ConferenceRes Comput Mol Biol · May 2020
Chromatin is the tightly packaged structure of DNA and protein within the nucleus of a cell. The arrangement of different protein complexes along the DNA modulates and is modulated by gene expression. Measuring the binding locations and level of occupancy ...
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ConferenceLecture Notes in Computer Science Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics · January 1, 2017Cite
ConferenceProceedings International Symposium on Biomedical Imaging · January 1, 2013
High-resolution, multimodal microscopy grants an intimate view of the inner workings of cells. Complex processes like cell division can be monitored with microscope images, assuming identification of cells and their cell-cycle markers: cellular structures ...
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ConferencePac Symp Biocomput · 2008
Transcription factor (TF) binding site discovery is an important step in understanding transcriptional regulation. Many computational tools have already been developed, but their success in detecting TF motifs is still limited. We believe one of the main r ...
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ConferencePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · January 2006
In seeking to find diagnostic biomarkers in proteomic spectra, two significant problems arise. First, not only is there noise in the measured intensity at each m/z value, but there is also noise in the measured m/z value itself. Second, the potential for o ...
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ConferencePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · January 2005
We present a method for jointly learning dynamic models of transcriptional regulatory networks from gene expression data and transcription factor binding location data. Models are automatically learned using dynamic Bayesian network inference algorithms; j ...
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ConferenceAdvances in Neural Information Processing Systems · January 1, 2005
A graph-based prior is proposed for parametric semi-supervised classification. The prior utilizes both labelled and unlabelled data; it also integrates features from multiple views of a given sample (e.g., multiple sensors), thus implementing a Bayesian fo ...
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ConferencePac Symp Biocomput · 2003
We recently developed an approach for testing the accuracy of network inference algorithms by applying them to biologically realistic simulations with known network topology. Here, we seek to determine the degree to which the network topology and data samp ...
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ConferenceConference Record of the Asilomar Conference on Signals Systems and Computers · January 1, 2003
In the search for diagnostic and therapeutic strategies for lung cancer, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) has been evinced as a new and promising discovery platform to generate protein expression p ...
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ConferenceProceedings of the Annual International Conference on Computational Molecular Biology RECOMB · January 1, 2003
Recent research has demonstrated quite convincingly that accurate cancer diagnosis can be achieved by constructing classifiers that arc designed to compare the gene expression profile of a tissue of unknown cancer status to a database of stored expression ...
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ConferencePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · January 2002
We develop principled methods for the automatic induction (discovery) of genetic regulatory network models from multiple data sources and data modalities. Models of regulatory networks are represented as Bayesian networks, allowing the models to compactly ...
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ConferenceProceedings of SPIE the International Society for Optical Engineering · January 1, 2001
Data from expression arrays must be comparable before it can be analyzed rigorously on a large scale. Accurate normalization improves the comparability of expression data because it seeks to account for sources of variation obscuring the underlying variati ...
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ConferencePacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · January 2001
We propose a model-driven approach for analyzing genomic expression data that permits genetic regulatory networks to be represented in a biologically interpretable computational form. Our models permit latent variables capturing unobserved factors, describ ...
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ConferenceLecture Notes in Computer Science Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics · January 1, 1999
We present a series of protocols for authenticating an individual’s membership in a group without revealing that individual's identity and without restricting how the membership of the group may be changed. In systems using these protocols a single message ...
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https://orcid.org/0000-0002-1292-2606