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2020

Challenges and Opportunities in the Detection of Safety-Critical Cyberphysical Attacks

Lin, H., Alemzadeh, H., Kalbarczyk, Z. & Iyer, R., Mar 2020, Computer, 53, 3, p. 26-37 12 p.

Research output: Contribution to specialist publicationArticle

2019

ASAP: Accelerated Short-Read Alignment on Programmable Hardware

Banerjee, S. S., El-Hadedy, M., Lim, J. B., Kalbarczyk, Z. T., Chen, D., Lumetta, S. S. & Iyer, R. K., Mar 1 2019, In : IEEE Transactions on Computers. 68, 3, p. 331-346 16 p., 8490591.

Research output: Contribution to journalArticle

Human verbal memory encoding is hierarchically distributed in a continuous processing stream

Kucewicz, M. T., Saboo, K., Berry, B. M., Kremen, V., Miller, L. R., Khadjevand, F., Inman, C. S., Wanda, P., Sperling, M. R., Gorniak, R., Davis, K. A., Jobst, B. C., Lega, B., Sheth, S. A., Rizzuto, D. S., Iyer, R. K., Kahana, M. J. & Worrell, G. A., Jan 1 2019, In : eNeuro. 6, 1, e0214-18.2018.

Research output: Contribution to journalArticle

Open Access

Pharmacogenomics-Driven Prediction of Antidepressant Treatment Outcomes: A Machine-Learning Approach With Multi-trial Replication

Athreya, A. P., Neavin, D., Carrillo-Roa, T., Skime, M., Biernacka, J., Frye, M. A., Rush, A. J., Wang, L., Binder, E. B., Iyer, R. K., Weinshilboum, R. M. & Bobo, W. V., Oct 1 2019, In : Clinical Pharmacology and Therapeutics. 106, 4, p. 855-865 11 p.

Research output: Contribution to journalArticle

Predicting Short-term MCI-to-AD Progression Using Imaging, CSF, Genetic Factors, Cognitive Resilience, and Demographics

For the Alzheimer’s Disease Neuroimaging Initiative & Iyer, R. K., Dec 1 2019, In : Scientific reports. 9, 1, 2235.

Research output: Contribution to journalArticle

Open Access

Recommendations for performance optimizations when using GATK3.8 and GATK4

Heldenbrand, J. R., Baheti, S., Bockol, M. A., Drucker, T. M., Hart, S. N., Hudson, M. E., Iyer, R. K., Kalmbach, M. T., Kendig, K. I., Klee, E. W., Mattson, N. R., Wieben, E. D., Wiepert, M., Wildman, D. E. & Mainzer, L. S., Nov 8 2019, In : BMC bioinformatics. 20, 1, 557.

Research output: Contribution to journalArticle

Open Access

Unsupervised machine-learning classification of electrophysiologically active electrodes during human cognitive task performance

Saboo, K. V., Varatharajah, Y., Berry, B. M., Kremen, V., Sperling, M. R., Davis, K. A., Jobst, B. C., Gross, R. E., Lega, B., Sheth, S. A., Worrell, G. A., Iyer, R. K. & Kucewicz, M. T., Dec 1 2019, In : Scientific reports. 9, 1, 17390.

Research output: Contribution to journalArticle

Open Access
2018

Augmentation of physician assessments with multi-omics enhances predictability of drug response: A case study of major depressive disorder

Athreya, A., Iyer, R., Neavin, D., Wang, L., Weinshilboum, R., Kaddurah-Daouk, R., Rush, J., Frye, M. & Bobo, W., Aug 2018, In : IEEE Computational Intelligence Magazine. 13, 3, p. 20-31 12 p., 8416980.

Research output: Contribution to journalArticle

Beta-defensin 1, aryl hydrocarbon receptor and plasma kynurenine in major depressive disorder: Metabolomics-informed genomics

Liu, D., Ray, B., Neavin, D. R., Zhang, J., Athreya, A. P., Biernacka, J. M., Bobo, W. V., Hall-Flavin, D. K., Skime, M. K., Zhu, H., Jenkins, G. D., Batzler, A., Kalari, K. R., Boakye-Agyeman, F., Matson, W. R., Bhasin, S. S., Mushiroda, T., Nakamura, Y., Kubo, M., Iyer, R. K. & 4 others, Wang, L., Frye, M. A., Kaddurah-Daouk, R. & Weinshilboum, R. M., Dec 1 2018, In : Translational psychiatry. 8, 1, 56.

Research output: Contribution to journalArticle

Detection and visualization of complex structural variants from long reads

Stephens, Z., Wang, C., Iyer, R. K. & Kocher, J. P., Dec 21 2018, In : BMC bioinformatics. 19, 508.

Research output: Contribution to journalArticle

Integrating artificial intelligence with real-time intracranial EEG monitoring to automate interictal identification of seizure onset zones in focal epilepsy

Varatharajah, Y., Berry, B., Cimbalnik, J., Kremen, V., Van Gompel, J., Stead, M., Brinkmann, B., Iyer, R. & Worrell, G., Jun 27 2018, In : Journal of Neural Engineering. 15, 4, 046035.

Research output: Contribution to journalArticle

Machine learning helps identify new drug mechanisms in triple-negative breast cancer

Athreya, A. P., Gaglio, A. J., Cairns, J., Kalari, K. R., Weinshilboum, R. M., Wang, L., Kalbarczyk, Z. T. & Iyer, R. K., Jul 2018, In : IEEE Transactions on Nanobioscience. 17, 3, p. 251-259 9 p., 8401331.

Research output: Contribution to journalArticle

Resiliency of HPC interconnects: A case study of interconnect failures and recovery in blue waters

Jha, S., Formicola, V., Di Martino, C., Dalton, M., Kramer, W. T., Kalbarczyk, Z. & Iyer, R. K., Jan 1 2018, In : IEEE Transactions on Dependable and Secure Computing. 15, 6, p. 915-930 16 p., 8006294.

Research output: Contribution to journalArticle

Runtime semantic security analysis to detect and mitigate control-related attacks in power grids

Lin, H., Slagell, A., Kalbarczyk, Z. T., Sauer, P. W. & Iyer, R. K., Jan 2018, In : IEEE Transactions on Smart Grid. 9, 1, p. 163-178 16 p.

Research output: Contribution to journalArticle

Self-healing attack-resilient PMU network for power system operation

Lin, H., Chen, C., Wang, J., Qi, J., Jin, D., Kalbarczyk, Z. T. & Iyer, R. K., May 2018, In : IEEE Transactions on Smart Grid. 9, 3, p. 1551-1565 15 p.

Research output: Contribution to journalArticle

2017

Analysis and diagnosis of SLA violations in a production SaaS cloud

Di Martino, C., Sarkar, S., Ganesan, R., Kalbarczyk, Z. T. & Iyer, R. K., Mar 2017, In : IEEE Transactions on Reliability. 66, 1, p. 54-75 22 p., 7835304.

Research output: Contribution to journalArticle

Failure Diagnosis for Distributed Systems Using Targeted Fault Injection

Pham, C., Wang, L., Tak, B. C., Baset, S., Tang, C., Kalbarczyk, Z. & Iyer, R. K., Feb 1 2017, In : IEEE Transactions on Parallel and Distributed Systems. 28, 2, p. 503-516 14 p., 7484300.

Research output: Contribution to journalArticle

Model-based unsupervised learning informs metformininduced cell-migration inhibition through an AMPK-independent mechanism in breast cancer

Athreya, A. P., Kalari, K. R., Cairns, J., Gaglio, A. J., Wills, Q. F., Niu, N., Weinshilboum, R., Iyer, R. K. & Wang, L., 2017, In : Oncotarget. 8, 16, p. 27199-27215 17 p.

Research output: Contribution to journalArticle

Modeling and Mitigating Impact of False Data Injection Attacks on Automatic Generation Control

Tan, R., Nguyen, H. H., Foo, E. Y. S., Yau, D. K. Y., Kalbarczyk, Z., Iyer, R. K. & Gooi, H. B., Jul 2017, In : IEEE Transactions on Information Forensics and Security. 12, 7, p. 1609-1624 16 p., 7867825.

Research output: Contribution to journalArticle

Seizure Forecasting and the Preictal State in Canine Epilepsy

Varatharajah, Y., Iyer, R. K., Berry, B. M., Worrell, G. A. & Brinkmann, B. H., Feb 1 2017, In : International journal of neural systems. 27, 1, 1650046.

Research output: Contribution to journalArticle

Surgeon Training in Telerobotic Surgery via a Hardware-in-the-Loop Simulator

Li, X., Alemzadeh, H., Chen, D., Kalbarczyk, Z., Iyer, R. K. & Kesavadas, T., 2017, In : Journal of Healthcare Engineering. 2017, 6702919.

Research output: Contribution to journalArticle

2016

Adverse events in robotic surgery: A retrospective study of 14 years of fda data

Alemzadeh, H., Raman, J., Leveson, N., Kalbarczyk, Z. & Iyer, R. K., Apr 2016, In : PloS one. 11, 4, e0151470.

Research output: Contribution to journalArticle

Simulating next-generation sequencing datasets from empirical mutation and sequencing models

Stephens, Z. D., Hudson, M. E., Mainzer, L. S., Taschuk, M., Weber, M. R. & Iyer, R. K., Nov 2016, In : PloS one. 11, 11, e0167047.

Research output: Contribution to journalArticle

2015

Big data: Astronomical or genomical?

Stephens, Z. D., Lee, S. Y., Faghri, F., Campbell, R. H., Zhai, C., Efron, M. J., Iyer, R., Schatz, M. C., Sinha, S. & Robinson, G. E., 2015, In : PLoS biology. 13, 7

Research output: Contribution to journalArticle

Performance comparison and tuning of virtual machines for sequence alignment software

Estrada, Z. J., Deng, F., Stephens, Z., Pham, C., Kalbarczyk, Z. & Iyer, R. K., Jan 1 2015, In : Scalable Computing. 16, 1, p. 71-84 14 p.

Research output: Contribution to journalArticle

VM-μcheckpoint: Design, modeling, and assessment of lightweight in-memory VM checkpointing

Wang, L., Kalbarczyk, Z., Iyer, R. K. & Iyengar, A., Mar 1 2015, In : IEEE Transactions on Dependable and Secure Computing. 12, 2, p. 243-255 13 p., 6824750.

Research output: Contribution to journalArticle

2014

Building reliable and secure virtual machines using architectural invariants

Pham, C., Estrada, Z. J., Cao, P., Kalbarczyk, Z. & Iyer, R. K., Sep 2014, In : IEEE Security and Privacy. 12, 5, p. 82-85 4 p., 6924639.

Research output: Contribution to journalArticle

2013

Analysis of safety-critical computer failures in medical devices

Alemzadeh, H., Iyer, R. K., Kalbarczyk, Z. & Raman, J., Aug 20 2013, In : IEEE Security and Privacy. 11, 4, p. 14-26 13 p., 6509886.

Research output: Contribution to journalArticle

Symplfied: Symbolic program-level fault injection and error detection framework

Pattabiraman, K., Nakka, N. M., Kalbarczyk, Z. T. & Iyer, R. K., Oct 7 2013, In : IEEE Transactions on Computers. 62, 11, p. 2292-2307 16 p., 6296658.

Research output: Contribution to journalArticle

2011

Automated derivation of application-Specific error detectors using dynamic analysis

Pattabiraman, K., Saggese, G. P., Chen, D., Kalbarczyk, Z. & Iyer, R., Jan 1 2011, In : IEEE Transactions on Dependable and Secure Computing. 8, 5, p. 640-655 16 p., 5467091.

Research output: Contribution to journalArticle

2007

Inner-circle consistency for wireless ad hoc networks

Basile, C., Kalbarczyk, Z. & Iyer, R. K., Jan 1 2007, In : IEEE Transactions on Mobile Computing. 6, 1, p. 39-55 17 p.

Research output: Contribution to journalArticle

Reliability MicroKernel: Providing application-aware reliability in the OS

Wang, L., Kalbarczyk, Z., Gu, W. & Iyer, R. K., Dec 1 2007, In : IEEE Transactions on Reliability. 56, 4, p. 597-614 18 p.

Research output: Contribution to journalArticle

Toward application-aware security and reliability

Iyer, R. K., Kalbarczyk, Z., Pattabiraman, K., Healey, W., Hwu, W. W., Klemperer, P. & Farivar, R., Jan 1 2007, In : IEEE Security and Privacy. 5, 1, p. 57-62 6 p.

Research output: Contribution to journalArticle

2006

Active replication of multithreaded applications

Basile, C., Kalbarczyk, Z. & Iyer, R. K., May 1 2006, In : IEEE Transactions on Parallel and Distributed Systems. 17, 5, p. 448-465 18 p.

Research output: Contribution to journalArticle

Security vulnerabilities: From analysis to detection and masking techniques

Chen, S., Jun, X. U., Kalbarczyk, Z. & Iyer, R. K., Feb 2006, In : Proceedings of the IEEE. 94, 2, p. 407-418 12 p.

Research output: Contribution to journalArticle

2005

An experimental study of soft errors in microprocessors

Saggese, G. P., Wang, N. J., Kalbarczyk, Z. T., Patel, S. J. & Iyer, R. K., Nov 1 2005, In : IEEE Micro. 25, 6, p. 30-39 10 p.

Research output: Contribution to journalArticle

Application fault tolerance with armor middleware

Kalbarczyk, Z., Iyer, R. K. & Wang, L., Mar 1 2005, In : IEEE Internet Computing. 9, 2, p. 28-37 10 p.

Research output: Contribution to journalArticle

Recent advances and new avenues in hardware-level reliability support

Iyer, R. K., Nakka, N. M., Kalbarczyk, Z. T. & Mitra, S., Nov 1 2005, In : IEEE Micro. 25, 6, p. 18-29 12 p.

Research output: Contribution to journalArticle

2004

Modeling and evaluating the security threats of transient errors in firewall software

Chen, S., Xu, J., Kalbarczyk, Z., Iyer, R. K. & Whisnant, K., Mar 1 2004, In : Performance Evaluation. 56, 1-4, p. 53-72 20 p.

Research output: Contribution to journalArticle

The effects of an ARMOR-based SIFT environment on the performance and dependability of user applications

Whisnant, K., Iyer, R. K., Kalbarczyk, Z. T., Jones, P. H., Rennels, D. A. & Some, R., Apr 1 2004, In : IEEE Transactions on Software Engineering. 30, 4, p. 257-277 21 p.

Research output: Contribution to journalArticle

2003

A system mode for dynamically reconfigurable software

Whisnant, K., Kalbarczyk, Z. T. & Iyer, R. K., Jan 1 2003, In : IBM Systems Journal. 42, 1, p. 45-59 15 p.

Research output: Contribution to journalArticle

2002

Loose synchronization of multithreaded replicas

Basile, C., Whisnant, K., Kalbarczyk, Z. & Iyer, R., Jan 1 2002, In : Proceedings of the IEEE Symposium on Reliable Distributed Systems. p. 250-255 6 p., 27.

Research output: Contribution to journalArticle

2000

Diagnosing rediscovered software problems using symptoms

Lee, I. & Iyer, R. K., Jan 1 2000, In : IEEE Transactions on Software Engineering. 26, 2, p. 113-127 15 p.

Research output: Contribution to journalArticle

Hierarchical error detection in a software implemented fault tolerance (SIFT) environment

Bagchi, S., Srinivasan, B., Whisnant, K., Kalbarczyk, Z. & Iyer, R. K., Dec 3 2000, In : IEEE Transactions on Knowledge and Data Engineering. 12, 2, p. 203-224 22 p.

Research output: Contribution to journalArticle

1999

Chameleon: A software infrastructure for adaptive fault tolerance

Kalbarczyk, Z. T., Iyer, R. K., Bagchi, S. & Whisnant, K., Jan 1 1999, In : IEEE Transactions on Parallel and Distributed Systems. 10, 6, p. 560-579 20 p.

Research output: Contribution to journalArticle

Hierarchical simulation approach to accurate fault modeling for system dependability evaluation

Kalbarczyk, Z., Iyer, R. K., Ries, G. L., Patel, J. U., Lee, M. S. & Xiao, Y., Dec 1 1999, In : IEEE Transactions on Software Engineering. 25, 5, p. 619-632 14 p.

Research output: Contribution to journalArticle

Reliability of internet hosts: A case study from the end user's perspective

Kalyanakrishnan, M., Iyer, R. K. & Patel, J. U., Jan 14 1999, In : Computer Networks. 31, 1-2, p. 47-57 11 p.

Research output: Contribution to journalArticle

Stress-based and path-based fault injection

Tsai, T. K., Hsueh, M. C., Zhao, H., Kalbarczyk, Z. & Iyer, R. K., Nov 1 1999, In : IEEE Transactions on Computers. 48, 11, p. 1183-1201 19 p.

Research output: Contribution to journalArticle