Review
Immunology
Timothy G. Wanninger, Daniel E. Millian, Omar A. Saldarriaga, Junki Maruyama, Takeshi Saito, Rachel A. Reyna, Satoshi Taniguchi, Esteban Arroyave, Melanie E. Connolly, Heather L. Stevenson, Slobodan Paessler
Summary: Macrophages contribute to Ebola virus disease through their susceptibility to direct infection, their multi-faceted response to ebolaviruses, and their association with pathological findings in tissues throughout the body.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Review
Pathology
Stefania Caramaschi, Meghan E. Kapp, Sara E. Miller, Rosana Eisenberg, Joyce Johnson, Garretson Epperly, Antonino Maiorana, Guido Silvestri, Giovanna A. Giannico
Summary: Pathological findings from autopsy and biopsy studies of COVID-19 patients reveal main features of diffuse alveolar damage, thromboembolism, and nonspecific shock injury in multiple organs. Additionally, it suggests a unifying pathogenic mechanism for COVID-19 as ARDS with inflammatory response, cytokine release, fever, inflammation, and generalized endothelial disturbance.
Article
Multidisciplinary Sciences
L. G. M. Heezen, T. Abdelaal, M. van Putten, A. Aartsma-Rus, A. Mahfouz, P. Spitali
Summary: Using spatial transcriptomics, the authors identified gene expression signatures related to the histopathological changes in Duchenne mouse models. This study provides valuable insights into the underlying pathology and potential therapeutic targets for Duchenne muscular dystrophy.
NATURE COMMUNICATIONS
(2023)
Review
Genetics & Heredity
Cesare Massone, Rainer Hofman-Wellenhof, Stefano Chiodi, Simona Sola
Summary: Dermoscopy is a non-invasive technique that allows visualization of skin structures and plays a key role in evaluating melanocytic skin tumors. Histopathology remains the gold standard in diagnosing melanocytic skin tumors. Research on the correlation between dermoscopic features of melanoma and genetic alterations is essential for improving diagnostic accuracy.
Article
Urology & Nephrology
Jia-Fong Jhang, Yung-Hsiang Hsu, Yuan-Hong Jiang, Han-Chen Ho, Hann-Chorng Kuo
Summary: The study examined the clinical significance of ESSIC bladder histopathological classification on treatment outcomes for patients with interstitial cystitis/bladder pain syndrome. Results showed that patients with histopathological findings had more favorable treatment outcomes compared to those without such findings.
JOURNAL OF UROLOGY
(2021)
Article
Critical Care Medicine
Renata Aparecida de Almeida Monteiro, Amaro Nunes Duarte-Neto, Luiz Fernando Ferraz da Silva, Ellen Pierre de Oliveira, Ellen Caroline Toledo do Nascimento, Thais Mauad, Paulo Hilario do Nascimento Saldiva, Marisa Dolhnikoff
Summary: This study assessed the utility of lung ultrasound (LUS) imaging in characterizing lung damage severity in COVID-19 cases. Positive correlations were found between fibroproliferative DAD and consolidation in ultrasound findings. A predictive model combining various factors showed reasonably good prediction of lung parenchyma with fibroproliferative DAD.
INTENSIVE CARE MEDICINE
(2021)
Article
Multidisciplinary Sciences
Lei Jin, Tianyang Sun, Xi Liu, Zehong Cao, Yan Liu, Hong Chen, Yixin Ma, Jun Zhang, Yaping Zou, Yingchao Liu, Feng Shi, Dinggang Shen, Jinsong Wu
Summary: Accurate pathological classification and grading of gliomas is crucial in clinical diagnosis and treatment. In this study, deep learning techniques were used for automated histological pathology diagnosis of gliomas. The model showed high accuracy in both internal validation and multi-center testing.
Review
Pathology
Lin Cheng, Natalia Lashmanova, Swathi B. Reddy, Lei Yan, Paolo Gattuso
Summary: Routine histopathological examination of hernia sac in adults remains controversial. A retrospective study was conducted to assess the clinical benefits of pathological examination of hernia sac specimens. The study found that among 5424 hernia sac specimens, 32 (0.59%) had malignancies, with 25 of them located in the umbilical region. Half of the malignancies presented as primary clinical manifestations of the diseases, while the other half were previously known tumors. Routine histopathological examination of hernia sac in adults is recommended for providing important clinical information.
INTERNATIONAL JOURNAL OF SURGICAL PATHOLOGY
(2023)
Article
Chemistry, Physical
Peter Sun, John A. Marohn
Summary: Simulation is crucial in designing and developing scientific experiments. Traditional procedural coding in simulations of complex experiments can be prone to errors, difficult to understand, and inflexible when incorporating changes. mmodel, a Python framework, offers a graph-theory approach to represent experiment steps and can modify its own code to accommodate updates like parameter looping. This framework aims to reduce duplication, enhance code clarity and testability, and expedite development time.
JOURNAL OF CHEMICAL PHYSICS
(2023)
Review
Pathology
Vishwajit Deshmukh, Rohini Motwani, Ashutosh Kumar, Chiman Kumari, Khursheed Raza
Summary: This study reviewed and summarized the histopathological changes in different organs of COVID-19 patients, with findings including respiratory, cardiovascular, and nervous system involvement. It was observed that elderly patients and those with comorbidities are more susceptible to the effects of the virus.
JOURNAL OF CLINICAL PATHOLOGY
(2021)
Article
Engineering, Marine
Lin Lu, Cisong Gao, Fei Li, Dongxiao Zhang, Xuepu Yan, Qiang Li, Yanxiao Hu
Summary: This study investigates the tail-slapping behavior of an oblique water-entry projectile using high-speed photography technology. The experimental images and data are captured, extracted and processed using digital image processing. The study examines the impact of tail-slapping motion on the evolution of the projectile's cavity by analyzing its formation, development, and collapse process. It also explores the characteristics of the tail-slapping cavity and the original cavity at different initial water-entry speeds.
JOURNAL OF MARINE SCIENCE AND ENGINEERING
(2023)
Review
Dermatology
Maryam Khalili, Behzad Iranmanesh, Saman Mohammadi, Mahin Aflatoonian
Summary: The prevalence of dermatological manifestations of coronavirus disease 2019 (COVID-19) in children and adolescents is estimated to be between 0.25% and 3%. Skin lesions in pediatric COVID-19 patients include various types such as chilblain-like, erythema multiforme-like, and acral erythema, with most patients being asymptomatic or having few general symptoms. The skin manifestations typically fade without any sequela within a few days to weeks.
DERMATOLOGIC THERAPY
(2021)
Article
Biochemistry & Molecular Biology
Maria Arroyo-Araujo, Bernhard Voelkl, Clement Laloux, Janja Novak, Bastijn Koopmans, Ann-Marie Waldron, Isabel Seiffert, Helen Stirling, Katharina Aulehner, Sanna K. Janhunen, Sylvie Ramboz, Heidrun Potschka, Johanna Holappa, Tania Fine, Maarten Loos, Bruno Boulanger, Hanno Wurbel, Martien J. Kas
Summary: This study investigates the influence of protocol standardization on the replicability of preclinical results in animal studies. The results show that harmonizing protocols across laboratories can reduce between-lab variability, but introducing systematic variation of environmental factors within laboratories does not have an impact on behavioral outcomes. These findings highlight the importance of transparent reporting and independent study replication.
Article
Multidisciplinary Sciences
Andrew Delios, Elena Giulia Clemente, Tao Wu, Hongbin Tan, Yong Wang, Michael Gordon, Domenico Viganola, Zhaowei Chen, Anna Dreberb, Magnus Johannesson, Thomas Pfeiffer, Eric Luis Uhlmann
Summary: This study systematically examined the generalizability of a large set of archival research findings across different contexts. The findings showed that 45% of the replicated tests in different time periods and geographies matched the original reports. For the findings that could be directly reproduced, 84% were also observed in other available time periods and 57% were observed in other geographies. Overall, the study suggested limited empirical evidence for context sensitivity.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Cardiac & Cardiovascular Systems
Zuyi Fu, Zili Liao, Jinlin Zhang, Xianzhang Zhan, Weidong Lin, Fang Zhou Liu, Xi Su, Hai Deng, Xianhong Fang, Hongtao Liao, Hongyue Wang, Shulin Wu, Yumei Xue, Feifan Ouyang
Summary: This study aimed to identify far-field and near-field His activation in the left upper septum and evaluate the effect of ablation on atrioventricular conduction. The results showed that anatomical localization helped differentiate far-field from near-field His activation.
FRONTIERS IN CARDIOVASCULAR MEDICINE
(2022)
Article
Dermatology
Sarah C. Linn, Allison M. Mustonen, Kathleen A. Silva, Victoria E. Kennedy, Beth A. Sundberg, Lesley S. Bechtold, Sarah Alghamdi, Robert Hoehndorf, Paul N. Schofield, John P. Sundberg
EXPERIMENTAL DERMATOLOGY
(2019)
Article
Environmental Sciences
Balazs G. Madas, Paul N. Schofield
RADIATION PROTECTION DOSIMETRY
(2019)
Article
Biochemical Research Methods
Imane Boudellioua, Maxat Kulmanov, Paul N. Schofield, Georgios V. Gkoutos, Robert Hoehndorf
BMC BIOINFORMATICS
(2019)
Review
Biology
Paul N. Schofield, Ulrike Kulka, Soile Tapio, Bernd Grosche
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2019)
Article
Biology
Takamitsu Morioka, Benjamin J. Blyth, Tatsuhiko Imaoka, Mayumi Nishimura, Hiroshi Takeshita, Takeo Shimomura, Jun Ohtake, Atsuro Ishida, Paul Schofield, Bernd Grosche, Ulrike Kulka, Yoshiya Shimada, Yutaka Yamada, Shizuko Kakinuma
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2019)
Article
Multidisciplinary Sciences
Sara Althubaiti, Andreas Karwath, Ashraf Dallol, Adeeb Noor, Shadi Salem Alkhayyat, Rolina Alwassia, Katsuhiko Mineta, Takashi Gojobori, Andrew D. Beggs, Paul N. Schofield, Georgios Gkoutos, Robert Hoehndorf
SCIENTIFIC REPORTS
(2019)
Article
Biochemistry & Molecular Biology
Jesus Ruberte, Paul N. Schofield, Cord Brakebusch, Peter Vogel, Yann Herault, Guillem Gracia, Colin McKerlie, Martin Hrabe de Angelis, Michael Hagn, John P. Sundberg
Article
Biology
Carmel E. Mothersill, Deborah H. Oughton, Paul N. Schofield, Michael Abend, Christelle Adam-Guillermin, Kentaro Ariyoshi, Nicholas A. Beresford, Andrea Bonisoli-Alquati, Jason Cohen, Yuri Dubrova, Stanislav A. Geras'kin, Tanya Helena Hevroy, Kathryn A. Higley, Nele Horemans, Awadhesh N. Jha, Lawrence A. Kapustka, Juliann G. Kiang, Balazs G. Madas, Gibin Powathil, Elena Sarapultseva, Colin B. Seymour, Nguyen T. K. Vo, Michael D. Wood
Summary: This paper presents the outcomes of discussions on the importance of an ecosystem approach in radioecology and radiation protection of the environment, which took place at an international conference. The interaction between radioecologists and radiobiologists is vital for addressing the challenges of field versus laboratory research and the integration of a pan-ecosystem approach into radiation protection guidelines. The application of novel tools such as machine learning can aid in the development of this ecosystem approach.
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2022)
Article
Biology
Bruno F. E. Matarese, Jigar Lad, Colin Seymour, Paul N. Schofield, Carmel Mothersill
Summary: This commentary reviews the role of sound signals in cells and organisms, suggesting that sound could be an important signaling mechanism when organisms are stressed. Evidence shows that sound signals are ubiquitous across kingdoms, regulating metabolic pathways, gene expression patterns, and population responses. The hypothesis is proposed that acoustic energy released by irradiated cells may complement other responses, contributing to signal relay within the population.
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2022)
Article
Biology
Luke T. Slater, John A. Williams, Andreas Karwath, Hilary Fanning, Simon Ball, Paul N. Schofield, Robert Hoehndorf, Georgios Gkoutos
Summary: This article explores the generation of multiple semantic similarity scores for patients based on different facets of their phenotypic manifestation, demonstrating the potential of faceted semantic clustering for gaining a deeper and more nuanced understanding of text-derived patient phenotypes and identifying clinically relevant phenotype relationships.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Article
Cell Biology
Sarah M. Alghamdi, Paul N. Schofield, Robert Hoehndorf
Summary: Computing phenotypic similarity is important for identifying new disease genes and diagnosing rare diseases. Phenotype data from model organisms can compensate for lack of human data and improve genome coverage. In this study, mouse genotype-phenotype data was found to be the most important in identifying human disease genes using semantic similarity and machine learning over phenotype ontologies, while other model organisms' data did not significantly contribute to this task.
DISEASE MODELS & MECHANISMS
(2022)
Editorial Material
Biology
Paul Schofield, Carmel Mothersill
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Szabolcs Polgar, Paul N. Schofield, Balazs G. Madas
Summary: The aim of this study was to establish a database of experimental data from the public literature to support the development and validation of quantitative models for low dose hyper-radiosensitivity and induced radioresistance. Using Google Scholar search, 101 datasets were identified and can be used for meta-analysis, comparison with new experiments, and development and validation of models.
Article
Biology
Luke T. Slater, John A. Williams, Paul N. Schofield, Sophie Russell, Samantha C. Pendleton, Andreas Karwath, Hilary Fanning, Simon Ball, Robert Hoehndorf, Georgios V. Gkoutos
Summary: Annotation of biomedical entities with ontology classes facilitates semantic analysis and utilization of background knowledge. We have developed a new tool called Klarigi, which introduces multiple scoring heuristics to identify compositional and discriminatory classes for annotated entity groups. Klarigi utilizes semantic inference, classification, and significance testing to provide characteristic and explanatory explanations for biomedical datasets, offering a distinct perspective compared to traditional enrichment methods.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Biology
Bruno F. E. Matarese, Hassan Rahmoune, Nguyen T. K. Vo, Colin B. Seymour, Paul N. Schofield, Carmel Mothersill
Summary: This study characterizes the emission of acoustic waves from cultured cells exposed to X-ray photon radiation. Acoustic signals were recorded using an ultrasound transducer before, during, and after irradiation. The results show that radiation dose rate and cell viability affect the acoustic signal characteristics. Live and dead cells exhibit different acoustic signal patterns.
INTERNATIONAL JOURNAL OF RADIATION BIOLOGY
(2023)