computational inference stat 440 / 840 cm 461 instructor: ali ghodsiali ghodsi course webpage:...
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Computational InferenceComputational InferenceSTAT 440 / 840STAT 440 / 840
CM 461CM 461
Instructor: Ali Ghodsi
Course Webpage:http://www.math.uwaterloo.ca/~aghodsib/courses
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ApplicationsApplications
• Computer Vision
• Speech Processing
• Machine Learning
• Molecular Biology
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Computer VisionComputer Vision
N. Jojic and B.J. Frey, “ Learning flexible sprites in video layers”, CVPR 2001, (Video)
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Artistic Painting Artistic Painting Style Translation Style Translation ((Unsupervised Unsupervised
Approach)Approach)CezanneCistern in the Park at Chateau Noir
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Artistic Artistic painting painting
Texture TransferTexture Transfer
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Model Representation Model Representation Probabilistic ModelProbabilistic Model
Image patches(output)
Image patches(input)
T. Transform.Filter
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Romer Rosales
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Speech ProcessingSpeech Processing((Denoising)Denoising)
Input signal (corrupted speech)
Denoising using a low pass filter
Denoising using Probabilistic Graphical Model
K. Achan, S. T. Roweis, A. Hertzmann, and B. J. Frey, 2004 A Segmental HMM for Speech Waveforms
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Machine LearningMachine Learning(Spectral Clustering)(Spectral Clustering)
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Machine LearningMachine Learning(Generative Models of Affinity Matrices(Generative Models of Affinity Matrices )
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Molecular BiologyMolecular BiologyA REVISED VIEW OF THE MAMMALIAN LIBRARY OF
GENES (NATURE GENETICS, Aug 2005)
• Recent mammalian microarray experiments have detected widespread transcription and raised the possibility that there may be a large number of undiscovered multi-exon protein-coding genes. To explore this possibility, we hybridized unamplified, polyadenylation-selected samples from 37 mouse tissues to microarrays encompassing 1.14 million exon probes (see toy schematic on left). We analyzed these data using GenRate, a Bayesian algorithm that uses a genome-wide scoring function in a factor graph to infer genes. At a stringent exon false detection rate of 2.7%, GenRate detects 12,145 gene-length transcripts and confirms 81% of the 10,000 most highly-expressed known genes. Surprisingly, our analysis shows that most of the 155,839 exons detected by GenRate are associated with known genes, providing for the first time microarray-based evidence that the vast majority of multi-exon genes have already been discovered. GenRate also detects tens of thousands of potential new exons and reconciles discrepancies in current cDNA databases, by stitching novel transcribed regions into previously-annotated genes.