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Search Publications by: Ram D. Sriram (Fed)

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Displaying 1 - 25 of 154

Computational Study of the Allosteric Effects of p5 on the CDK5-p25 Hyperactivity as Alternative Inhibitory Mechanisms in Neurodegeneration

June 30, 2022
Tejaswi Tammareddy, Walid Keyrouz, Ram D. Sriram, Harish C. Pant, Antonio Cardone, Jeffery B. Klauda
The cyclin-dependent kinase (CDK5) forms a stable complex with its activator p25, leading to the hyperphosphorylation of tau proteins and to the formation of plaques and tangles that are considered to be one of the typical causes of Alzheimer's disease (AD

Data Standards in Proteomics: Promises and Challenges

October 12, 2021
Veerasamy Ravichandran, Ram D. Sriram, G L. Gilliland, S Srivastava
Rapid advances in the field of proteomics are yielding abundant data in many formats that, because of the vast quantity and complexity, are becoming increasingly difficult to analyze. A strategic objective of streamlining the transfer of knowledge and

Deconstructing UML, Part 1: Modeling Classes with Categories

May 13, 2021
Sarala Padi, Spencer J. Breiner, Eswaran Subrahmanian, Ram D. Sriram
In this paper we analyze elements of the Unified Modeling Language (UML), specifically the class diagram, and propose an simplified alternative language based on a branch of mathematics called category theory (CT). We argue that modeling in CT provides a

Compositional Models for Complex Systems

January 19, 2019
Spencer J. Breiner, Ram D. Sriram, Eswaran Subrahmanian
In this chapter we argue for the use of representations from category theory to support better models for complex systems, and provide an example of such an application might look like. Our approach rests on the well known observation that complex system

Generating Domain Terminologies using Root- and Rule-Based Terms

December 21, 2018
Talapady N. Bhat, John T. Elliott, Ursula R. Kattner, Carelyn E. Campbell, Eswaran Subrahmanian, Ram D. Sriram, Jacob Collard, Monarch Ira
Motivated by the need for exible, intuitive, reusable, and normalized ter- minology for the semantic web, we present a general approach for generat- ing sets of such terminologies from nat- ural language documents. The terms that this approach generates

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

December 1, 2017
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

Modeling the Internet of Things (& People): A Foundational Approach

November 16, 2017
Spencer J. Breiner, Eswaran Subrahmanian, Ram D. Sriram
This talk provides an overview of recent NIST work in the Internet of Things (IoT) domain in the Information Technology Laboratory. We begin with some examples and illustrations of the range of IoT systems. In addition to the obvious cyber physical aspects

Towards a Platform for Community-centric Smart Connected Services

April 18, 2017
Eswaran Subrahmanian, Ram D. Sriram, Ramesh Jain
All cities can be seen as a collection of commons. Commons are spaces, services and resources shared by the citizenry. Any change in the state of any one of the commons could lead to a potential action or actions. In this paper we illustrate the use of a

A Category Theoretic Approach to Modeling and Analysis Using Music as a Case Study

January 31, 2017
Sarala Padi, Spencer J. Breiner, Eswaran Subrahmanian, Ram D. Sriram
The goal of this paper is to provide a category theoretic ontology for the creation of a collaborative platform where it allows group of people to share or use the knowledge in a domain. We use Indian music as a case study to demonstrate the power of

Modeling the Internet of Things and People: A Foundational Approach

November 1, 2016
Spencer J. Breiner, Eswaran Subrahmanian, Ram D. Sriram
As we extend the reach of the Internet through sensing and automation, networked systems interact more and more of our daily lives, requiring much greater sensitivity to social networks and greater robustness in the face of human behavior. A tremendous

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

March 18, 2015
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

Ontology for Big Systems: The Ontology Summit 2012 Communique

October 16, 2013
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

A Vision of Cyber-Physical Cloud Computing for Smart Networked Systems

August 26, 2013
Eric D. Simmon, Kyoung-sook Kim, Eswaran Subrahmanian, Ryong Lee, Frederic J. de Vaulx, Yohei Murakami, Koji Zettsu, Ram D. Sriram
A key aspect of the next generation Smart Networked System (SNS) is the bridge between the physical and virtual world. These systems that tightly interlink the cyber and physical worlds are often referred to as Cyber-Physical Systems (CPS). A CPS is the

A General Conformance Testing Framework for IEEE 11073 PHD's Communication Model

May 31, 2013
Raghu N. Kacker, Linbin Yu, Yu Lei, David R. Kuhn, Ram D. Sriram, Kevin G. Brady
ISO/IEEE 11073 Personal Health Data (IEEE 11073 PHD) is a set of standards that addresses the interoperability of personal healthcare devices. As an important part of IEEE 11073 PHD, ISO/IEEE 1107-20601 optimized exchange protocol (IEEE 11073-20601)

Towards Ontology Evaluation across the Life Cycle

May 3, 2013
Fabian M. Neuhaus, Amanda Vizedom, Ken Baclawski, Mike Bennet, Mike Dean, Michael Denny, Michael Gruninger, Ali Hashemi, Terry Longstreth, Leo Obrst, Steven R. Ray, Ram D. Sriram, Todd Schneider, Marcela Vegetti, Matthew West, Peter Yim
Currently, there is no agreed on methodology for development of ontologies, and there is no consensus on how ontologies should be evaluated. Consequently, evaluation techniques and tools are not widely utilized in the development of ontologies. This can

Disassembly Process Information Model for Remanufacturing

April 22, 2013
Shaw C. Feng, Hanmin Lee, Thomas R. Kramer, Che B. Joung, Parisa Ghodous, Ram D. Sriram
The disassembly process is an essential activity performed on out-of-service products for remanufacturing. A disassembly process includes many subprocesses, such as separation, cleaning, repair, replacement, and inspection. The main purpose of performing

Smart Networked Systems and Societies: Research Challenges

November 20, 2012
Ram D. Sriram
We are witnessing a new revolution in computing and communication. The Internet, which has spanned several networks in a wide variety of domains, is having a significant impact on every aspect of our lives. The next generation of networks will utilize a

Testing the Nation’s Health care Information Infrastructure

November 10, 2012
Kevin G. Brady, Ram D. Sriram, Bettijoyce B. Lide, Kathleen M. Roberts
According to a report by the Center for Medicare and Medicaid Services [CMS] (, the United States spent nearly $2.6 trillion dollars on health care in 2010. It is estimated that this will nearly double by the end of this decade. This is

Big Data Issues in Quantitative Imaging

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

Workflow and Electronic Health Records in Small Medical Practices

April 2, 2012
Mala Ramaiah, Eswaran Subrahmanian, Ram D. Sriram, Bettijoyce B. Lide
This paper analyzes the workflow and implementation of electronic health record (EHR) systems across different functions in small physician offices. We characterize the differences in the offices based on the levels of computerization in terms of workflow

A Semantic Product Modeling Framework and Its Application for Behavior Evaluation

January 9, 2012
Jae H. Lee, Steven J. Fenves, Conrad E. Bock, Sudarsan Rachuri, Hyo-Won Suh, Xenia Fiorentini, Ram D. Sriram
Supporting different stakeholder viewpoints across the product’s entire lifecycle requires semantic richness to represent product related information and thus enable multi-view engineering simulations. This paper proposes a multi-level product modeling