Article
Automation & Control Systems
Susruth Sudhakaran, Karl Montgomery, Mohamed Kashef, Dave Cavalcanti, Richard Candell
Summary: In this article, a methodology and models for evaluating a time sensitive collaborative robotics application enabled by wireless time sensitive networking (WTSN) capabilities are described. A method for configuring WTSN scheduling to meet the application time budget and validating it in an industrial use case is also presented. The performance of key WTSN capabilities, including time synchronization and time-aware scheduling, over an IEEE 802.11 based network are implemented and characterized. The performance of the wireless network is correlated to the application performance of a collaborative robotic workcell.
IEEE TRANSACTIONS ON INDUSTRIAL INFORMATICS
(2022)
Article
Radiology, Nuclear Medicine & Medical Imaging
Bastiaan W. K. Schipaanboord, Marta K. Gizynska, Linda Rossi, Kim C. Vries, Ben J. M. Heijmen, Sebastiaan Breedveld
Summary: A fully automated multicriterial treatment planning solution for CyberKnife equipped with InCise(TM) 2 multileaf collimator was proposed and validated. The automated plans showed clinical acceptability and dosimetric similarity to reference plans, with reduced beam and segment numbers as well as delivery times. This new optimization workflow offers the potential for high-quality, deliverable plans with time and resource savings compared to manual planning.
Article
Biochemical Research Methods
George Bouras, Anna E. Sheppard, Vijini Mallawaarachchi, Sarah Vreugde
Summary: With recent advances in sequencing technologies, it is now possible to obtain complete bacterial chromosome assemblies cheaply and efficiently. However, existing methods often misassemble or miss bacterial plasmids and require manual curation. Plassembler provides an automatic tool that assembles and outputs bacterial plasmids using a hybrid assembly approach, achieving increased accuracy and computational efficiency compared to existing tools like Unicycler.
Review
Biotechnology & Applied Microbiology
Audrey Masi, Robert L. Mach, Astrid R. Mach-Aigner
Summary: The pentose phosphate pathway (PPP) is a key pathway in metabolic engineering, providing NADPH and playing a role in the production of various compounds in fungi. Understanding the regulatory mechanisms of PPP can lead to targeted engineering and improved performance in industrial fungal strains.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemical Research Methods
Barbara Bodinier, Dragana Vuckovic, Sabrina Rodrigues, Sarah Filippi, Julien Chiquet, Marc Chadeau-Hyam
Summary: In this study, we extend consensus clustering to allow for attribute weighting and propose a calibration procedure based on the sharp score. Our simulation study demonstrates the better clustering performance of the proposed approach in the presence of non-contributing features and the superiority of weighted over unweighted methods. Application on real data reveals clear clusters corresponding to different subtypes of lung cancer.
Review
Engineering, Biomedical
Hui Dong, Bo Hu, Weikang Zhang, Wantao Xie, Jin Mo, Hao Sun, Junyi Shang
Summary: In situ bioprinting, a technology that allows for precise positioning of living cells, growth factors, and biomaterials in tissue and organ engineering, has gained significant interest from academia and industry. By combining innovations in biomaterials, tissue engineering, and digitalization, especially robotics, in situ bioprinting shows great potential for clinical studies. This article reviews the progress of in situ bioprinting, with a focus on robotic-assisted studies, and discusses the different modalities and robot configurations used in this field.
INTERNATIONAL JOURNAL OF BIOPRINTING
(2023)
Article
Automation & Control Systems
Changsheng Dai, Songlin Zhuang, Guanqiao Shan, Changhai Ru, Zhuoran Zhang, Yu Sun
Summary: This article presents an automated end-effector alignment technique for robotic micromanipulation. By adding a rotational degree of freedom and designing a sliding mode controller, the technique achieves higher success rate and lower time cost.
IEEE-ASME TRANSACTIONS ON MECHATRONICS
(2022)
Article
Automation & Control Systems
Changsheng Dai, Songlin Zhuang, Guanqiao Shan, Changhai Ru, Zhuoran Zhang, Yu Sun
Summary: This article presents automated end-effector alignment in robotic micromanipulation, achieving more accurate alignment and faster time cost compared to manual alignment. By adding rotational degrees of freedom and designing a sliding mode controller, the developed technique demonstrated a higher success rate and significantly less time cost for end-effector alignment.
IEEE-ASME TRANSACTIONS ON MECHATRONICS
(2022)
Review
Biochemical Research Methods
Laura Kuschmierz, Lu Shen, Christopher Braesen, Jacky Snoep, Bettina Siebers
Summary: This article discusses the challenges of D-xylose bioconversion, pointing out that the lack of knowledge on the kinetic properties of enzymes involved is the main obstacle. The authors propose a combination of traditional enzyme characterization and mathematical modeling as a workflow for rational, model-based design to optimize enzyme cascades and/or whole cell biocatalysts for efficient D-xylose metabolism.
CURRENT OPINION IN BIOTECHNOLOGY
(2022)
Article
Computer Science, Interdisciplinary Applications
Khashayar Asadi, Varun R. Haritsa, Kevin Han, John-Paul Ore
Summary: This paper presents a mobile robotic system for construction applications that can identify objects through vision and perform operations. The system integrates scene understanding, autonomous navigation, and object grasping, achieving operations on objects of interest through a global-to-local control planning strategy.
JOURNAL OF COMPUTING IN CIVIL ENGINEERING
(2021)
Article
Energy & Fuels
Italo de Andrade Bianchini, Luciane Sene, Mario Antonio Alves da Cunha, Maria das Gracas de Almeida Felipe
Summary: In this study, a short-term adaptation strategy was proposed to enhance xylitol production on sugarcane bagasse hemicellulosic hydrolysate by improving Candida guilliermondii FTI 20037 tolerance to inhibitors. The adaptation strategy resulted in increased xylose assimilation and xylitol production, as well as improved xylitol yield and productivity in the hydrolysates. Additionally, yeast adaptation led to enhanced arabinose consumption and decreased glycerol production, indicating increased tolerance to inhibitors. Overall, short-term adaptation proved to be an efficient strategy to enhance yeast tolerance and fermentative performance on sugarcane bagasse hemicellulosic hydrolysate.
BIOENERGY RESEARCH
(2022)
Article
Computer Science, Artificial Intelligence
Mustafa Kocakulak, Adem Avci, Nurettin Acir
Summary: This study investigates the effect of the self-attention mechanism on the performance of finger-vein and hand dorsal vein verification using convolutional neural networks. The experimental results suggest the potential effectiveness of the self-attention mechanism for automated vein verification.
EXPERT SYSTEMS WITH APPLICATIONS
(2023)
Article
Computer Science, Interdisciplinary Applications
Rishi K. Malhan, Aniruddha Shembekar, Ariyan M. Kabir, Prahar M. Bhatt, Brual Shah, Scott Zanio, Steven Nutt, Satyandra K. Gupta
Summary: Hand layup is a commonly used process for making composite structures, but it is laborious and limits throughput. We have developed a multi-robot cell to automate the layup process, using a hybrid-physics simulator and state space search to generate feasible trajectories. The system is computationally efficient and can handle a wide variety of complex parts.
ROBOTICS AND COMPUTER-INTEGRATED MANUFACTURING
(2021)
Article
Biotechnology & Applied Microbiology
Minhye Shin, Heeyoung Park, Sooah Kim, Eun Joong Oh, Deokyeol Jeong, Clarissa Florencia, Kyoung Heon Kim, Yong-Su Jin, Soo Rin Kim
Summary: The deletion of GCR2 gene has been identified to have a significant impact on xylose fermentation in Saccharomyces cerevisiae, leading to the upregulation of PPP genes and downregulation of glycolytic genes, particularly under xylose conditions. Although there was no synergistic effect between Delta pho13 and Delta gcr2 in improving xylose fermentation, the results suggest that GCR2 is a novel knockout target for enhancing lignocellulosic ethanol production.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2021)
Article
Engineering, Electrical & Electronic
Tero Kaarlela, Paulo Padrao, Tomi Pitkaaho, Sakari Pieska, Leonardo Bobadilla
Summary: Digital technology has transformed the way information is processed, replacing traditional methods such as reading and writing with web searches, social platforms, internet forums, and video games. Trainers and educators face the challenge of providing natural learning environments for digital-natives, which includes virtual spaces in addition to physical ones. Digital twins allow trainees to interact with real hardware in virtual training environments, especially for robot operators. By utilizing virtual environments with digital twins and extended reality, natural and effective robotic training scenarios can be achieved. These scenarios are validated using cross-platform client devices for extended reality implementations and safety training applications.
Article
Mycology
Eric T. Johnson, Robert H. Proctor, Christopher A. Dunlap, Mark Busman
MYCOTOXIN RESEARCH
(2018)
Article
Biotechnology & Applied Microbiology
Lina B. Flor-Weiler, Robert W. Behle, Eric T. Johnson, Daniel A. Strickman, Alejandro P. Rooney
BIOCONTROL SCIENCE AND TECHNOLOGY
(2019)
Article
Horticulture
Guirong Zhang, Mohammad Babadoost, Alan De Young, Eric T. Johnson, David A. Schisler
Article
Microbiology
Eric T. Johnson, Christopher A. Dunlap
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2019)
Article
Microbiology
Eric T. Johnson, Michael J. Bowman, Christopher A. Dunlap
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2020)
Article
Microbiology
Eric T. Johnson, Patrick F. Dowd, Christopher D. Skory, Christopher A. Dunlap
Summary: A novel strain of Cohnella bacterium named Cohnella zeiphila sp. nov. was isolated from a culture of maize callus in Peoria, Illinois, United States. Through phenotypic, phylogenetic, and genomic analysis, the strain was confirmed to be unique within the Cohnella genus. This study also presents genome data for five type strains of Cohnella species, contributing to a better understanding of this genus.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2021)
Article
Food Science & Technology
Weibin Ma, Eric T. Johnson
Summary: This study identified sorbaldehyde and (E,E)-2,4-heptadienal as effective fumigants against Aspergillus flavus in stored peanut seeds. (E,E)-2,4-heptadienal showed higher fumigant activity and better safety than sorbaldehyde, making it a promising antifungal agent for protecting peanut seeds from contamination during storage.
Article
Biotechnology & Applied Microbiology
Patrick F. Dowd, Eric T. Johnson
Summary: Plant resistance factors can affect the efficacy of insect fungal pathogens. Different levels of resistance in maize varieties can influence the effectiveness of Beauveria bassiana strains. Damage caused by Fusarium graminearum infection in maize is correlated with the mortality levels of B. bassiana treated caterpillars.
BIOCONTROL SCIENCE AND TECHNOLOGY
(2022)
Article
Food Science & Technology
Weibin Ma, Luling Zhao, Eric T. Johnson, Yanli Xie, Mingming Zhang
Summary: This study found that natural food flavour (E)-2-hexenal exhibits antifungal activity on Aspergillus flavus conidia through a ROS-dependent mitochondrial apoptotic pathway.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2022)
Article
Plant Sciences
Todd A. Naumann, Guixia Hao, Patrick F. Dowd, Eric T. Johnson, Michael J. Naldrett, Neil P. J. Price
Summary: In this study, a new protease called Vd-DUMP was discovered, which can cleave the defense-related protein CRR1 and induce cell death. This study demonstrates the importance of DUF26 proteins in the plant defense mechanism.
PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY
(2023)
Article
Astronomy & Astrophysics
Alexander I. Smith, Eric T. Johnson, Zhi Chen, Kiran Eiden, Donald E. Willcox, Brendan Boyd, Lyra Cao, Christopher J. DeGrendele, Michael Zingale
Summary: We present pynucastro 2.0, an open-source library that allows interactive creation and exploration of astrophysical nuclear reaction networks. We introduce new approximating methods for reaction rates and utilize detailed balance to generate reverse rates. We also discuss how to build and evaluate networks for specific scientific applications, and highlight the recent updates to the library. Finally, we demonstrate the validity of the generated networks and explain how they are used in simulation codes.
ASTROPHYSICAL JOURNAL
(2023)
Correction
Food Science & Technology
Weibin Ma, Luling Zhao, Eric T. Johnson, Yanli Xie, Mingming Zhang
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Eric Johnson, Rebecca Lyon, David Zaitlin, Abdul Burhan Khan, Mohammad Aman Jairajpuri
Summary: Protein transporters are responsible for transporting essential metabolites across membranes. Little is known about the functions and gene expression levels of membrane transporters produced by downy mildew causing plant pathogens during infection. This study identified approximately 170-190 nonredundant transporter genes in the genomes of three Peronospora species and found several genes that are likely critical for pathogenesis.
Meeting Abstract
Plant Sciences
G. Zhang, M. Babadoost, A. De Young, E. T. Johnson, D. A. Schisler
Article
Multidisciplinary Sciences
Guirong Zhang, Arthur Thompson, David Schisler, Eric T. Johnson