'Cpg island' diaporamas de présentation

Serdar Bulun, MD George H. Gardner Professor of Clinical Gynecology

Pathogenesis of Pain in Endometriosis. Serdar Bulun, MD George H. Gardner Professor of Clinical Gynecology Chief, Division of Reproductive Biology Research Department of Obstetrics and Gynecology Northwestern University, Chicago, IL. ENDOMETRIOSIS.

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Algorithms in Computational Biology

Algorithms in Computational Biology. Markov Chains and Hidden Markov Model. Example: CpG Islands. Dinucleotide CG ( CpG to distinguish it from C-G base pair) C within CG is typically methylated Methyl-C is more likely to mutate to T

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Hidden Markov Model Lecture #6

Hidden Markov Model Lecture #6. Background Readings : Chapters 3.1, 3.2 in the text book, Biological Sequence Analysis , Durbin et al., 2001. Use of Markov Chains in Genome search: Modeling CpG Islands.

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Hidden Markov Models (HMMs)

Hidden Markov Models (HMMs). (Lecture for CS498-CXZ Algorithms in Bioinformatics) Oct. 27, 2005 ChengXiang Zhai Department of Computer Science University of Illinois, Urbana-Champaign. Motivation: the CpG island problem. Methylation in human genome

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The Zebrafish Genome Sequencing Project Bioinformatics resources

The Zebrafish Genome Sequencing Project Bioinformatics resources. Kerstin Howe, Mario Caccamo, Ian Sealy. Bioinformatics resources. outline clone mapping, sequencing and manual annotation in genome assemblies and automated annotation in integrated ZF-Models data and tools.

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Hidden Markov Models (HMMs)

Hidden Markov Models (HMMs). (Lecture for CS498-CXZ Algorithms in Bioinformatics) Oct. 27, 2005 ChengXiang Zhai Department of Computer Science University of Illinois, Urbana-Champaign. Motivation: the CpG island problem. Methylation in human genome

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Genome Analysis & Gene Prediction

Genome Analysis & Gene Prediction. Overview about Genes. Gene : whole nucleic acid sequence necessary for the synthesis of a functional protein (or functional RNA) A human cell contains approximately 23,000 genes.

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Phylogenetic Estimation of Context-Dependent Substitution Rates by Maximum Likelihood

Phylogenetic Estimation of Context-Dependent Substitution Rates by Maximum Likelihood. Authors: Adam Siepel David Haussler Presented By: Keerthika Venugopal. outline. Definitions Problem Statement Phylogenetic Model Likelihood

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More about Markov model.

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Promoters

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Promoters

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BINF6201/8201 Hidden Markov Models for Sequence Analysis 11-18-2009

BINF6201/8201 Hidden Markov Models for Sequence Analysis 11-18-2009. Pattern recognition by machine learning algorithms. Machine learning algorithms are a class of statistics-based algorithms that recognize patterns in the data by first leaning the patterns from known examples.

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CpG island

CpG island. Transition probabilities inside/outside a CpG island. An HMM for detecting CpG islands. The model contains: Eight states: Q={A+,C+,G+,T+,A-,C-,G-,T-} Four symbols of the alphabet: S ={A,C,G,T}. Transition probabilities of an HMM for CpG island detection.

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Supplemental Figure 1

MCF10A. TIS. -531. +608. MCF10AT. CpG island A. TIS. MCF10CA1acl.1. TIS. MDA-MB231. TIS. MDA-MB435. TIS. Supplemental Figure 1. Supplemental Figure 2.

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ZD Smith et al. Nature 000 , 1 - 5 (2014) doi:10.1038/nature 13581

Transient maternal DMRs target a divergent set of CpG island promoters. ZD Smith et al. Nature 000 , 1 - 5 (2014) doi:10.1038/nature 13581.

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