Publications
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Data Mining in the Metacyc Family of Pathway Databases
The MetaCyc family of pathway databases consists of thousands of databases that were derived through computational inference of metabolic pathways from the MetaCyc pathway/genome database (PGDB).
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Domain Adaptive Object Detection
We study the use of domain adaptation and transfer learning techniques as part of a framework for adaptive object detection.
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Incorrect ICBM-DTI-81 Atlas Orientation and White Matter Labels
Unfortunately, in our work using this atlas, we have encountered several substantial problems in terms of (a) correctness of spatial orientation and (b) correctness of white matter tract labels.
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Variation in Longitudinal Trajectories of Regional Brain Volumes of Healthy Men and Women (Ages 10 to 85 Years) Measured with Atlas-Based Parcellation of MRI
We calculated trajectories of regional brain volume changes from T1-weighted (SPGR) MRI data, quantified with our automated, unsupervised SRI24 atlas-based registration and parcellation method.
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A Multi-Omic Systems Approach to Elucidating Yersinia Virulence Mechanisms
In this study, a temporal multi-omic analysis of YP and YPT at physiologically relevant temperatures was performed to gain insights into how an acute and highly lethal bacterial pathogen, YP,…
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Image to LIDAR Matching for Geotagging in Urban Environments
We present a novel method for matching ground-based query images to a georeferenced LIDAR 3D dataset acquired from an airborne platform in urban environments.
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Lateral Flow Assay with near-Infrared Dye for Multiplex Detection
As a proof-of-concept study, we detail the design of a quantitative, multiplex LFA with readily available near-infrared (NIR) detection to improve analytical sensitivity.
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Video Event Recognition Using Concept Attributes
We propose to use action, scene and object concepts as semantic attributes for classification of video events in InTheWild content, such as YouTube videos.
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In Silico Systems Biology Approaches for the Identification of Antimicrobial Targets
We have compiled software tools and databases that are typically used for target identification through in silico analyses. We have also identified enzyme- and broad-spectrum metabolite-based drug targets that have…
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Query Answering in Object Oriented Knowledge Bases in Logic Programming: Description and Challenge for ASP
We give a description of this KB and ASP programs for a suite of queries that have been of practical interest.
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Characterization of a Diffusible Signaling Factor from Xylella Fastidiosa
We describe here the isolation and characterization of an X. fastidiosa DSF (XfDSF) as 2(Z)-tetradecenoic acid. This compound was isolated both from recombinant Erwinia herbicola expressing X. fastidiosa rpfF and…
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A systematic comparison of the MetaCyc and KEGG pathway databases
We present a comparison of the compound, reaction, and pathway content of MetaCyc version 16.0 and a KEGG version downloaded on Feb-27-2012 to increase understanding of their relative sizes, their…