PPT-HMMs and CRFs

1 Matt Gormley Lecture 23 November 16 2016 School of Computer Science Readings Bishop 131132 Bishop 8384 Sutton amp McCallum 2006 Lafferty et al 2001 10601B Introduction to Machine Learning. Shabana. . Kazi. Mark Stamp. HMMs for Piracy Detection. 1. Intro. Here, we apply metamorphic analysis to software piracy detection. Very similar to techniques used in malware detection. But, problem is completely different . Steven Salzberg. CMSC 828H, Univ. of Maryland . Fall 2010. 2. What are HMMs used for?. Real time continuous speech recognition (HMMs are the basis for all the leading products). Eukaryotic and prokaryotic gene finding (HMMs are the basis of GENSCAN, Genie, VEIL, GlimmerHMM, TwinScan, etc.). First we saw the finite state automaton. The rigid non-stochastic nature of these structures ultimately limited their usefulness to us as models of DNA. 1. 2. 3. 4. 5. 6. 7. 8. S. e. g. g. g. g. c. g. February 2011. Includes material from:. Dirk . Husmeier. , . Heng. Li. Hidden Markov models in Computational Biology. Overview. First part:. Mathematical context: Bayesian Networks. Markov models. Hidden Markov models. Steven Salzberg. CMSC 828H, Univ. of Maryland . Fall 2010. 2. What are HMMs used for?. Real time continuous speech recognition (HMMs are the basis for all the leading products). Eukaryotic and prokaryotic gene finding (HMMs are the basis of GENSCAN, Genie, VEIL, GlimmerHMM, TwinScan, etc.). Using PFAM database’s profile HMMs in MATLAB Bioinformatics Toolkit. Presentation by: . Athina. . Ropodi. University of Athens- Information Technology in Medicine and Biology . outline. Introduction. February 10, 2010. Hidden Markov models in Computational Biology. Overview. First part:. Mathematical context: Bayesian Networks. Markov models. Hidden Markov models. Second part:. Worked example: the occasionally crooked casino. biomolecular. sequence analysis. Nam-phuong Nguyen. Carl R. Woese Institute for Genomic Biology. University of Illinois at Urbana-Champaign. Human Microbiome. 10 times more bacteria cells than human cells. Tandy Warnow. BioE. /CS 598AGB. Profile Hidden Markov Models. Basic tool in sequence analysis. Look more complicated than they really are. Used to model a family of sequences. Can be built from a multiple sequence alignment. Deep Learning Seminar. Topaz Gilad, 2016. Semantic Image Segmentation With DCNN and Fully. Connected CRFs. Liang-. Chieh. Chen et al.. ICLR 2015. 1. L.-C. Chen, G. Papandreou, I. Kokkinos, K. Murphy, and A. L. . Chuong. B. Do. CS262, Winter 2009. Lecture #8. Outline. I’ll cover two different topics today. pair-HMMs. conditional random fields (CRFs). Other resources. For more information on pair-HMMs, see the Durbin et al. book. Figure2iPopulatorextractionprocessautomaticallyevaluatedsothatine11ectiveextractorscanbediscarded4AttributeValueExtractionTheextractorscanthenbeappliedtoallarticlesto12ndmissingattributevaluesforexist Kevin C. Chen. Rutgers University. joint work with . Jimin. Song (Rutgers/. Palentir. ), . Kamalika. Chaudhuri and . Chicheng. Zhang (UCSD). Human Genome-wide Association Studies. ~12,000 human disease SNPs known . Toby O’Hara, HMMS. Derek Robertson, . TransForm. Toby O’Hara. GM. HMMS. Toby is General Manager of healthcare supply chain provider Healthcare Materials Management Services (HMMS) in London, Ontario. Prior to joining HMMS, Toby held positions at Baxter Corporation and Source Medical (Cardinal Health)..