Article
Materials Science, Multidisciplinary
Zhihao Feng, Yifan Cheng, Alexandra Khlyustova, Aasim Wani, Trevor Franklin, Jeffrey D. Varner, Andrew L. Hook, Rong Yang
Summary: Amphiphilic copolymers (AP) are a class of antibiofouling materials that can be optimized by tuning their chemistry and composition. However, the large design space associated with AP makes optimization laborious. To address this, a machine learning approach is used to accurately predict biofilm formation on a library of AP, expanding the accessible design space and identifying best-performing candidates for experimental validation.
ADVANCED MATERIALS TECHNOLOGIES
(2023)
Article
Materials Science, Multidisciplinary
Hong Meng, Renwang Yu, Zhongyu Tang, Zihao Wen, Hulei Yu, Yanhui Chu
Summary: Establishing formation ability descriptors is essential for the discovery and design of high-entropy diborides (HEBs) with tailorable properties. In this study, an efficient combination of formation ability descriptors of HEBs is established through high-throughput synthesis, calculations, and machine learning approach. Four formation ability descriptors, including Pauling electronegativity difference (S & chi;P), average volume, average bulk modulus, and density difference, are proposed as the optimal combination for HEBs with 97.1% validation accuracy. The study highlights the significance of S & chi;P as the most important feature, indicating that smaller S & chi;P leads to more accessible synthesis of HEBs. This research is expected to facilitate the discovery and design of HEBs with tailorable properties.
Article
Materials Science, Multidisciplinary
Yonggang Yan, Zongrui Pei, Michael C. Gao, Scott Misture, Kun Wang
Summary: The interest in high entropy ceramics (HECs) has steadily increased due to their superior properties. Using a data-driven approach, a rational rule for designing single-phase high entropy transition metal diborides (HEBs) is discovered. The machine learning (ML) model trained on data collected via high-throughput experiments (HTEs) achieves an experimental validation accuracy of 93.75% with the K nearest neighbors (KNN) model. The empirical rule proposed indicates that HEBs tend to form a single phase when delta B_TM < 3.66 and multiphase otherwise, with a high accuracy of 93.33% for new HEBs predictions. Additionally, 165 high quality HEBs data are contributed, promoting the development of materials informatics in HEBs and accelerating the search for new HECs.
Article
Biochemical Research Methods
Lennard van Buren, Gijsje Hendrika Koenderink, Cristina Martinez-Torres
Summary: DisGUVery is an open-source software that automates the detection and analysis of GUVs in microscopy images, enabling high-throughput analysis and promoting quantitative data analysis in synthetic cell research.
ACS SYNTHETIC BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Emma J. Chory, Dana W. Gretton, Erika A. DeBenedictis, Kevin M. Esvelt
Summary: Researchers have developed Pyhamilton, an open-source Python platform for executing complex pipetting patterns required for high-throughput experiments. By integrating a plate reader, they were able to maintain nearly 500 remotely monitored bacterial cultures in log-phase growth without the need for user intervention. Using this technology, they successfully optimized bioreactor protein production and comprehensively sampled the carbon, nitrogen, and phosphorus fitness landscape.
MOLECULAR SYSTEMS BIOLOGY
(2021)
News Item
Multidisciplinary Sciences
Davide Castelvecchi
Summary: Computer scientists say that freely accessible large language models have accelerated the pace of innovation.
Article
Biochemical Research Methods
Vinicius Lube, Mehmet Alican Noyan, Alexander Przybysz, Khaled Salama, Ikram Blilou
Summary: Profiling plant root architecture is crucial for selecting resilient crops, but the available imaging tools are costly and stationary. Nondestructive high-throughput phenotyping of roots also remains challenging.
Article
Cell Biology
Wanda van der Stel, Huan Yang, Sylvia E. le Devedec, Bob van de Water, Joost B. Beltman, Erik H. J. Danen
Summary: Cells can adjust mitochondrial morphology to adapt to stress by altering the balance between mitochondrial fission and fusion. This study used high-throughput high-content confocal microscopy to investigate the effects of different oxidative phosphorylation complex inhibitors on mitochondrial parameters. It was found that complex V inhibitors caused mitochondrial fragmentation and cleavage of the fusion protein OPA1.
CELL BIOLOGY AND TOXICOLOGY
(2023)
Article
Cell Biology
Pavel Katunin, Jianbo Zhou, Ola M. Shehata, Andrew A. Peden, Ashley Cadby, Anton Nikolaev
Summary: Modern data analysis methods, such as optimization algorithms or deep learning, have been successfully applied to biotechnological and medical questions, requiring a large number of high-quality and reproducible experiments with automation. An open-source hardware and low-cost framework has been introduced for automatic high-throughput generation of cell biology data, demonstrating flexibility and adaptability to individual experimental needs.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biology
Raphael Vallat, Matthew P. Walker
Summary: The clinical and societal measurement of human sleep has increased significantly in recent years, however, basic and clinical sleep research still relies on human visual scoring. A novel algorithm is described in this paper, which offers high sleep-staging accuracy across different populations around the world.
Article
Agronomy
Huichun Zhang, Lu Wang, Xiuliang Jin, Liming Bian, Yufeng Ge
Summary: Acquisition of plant phenotypic information is crucial for plant breeding and gene regulation, as well as optimization of agricultural and forestry product quality. Optical sensors and data processing methods enable measurement of leaf morphological, physiological, and biochemical traits at various levels, facilitating rapid and accurate acquisition of plant leaf phenotypes.
Article
Computer Science, Artificial Intelligence
Rens van de Schoot, Jonathan de Bruin, Raoul Schram, Parisa Zahedi, Jan de Boer, Felix Weijdema, Bianca Kramer, Martijn Huijts, Maarten Hoogerwerf, Gerbrich Ferdinands, Albert Harkema, Joukje Willemsen, Yongchao Ma, Qixiang Fang, Sybren Hindriks, Lars Tummers, Daniel L. Oberski
Summary: The new open source machine learning framework ASReview, utilizing active learning and a variety of machine learning models, can efficiently and systematically check the literature for systematic reviews.
NATURE MACHINE INTELLIGENCE
(2021)
Article
Multidisciplinary Sciences
Rasha Atwi, Matthew Bliss, Maxim Makeev, Nav Nidhi Rajput
Summary: Computational tools provide a unique opportunity to study and design optimal materials by comprehending the connections between their atomistic structure and functional properties. The MISPR infrastructure seamlessly integrates classical molecular dynamics simulations with density functional theory to address challenges in automated workflow management and data provenance recording. It enables automated DFT and MD simulations, derivation of properties, and creation of output databases for reproducibility and transparency.
SCIENTIFIC REPORTS
(2022)
Article
Materials Science, Multidisciplinary
Kenneth S. Vecchio, Olivia F. Dippo, Kevin R. Kaufmann, Xiao Liu
Summary: This article presents a high-throughput rapid experimental alloy development method that integrates a closed-loop material screening process and artificial intelligence agent technology. It achieves a unified framework for computational identification, experimental preparation, and high-throughput analysis, preventing institutional knowledge loss and enabling the use of new experimental data in new design objectives.
Article
Chemistry, Multidisciplinary
Xinyu Li, Javen Qinfeng Shi, Alister J. Page
Summary: Despite the current challenges in commercial-scale graphene production using chemical vapor deposition (CVD), this study introduces a new approach combining high-throughput density functional theory and machine learning to identify new prospective catalyst materials with comparable performance to established catalysts. The approach discovered combinations of early- and late-transition metals, including unconventional partners like Zr, Hf, and Nb. This study highlights the importance of finding novel catalyst materials for CVD growth of low-dimensional nanomaterials.
Article
Hematology
Shauna L. French, Kirill R. Butov, Isabelle Allaeys, Jorge Canas, Golnaz Morad, Patricia Davenport, Audree Laroche, Natalia M. Trubina, Joseph E. Italiano, Marsha A. Moses, Martha Sola-Visner, Eric Boilard, Mikhail A. Panteleev, Kellie R. Machlus
Review
Hematology
Florian Puhm, Eric Boilard, Kellie R. Machlus
Summary: Extracellular vesicles (EVs) are a means of cell-to-cell communication, and platelets readily generate EVs upon activation, containing diverse cargo that can enter various bodily fluids. The importance of platelet-derived EVs extends beyond hemostasis, highlighting their physiological and pathological significance.
ARTERIOSCLEROSIS THROMBOSIS AND VASCULAR BIOLOGY
(2021)
Article
Hematology
Abdullah O. Khan, Rachel J. Stapley, Jeremy A. Pike, Susanne N. Wijesinghe, Jasmeet S. Reyat, Ibrahim Almazni, Kellie R. Machlus, Neil Morgan
Summary: The UK Genotyping and Phenotyping of Platelets study aimed to identify candidate gene mutations in 74 patients with platelet-based bleeding for future research. By using data frame indexing and a gene panel, novel and rare variants were identified, and patients were indexed against a murine RNA sequencing dataset to reveal candidate gene variants.
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2021)
Article
Medicine, General & Internal
William C. Chang, Joseph W. Jackson, Kellie R. Machlus, Alisa S. Wolberg, Mikhail V. Ovanesov
JOURNAL OF CLINICAL MEDICINE
(2020)
Editorial Material
Medicine, Research & Experimental
Eric Boilard, Kellie R. Machlus
Summary: Megakaryocytes give rise to platelets, but lung-residing MKs (MKL) also process and present antigens to activate CD4(+) lymphocytes, suggesting a potential role in immune processes beyond platelet production. This study highlights the genetic and phenotypic differences between lung MKs and bone marrow MKs, indicating a unique function of lung-residing MKs in immune responses.
JOURNAL OF CLINICAL INVESTIGATION
(2021)
Review
Hematology
Julia Tilburg, Isabelle C. Becker, Joseph E. Italiano
Summary: Platelets are derived from precursor cells called megakaryocytes (MKs), which have other functions apart from platelet production, such as immunomodulation or secretion.
Editorial Material
Hematology
Isabelle C. Becker, Joseph E. Italiano
Summary: In this study, the authors describe thrombopoiesis as a 3-step process and identify CRLF3 as a novel regulator of preplatelet maturation, suggesting its potential as a therapeutic target for ET treatment.
Review
Hematology
Andrew P. Stone, Emma Nikols, Daniela Freire, Kellie R. Machlus
Summary: This review provides a comprehensive overview of platelet-derived extracellular vesicles (PEVs) and highlights their historical link to thrombosis and hemostasis. It also discusses the roles that distinguish PEVs and megakaryocyte-derived extracellular vesicles (MKEVs) from their parent cells, as well as their involvement in disease pathology and their potential as novel therapeutics.
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2022)
Review
Hematology
Cian Desai, Milka Koupenova, Kellie R. Machlus, Anirban Sen Gupta
Summary: Platelets have roles beyond blood clotting, being implicated in other diseases. Nanomedicine and platelet-derived extracellular vesicles (PEVs) could be important components of future therapeutic developments.
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2022)
Editorial Material
Hematology
Eric Boilard, Kellie R. Machlus
Article
Hematology
William C. Chang, Joseph W. Jackson, Kellie R. Machlus, Alisa S. Wolberg, Mikhail V. Ovanesov
Summary: The study found that correction provided by the CAT algorithm is critical for detecting a subset of extremely procoagulant samples, such as elevated prothrombin, but is not necessary for all other conditions, including elevated factors XI and VIII.
RESEARCH AND PRACTICE IN THROMBOSIS AND HAEMOSTASIS
(2021)
Article
Hematology
Kirk A. Taylor, Kellie R. Machlus
RESEARCH AND PRACTICE IN THROMBOSIS AND HAEMOSTASIS
(2020)
Article
Hematology
Mary Cushman, Geoffrey D. Barnes, Mark A. Creager, Jose A. Diaz, Peter K. Henke, Kellie R. Machlus, Marvin T. Nieman, Alisa S. Wolberg
RESEARCH AND PRACTICE IN THROMBOSIS AND HAEMOSTASIS
(2020)