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Search Publications by: Mary C. Brady (Ctr)

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Displaying 26 - 50 of 56

Shape Descriptors Comparison for Cell Tracking

October 15, 2015
Author(s)
Michael P. Majurski, Christopher Zheng, Joe Chalfoun, Alden A. Dima, Mary C. Brady
New microscope technologies are enabling the acquisition of large volumes of live cell image data. Accurate temporal object tracking is required to facilitate the analysis of this data. One principle component of cell tracking is correspondence, matching

Systematic Measurement of Marginal Mark Types on Voting Ballots

July 24, 2015
Author(s)
Andrea V. Bajcsy, Ya-Shian Li-Baboud, Mary C. Brady
The presence of marginal marks on voting ballots is a ubiquitous problem in voting systems and it is a common source of dispute during federal and state-level elections. As of today, marginal marks are neither clearly countable as votes or as non-votes by

Detection and characterization of nonspecific, sparsely-populated binding modes for conformational selection in the early stages of complexation

March 18, 2015
Author(s)
Antonio Cardone, Aaron Bornstein, Harish C. Pant, Mary C. Brady, Ram D. Sriram, Sergio Hassan
A method is proposed to study protein-ligand binding in a system governed by specific and non-specific interactions. Strong associations lead to narrow conformational distributions in the proteins configuration space; weak and ultra-weak associations lead

Spatial Computations over Terabyte-Sized Images on Hadoop Platforms

October 27, 2014
Author(s)
Peter Bajcsy, Antoine Vandecreme, Mary C. Brady, Phuong Nguyen
Our objective is to lower the barrier of executing spatial image computations in a computer cluster/cloud environment instead of in a desktop/laptop computing environment. We research two related problems encountered during an execution of spatial

A Hybrid CPU-GPU System for Stitching Large Scale Optical Microscopy Images

September 12, 2014
Author(s)
Timothy Blattner, Walid Keyrouz, Joe Chalfoun, Bertrand C. Stivalet, Mary C. Brady, Shujia Zhou
Researchers in various fields are using optical microscopy to acquire very large images, 10K--200K of pixels per side. Optical microscopes acquire these images as grids of overlapping partial images (thousands of pixels per side) that are then stitched

Calibrating multiple microscopes with a smartphone

April 1, 2014
Author(s)
Peter Bajcsy, Mary C. Brady, Jacob Siegel
Summary: The iPhone liquid crystal displays allows efficient and accurate calibration of an inexpensive array of handheld microscopes for measuring microscopic dynamic events over a large field of view. How does one build an inexpensive array of handheld

Depicting Web Images for the Blind and Visually Impaired

December 9, 2013
Author(s)
Andrea Bajcsy, Ya-Shian Li-Baboud, Mary C. Brady
A prototype to translate web graph and map images into 3D printed models in order to give the blind and visually impaired access to voting and election information.

Ontology for Big Systems: The Ontology Summit 2012 Communique

October 16, 2013
Author(s)
Ram D. Sriram, Mary C. Brady
The Ontology Summit 2012 explored the current and potential uses of ontology, its methods and paradigms, in big systems and big data: How ontology can be used to design, develop, and operate such systems. The systems addressed were not just software

Re-Projection of Terabyte-sized 3D Images for Interactive Visualization

October 9, 2013
Author(s)
Peter Bajcsy, Antoine Vandecreme, Mary C. Brady
How does one inspect terabyte-sized 3D images visually from multiple viewpoints? The current solutions are limited to gigabyte-sized images using specialized hardware to achieve interactivity and lacking the ability to share data for collaborative research

Re-projection of Terabyte-Sized Images

October 7, 2013
Author(s)
Peter Bajcsy, Antoine Vandecreme, Mary C. Brady
This work addresses the problem of re-projecting a terabyte-sized 3D data set represented as a set of 2D Deep Zoom pyramids. In general, a re-projection for small 3D data sets is executed directly in RAM. However, RAM becomes a limiting factor for terabyte

Terabyte Size Image Computations on Hadoop Cluster Platforms

October 7, 2013
Author(s)
Peter Bajcsy, Antoine Vandecreme, Julien M. Amelot, Phuong T. Nguyen, Joe Chalfoun, Mary C. Brady
We present a characterization of four basic terabyte size image computations on a Hadoop cluster in terms of their relative efficiency according to the modified Amdahl’s law. The work is motivated by the fact that there is a lack of standard benchmarks and

Parallel Geometric Classification of Stem Cells by Their 3D Morphology

July 1, 2013
Author(s)
Derek Juba, Antonio Cardone, Cheuk Y. Ip, Carl Simon Jr., Christopher K. Tison, Girish Kumar, Mary C. Brady
Autologous stem cells show great promise for tissue engineering as they can regenerate diseased or damaged tissue, without requiring an organ donor or causing immune rejection. A primary goal of regenerative medicine is to identify methods for controlling

A Hybrid CPU-GPU Approach to Fourier-Based Image Stitching of Optical Microscopy Images

March 3, 2013
Author(s)
Walid Keyrouz, Timothy J. Blattner, Bertrand C. Stivalet, Joe Chalfoun, Mary C. Brady, Shujia Zhou
We present a hybrid CPU-GPU approach for the Fourier-based stitching of optical microscopy images. This system achieves sub-minute stitching rates with large grids; it stitches a grid of 59x42 tiles in 26 seconds on a two-CPU (8 physical cores) & two-GPU

Segmenting Time-lapse Phase Contrast Images of Adjacent NIH 3T3 Cells

January 15, 2013
Author(s)
Joe Chalfoun, Alden A. Dima, Marcin Kociolek, Michael W. Halter, Antonio Cardone, Adele P. Peskin, Peter Bajcsy, Mary C. Brady
We present a new method for segmenting phase contrast images of NIH 3T3 fibroblast cells that is accurate even when cells are in contact. The problem of segmentation, when cells are in contact, poses a challenge to the accurate automation of cell counting

How to Select Microscopy Image Similarity Metrics?

October 10, 2012
Author(s)
Peter Bajcsy, Joe Chalfoun, Mary C. Brady
Comparisons of two microscopy images can be accomplished in many different ways. This paper presents a system that recommends appropriate similarity metrics for microscopy image comparisons based on biological application requirements. The motivation stems

Toward a Recommendation System for Image Similarity Metrics

October 7, 2012
Author(s)
Peter Bajcsy, Joe Chalfoun, Mary C. Brady
This paper addresses the problem of mapping application specific requirements on image similarity metrics to the plethora of existing image similarity computations. The work is motivated by the fact that there is no recommendation method for choosing a

Big Data Issues in Quantitative Imaging

August 29, 2012
Author(s)
Mary C. Brady, Alden A. Dima, Charles D. Fenimore, James J. Filliben, John Lu, Adele Peskin, Mala Ramaiah, Ganesh Saiprasad, Ram D. Sriram

Conformance of Image Features to Classifier Assumptions

July 27, 2012
Author(s)
Julien M. Amelot, Peter Bajcsy, Mary C. Brady
Cell measurements are derived frequently from the results of pixel classification and contiguous region segmentation of microscopy images. Image segmentation is accomplished by classifying image pixels based on high dimensional image features computed from

Evaluation of Fault Detection Effectiveness for Combinatorial and Exhaustive Selection of Discretized Test Inputs

June 4, 2012
Author(s)
Carmelo Montanez-Rivera, David R. Kuhn, Mary C. Brady, Richard M. Rivello, Jenise Reyes Rodriguez, Michael K. Powers
Testing components of web browsers and other graphical interface software can be extremely expensive because of the need for human review of screen appearance and interactive behavior. Combinatorial testing has been advocated as a method that provides

Comparison of segmentation algorithms for fluorescence microscopy images of cells

June 14, 2011
Author(s)
Alden A. Dima, John T. Elliott, James J. Filliben, Michael W. Halter, Adele P. Peskin, Javier Bernal, Marcin Kociolek, Mary C. Brady, Hai C. Tang, Anne L. Plant
Segmentation results from nine different segmentation techniques applied to two different cell lines and five different sets of imaging conditions were compared. Significant variability in the results of segmentation was observed that was due solely to