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Year: 2014

Yvette A. Halley, Scot E. Dowd, Jared E. Decker, Paul M. Seabury, Eric Bhattarai, Charles D. Johnson, Dale Rollins, Ian R. Tizard, Donald J. Brightsmith, Markus J. Peterson, Jeremy F. Taylor, Christopher M. Seabury, "A Draft De Novo Genome Assembly for the Northern Bobwhite (Colinus virginianus) Reveals Evidence for a Rapid Decline in Effective Population Size Beginning in the Late Pleistocene", PLOS ONE, March 2014, Volume 9, Issue 3  (Journal Publication)  [More Details]  [Online]

U.M. Braga-Neto, A. Zollanvari, and E.R. Dougherty, "Cross-validation under separate sampling: strong bias and how to correct it", Bioinformatics, Vol. 30, No. 23, Dec 1 2014, pp. 3349-3355.  (Journal Publication)  [More Details]  [Online]

SEQC/MAQC-III Consortium, "A comprehensive assessment of RNA-seq accuracy, reproducibility and information content by the Sequencing Quality Control Consortium", Nature Biotechnology (2014) doi:10.1038/nbt.2957  (Journal Publication)  [More Details]  [Online]

S. Khadraoui, H. Nounou, M. Nounou, A. Datta, and S. P. Bhattacharyya, "A Measurement-based Approach for Designing Fixed-order Controllers for Systems with Unknown Closed-loop Architecture", Asian Journal of Control, Vol. 18, no. 1, 1-13, 2016; DOI: 10.1002/asjc.1069, 2014.  (Journal Publication)  [More Details]  [Online]

S. Khadraoui, H. Nounou, M. Nounou, A. Datta and S. P. Bhattacharyya, "A Model-free Design of Reduced-Order Controllers and Application to a DC Servo motor", Automatica, Vol. 50, No. 8, 2142-2149, August 2014.  (Journal Publication)  [More Details]  [Online]

Noushin Ghaffari, Alejandro Sanchez-Flores, Ryan Doan, Karina D. Garcia-Orozco, Patricia L. Chen, Adrian Ochoa-Leyva, Alonso A. Lopez-Zavala, J. Salvador Carrasco, Chris Hong, Luis G. Brieba, Enrique Rudiño-Piñera, Philip D. Blood, Jason E. Sawyer, Charles D. Johnson, Scott V. Dindot, Rogerio R. Sotelo-Mundo, Michael F. Criscitiello, "Novel transcriptome assembly and improved annotation of the whiteleg shrimp (Litopenaeus vannamei), a dominant crustacean in global seafood mariculture", Nature Scientific Reports 4, Article number: 7081  (Journal Publication)  [More Details]  [Online]

Navadon Khunlertgit and Byung-Jun Yoon, "Simultaneous identification of robust synergistic subnetwork markers for effective cancer prognosis", EURASIP Journal on Bioinformatics and Systems Biology, 2014:19, 2014.  (Journal Publication)  [More Details]  [Online]

Mohammad Shahrokh Esfahani and Edward R. Dougherty, "Effect of separate sampling on classification accuracy", Bioinformatics (2014) 30 (2): 242-250.  (Journal Publication)  [More Details]  [Online]

MF Lensink, IH Moal, PA Bates, PL Kastritis, AS Melquiond, E Karaca, C Schmitz, M Van Dijk, AM Bonvin, M Eisenstein, B Jimenez-Garcia, S Grosdidier, A Solernou, L Perez-Cano, C Pallara, J Fernandez-Recio, J Xu, P Muthu, KP Kilambi, JJ Gray, S Grudinin, G Derevyanko, JC Mitchell, J Wieting, E Kanamori, Y Tsuchiya, Y Murakami, J Sarmiento, DM Standley, M Shirota, K Kinoshita, H Nakamura, M Chavent, DW Ritchie, H Park, J Ko, H Lee, C Seok, Y Shen, D Kozakov, S Vajda, PJ Kundrotas, IA Vakser, BG Pierce, H Hwang, T Vreven, Z Weng, I Buch, E Farkash, HJ Wolfson, M Zacharias, S Qin, HX Zhou, SY Huang, X Zou, JA Wojdyla, C Kleanthous, SJ Wodak, "Blind Prediction of Interfacial Water Positions in CAPRI", Proteins, 82: 620–632. doi: 10.1002/prot.24439  (Journal Publication)  [More Details]  [Online]

Madina BR, Kumar V1 Metz R, Mooers BH, Bundschuh R, Cruz-Reyes J., "Native mitochondrial RNA-binding complexes in kinetoplastid RNA editing differ in guide RNA composition", RNA. 2014 Jul;20(7):1142-52. doi: 10.1261/rna.044495.114. Epub 2014 May 27.  (Journal Publication)  [More Details]  [Online]

M. A. Fnaiech, S. Khadraoui, M. Fnaiech, H. Nounou, M. Nounou, J. Guzinski, H. Abu-Rub, A. Datta, and S. P. Bhattacharyya, "Model-Free Controller Tuning based on DFT Processing: Application to Induction Motor Drives", IEEE Journal of Emerging and Selected Topics in Power Electronics, Vol. 2, No. 4, 1013-1023, December 2014.  (Journal Publication)  [More Details]  [Online]

M. A. Fnaiech, S. Khadraoui, H. N. Nounou, M. N. Nounou, J. Guzinski, H. Abu-Rub, A. Datta, and S. P. Bhattacharyya, "A Measurement-Based Approach For Speed Control Of Induction Machines", IEEE Journal of Emerging and Selected Topics in Power Electronics, Vol. 2, No. 2, 308-318, June 2014.  (Journal Publication)  [More Details]  [Online]

Khadraoui, H. Nounou, M. Nounou, A. Datta and S. P. Bhattacharyya, "A Measurement-based Technique for Designing Fixed-order RST Controllers and Application to a Coupled Water Tank System", Systems Science & Control Engineering, Vol. 2, No. 1, 484-492, 2014.  (Journal Publication)  [More Details]  [Online]

Jianping Hua, Michael L. Bittner, and Edward R. Dougherty, "Evaluating gene set enrichment analysis via a hybrid data model", Cancer Inform. 2014 Feb 12;13(Suppl 1):1-16  (Journal Publication)  [More Details]  [Online]

Fangjun Li, Cheng Cheng, Fuhao Cui, Marcos VV de Oliveira, Xiao Yu, Xiangzong Meng, Aline C Intorne, Kevin Babilonia, Maoying Li, Bo Li, Sixue Chen, Xianfeng Ma, Shunyuan Xiao, Yi Zheng, Zhangjun Fei, Richard P Metz, Charles D Johnson, Hisashi Koiwa, Wenxian Sun, Zhaohu Li, Gonçalo A de Souza Filho, Libo Shan, Ping He, "Modulation of RNA Polymerase II Phosphorylation Downstream of Pathogen Perception Orchestrates Plant Immunity", Cell Host & Microbe doi:10.1016/j.chom.2014.10.018  (Journal Publication)  [More Details]  [Online]

E. Atashpaz-Gargari, U.M. Braga-Neto, and E.R. Dougherty, "Modeling and Systematic Analysis of Biomarker Validation using Selected Reaction Monitoring", EURASIP Journal on Bioinformatics and Systems Biology, 2014, 2014:17.  (Journal Publication)  [More Details]  [Online]

Dalton L.A. and Dougherty E.R., "Intrinsically Optimal Bayesian Robust Filtering", IEEE Transactions on Signal Processing 62(3): 657-670 (2014).   (Journal Publication)  [More Details]  [Online]

Byung-Jun Yoon, "Sequence alignment by passing messages", BMC Genomics, 15(Suppl 1):S14, 2014.  (Journal Publication)  [More Details]  [Online]

B. Afsari, U.M. Braga-Neto, and D. Geman, "Rank Discriminants for Predicting Phenotypes from RNA Expression.", Annals of Applied Statistics, Vol. 8, No. 3, Sep 2014, pp. 1469-1491.  (Journal Publication)  [More Details]  [Online]

A. Mohanty, A. Datta and J. Venkatraj, "Using the Message Passing Algorithm on Discrete Data to Detect faults in Boolean Regulatory Networks", Algorithms for Molecular Biology, 9:20, DOI: 10.1186/s13015-014-0020-6, 2014.  (Journal Publication)  [More Details]  [Online]

A. Mohanty, A. Datta and J. Venkatraj, "A Model for Cancer Tissue Heterogeneity", IEEE Trans. on Biomedical Engineering, Vol. 61, No. 3, 966-974, March 2014  (Journal Publication)  [More Details]  [Online]

T.T. Vu, C. Sima, U.M. Braga-Neto, and E.R. Dougherty, "Unbiased Bootstrap Error Estimation for Linear Discriminant Analysis", EURASIP Journal on Bioinformatics and Systems Biology, 2014, 2014:15.  (Journal Publication)  [More Details]  [Online]