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Search Publications by: Mary C. Brady (Ctr)

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Displaying 1 - 25 of 56

Cybersecurity Framework Election Infrastructure Profile

February 1, 2024
Author(s)
Gema Howell, Mary C. Brady, Julie Snyder, David Weitzel, M. Schneider, Christina Sames, Joshua Franklin
This document is a Cybersecurity Framework Profile developed for voting equipment and information systems supporting elections. This Election Infrastructure Profile can be utilized by election administrators and IT professionals managing election

An Infrastructure for Curating, Querying, and Augmenting Document Data: COVID-19 Case Study

August 8, 2023
Author(s)
Eswaran Subrahmanian, Guillaume Sousa Amaral, Talapady N. Bhat, Mary C. Brady, Kevin G. Brady, Jacob Collard, Sarra Chouder, Philippe Dessauw, Alden A. Dima, John T. Elliott, Walid Keyrouz, Nicolas Lelouche, Benjamin Long, Rachael Sexton, Ram D. Sriram
With the advent of the COVID-19 pandemic, there was the hope that data science approaches could help discover means for understanding, mitigating, and treating the disease. This manifested itself in the creation of the COVID-19 Open Research Dataset (CORD

Measuring Dimensionality of Cell-Scaffold Contacts of Primary Human Bone Marrow Stromal Cells Cultured on Electrospun Fiber Scaffolds

January 1, 2023
Author(s)
Carl Simon Jr., Peter Bajcsy, Joe Chalfoun, Michael Paul Majurski, Mary C. Brady, Mylene Simon, Nathan Hotaling, Nick Schaub, Allison Horenberg, Piotr Szczypinski, Dongbo Wang, Veronica DeFelice, Soweon Yoon, Stephanie Florczyk
The properties and structure of the cellular microenvironment can influence cell behavior. Sites of cell adhesion to the extracellular matrix (ECM) initiate intracellular signaling that direct cell functions such as proliferation, differentiation and

Object Measurements from 2D Microscopy Images

December 11, 2020
Author(s)
Peter Bajcsy, Joe Chalfoun, Mylene Simon, Mary C. Brady, Marcin Kociolek
This chapter addresses object measurements from 2D microscopy images. Object measurements (called image features) vary in terms of theoretical formulas for the same image feature, the physical units used to represent pixel-based measurements, the

Approaches to Training Multi-Class Semantic Image Segmentation of Damage in Concrete

May 14, 2020
Author(s)
Peter Bajcsy, Steven B. Feldman, Michael P. Majurski, Kenneth A. Snyder, Mary C. Brady
This paper addresses the problem of creating a large quantity of high-quality training image segmentation masks from scanning electron microscopy (SEM) images of concrete samples that exhibit progressive amounts of degradation resulting from alkali-silica

Modeling, Validation and Verification of Three-Dimensional Cell-Scaffold Contacts from Terabyte- sized Images

December 1, 2017
Author(s)
Peter Bajcsy, Sowon Joy Yoon, Stephen Florczyk, Nathan Hotaling, Mylene H. Simon, Piotr Szczypinski, Nicholas J. Schaub, Carl G. Simon Jr., Mary C. Brady, Ram D. Sriram
Background: Cell-scaffold contact measurements are derived from pairs of co-registered volumetric fluorescent confocal laser scanning microscopy (CLSM) images (z-stacks) of stained cells and spun coat, large microfiber, and medium microfiber scaffolds. Our

3D Cellular Morphotyping of Cell Niches

August 31, 2017
Author(s)
Stephen J. Florczyk, Mylene H. Simon, Derek Juba, Patrick S. Pine, Sumona Sarkar, Desu Chen, Paula J. Baker, Subhadip Bodhak, Antonio Cardone, Mary C. Brady, Peter Bajcsy, Carl G. Simon Jr.
Three-dimensional (3D) cellular morphotyping is introduced for assessing and comparing the niches provided by biomaterial scaffolds. Many scaffold systems have been advanced to provide synthetic cell niches for tissue engineering and drug screening

A Hybrid Task Graph Scheduler for High Performance Image Processing Workflows

June 22, 2017
Author(s)
Timothy J. Blattner, Walid Keyrouz, Mary C. Brady, Shuvra S. Bhattacharyya, Milton Halem
Designing applications for scalability is key to improving their performance in hybrid and cluster computing. Scheduling code to utilize parallelism is difficult, particularly when dealing with data dependencies, memory management, data motion, and

From Image Tiles to Web-Based Interactive Measurements in One Stop

January 4, 2017
Author(s)
Antoine Vandecreme, Michael P. Majurski, Joe Chalfoun, Keana Scott, John Henry Scott, Mary C. Brady, Peter Bajcsy
This article aims at introducing readers to a web-based solution useful for interactive measurements of centimeter-sized specimens at nanoscales. Modern imaging technology has enabled nanoscale imaging to become a routine process. As the imaging technology

An Informatics Infrastructure for the Materials Genome Initiative

July 6, 2016
Author(s)
Alden A. Dima, Sunil K. Bhaskarla, Chandler A. Becker, Mary C. Brady, Carelyn E. Campbell, Philippe J. Dessauw, Robert J. Hanisch, Ursula R. Kattner, Kenneth G. Kroenlein, Adele P. Peskin, Raymond L. Plante, Guillaume Sousa Amaral, Zachary T. Trautt, James A. Warren, Sharief S. Youssef, Sheng Yen Li, Pierre Francois Rigodiat, Marcus W. Newrock
A materials data infrastructure that enables the sharing and transformation of a wide range of materials data is an essential part of achieving the goals of the Materials Genome Initiative. We describe two high-level requirements of such an infrastructure

Enabling Interactive Measurements from Large Coverage Microscopy

July 1, 2016
Author(s)
Peter Bajcsy, Antoine Vandecreme, Julien M. Amelot, Mary C. Brady, Joe Chalfoun, Michael P. Majurski
Microscopy could be an important tool for characterizing stem cell products if quantitative measurements could be collected over multiple spatial and temporal scales. With the cells changing states over time and being several orders of magnitude smaller

Methodology for Increasing Image Feature Measurement Accuracy

June 30, 2016
Author(s)
Michael Paul Majurski, Joe Chalfoun, Steven Lund, Peter Bajcsy, Mary C. Brady
Motivation Image features are computed in cell biology to derive quantitative information regarding cell state, differentiation, biological activity, and cell dynamics. The accuracy of any biological conclusions depends on the accuracy of the measured

Acceleration and Parallelization of ZENO/Walk-on-Spheres

June 1, 2016
Author(s)
Derek Juba, Walid Keyrouz, Michael V. Mascagni, Mary C. Brady, Michael Mascagni
This paper describes our on-going work to accelerate ZENO, a software tool based on Monte Carlo methods (MCMs), used for computing material properties at the nanoscale. ZENO employs three main algorithms: (1)Walk on Spheres (WoS), (2)interior sampling, and

3D Segmentation of Stem Cells from Thousands of Confocal Microscopy Images

March 1, 2016
Author(s)
Peter Bajcsy, Mylene H. Simon, Stephen J. Florczyk, Carl G. Simon Jr., Derek Juba, Mary C. Brady
We address the problem of estimating 3D segmentation performance when segmentation is applied to thousands of confocal microscopy images (z-stacks) of cells. With a very large number of z-stacks, manual inputs to validate each segmentation result are

Survey Statistics of Automated Segmentations Applied to Optical Imaging of Mammalian Cells

January 8, 2016
Author(s)
Peter Bajcsy, Antonio Cardone, Joe Chalfoun, Michael W. Halter, Derek Juba, Marcin Kociolek, Michael P. Majurski, Adele P. Peskin, Carl G. Simon Jr., Mylene H. Simon, Antoine Vandecreme, Anne L. Plant, Mary C. Brady
The goal of this survey paper is to overview cellular measurements using optical microscopy imaging followed by automated image segmentation. The cellular measurements of primary interest are taken from mammalian cells and their components. They are

A Hybrid Task Graph Scheduler for High Performance Image Processing Workflows

December 16, 2015
Author(s)
Timothy J. Blattner, Walid Keyrouz, Milton Halem, Shuvra S. Bhattacharyya, Mary C. Brady
The scalability of applications is a key requirement to improving performance in hybrid and cluster computing. Scheduling code to utilize parallelism is difficult, particularly when dealing with dependencies, memory management, data motion, and processor