@article{tong_chen_williams_2022, title={Identification of Transcription Factors Regulating SARS-CoV-2 Tropism Factor Expression by Inferring Cell-Type-Specific Transcriptional Regulatory Networks in Human Lungs}, DOI={10.3390/v14040837}, journal={VIRUSES-BASEL}, author={Tong, Haonan and Chen, Hao and Williams, Cranos M.}, year={2022}, month={Apr} }
 @article{kudenov_altaqui_williams_2022, title={Practical spectral photography II: snapshot spectral imaging using linear retarders and microgrid polarization cameras}, DOI={10.1364/OE.453538}, journal={OPTICS EXPRESS}, author={Kudenov, Michael W. and Altaqui, Ali and Williams, Cranos}, year={2022}, month={Apr} }
 @article{matthews_wang_sederoff_chiang_williams_2021, title={A multiscale model of lignin biosynthesis for predicting bioenergy traits in Populus trichocarpa}, DOI={10.1016/j.csbj.2020.11.046}, journal={COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL}, author={Matthews, Megan L. and Wang, Jack P. and Sederoff, Ronald and Chiang, Vincent L. and Williams, Cranos M.}, year={2021} }
 @article{haque_lobaton_nelson_yencho_pecota_mierop_kudenov_boyette_williams_2021, title={Computer vision approach to characterize size and shape phenotypes of horticultural crops using high-throughput imagery}, volume={182}, ISBN={1872-7107}, DOI={10.1016/j.compag.2021.106011}, journal={COMPUTERS AND ELECTRONICS IN AGRICULTURE}, author={Haque, Samiul and Lobaton, Edgar and Nelson, Natalie and Yencho, G. Craig and Pecota, Kenneth V and Mierop, Russell and Kudenov, Michael W. and Boyette, Mike and Williams, Cranos M.}, year={2021}, month={Mar} }
 @article{lin_sun_song_chen_shi_yang_liu_tunlaya-anukit_liu_loziuk_et al._2021, title={Enzyme Complexes of Ptr4CL and PtrHCT Modulate Co-enzyme A Ligation of Hydroxycinnamic Acids for Monolignol Biosynthesis in Populus trichocarpa}, DOI={10.3389/fpls.2021.727932}, journal={FRONTIERS IN PLANT SCIENCE}, author={Lin, Chien-Yuan and Sun, Yi and Song, Jina and Chen, Hsi-Chuan and Shi, Rui and Yang, Chenmin and Liu, Jie and Tunlaya-Anukit, Sermsawat and Liu, Baoguang and Loziuk, Philip L. and et al.}, year={2021}, month={Oct} }
 @misc{buckner_tong_ottley_williams_2021, title={High-throughput image segmentation and machine learning approaches in the plant sciences across multiple scales}, DOI={10.1042/ETLS20200273}, journal={EMERGING TOPICS IN LIFE SCIENCES}, author={Buckner, Eli and Tong, Haonan and Ottley, Chanae and Williams, Cranos}, year={2021} }
 @article{kudenov_scarboro_altaqui_boyette_yencho_williams_2021, title={Internal defect scanning of sweetpotatoes using interactance spectroscopy}, volume={16}, ISBN={1932-6203}, DOI={10.1371/journal.pone.0246872}, number={2}, journal={PLOS ONE}, author={Kudenov, Michael W. and Scarboro, Clifton G. and Altaqui, Ali and Boyette, Mike and Yencho, G. Craig and Williams, Cranos M.}, year={2021} }
 @article{matthews_williams_2021, title={Multiscale Modeling of Cross-Regulatory Transcript and Protein Influences}, DOI={10.1007/978-1-0716-1534-8_7}, journal={MODELING TRANSCRIPTIONAL REGULATION}, author={Matthews, Megan L. and Williams, Cranos M.}, year={2021} }
 @article{kudenov_altaqui_williams_2021, title={Snapshot spectral imaging using Solc-based multivariate optical filters and pixelated polarization cameras}, DOI={10.1117/12.2596580}, journal={POLARIZATION SCIENCE AND REMOTE SENSING X}, author={Kudenov, Michael W. and Altaqui, Ali and Williams, Cranos}, year={2021} }
 @article{buckner_madison_melvin_long_sozzani_williams_2020, series={Methods in Cell Biology}, title={BioVision Tracker: A semi-automated image analysis software for spatiotemporal gene expression tracking in Arabidopsis thaliana}, volume={160}, ISBN={0091-679X}, DOI={10.1016/bs.mcb.2020.04.017}, journal={PLANT CELL BIOLOGY}, author={Buckner, Eli and Madison, Imani and Melvin, Charles and Long, Terri and Sozzani, Rosangela and Williams, Cranos}, year={2020}, pages={419–436}, collection={Methods in Cell Biology} }
 @misc{broeck_gordon_inze_williams_sozzani_2020, title={Gene Regulatory Network Inference: Connecting Plant Biology and Mathematical Modeling}, volume={11}, ISBN={1664-8021}, DOI={10.3389/fgene.2020.00457}, journal={FRONTIERS IN GENETICS}, author={Broeck, Lisa and Gordon, Max and Inze, Dirk and Williams, Cranos and Sozzani, Rosangela}, year={2020} }
 @article{madison_melvin_buckner_williams_sozzani_long_2020, series={Methods in Cell Biology}, title={MAGIC: Live imaging of cellular division in plant seedlings using lightsheet microscopy}, volume={160}, ISBN={0091-679X}, DOI={10.1016/bs.mcb.2020.04.004}, journal={PLANT CELL BIOLOGY}, author={Madison, Imani and Melvin, Charles and Buckner, Eli and Williams, Cranos and Sozzani, Rosangela and Long, Terri}, year={2020}, pages={405–418}, collection={Methods in Cell Biology} }
 @article{haque_ahmad_clark_williams_sozzani_2019, title={Computational prediction of gene regulatory networks in plant growth and development}, volume={47}, ISSN={1369-5266}, url={http://dx.doi.org/10.1016/J.PBI.2018.10.005}, DOI={10.1016/J.PBI.2018.10.005}, journal={Current Opinion in Plant Biology}, publisher={Elsevier BV}, author={Haque, Samiul and Ahmad, Jabeen S and Clark, Natalie M and Williams, Cranos M and Sozzani, Rosangela}, year={2019}, month={Feb}, pages={96–105} }
 @article{argueso_assmann_birnbaum_chen_dinneny_doherty_eveland_friesner_greenlee_law_et al._2019, title={Directions for research and training in plant omics: Big Questions and Big Data}, volume={3}, ISSN={2475-4455}, url={http://dx.doi.org/10.1002/PLD3.133}, DOI={10.1002/PLD3.133}, number={4}, journal={Plant Direct}, publisher={Wiley}, author={Argueso, Cristiana T. and Assmann, Sarah M. and Birnbaum, Kenneth D. and Chen, Sixue and Dinneny, José R. and Doherty, Colleen J. and Eveland, Andrea L. and Friesner, Joanna and Greenlee, Vanessa R. and Law, Julie A. and et al.}, year={2019}, month={Apr}, pages={e00133} }
 @article{wang_matthews_naik_williams_ducoste_sederoff_chiang_2019, title={Flux modeling for monolignol biosynthesis}, volume={56}, ISSN={0958-1669}, url={http://dx.doi.org/10.1016/J.COPBIO.2018.12.003}, DOI={10.1016/J.COPBIO.2018.12.003}, journal={Current Opinion in Biotechnology}, publisher={Elsevier BV}, author={Wang, Jack P and Matthews, Megan L and Naik, Punith P and Williams, Cranos M and Ducoste, Joel J and Sederoff, Ronald R and Chiang, Vincent L}, year={2019}, month={Apr}, pages={187–192} }
 @article{clark_buckner_fisher_nelson_nguyen_simmons_balaguer_butler-smith_sheldon_bergmann_et al._2019, title={Stem-cell-ubiquitous genes spatiotemporally coordinate division through regulation of stem-cell-specific gene networks}, volume={10}, ISBN={2041-1723}, DOI={10.1038/s41467-019-13132-2}, journal={NATURE COMMUNICATIONS}, author={Clark, Natalie M. and Buckner, Eli and Fisher, Adam P. and Nelson, Emily C. and Nguyen, Thomas T. and Simmons, Abigail R. and Balaguer, Maria A. de Luis and Butler-Smith, Tiara and Sheldon, Parnell J. and Bergmann, Dominique C. and et al.}, year={2019} }
 @article{naik_wang_sederoff_chiang_williams_ducoste_2018, title={Assessing the impact of the 4CL enzyme complex on the robustness of monolignol biosynthesis using metabolic pathway analysis}, volume={13}, DOI={10.1371/journal.pone.0193896}, number={3}, journal={PLoS One}, author={Naik, P. and Wang, J. P. and Sederoff, R. and Chiang, V. and Williams, C. and Ducoste, J. J.}, year={2018} }
 @article{wang_matthews_williams_shi_yang_tunlaya-anukit_chen_li_liu_lin_et al._2018, title={Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis}, volume={9}, DOI={10.1038/s41467-018-03863-z}, journal={Nature Communications}, author={Wang, J. P. and Matthews, M. L. and Williams, C. M. and Shi, R. and Yang, C. M. and Tunlaya-Anukit, S. and Chen, H. C. and Li, Q. Z. and Liu, J. and Lin, C. Y. and et al.}, year={2018} }
 @article{alexander_williams_2017, title={Design of digital filters}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={205–275} }
 @article{alexander_williams_2017, title={Digital signal processing systems design}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={455–517} }
 @article{alexander_williams_2017, title={Digital signal processing: principles, algorithms and system design preface}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={XXVII-} }
 @article{alexander_williams_2017, title={Finite word length effects}, DOI={10.1016/b978-0-12-804547-3.00006-1}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={351–388} }
 @article{alexander_williams_2017, title={Frequency domain analysis}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={159–204} }
 @article{alexander_williams_2017, title={Fundamental DSP concepts}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={19–157} }
 @article{alexander_williams_2017, title={Hardware implementation}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={519–561} }
 @article{alexander_williams_2017, title={Implementation of discrete time systems}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={277–350} }
 @article{alexander_williams_2017, title={Introduction to digital signal processing}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={1–17} }
 @misc{muhammad_schmittling_williams_long_2017, title={More than meets the eye: emergent properties of transcription factors networks in arabidopsis}, volume={1860}, DOI={10.1016/j.bbagrm.2016.07.017}, number={1}, journal={Biochimica et Biophysica Acta. Gene Regulatory Mechanisms}, author={Muhammad, D. and Schmittling, S. and Williams, C. and Long, T. A.}, year={2017}, pages={64–74} }
 @article{alexander_williams_2017, title={Multirate digital signal processing}, journal={Digital Signal Processing: Principles, Algorithms and System Design}, author={Alexander, W. E. and Williams, C. M.}, year={2017}, pages={389–454} }
 @article{balaguer_fisher_clark_fernandez-espinosa_moller_weijers_lohmann_williams_lorenzo_sozzani_2017, title={Predicting gene regulatory networks by combining spatial and temporal gene expression data in Arabidopsis root stem cells}, volume={114}, DOI={10.1073/pnas.1707566114}, number={36}, journal={Proceedings of the National Academy of Sciences of the United States of America}, author={Balaguer, M. A. D. and Fisher, A. P. and Clark, N. M. and Fernandez-Espinosa, M. G. and Moller, B. K. and Weijers, D. and Lohmann, J. U. and Williams, C. and Lorenzo, O. and Sozzani, R.}, year={2017}, pages={E7632–7640} }
 @article{lin_wang_li_chen_liu_loziuk_song_williams_muddiman_sederoff_et al._2015, title={4-coumaroyl and caffeoyl shikimic acids inhibit 4-coumaric acid: Coenzyme a ligases and modulate metabolic flux for 3-hydroxylation in monolignol biosynthesis of Populus trichocarpa}, volume={8}, DOI={10.1016/j.molp.2014.12.003}, number={1}, journal={Molecular Plant}, author={Lin, C. Y. and Wang, J. P. and Li, Q. Z. and Chen, H. C. and Liu, J. and Loziuk, P. and Song, J. and Williams, C. and Muddiman, D. C. and Sederoff, R. R. and et al.}, year={2015}, pages={176–187} }
 @article{koryachko_matthiadis_muhammad_foret_brady_ducoste_tuck_long_williams_2015, title={Clustering and differential alignment algorithm: Identification of early stage regulators in the Arabidopsis thaliana iron deficiency response}, volume={10}, DOI={10.1371/journal.pone.0136591}, number={8}, journal={PLoS One}, author={Koryachko, A. and Matthiadis, A. and Muhammad, D. and Foret, J. and Brady, S. M. and Ducoste, J. J. and Tuck, J. and Long, T. A. and Williams, C.}, year={2015} }
 @article{koryachko_matthiadis_ducoste_tuck_long_williams_2015, title={Computational approaches to identify regulators of plant stress response using high-throughput gene expression data}, volume={3-4}, ISSN={2214-6628}, url={http://dx.doi.org/10.1016/J.CPB.2015.04.001}, DOI={10.1016/J.CPB.2015.04.001}, journal={Current Plant Biology}, publisher={Elsevier BV}, author={Koryachko, Alexandr and Matthiadis, Anna and Ducoste, Joel J. and Tuck, James and Long, Terri A. and Williams, Cranos}, year={2015}, month={Sep}, pages={20–29} }
 @article{balaguer_williams_2014, title={Hierarchical modularization of biochemical pathways using fuzzy-C means clustering}, volume={44}, DOI={10.1109/tcyb.2013.2286679}, number={8}, journal={IEEE Transactions on Cybernetics}, author={Balaguer, M. A. D. and Williams, C. M.}, year={2014}, pages={1473–1484} }
 @article{chen_song_wang_lin_ducoste_shuford_liu_li_shi_nepomuceno_et al._2014, title={Systems biology of lignin biosynthesis in Populus trichocarpa: Heteromeric 4-Coumaric zcid: Coenzyme A ligase protein complex formation, regulation, and numerical modeling}, volume={26}, DOI={10.1105/tpc.113.119685}, number={3}, journal={Plant Cell}, author={Chen, H. C. and Song, J. and Wang, J. P. and Lin, Y. C. and Ducoste, J. and Shuford, C. M. and Liu, J. and Li, Q. Z. and Shi, R. and Nepomuceno, A. and et al.}, year={2014}, pages={876–893} }
 @article{chen_song_williams_shuford_liu_wang_li_shi_gokce_ducoste_et al._2013, title={Monolignol pathway 4-coumaric acid: Coenzyme a ligases in Populus trichocarpa: Novel specificity, metabolic regulation, and simulation of coenzyme a ligation fluxes}, volume={161}, DOI={10.1104/pp.112.210971}, number={3}, journal={Plant Physiology}, author={Chen, H. C. and Song, J. N. and Williams, C. M. and Shuford, C. M. and Liu, J. and Wang, J. P. and Li, Q. Z. and Shi, R. and Gokce, E. and Ducoste, J. and et al.}, year={2013}, pages={1501–1516} }
 @inproceedings{nabavi_williams_2012, title={A novel cost function for parameters estimation in oscillatory biochemical systems}, DOI={10.1109/secon.2012.6196978}, booktitle={2012 Proceedings of IEEE Southeastcon}, author={Nabavi, S. and Williams, C. M.}, year={2012} }
 @article{wang_shuford_li_song_lin_sun_chen_williams_muddiman_sederoff_et al._2012, title={Functional redundancy of the two 5-hydroxylases in monolignol biosynthesis of Populus trichocarpa: LC-MS/MS based protein quantification and metabolic flux analysis}, volume={236}, DOI={10.1007/s00425-012-1663-5}, number={3}, journal={Planta}, author={Wang, J. P. and Shuford, C. M. and Li, Q. Z. and Song, J. N. and Lin, Y. C. and Sun, Y. H. and Chen, H. C. and Williams, C. M. and Muddiman, D. C. and Sederoff, R. R. and et al.}, year={2012}, pages={795–808} }
 @inproceedings{matthews_williams_2012, title={Region of attraction estimation of biological continuous Boolean models}, DOI={10.1109/icsmc.2012.6377982}, booktitle={Ieee international conference on systems man and cybernetics conference}, author={Matthews, M. L. and Williams, C. M.}, year={2012}, pages={1700–1705} }
 @article{marvel_williams_2012, title={Set membership experimental design for biological systems}, volume={6}, DOI={10.1186/1752-0509-6-21}, journal={BMC Systems Biology}, author={Marvel, S. W. and Williams, C. M.}, year={2012} }
 @inproceedings{marvel_williams_2012, title={Set membership state and parameter estimation for nonlinear differential equations with sparse discrete measurements}, DOI={10.1109/icsmc.2012.6377679}, booktitle={Ieee international conference on systems man and cybernetics conference}, author={Marvel, S. W. and Williams, C. M.}, year={2012}, pages={72–77} }