Yeung, Hau Man. / Thesis (M.Phil.)--Chinese University of Hong Kong, 2011. / Includes bibliographical references (p. 59-63). / Abstracts in English and Chinese. / Chapter 1 --- Introduction --- p.7 / Chapter 2 --- Work Flows and Kernel Methods --- p.9 / Chapter 2.1 --- Work Flows --- p.9 / Chapter 2.2 --- Frequency Vector --- p.11 / Chapter 2.3 --- Motivation for Kernel Based Distance --- p.12 / Chapter 2.3.1 --- Similarity between sequences --- p.13 / Chapter 2.3.2 --- Distance between sequences --- p.14 / Chapter 2.4 --- Kernels for DNA Sequence --- p.15 / Chapter 2.4.1 --- Kernels based on evolution model --- p.15 / Chapter 2.4.2 --- Kernels based on empirical data --- p.17 / Chapter 2.5 --- Kernels for Peptide Sequence --- p.18 / Chapter 3 --- Dataset for DNA Sequence and Results --- p.25 / Chapter 3.1 --- Dataset and Goal --- p.25 / Chapter 3.1.1 --- Mitochondrial DNA dataset --- p.26 / Chapter 3.1.2 --- 18S ribosomal RNA --- p.28 / Chapter 3.2 --- Results --- p.28 / Chapter 4 --- Dataset for Peptide Sequence and Results --- p.35 / Chapter 4.1 --- Dataset and Goal --- p.36 / Chapter 4.2 --- Classification and Evaluation Methods --- p.39 / Chapter 4.2.1 --- Partition of training and testing datasets --- p.39 / Chapter 4.2.2 --- Classification methods --- p.40 / Chapter 4.3 --- Results --- p.45 / Chapter 4.3.1 --- KNN performs better than the FDSM --- p.45 / Chapter 4.3.2 --- BLOSUM62 performs best and window length not important --- p.46 / Chapter 4.3.3 --- Distance formula (2.4) performs better --- p.49 / Chapter 5 --- Discussion --- p.51 / Chapter 5.1 --- Sequence Length and Window Length --- p.51 / Chapter 5.2 --- Possible Kernels --- p.52 / Chapter 5.3 --- Distance Formulae --- p.53 / Chapter 5.4 --- Protein Structural Problem --- p.54 / Chapter 6 --- Appendix --- p.55 / Chapter 6.1 --- Kernel for Peptide Sequences --- p.55 / Bibliography --- p.59
| Identifer | oai:union.ndltd.org:cuhk.edu.hk/oai:cuhk-dr:cuhk_327578 |
| Date | January 2011 |
| Contributors | Yeung, Hau Man., Chinese University of Hong Kong Graduate School. Division of Mathematics. |
| Source Sets | The Chinese University of Hong Kong |
| Language | English, Chinese |
| Detected Language | English |
| Type | Text, bibliography |
| Format | print, 63 p. : ill. ; 30 cm. |
| Rights | Use of this resource is governed by the terms and conditions of the Creative Commons “Attribution-NonCommercial-NoDerivatives 4.0 International” License (http://creativecommons.org/licenses/by-nc-nd/4.0/) |
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