@misc{busato_gordon_chaudhari_jensen_akyol_andersen_williams_2023, title={Compositionality, sparsity, spurious heterogeneity, and other data-driven challenges for machine learning algorithms within plant microbiome studies}, volume={71}, ISSN={["1879-0356"]}, url={https://doi.org/10.1016/j.pbi.2022.102326}, DOI={10.1016/j.pbi.2022.102326}, journal={CURRENT OPINION IN PLANT BIOLOGY}, author={Busato, Sebastiano and Gordon, Max and Chaudhari, Meenal and Jensen, Ib and Akyol, Turgut and Andersen, Stig and Williams, Cranos}, year={2023}, month={Feb} }
 @article{mustamin_akyol_gordon_manggabarani_isomura_kawamura_bamba_williams_andersen_sato_2023, title={FER and LecRK show haplotype-dependent cold-responsiveness and mediate freezing tolerance in Lotus japonicus}, url={https://doi.org/10.1093/plphys/kiac533}, DOI={10.1093/plphys/kiac533}, journal={Plant Physiology}, author={Mustamin, Yusdar and Akyol, Turgut Yigit and Gordon, Max and Manggabarani, Andi Madihah and Isomura, Yoshiko and Kawamura, Yasuko and Bamba, Masaru and Williams, Cranos and Andersen, Stig Uggerhøj and Sato, Shusei}, year={2023}, month={Feb} }
 @article{asafen_beseli_hiremath_williams_reeves_2022, title={Dynamics of BMP signaling in the earlyDrosophilaembryo}, url={https://doi.org/10.1101/2022.10.20.513072}, DOI={10.1101/2022.10.20.513072}, author={Asafen, Hadel Y. Al and Beseli, Aydin and Hiremath, Sharva and Williams, Cranos M. and Reeves, Gregory T.}, year={2022}, month={Oct} }
 @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}, volume={14}, ISSN={["1999-4915"]}, DOI={10.3390/v14040837}, number={4}, journal={VIRUSES-BASEL}, author={Tong, Haonan and Chen, Hao and Williams, Cranos M.}, year={2022}, month={Apr} }
 @article{muhammad_clark_haque_williams_sozzani_long_2022, title={POPEYE intercellular localization mediates cell-specific iron deficiency responses}, volume={8}, ISSN={["1532-2548"]}, url={https://doi.org/10.1093/plphys/kiac357}, DOI={10.1093/plphys/kiac357}, journal={PLANT PHYSIOLOGY}, publisher={Oxford University Press (OUP)}, author={Muhammad, DurreShahwar and Clark, Natalie M. and Haque, Samiul and Williams, Cranos M. and Sozzani, Rosangela and Long, Terri A.}, year={2022}, month={Aug} }
 @article{kudenov_altaqui_williams_2022, title={Practical spectral photography II: snapshot spectral imaging using linear retarders and microgrid polarization cameras}, volume={30}, ISSN={["1094-4087"]}, DOI={10.1364/OE.453538}, number={8}, journal={OPTICS EXPRESS}, author={Kudenov, Michael W. and Altaqui, Ali and Williams, Cranos}, year={2022}, month={Apr}, pages={12337–12352} }
 @article{matthews_wang_sederoff_chiang_williams_2021, title={A multiscale model of lignin biosynthesis for predicting bioenergy traits in Populus trichocarpa}, volume={19}, ISSN={["2001-0370"]}, 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}, pages={168–182} }
 @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}, ISSN={0168-1699}, url={http://dx.doi.org/10.1016/j.compag.2021.106011}, DOI={10.1016/j.compag.2021.106011}, journal={Computers and Electronics in Agriculture}, publisher={Elsevier BV}, 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}, pages={106011} }
 @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}, volume={12}, ISSN={["1664-462X"]}, 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}, volume={5}, ISSN={["2397-8562"]}, url={https://doi.org/10.1042/ETLS20200273}, DOI={10.1042/ETLS20200273}, number={2}, journal={EMERGING TOPICS IN LIFE SCIENCES}, publisher={Portland Press Ltd.}, author={Buckner, Eli and Tong, Haonan and Ottley, Chanae and Williams, Cranos}, editor={Jez, Joseph M. and Topp, Christopher N.Editors}, year={2021}, pages={239–248} }
 @article{kudenov_scarboro_altaqui_boyette_yencho_williams_2021, title={Internal defect scanning of sweetpotatoes using interactance spectroscopy}, volume={16}, ISSN={["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}, month={Feb} }
 @article{matthews_williams_2021, title={Multiscale Modeling of Cross-Regulatory Transcript and Protein Influences}, volume={2328}, ISBN={["978-1-0716-1533-1"]}, ISSN={["1940-6029"]}, DOI={10.1007/978-1-0716-1534-8_7}, journal={MODELING TRANSCRIPTIONAL REGULATION}, author={Matthews, Megan L. and Williams, Cranos M.}, year={2021}, pages={115–138} }
 @article{kudenov_altaqui_williams_2021, title={Snapshot spectral imaging using Solc-based multivariate optical filters and pixelated polarization cameras}, volume={11833}, ISSN={["1996-756X"]}, DOI={10.1117/12.2596580}, journal={POLARIZATION SCIENCE AND REMOTE SENSING X}, author={Kudenov, Michael W. and Altaqui, Ali and Williams, Cranos}, year={2021} }
 @inbook{buckner_madison_melvin_long_sozzani_williams_2020, title={BioVision Tracker: A semi-automated image analysis software for spatiotemporal gene expression tracking in Arabidopsis thaliana}, volume={160}, ISBN={9780128215333}, ISSN={0091-679X}, url={http://dx.doi.org/10.1016/bs.mcb.2020.04.017}, DOI={10.1016/bs.mcb.2020.04.017}, booktitle={Methods in Cell Biology}, publisher={Elsevier}, author={Buckner, Eli and Madison, Imani and Melvin, Charles and Long, Terri and Sozzani, Rosangela and Williams, Cranos}, year={2020}, pages={419–436} }
 @article{haque_lobaton_nelson_yencho_pecota_mierop_kudenov_boyette_williams_2020, title={Computer vision approach to characterize size and shape phenotypes of horticultural crops using high-throughput imagery}, volume={7}, url={https://doi.org/10.1101/2020.07.24.199539}, DOI={10.1101/2020.07.24.199539}, publisher={Cold Spring Harbor Laboratory}, 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={2020}, month={Jul} }
 @article{van den broeck_gordon_inzé_williams_sozzani_2020, title={Gene Regulatory Network Inference: Connecting Plant Biology and Mathematical Modeling}, volume={11}, ISSN={1664-8021}, url={http://dx.doi.org/10.3389/fgene.2020.00457}, DOI={10.3389/fgene.2020.00457}, journal={Frontiers in Genetics}, publisher={Frontiers Media SA}, author={Van den Broeck, Lisa and Gordon, Max and Inzé, Dirk and Williams, Cranos and Sozzani, Rosangela}, year={2020}, month={May} }
 @inbook{madison_melvin_buckner_williams_sozzani_long_2020, title={MAGIC: Live imaging of cellular division in plant seedlings using lightsheet microscopy}, volume={160}, ISBN={9780128215333}, ISSN={0091-679X}, url={http://dx.doi.org/10.1016/bs.mcb.2020.04.004}, DOI={10.1016/bs.mcb.2020.04.004}, booktitle={Methods in Cell Biology}, publisher={Elsevier}, author={Madison, Imani and Melvin, Charles and Buckner, Eli and Williams, Cranos and Sozzani, Rosangela and Long, Terri}, year={2020}, pages={405–418} }
 @article{matthews_wang_sederoff_chiang_williams_2020, title={Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa}, url={https://doi.org/10.1371/journal.pcbi.1007197}, DOI={10.1371/journal.pcbi.1007197}, journal={PLOS Computational Biology}, author={Matthews, Megan L. and Wang, Jack P. and Sederoff, Ronald and Chiang, Vincent L. and Williams, Cranos M.}, editor={Roy, SushmitaEditor}, year={2020}, month={Apr} }
 @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}, abstractNote={Plants integrate a wide range of cellular, developmental, and environmental signals to regulate complex patterns of gene expression. Recent advances in genomic technologies enable differential gene expression analysis at a systems level, allowing for improved inference of the network of regulatory interactions between genes. These gene regulatory networks, or GRNs, are used to visualize the causal regulatory relationships between regulators and their downstream target genes. Accordingly, these GRNs can represent spatial, temporal, and/or environmental regulations and can identify functional genes. This review summarizes recent computational approaches applied to different types of gene expression data to infer GRNs in the context of plant growth and development. Three stages of GRN inference are described: first, data collection and analysis based on the dataset type; second, network inference application based on data availability and proposed hypotheses; and third, validation based on in silico, in vivo, and in planta methods. In addition, this review relates data collection strategies to biological questions, organizes inference algorithms based on statistical methods and data types, discusses experimental design considerations, and provides guidelines for GRN inference with an emphasis on the benefits of integrative approaches, especially when a priori information is limited. Finally, this review concludes that computational frameworks integrating large-scale heterogeneous datasets are needed for a more accurate (e.g. fewer false interactions), detailed (e.g. discrimination between direct versus indirect interactions), and comprehensive (e.g. genetic regulation under various conditions and spatial locations) inference of GRNs.}, 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{matthews_wang_sederoff_chiang_williams_2019, title={Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa}, volume={6}, url={https://doi.org/10.1101/677047}, DOI={10.1101/677047}, publisher={Cold Spring Harbor Laboratory}, author={Matthews, Megan L. and Wang, Jack P. and Sederoff, Ronald and Chiang, Vincent L. and Williams, Cranos M.}, year={2019}, month={Jun} }
 @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}, ISSN={["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}, month={Dec} }
 @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}, ISSN={1932-6203}, url={http://dx.doi.org/10.1371/journal.pone.0193896}, DOI={10.1371/journal.pone.0193896}, number={3}, journal={PLOS ONE}, publisher={Public Library of Science (PLoS)}, author={Naik, Punith and Wang, Jack P. and Sederoff, Ronald and Chiang, Vincent and Williams, Cranos and Ducoste, Joel J.}, editor={Cullen, DanielEditor}, year={2018}, month={Mar}, pages={e0193896} }
 @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}, ISSN={2041-1723}, url={http://dx.doi.org/10.1038/s41467-018-03863-z}, DOI={10.1038/s41467-018-03863-z}, number={1}, journal={Nature Communications}, publisher={Springer Science and Business Media LLC}, author={Wang, Jack P. and Matthews, Megan L. and Williams, Cranos M. and Shi, Rui and Yang, Chenmin and Tunlaya-Anukit, Sermsawat and Chen, Hsi-Chuan and Li, Quanzi and Liu, Jie and Lin, Chien-Yuan and et al.}, year={2018}, month={Apr}, pages={1579} }
 @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_alexander_williams_2017, title={Finite Word Length Effects}, ISBN={["978-0-12-804547-3"]}, DOI={10.1016/b978-0-12-804547-3.00006-1}, journal={DIGITAL SIGNAL PROCESSING: PRINCIPLES, ALGORITHMS AND SYSTEM DESIGN}, author={Alexander, Winser E. and Williams, Cranos M. and Alexander, WE and Williams, CM}, 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}, ISSN={["0006-3002"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84995470767&partnerID=MN8TOARS}, DOI={10.1016/j.bbagrm.2016.07.017}, number={1}, journal={BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS}, author={Muhammad, Durreshahwar and Schmittling, Selene and Williams, Cranos and Long, Terri A.}, year={2017}, month={Jan}, 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_et al._2017, title={Predicting gene regulatory networks by combining spatial and temporal gene expression data in Arabidopsis root stem cells}, volume={114}, ISSN={["0027-8424"]}, 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, Rosangela and et al.}, year={2017}, month={Sep}, pages={E7632–E7640} }
 @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}, ISSN={["1752-9867"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84925201417&partnerID=MN8TOARS}, DOI={10.1016/j.molp.2014.12.003}, number={1}, journal={MOLECULAR PLANT}, author={Lin, Chien-Yuan and Wang, Jack P. and Li, Quanzi and Chen, Hsi-Chuan and Liu, Jie and Loziuk, Philip and Song, Jina and Williams, Cranos and Muddiman, David C. and Sederoff, Ronald R. and et al.}, year={2015}, month={Jan}, 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}, ISSN={["1932-6203"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84943338816&partnerID=MN8TOARS}, DOI={10.1371/journal.pone.0136591}, number={8}, journal={PLOS ONE}, author={Koryachko, Alexandr and Matthiadis, Anna and Muhammad, Durreshahwar and Foret, Jessica and Brady, Siobhan M. and Ducoste, Joel J. and Tuck, James and Long, Terri A. and Williams, Cranos}, year={2015}, month={Aug} }
 @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}, ISSN={["2168-2275"]}, DOI={10.1109/tcyb.2013.2286679}, number={8}, journal={IEEE TRANSACTIONS ON CYBERNETICS}, author={Balaguer, Maria A. de Luis and Williams, Cranos M.}, year={2014}, month={Aug}, 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 Acid:Coenzyme A Ligase Protein Complex Formation, Regulation, and Numerical Modeling}, volume={26}, ISSN={1040-4651 1532-298X}, url={http://dx.doi.org/10.1105/tpc.113.119685}, DOI={10.1105/tpc.113.119685}, number={3}, journal={The Plant Cell}, publisher={Oxford University Press (OUP)}, author={Chen, Hsi-Chuan and Song, Jina and Wang, Jack P. and Lin, Ying-Chung and Ducoste, Joel and Shuford, Christopher M. and Liu, Jie and Li, Quanzi and Shi, Rui and Nepomuceno, Angelito and et al.}, year={2014}, month={Mar}, 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}, ISSN={["0032-0889"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84874626790&partnerID=MN8TOARS}, DOI={10.1104/pp.112.210971}, number={3}, journal={PLANT PHYSIOLOGY}, author={Chen, Hsi-Chuan and Song, Jina and Williams, Cranos M. and Shuford, Christopher M. and Liu, Jie and Wang, Jack P. and Li, Quanzi and Shi, Rui and Gokce, Emine and Ducoste, Joel and et al.}, year={2013}, month={Mar}, 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, Cranos}, 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}, ISSN={["1432-2048"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-84865584315&partnerID=MN8TOARS}, DOI={10.1007/s00425-012-1663-5}, number={3}, journal={PLANTA}, publisher={Springer Science + Business Media}, author={Wang, Jack P. and Shuford, Christopher M. and Li, Quanzi and Song, Jina and Lin, Ying-Chung and Sun, Ying-Hsuan and Chen, Hsi-Chuan and Williams, Cranos M. and Muddiman, David C. and Sederoff, Ronald R. and et al.}, year={2012}, month={Sep}, 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, Cranos}, year={2012}, pages={1700–1705} }
 @article{marvel_williams_2012, title={Set membership experimental design for biological systems}, volume={6}, ISSN={["1752-0509"]}, DOI={10.1186/1752-0509-6-21}, journal={BMC SYSTEMS BIOLOGY}, author={Marvel, Skylar W. and Williams, Cranos M.}, year={2012}, month={Mar} }
 @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, Cranos}, year={2012}, pages={72–77} }