The Department of Computer Science has an accredited undergraduate program that offers specialized ‘tracks’ of study in key areas. Undergraduates are prepared by graduation for pursuing a computing career or for graduate study. Our active corporate partners program offers internships and permanent employment to our students. Students are encouraged to participate in research experiences during their studies. Capstone courses provide significant team project experiences. The graduate program offers M.S. and Ph.D. degrees, emphasizing thesis work both at the main campus in Blacksburg and at the Northern Virginia Center. About two-thirds of the graduate students are pursuing the Ph.D. degree. The faculty, among whom there are 12 NSF or DOE CAREER Award winners, are active researchers who are visible contributors to the profession and have achieved significant honors.

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  • BRIoT: Behavior Rune Specification-Based Misbehavior Detection for IoT-Embedded Cyber-Physical Systems 

    Sharma, Vishal; You, Ilsun; Vim, Kangbin; Chen, Ing-Ray; Cho, Jin-Hee (IEEE, 2019)
    The identification of vulnerabilities in a mission-critical system is one of the challenges faced by a cyber-physical system (CPS). The incorporation of embedded Internet of Things (IoT) devices makes it tedious to identify ...
  • Stratified Feature Sampling for Semi-Supervised Ensemble Clustering 

    Tian, Jialin; Ren, Yazhou; Cheng, Xiang (IEEE, 2019)
    Ensemble Clustering (EC), which seeks to generate a consensus clustering by integrating multiple base clusterings, has attracted increasing attentions. However, traditional EC methods typically have three main limitations: ...
  • Identifying Transcriptional Regulatory Modules Among Different Chromatin States in Mouse Neural Stem Cells 

    Banerjee, Sharmi; Zhu, Hongxiao; Tang, Man; Feng, Wu-chun; Wu, Xiaowei; Xie, Hehuang (Frontiers, 2019-01-15)
    Gene expression regulation is a complex process involving the interplay between transcription factors and chromatin states. Significant progress has been made toward understanding the impact of chromatin states on gene ...
  • Acoustic differences between healthy and depressed people: a cross-situation study 

    Wang, Jingying; Zhang, Lei; Liu, Tianli; Pan, Wei; Hu, Bin; Zhu, Tingshao (2019-10-15)
    Abstract Background Abnormalities in vocal expression during a depressed episode have frequently been reported in people with depression, but less is known about if these ...
  • Brain-wide cellular resolution imaging of Cre transgenic zebrafish lines for functional circuit-mapping 

    Tabor, Kathryn M.; Marquart, Gregory D.; Hurt, Christopher; Smith, Trevor S.; Geoca, Alexandra K.; Bhandiwad, Ashwin A.; Subedi, Abhignya; Sinclair, Jennifer L.; Rose, Hannah M.; Polys, Nicholas F.; Burgess, Harold A. (2019-02-08)
    Decoding the functional connectivity of the nervous system is facilitated by transgenic methods that express a genetically encoded reporter or effector in specific neurons; however, most transgenic lines show broad ...
  • Hinge-Loss Markov Random Fields and Probabilistic Soft Logic 

    Bach, Stephen H.; Broecheler, Matthias; Huang, Bert; Getoor, Lise (MIT Press, 2017)
    A fundamental challenge in developing high-impact machine learning technologies is balancing the need to model rich, structured domains with the ability to scale to big data. Many important problem areas are both richly ...
  • Reorganize Your Blogs: Supporting Blog Re-visitation with Natural Language Processing and Visualization 

    Niu, Shuo; McCrickard, D. Scott; Stelter, Timothy L.; Dix, Alan; Taylor, G. Don (MDPI, 2019-10-07)
    Temporally-connected personal blogs contain voluminous textual content, presenting challenges in re-visiting and reflecting on experiences. Other data repositories have benefited from natural language processing (NLP) and ...
  • MetaCompare: a computational pipeline for prioritizing environmental resistome risk 

    Oh, Min; Pruden, Amy; Chen, Chaoqi; Heath, Lenwood S.; Xia, Kang; Zhang, Liqing (2018-07)
    The spread of antibiotic resistance is a growing public health concern. While numerous studies have highlighted the importance of environmental sources and pathways of the spread of antibiotic resistance, a systematic means ...
  • Cyberbiosecurity Challenges of Pathogen Genome Databases 

    Vinatzer, Boris A.; Heath, Lenwood S.; Almohri, Hussain MJ J.; Stulberg, Michael J.; Lowe, Christopher; Li, Song (Frontiers, 2019-05-15)
    Pathogen detection, identification, and tracking is shifting from non-molecular methods, DNA fingerprinting methods, and single gene methods to methods relying on whole genomes. Viral Ebola and influenza genome data are ...
  • Polynomial-Sized Topological Approximations Using the Permutahedron 

    Choudhary, Aruni; Kerber, Michael; Raghvendra, Sharath (2019-01)
    Classical methods to model topological properties of point clouds, such as the Vietoris-Rips complex, suffer from the combinatorial explosion of complex sizes. We propose a novel technique to approximate a multi-scale ...
  • Reconstructing signaling pathways using regular language constrained paths 

    Wagner, Mitchell J.; Pratapa, Aditya; Murali, T. M. (2019-07-15)
    Motivation High-quality curation of the proteins and interactions in signaling pathways is slow and painstaking. As a result, many experimentally detected interactions are not annotated to any pathways. A natural question ...
  • Higher Education Student Body Diversification as Glocal Practice 

    Alvarado, Jose Gerardo (2012-07)
    Georg Simmel's assertion that strangeness organizes nearness and remoteness helps to understand how the social category of First Generation College Student (FGCS, first in the family to attend college) is used at a public ...
  • COSTA: Composite Trust-Based Asset-Task Assignment in Mobile Ad Hoc Networks 

    Cho, Jin-Hee; Al-Hamadi, Hamid; Chen, Ing-Ray (IEEE, 2019)
    In mobile ad hoc networks (MANETs), asset-task assignment problems have been explored with vastly different approaches. Considering the unique characteristics of MANET environments, such as no centralized trusted entity, ...
  • Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen 

    Menden, Michael P.; Wang, Dennis; Mason, Mike J.; Szalai, Bence; Bulusu, Krishna C.; Guan, Yuanfang; Yu, Thomas; Kang, Jaewoo; Jeon, Minji; Wolfinger, Russ; Nguyen, Tin; Zaslavskiy, Mikhail; Jang, In Sock; Ghazoui, Zara; Ahsen, Mehmet Eren; Vogel, Robert; Neto, Elias Chaibub; Norman, Thea; Tang, Eric K. Y.; Garnett, Mathew J.; Di Veroli, Giovanni Y.; Fawell, Stephen; Stolovitzky, Gustavo; Guinney, Justin; Dry, Jonathan R.; Saez-Rodriguez, Julio; Abante, Jordi; Abecassis, Barbara Schmitz; Aben, Nanne; Aghamirzaie, Delasa; Aittokallio, Tero; Akhtari, Farida S.; Al-lazikani, Bissan; Alam, Tanvir; Allam, Amin; Allen, Chad; de Almeida, Mariana Pelicano; Altarawy, Doaa; Alves, Vinicius; Amadoz, Alicia; Anchang, Benedict; Antolin, Albert A.; Ash, Jeremy R.; Romeo Aznar, Victoria; Ba-alawi, Wail; Bagheri, Moeen; Bajic, Vladimir; Ball, Gordon; Ballester, Pedro J.; Baptista, Delora; Bare, Christopher; Bateson, Mathilde; Bender, Andreas; Bertrand, Denis; Wijayawardena, Bhagya; Boroevich, Keith A.; Bosdriesz, Evert; Bougouffa, Salim; Bounova, Gergana; Brouwer, Thomas; Bryant, Barbara; Calaza, Manuel; Calderone, Alberto; Calza, Stefano; Capuzzi, Stephen; Carbonell-Caballero, Jose; Carlin, Daniel; Carter, Hannah; Castagnoli, Luisa; Celebi, Remzi; Cesareni, Gianni; Chang, Hyeokyoon; Chen, Guocai; Chen, Haoran; Chen, Huiyuan; Cheng, Lijun; Chernomoretz, Ariel; Chicco, Davide; Cho, Kwang-Hyun; Cho, Sunghwan; Choi, Daeseon; Choi, Jaejoon; Choi, Kwanghun; Choi, Minsoo; De Cock, Martine; Coker, Elizabeth; Cortes-Ciriano, Isidro; Cserzo, Miklos; Cubuk, Cankut; Curtis, Christina; Van Daele, Dries; Dang, Cuong C.; Dijkstra, Tjeerd; Dopazo, Joaquin; Draghici, Sorin; Drosou, Anastasios; Dumontier, Michel; Ehrhart, Friederike; Eid, Fatma-Elzahraa; ElHefnawi, Mahmoud; Elmarakeby, Haitham; van Engelen, Bo; Engin, Hatice Billur; de Esch, Iwan; Evelo, Chris; Falcao, Andre O.; Farag, Sherif; Fernandez-Lozano, Carlos; Fisch, Kathleen; Flobak, Asmund; Fornari, Chiara; Foroushani, Amir B. K.; Fotso, Donatien Chedom; Fourches, Denis; Friend, Stephen; Frigessi, Arnoldo; Gao, Feng; Gao, Xiaoting; Gerold, Jeffrey M.; Gestraud, Pierre; Ghosh, Samik; Gillberg, Jussi; Godoy-Lorite, Antonia; Godynyuk, Lizzy; Godzik, Adam; Goldenberg, Anna; Gomez-Cabrero, David; Gonen, Mehmet; de Graaf, Chris; Gray, Harry; Grechkin, Maxim; Guimera, Roger; Guney, Emre; Haibe-Kains, Benjamin; Han, Younghyun; Hase, Takeshi; He, Di; He, Liye; Heath, Lenwood S.; Hellton, Kristoffer H.; Helmer-Citterich, Manuela; Hidalgo, Marta R.; Hidru, Daniel; Hill, Steven M.; Hochreiter, Sepp; Hong, Seungpyo; Hovig, Eivind; Hsueh, Ya-Chih; Hu, Zhiyuan; Huang, Justin K.; Huang, R. Stephanie; Hunyady, Laszlo; Hwang, Jinseub; Hwang, Tae Hyun; Hwang, Woochang; Hwang, Yongdeuk; Isayev, Olexandr; Walk, Oliver Bear Don't; Jack, John; Jahandideh, Samad; Ji, Jiadong; Jo, Yousang; Kamola, Piotr J.; Kanev, Georgi K.; Karacosta, Loukia; Karimi, Mostafa; Kaski, Samuel; Kazanov, Marat; Khamis, Abdullah M.; Khan, Suleiman Ali; Kiani, Narsis A.; Kim, Allen; Kim, Jinhan; Kim, Juntae; Kim, Kiseong; Kim, Kyung; Kim, Sunkyu; Kim, Yongsoo; Kim, Yunseong; Kirk, Paul D. W.; Kitano, Hiroaki; Klambauer, Gunter; Knowles, David; Ko, Melissa; Kohn-Luque, Alvaro; Kooistra, Albert J.; Kuenemann, Melaine A.; Kuiper, Martin; Kurz, Christoph; Kwon, Mijin; van Laarhoven, Twan; Laegreid, Astrid; Lederer, Simone; Lee, Heewon; Lee, Jeon; Lee, Yun Woo; Leppaho, Eemeli; Lewis, Richard; Li, Jing; Li, Lang; Liley, James; Lim, Weng Khong; Lin, Chieh; Liu, Yiyi; Lopez, Yosvany; Low, Joshua; Lysenko, Artem; Machado, Daniel; Madhukar, Neel; De Maeyer, Dries; Malpartida, Ana Belen; Mamitsuka, Hiroshi; Marabita, Francesco; Marchal, Kathleen; Marttinen, Pekka; Mason, Daniel; Mazaheri, Alireza; Mehmood, Arfa; Mehreen, Ali; Michaut, Magali; Miller, Ryan A.; Mitsopoulos, Costas; Modos, Dezso; Van Moerbeke, Marijke; Moo, Keagan; Motsinger-Reif, Alison; Movva, Rajiv; Muraru, Sebastian; Muratov, Eugene; Mushthofa, Mushthofa; Nagarajan, Niranjan; Nakken, Sigve; Nath, Aritro; Neuvial, Pierre; Newton, Richard; Ning, Zheng; De Niz, Carlos; Oliva, Baldo; Olsen, Catharina; Palmeri, Antonio; Panesar, Bhawan; Papadopoulos, Stavros; Park, Jaesub; Park, Seonyeong; Park, Sungjoon; Pawitan, Yudi; Peluso, Daniele; Pendyala, Sriram; Peng, Jian; Perfetto, Livia; Pirro, Stefano; Plevritis, Sylvia; Politi, Regina; Poon, Hoifung; Porta, Eduard; Prellner, Isak; Preuer, Kristina; Angel Pujana, Miguel; Ramnarine, Ricardo; Reid, John E.; Reyal, Fabien; Richardson, Sylvia; Ricketts, Camir; Rieswijk, Linda; Rocha, Miguel; Rodriguez-Gonzalvez, Carmen; Roell, Kyle; Rotroff, Daniel; de Ruiter, Julian R.; Rukawa, Ploy; Sadacca, Benjamin; Safikhani, Zhaleh; Safitri, Fita; Sales-Pardo, Marta; Sauer, Sebastian; Schlichting, Moritz; Seoane, Jose A.; Serra, Jordi; Shang, Ming-Mei; Sharma, Alok; Sharma, Hari; Shen, Yang; Shiga, Motoki; Shin, Moonshik; Shkedy, Ziv; Shopsowitz, Kevin; Sinai, Sam; Skola, Dylan; Smirnov, Petr; Soerensen, Izel Fourie; Soerensen, Peter; Song, Je-Hoon; Song, Sang Ok; Soufan, Othman; Spitzmueller, Andreas; Steipe, Boris; Suphavilai, Chayaporn; Tamayo, Sergio Pulido; Tamborero, David; Tang, Jing; Tanoli, Zia-ur-Rehman; Tarres-Deulofeu, Marc; Tegner, Jesper; Thommesen, Liv; Tonekaboni, Seyed Ali Madani; Tran, Hong; De Troyer, Ewoud; Truong, Amy; Tsunoda, Tatsuhiko; Turu, Gabor; Tzeng, Guang-Yo; Verbeke, Lieven; Videla, Santiago; Vis, Daniel; Voronkov, Andrey; Votis, Konstantinos; Wang, Ashley; Wang, Hong-Qiang Horace; Wang, Po-Wei; Wang, Sheng; Wang, Wei; Wang, Xiaochen; Wang, Xin; Wennerberg, Krister; Wernisch, Lorenz; Wessels, Lodewyk; van Westen, Gerard J. P.; Westerman, Bart A.; White, Simon Richard; Willighagen, Egon; Wurdinger, Tom; Xie, Lei; Xie, Shuilian; Xu, Hua; Yadav, Bhagwan; Yau, Christopher; Yeerna, Huwate; Yin, Jia Wei; Yu, Michael; Yu, MinHwan; Yun, So Jeong; Zakharov, Alexey; Zamichos, Alexandros; Zanin, Massimiliano; Zeng, Li; Zenil, Hector; Zhang, Frederick; Zhang, Pengyue; Zhang, Wei; Zhao, Hongyu; Zhao, Lan; Zheng, Wenjin; Zoufir, Azedine; Zucknick, Manuela (Springer Nature, 2019-06-17)
    The effectiveness of most cancer targeted therapies is short-lived. Tumors often develop resistance that might be overcome with drug combinations. However, the number of possible combinations is vast, necessitating data-driven ...
  • Crossing the Borders: Re-Use of Smart Learning Objects in Advanced Content Access Systems 

    Manzoor, Hamza; Akhuseyinoglu, Kamil; Wonderly, Jackson; Brusilovsky, Peter; Shaffer, Clifford A. (MDPI, 2019-07-19)
    Researchers in many disciplines are developing novel interactive smart learning objects like exercises and visualizations. Meanwhile, Learning Management Systems (LMS) and eTextbook systems are also becoming more sophisticated ...
  • Compiler-Directed Failure Atomicity for Nonvolatile Memory 

    Liu, Qingrui; Izraelevitz, Joseph; Lee, Se Kwon; Scott, Michael L.; Noh, Sam H.; Jung, Changhee (Department of Computer Science, Virginia Polytechnic Institute & State University, 2019-07-15), TR-19-02
    This paper presents iDO, a compiler-directed approach to failure atomicity with nonvolatile memory. Unlike most prior work, which instruments each store of persistent data for redo or undo logging, the iDO compiler identifies ...
  • ELASTIN: Achieving Stagnation-Free Intermittent Computation with Boundary-Free Adaptive Execution 

    Choi, Jongouk; Joe, Hyunwoo; Kim, Yongjoo; Jung, Changhee (Department of Computer Science, Virginia Polytechnic Institute & State University, 2019-07-15), TR-19-01
    This paper presents ELASTIN, a stagnation-free intermittent computing system for energy-harvesting devices that ensures forward progress in the presence of frequent power outages without partitioning program into recoverable ...
  • A stochastic model of size control in the budding yeast cell cycle 

    Ahmadian, Mansooreh; Tyson, John J.; Cao, Yang (2019-06-20)
    Abstract Background Cell size is a key characteristic that significantly affects many aspects of cellular physiology. There are specific control mechanisms during cell cycle ...
  • Analysis and remedy of negativity problem in hybrid stochastic simulation algorithm and its application 

    Chen, Minghan; Cao, Yang (2019-06-20)
    Abstract Background The hybrid stochastic simulation algorithm, proposed by Haseltine and Rawlings (HR), is a combination of differential equations for traditional deterministic ...
  • NanoARG: a web service for detecting and contextualizing antimicrobial resistance genes from nanopore-derived metagenomes 

    Arango-Argoty, Gustavo; Dai, Dongjuan; Pruden, Amy; Vikesland, Peter J.; Heath, Lenwood S.; Zhang, Liqing (2019-06-07)
    Background Direct and indirect selection pressures imposed by antibiotics and co-selective agents and horizontal gene transfer are fundamental drivers of the evolution and spread of antibiotic resistance. ...

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