Article
Chemistry, Multidisciplinary
Shinya Yamahira, Ryuji Misawa, Takahiro Kosaka, Mondong Tan, Shin Izuta, Hayato Yamashita, Yuji Heike, Akimitsu Okamoto, Teruyuki Nagamune, Satoshi Yamaguchi
Summary: This study presents a method for accurately positioning multiple types of cells using a photoactivatable material. The material can anchor cells through lipid-cell membrane interactions, and the anchoring can be activated using light exposure. The technique holds promise for high-throughput analysis of individual cell-cell communication.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Daniel Saliba, Tuan Trinh, Christophe Lachance-Brais, Alexander L. Prinzen, Felix J. Rizzuto, Donatien de Rochambeau, Hanadi F. Sleiman
Summary: This research introduces a novel DNA nanotweezer that achieves simultaneous, asymmetric elongation of the molecular core through PCR, enabling the DNA tweezer to have a wider range of motion and the ability to respond to complex stimuli. The DNA nanotweezer can wrap around multiple streptavidin units, providing site-specific streptavidin recognition capability.
Article
Chemistry, Multidisciplinary
Sreejana Ray, Desiree Tillo, Stewart R. Durell, Syed Khund-Sayeed, Charles Vinson
Summary: NFATc2 is a DNA binding protein that shows differential binding to various types of DNA, with stronger binding observed when both cytosines in the CG dinucleotide are methylated.
Article
Chemistry, Multidisciplinary
Lisa Hecker, Wenyu Wang, Ioanna Mela, Saeed Fathi, Chetan Poudel, Giancarlo Soavi, Yan Yan Shery Huang, Clemens F. Kaminski
Summary: The study presents a method for assembling amyloid-polymer hybrid fibers using core-shell electrospinning with microconfinement. It demonstrates that microscale confinement is crucial for guiding the assembly of amyloids.
Article
Physics, Applied
Quansan Yang, Ye Gao, Feng He, Pengfei Hao
Summary: The study introduces a new method for achieving uniform deposition of colloidal droplets during drying using forced airflow, which effectively eliminates the coffee-ring effect. Experimental results demonstrate the potential for diverse applications of this strategy in both industrial and scientific fields.
JOURNAL OF APPLIED PHYSICS
(2021)
Article
Biochemical Research Methods
Huma Shehwana, Shwetha Kumar, James M. Melott, Mary A. Rohrdanz, Chris Wakefield, Zhenlin Ju, Doris R. Siwak, Yiling Lu, Bradley M. Broom, John N. Weinstein, Gordon B. Mills, Rehan Akbani
Summary: Reverse-Phase Protein Array (RPPA) is a platform for quantitatively measuring proteins in biological specimens. Converting raw data into normalized, analysis-ready data remains challenging. RPPA SPACE is an improved tool that enhances data quality and has simpler input requirements and higher flexibility.
Review
Biochemical Research Methods
Sunil Shrestha, Vinod Kumar Reddy Lekkala, Prabha Acharya, Darshita Siddhpura, Moo-Yeal Lee
Summary: This article discusses the traditional methods of spheroid and multicellular tissue cultures in 3D cell culture, as well as the technical challenges involved. It also introduces the use of droplet-based, miniature 3D bioprinting to enhance assay throughput and reproducibility for high-throughput, predictive screening of compounds. Various platforms for miniature spheroid and tissue cultures via microarray 3D bioprinting are presented.
Article
Multidisciplinary Sciences
Veneta Gerganova, Iker Lamas, David M. Rutkowski, Aleksandar Vjestica, Daniela Gallo Castro, Vincent Vincenzetti, Dimitrios Vavylonis, Sophie G. Martin
Summary: Cells self-organize through polarized exocytosis inducing lateral membrane flows away from insertion sites, depleting membrane-associated proteins in secretion areas and restricting GTPase activity zones. These membrane flows are crucial for shaping cell morphology and maintaining negative feedback to control Cdc42 activity zones.
Article
Biochemistry & Molecular Biology
Xiaomei Xu, Raphael Rachedi, Maryline Foglino, Emmanuel Talla, Amel Latifi
Summary: This study identified key factors involved in cell differentiation and pattern formation in cyanobacteria, using a bacterial model. By exploring their physical interactions, evolutionary conservation, and distribution, a protein network was constructed to explain the development and formation of heterocysts. These findings provide important insights into the mechanisms of pattern establishment in cyanobacteria.
MOLECULAR GENETICS AND GENOMICS
(2022)
Article
Oncology
Alicia Landeira-Vinuela, Miguel Alcoceba-Sanchez, Almudena Navarro-Bailon, Carlota Arias-Hidalgo, Pablo Juanes-Velasco, Jose Manuel Sanchez-Santos, Quentin Lecrevisse, Carlos Eduardo Pedreira, Marina L. Garcia-Vaquero, Angela-Patricia Hernandez, Enrique Montalvillo, Rafael Gongora, Javier de las Rivas, Marcos Gonzalez-Diaz, Alberto Orfao, Manuel Fuentes
Summary: Clonal B cell expansion in chronic lymphocytic leukemia may be triggered by persistent antigenic stimulation. Studying the dynamics of the humoral response in these patients can provide information about immunoglobulin levels and identify compromising antigens. This study offers a new perspective for patient stratification and targeted therapy selection.
Article
Chemistry, Multidisciplinary
Emmanuel Delamarche, Iago Pereiro, Aditya Kashyap, Govind Kaigala
Summary: This article summarizes the themes presented in a recent Langmuir Lecture on patterning biomolecules on surfaces, miniaturizing surface assays, and interacting with biointerfaces using microcontact printing, microfluidic networks, and microfluidic probes.
Article
Cell Biology
Alexandre Chuyen, Charlotte Rulquin, Fabrice Daian, Virginie Thome, Raphael Clement, Laurent Kodjabachian, Andrea Pasini
Summary: The emergence of regular patterns of multiciliated cells in Xenopus embryonic epidermis involves mutual repulsion among immature MCCs and affinity toward outer-layer intercellular junctions. Arp2/3-mediated actin remodeling is necessary for MCC patterning. The Kit tyrosine kinase receptor and its ligand Scf play crucial roles in the regular distribution of MCCs.
DEVELOPMENTAL CELL
(2021)
Article
Materials Science, Multidisciplinary
G. L. Klimchitskaya, V. M. Mostepanenko, E. N. Velichko
Summary: The presence of a graphene sheet can change the Casimir pressure in peptide films deposited on metallic substrates from repulsive to attractive. The effects are influenced by the chemical potential and energy gap of the graphene sheet.
Article
Engineering, Biomedical
Naiana Suter, Sophie Stebel, Carmela Rianna, Manfred Radmacher, Dorothea Bruegemann
Summary: Current knowledge on cell-biomaterial interactions is largely based on 2D cell culture systems, but transferring results to 3D protein scaffolds with biomimetic nanofiber structures remains a challenge. By fabricating binary collagen scaffolds with variable thickness and topographies, researchers were able to observe differences in cell responses to different protein topographies, indicating potential for further understanding topography-dependent cell recognition processes.
Editorial Material
Biochemistry & Molecular Biology
Brian A. Camley
Summary: In this study, Palmquist et al. (2022) successfully reconstitute the ordered follicle pattern of avian skin ex vivo and demonstrate that this pattern can be generated by a mechanical instability resulting from cell contractility driving tissue flow.
Article
Biophysics
S. Dobroiu, F. C. M. J. M. van Delft, J. Aveyard-Hanson, Prasad Shetty, D. V. Nicolau
BIOSENSORS & BIOELECTRONICS
(2019)
Article
Biophysics
Kathryn F. A. Clancy, Sebastien Dery, Veronique Laforte, Prasad Shetty, David Juncker, Dan V. Nicolau
BIOSENSORS & BIOELECTRONICS
(2019)
Review
Biology
Falco C. M. J. M. van Delft, Giulia Ipolitti, Dan V. Nicolau, Ayyappasamy Sudalaiyadum Perumal, Ondrej Kasper, Sara Kheireddine, Sebastian Wachsmann-Hogiu, Dan V. Nicolau
Article
Multidisciplinary Sciences
Marie Held, Ondrej Kaspar, Clive Edwards, Dan V. Nicolau
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Correction
Biology
Falco C. M. J. M. van Delft, Giulia Ipolitti, Dan V. Nicolau, Ayyappasamy Sudalaiyadum Perumal, Ondrej Kaspar, Sara Kheireddine, Sebastian Wachsmann-Hogiu, Dan V. Nicolau
Article
Physics, Multidisciplinary
Falco C. M. J. M. van Delft, Ayyappasamy Sudalaiyadum Perumal, Anja van Langen-Suurling, Charles de Boer, Ondrej Kaspar, Viola Tokarova, Frank W. A. Dirne, Dan Nicolau
Summary: Research suggests that protein-driven molecular motors in cytoskeletal filaments and autonomously moving bacteria can serve as computational paradigms and alternatives for solving small-scale NP-complete problems. Before scaling up to large computational networks, it is necessary to characterize bacterial motility in various geometrical structures and optimize the stochastic traffic splitting in computational device junctions.
NEW JOURNAL OF PHYSICS
(2021)
Article
Physics, Multidisciplinary
Jingyuan Zhu, Till Korten, Hillel Kugler, Falco van Delft, Alf Mansson, Danny Reuter, Stefan Diez, Heiner Linke
Summary: The research focuses on network-based biocomputation (NBC), a massively parallel approach for solving large NP-complete problem instances. By utilizing biological agents, NBC computers demonstrate higher energy efficiency and greater availability in large numbers compared to electronic computers.
NEW JOURNAL OF PHYSICS
(2021)
Article
Physics, Multidisciplinary
Ayyappasamy Sudalaiyadum Perumal, Zihao Wang, Giulia Ippoliti, Falco C. M. J. M. van Delft, Lila Kari, Dan Nicolau
Summary: Existing algorithms for solving NP-complete problems face limitations in practical application due to the exponential growth in solution space, leading to alternative massively parallel computing approaches such as DNA computing and network biocomputing with agents. While these alternatives show promise in certain performance criteria compared to electronic computing, they each have their own limitations in terms of volume, computing time, and energy efficiency, suggesting the need for breakthroughs or hybrid computing approaches to overcome these challenges.
NEW JOURNAL OF PHYSICS
(2021)
Review
Nanoscience & Nanotechnology
Falco C. M. J. M. van Delft, Alf Mansson, Hillel Kugler, Till Korten, Cordula Reuther, Jingyuan Zhu, Roman Lyttleton, Thomas Blaudeck, Christoph Robert Meinecke, Danny Reuter, Stefan Diez, Heiner Linke
Summary: Network-based biocomputation is an alternative parallel computing approach that can potentially solve combinatorial problems with lower energy consumption. Although there have been advancements in proof-of-principle experiments, there are still challenges in scaling up NBC to an industrial level. A roadmap identifying key scientific and technological needs can provide guidance for this expansion.
Article
Chemistry, Physical
Christoph R. Meinecke, Georg Heldt, Thomas Blaudeck, Frida W. Lindberg, Falco C. M. J. M. van Delft, Mohammad Ashikur Rahman, Aseem Salhotra, Alf Mansson, Heiner Linke, Till Korten, Stefan Diez, Danny Reuter, Stefan E. Schulz
Summary: Network-based biocomputation (NBC) relies on nanofabricated channels to guide biological agents accurately. In this study, we present the large-scale fabrication of optimized microfluidic channel networks (NBC networks) using electron-beam lithography. To confirm their functionality, we solve a classical NP-complete problem, the subset-sum problem, on these NBC networks. By optimizing the material stack, nanolithographic fabrication processes, and motor-protein expression and purification, we improve the attachment of functional motor proteins, the smoothness of channel walls and floors, and the motility of filaments. These optimizations increase the reliability of NBC devices and enable the production of larger NBC networks for solving complex combinatorial problems.
Article
Biochemical Research Methods
Sara Kheireddine, Ayyappasamy Sudalaiyadum Perumal, Zachary J. Smith, Dan V. Nicolau, Sebastian Wachsmann-Hogiu
Proceedings Paper
Engineering, Electrical & Electronic
Monalisha Nayak, Ayyappasamy Sudalaiyadum Perumal, Dan V. Nicolau, Falco C. M. J. M. van Delft
2018 16TH IEEE INTERNATIONAL NEW CIRCUITS AND SYSTEMS CONFERENCE (NEWCAS)
(2018)
Article
Engineering, Electrical & Electronic
Bruno Galizia, Patrick Fiorenza, Corrado Bongiorno, Bela Pecz, Zsolt Fogarassy, Emanuela Schiliro, Filippo Giannazzo, Fabrizio Roccaforte, Raffaella Lo Nigro
Summary: This study demonstrates the growth of oriented AlN thin films on 4H-SiC substrates using PE-ALD technique, and investigates the impact of NH3 plasma pulsing on the microstructure and orientation degree of the AlN layers. The structural characterization reveals different polymorphic structures depending on the NH3 plasma pulsing time, and electrical nanoscopic characterization shows a correlation between the AlN crystalline phases and the insulating properties.
MICROELECTRONIC ENGINEERING
(2024)
Article
Engineering, Electrical & Electronic
Theo Levert, Alter Zakhtser, Julien Duval, Chloe Raguenez, Stephane Verdier, Delphine Le Cunff, Jean-Herve Tortai, Bernard Pelissier
Summary: In this study, the robustness of optical constants and optical band gap determination of three different materials is compared using a combination of spectroscopic ellipsometry and energy loss signal of X-ray photoelectron spectroscopy. The hybridization of these two techniques provides a new robust method for determining the band gap of the studied materials and other optical properties over a wide energy range.
MICROELECTRONIC ENGINEERING
(2024)