Publications by the Interdisciplinary Informatics Department faculty members are collected here.

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Submissions from 2020

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Gene-Based Clustering Algorithms: Comparison Between Denclue, Fuzzy-C, and BIRCH, Martin C. Nwadiugwu

Submissions from 2019

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Do Machines Replicate Humans? Toward a Unified Understanding of Radicalizing Content on the Open Social Web, Margeret Hall, Michael Logan, Gina S. Ligon, and Douglas C. Derrick

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Modular norm models: practical representation and analysis of contractual rights and obligations, Sayonnha Mandal, Robin Gandhi, and Harvey Siy

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Are providers prepared for genomic medicine: interpretation of Direct-to-Consumer genetic testing (DTC-GT) results and genetic self-efficacy by medical professionals, Scott McGrath, Nephi Walton, Marc S. Williams, Katherin K. Kim, and Dhundy Raj Bastola

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Uncovering and characterizing splice variants associated with survival in lung cancer patients, Sean West, Sushil Kumar, Surinder K. Batra, Hesham Ali, and Dario Ghersi

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Multiplatform biomarker identification using a data-driven approach enables single-sample classification, Ling Zhang, Ishwor Thapa, Christian Haas, and Dhundy Raj Bastola

Submissions from 2018

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Trimethyltin-induced cerebellar damage on adult male Wistar rats. Trimetil estaño induce daño cerebral en ratas machos adultas Wistar., M. S. Ajao, A. Okesina, and Martin C. Nwadiugwu

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Patient Preferences for Authentication and Security: A Comparison Study of Younger and Older Patients, Ann Fruhling, Devika Ramachandran, Tamara Bernard, Ryan Schuetzler, and John R. Windle

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Visualization, Feature Selection, Machine Learning: Identifying the Responsible Group for Extreme Acts of Violence, Mahdi Hashemi and Margeret A. Hall

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Two critical positions in zinc finger domains are heavily mutated in three human cancer types, Daniel Munro, Dario Ghersi, and Mona Singh

Submissions from 2017

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Obesity-induces Organ and Tissue Specific Tight Junction Restructuring and Barrier Deregulation by Claudin Switching, Rizwan Ahmad, Bilal Rah, Dhundy Bastola, Punita Dhawan, and Amar B. Singh

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Severity of Acute Infectious Mononucleosis Correlates with Cross- Reactive Influenza CD8 T-Cell Receptor Repertoires, Nuray Aslan, Levi B. Watkin, Anna Gil, Rabinarayan Mishra, Fransenio G. Clark, Raymond M. Welsh, Dario Ghersi, Katherine Luzuriaga, and Liisa K. Selin

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Phishing suspiciousness in older and younger adults: The role of executive functioning, Brandon E. Gavett, Rui Zhao, Samantha E. John, Cara A. Bussell, Jennifer R. Roberts, and Chuan Yue

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Enhancing Security Incident Response Follow-up Efforts with Lightweight Agile Retrospectives, George Grispos, William Bradley Glisson, and Tim Storer

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Semantic hierarchies for extracting, modeling, and connecting compliance requirements in information security control standards, Matthew L. Hale and Rose F. Gamble

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Am I who I say I am? Unobtrusive selfrepresentation and personality recognition on Facebook, Margeret A. Hall and Simon Caton

Submissions from 2016

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In The Wild Residual Data Research and Privacy, William Bradley Glisson, Tim Storer, Andrew Blyth, George Grispos, and Matt Campbell

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Building towards precision medicine: empowering medical professionals for the next revolution, Scott McGrath and Dario Ghersi

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Identifying enriched drug fragments as possible candidates for metabolic engineering, Sunandini Sharma, Kritika Karri, Ishwor Thapa, Dhundy Bastola, and Dario Ghersi

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Abandoning Creativity: The evolution of creative ideas in engineering design course projects, Elizabeth Starkey, Christine Toh, and Scarlett Miller

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The Preferences For Creativity Scale (PCS): Identifying The Underlying Constructs Of Creative Concept Selection, Christine A. Toh and Scarlett Miller

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Creativity in Design Teams: The Influence of Personality Traits and Risk Attitudes on Creative Concept Selection, Christine Toh and Scarlett Miller

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Choosing Creativity: The Role of Individual Risk and Ambiguity Aversion on Creative Concept Selection in Engineering Design, Christine Toh and Scarlett R. Miller

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Robustness of Multiple Indicators in Automated Screening Systems for Deception Detection, Nathan Twyman, Jeffrey Gainer Proudfoot, Ryan M. Schuetzler, Aaron Elkins, and Douglas C. Derrick

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Transcriptomic comparison of invasive bigheaded carps (Hypophthalmichthys nobilis and Hypophthalmichthys molitrix) and their hybrids, Jun Wang, James T. Lamer, Sarah Gaughan, Michael Wachholtz, Chenghui Wang, and Guoquing Lu

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Is Social Media a Threat or Can It Be a Trusted Agent?, William Ward, Katherine Cole-Miller, Ann Fruhling, and Kathryn M. Cooper

Submissions from 2015

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How do politicians use Facebook? An applied Social Observatory, Simon Caton, Margeret A. Hall, and Christof Weinhardt

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Detecting Well-being in Digital Communities: An Interdisciplinary Engineering Approach for its Indicators, Margeret A. Hall

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Genome-Wide Detection and Analysis of Multifunctional Genes, Yuri Pritykin, Dario Ghersi, and Mona Singh

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Coexpression Network Analysis of miRNA-142 Overexpression in Neuronal Cells, Ishwor Thapa, Howard S. Fox, and Dhundy Raj Bastola

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How Engineering Teams Select Design Concepts: A View Through the Lens of Creativity, Christine Toh and Scarlett Miller

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The Impact of Virtual Product Dissection Environments on Student Design Learning and Self-Efficacy, Christine Toh and Scarlett R. Miller

Submissions from 2014

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Identifying aging-related genes in mouse hippocampus using gateway nodes, Kathryn Dempsey Cooper and Hesham Ali

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molBLOCKS: Decomposing small molecule sets and uncovering enriched fragments, Dario Ghersi and Mona Singh

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The Impact of Virtual Dissection on Engineering Student Learning and Self-Efficacy, Christine A. Toh, Connor Disco, and Scarlett Miller

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The Impact of Example Modality and Physical Interactions on Design Creativity, Christine A. Toh and Scarlett R. Miller

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The Impact of Team-Based Product Dissection on Design Novelty, Christine A. Toh, Scarlett R. Miller, and Gül E. Okudan Kremer

Submissions from 2013

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A Parallel Template for Implementing Filters for Biological Correlation Networks, Kathryn Dempsey Cooper, Vladimir Ufimtsev, Sanjukta Bhowmick, and Hesham Ali

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Disentangling function from topology to infer the network properties of disease genes, Dario Ghersi and Mona Singh

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Interaction-based discovery of functionally important genes in cancers, Dario Ghersi and Mona Singh

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A Study of Product Dissection’s Impact on Engineering Creativity, Christine A. Toh and Scarlett Miller

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The Role of Personality and Team-Based Product Dissection on Fixation Effects, Christine A. Toh, Scarlett R. Miller, and Gül E. Okudan Kremer

Submissions from 2012

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Function-­preserving filters for sampling in biological networks, Kathryn Dempsey Cooper, Sanjukta Bhowmick, and Hesham Ali

Design Principles for Special Purpose, Embodied, Conversational Intelligence with Environmental Sensors (SPECIES) Agents, Douglas C. Derrick; Jeffrey L. Jenkins; and Jay F. Nunamaker, Jr.

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Automated identification of binding sites forphosphorylated ligands in protein structures, Dario Ghersi and Roberto Sanchez

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Calm Before the Storm: The Challenges of Cloud Computing in Digital Forensics, George Grispos, Tim Storer, and William Bradley Glisson

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Loss of Dnmt3b function upregulates the tumor modifier Ment and accelerates mouse lymphomagenesis, Ryan A. Hlady, Slavomira Novakova, Jana Opavska, David Klinkebiel, Staci L. Peters, Juraj Bies, Jay Hannah, Javeed Iqbal, Kristi M. Anderson, Hollie M. Siebler, Lynette M. Smith, Timothy C. Greiner, Dhundy Bastola, Shantaram Joshi, Oksana Lockridge, Melanie A. Simpson, Dean W. Felsher, Kay-Uwe Wagner, Wing C. Chan, Judith K. Christman, and Rene Opavsky

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CD4+ Regulatory and Effector/Memory T Cell Subsets Profile Motor Dysfunction in Parkinson’s Disease, Jessica A. Hutter Saunders, Katherine A. Estes, Lisa M. Kosloski, Heather E. Allen, Kathryn Dempsey Cooper, Diego R. Torres-Russotto, Jane L. Meza, Pamela M. Santamaria, John M. Bertoni, Daniel L. Murman, Hesham Ali, David G. Standaert, R. Lee Mosley, and Howard E. Gendelman

Submissions from 2011

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Computer simulations of heterologous immunity: Highlights of an interdisciplinary cooperation, Claudia Calcagno, Roberto Puzone, Yanthe E. Pearson, Yiming Cheng, Dario Ghersi, Liisa K. Selin, Raymond M. Welsh, and Franco Celada

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Systematic assessment of accuracy of comparative model of proteins belonging to different structural fold classes, Subrata Chakrabarty, Dario Ghersi, and Roberto Sanchez

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A Parallel Graph Sampling Algorithm for Analyzing Gene Correlation Networks, Kathryn Dempsey Cooper, Kanimathi Duraisamy, Hesham Ali, and Sanjukta Bhowmick

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An Evaluation of the Usability of a Computerized Decision Support System for Nursing Homes, M. Fossum, M. Ehnfors, Ann L. Fruhling, and A. Ehrenberg

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Beyond structural genomics: computational approaches for the identification of ligand binding sites in protein structures, Dario Ghersi and Roberto Sanchez

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A Comparison of Forensic Evidence Recovery: Techniques for a Windows Mobile Smart Phone, George Grispos, Tim Storer, and William Bradley Glisson

Submissions from 2010

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Biochemical Profiling of Histone Binding Selectivity of the Yeast Bromodomain Family, Qiang Zhang, Suvobrata Chakravarty, Dario Ghersi, Lei Zeng, Alexander N. Plotnikov, Roberto Sanchez, and Ming-Ming Zhou

Submissions from 2009

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A discrete computer model of the immune system reveals competitive interactions between the humoral and cellular branch and between cross-reacting memory and naïve responses, Yiming Cheng, Dario Ghersi, Claudia Calcagno, Liisa K. Selin, Roberto Puzone, and Franco Celada

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EASYMIFS and SITEHOUND: a toolkit for the identification of ligand-binding sites in protein structures, Dario Ghersi and Roberto Sanchez

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Improving accuracy and efficiency of blind protein-ligand docking by focusing on predicted binding sites, Dario Ghersi and Roberto Sanchez

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SITEHOUND-web: a server for ligand binding site identification in protein structures, Marylens Hernandez, Dario Ghersi, and Roberto Sanchez

Submissions from 2008

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MTAP: The Motif Tool Assessment Platform, Daniel Quest, Kathryn Dempsey, Mohammad Shafiullah, Dhundy Bastola, and Hesham Ali

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Collecting Open Source Intelligence via Tailored Information Delivery Systems, William Sousan, Qiuming Zhu, Ryan Nickell, William Mahoney, and Peter Hospodka

Submissions from 2006

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IFN-Induced Attrition of CD8 T Cells in the Presence or Absence of Cognate Antigen during the Early Stages of Viral Infections, Kapil Bahl, Sung-Kwon Kim, Claudia Calcagno, Dario Ghersi, Roberto Puzone, Franco Celada, Liisa K. Selin, and Raymond M. Welsh

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Narrowed TCR repertoire and viral escape as a consequence of heterologous immunity, Markus Cornberg, Alex T. Chen, Lee A. Wilkinson, Michael A. Brehm, Sung-Kwon Kim, Claudia Calcagno, Dario Ghersi, Roberto Puzone, Franco Celada, Raymond M. Welsh, and Liisa K. Selin

Submissions from 2005

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Leveraging human genomic information to identify nonhuman primate sequences for expression array development, Eliot R. Spindel, Mark Pauley, Yibing Jia, Courtney Gravett, Shaun L. Thompson, Nicholas F. Boyle, Sergio R. Ojeda, and Robert B. Norgren Jr.

Submissions from 2004

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Nebraska Lewis & Clark Bicentennial Commission: The Final Report to the Governor, Members of the Nebraska Legislature, and the People of Nebraska, Robert Pawloski

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CD8 memory T cells: cross-reactivity and heterologous immunity, Liisa K. Selin, Markus Cornberg, Michael A. Brehm, Sung-Kwon Kim, Claudia Calcagno, Dario Ghersi, Roberto Puzone, Franco Celada, and Raymond M. Welsh

Submissions from 2000

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The Impact of Electronic Commerce on Business-Level Strategies, Ann L. Fruhling and Lester A. Digman