improves homology search performance. BMC bioinformatics, 2016, 17.1: 189. 蔡豐仰 May. 27
余清祥. 統計在紅樓夢的應用. 1998. 陳佳琳 Jun. 03
BRENNER, Steven E.; CHOTHIA, Cyrus; HUBBARD, Tim JP. Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. Proceedings of the National Academy of Sciences, 1998, 95.11: 6073-6078. 李子旭 Jun. 03
CHAKRABORTY, Angana; BANDYOPADHYAY, Sanghamitra. FOGSAA: Fast optimal global sequence alignment algorithm. Scientific reports, 2013, 3: 1746. 蔡元修 Jun. 03
ALBERT, Michael H., et al. Longest increasing subsequences in sliding windows. Theoretical Computer Science, 2004, 321.2-3: 405-414. 張育誠 Jun. 10
WANG, Lei, et al. A dynamic programming solution to a generalized LCS problem. Information Processing Letters, 2013, 113.19-21: 723-728. 宋恩安 Jun. 10
LANDAU, Gad M.; MYERS, Eugene; ZIV-UKELSON, Michal. Two algorithms for LCS consecutive suffix alignment. In: Annual Symposium on Combinatorial Pattern Matching. Springer, Berlin, Heidelberg, 2004. p. 173-193. 李紹瑄 Jun. 16
Huang, Kuo-Chan, and Meng-Han Tsai. "Task ranking and allocation heuristics for efficient workflow schedules." 2016 International Computer Symposium (ICS). IEEE, 2016. 吳智愷 Jun. 16
JIANG, Nanjiang; DE MARNEFFE, Marie-Catherine. Do you know that florence is packed with visitors? evaluating state-of-the-art models of speaker commitment. In: Proceedings of the 57th Annual Meeting of the Association for Computational Linguistics. 2019. p. 4208-4213. 陳佳琳 Jun. 30
RIZK, Guillaume; LAVENIER, Dominique. GASSST: global alignment short sequence search tool. Bioinformatics, 2010, 26.20: 2534-2540. 蔡元修 Jun. 30
         

 

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