Article
Engineering, Biomedical
Wenwen Wu, Yanqi Huang, Xiaomei Wu
Summary: In this study, a 2D deep learning classification network SRT was proposed to improve automatic ECG analysis. The model structure was enhanced with the CNN and Transformer-encoder modules, and a novel attention module and Dilated Stem structure were introduced to improve feature extraction. Comparative experiments showed that the proposed model outperformed several advanced methods.
BIOMEDICAL SIGNAL PROCESSING AND CONTROL
(2024)
Article
Immunology
Shilpi Chandra, Gabriel Ascui, Thomas Riffelmacher, Ashu Chawla, Ciro Ramirez-Suastegui, Viankail C. Castelan, Gregory Seumois, Hayley Simon, Mallory P. Murray, Goo-Young Seo, Ashmitaa L. R. Premlal, Benjamin Schmiedel, Greet Verstichel, Yingcong Li, Chia-Hao Lin, Jason Greenbaum, John Lamberti, Raghav Murthy, John Nigro, Hilde Cheroutre, Christian H. Ottensmeier, Stephen M. Hedrick, Li-Fan Lu, Pandurangan Vijayanand, Mitchell Kronenberg
Summary: This study characterized the different populations of MAIT cells in mice and humans using single-cell RNA sequencing and other analyses. The study found that MAIT cells in different organs and tissues exhibit different transcriptomes and metabolic states. The study also identified environmental influences on MAIT cell subsets and function.
SCIENCE IMMUNOLOGY
(2023)
Article
Biochemical Research Methods
Huan Yang, Shunfang Wang, Xinnan Xia
Summary: The study introduces a new enhancer identification method iEnhancer-RD, utilizing the RKPK feature extraction method and deep neural network classifier, with a two-layer classification approach achieving higher accuracy compared to existing methods.
ANALYTICAL BIOCHEMISTRY
(2021)
Article
Gastroenterology & Hepatology
Ajinkya Pattekar, Lena S. Mayer, Chi Wai Lau, Chengyang Liu, Olesya Palko, Meenakshi Bewtra, Hpap Consortium, Lisa C. Lindesmith, Paul D. Brewer-Jensen, Ralph S. Baric, Michael R. Betts, Ali Naji, E. John Wherry, Vesselin T. Tomov
Summary: The study identified immune correlates of NoV protection and persistence and defined the breadth, distribution, and properties of human NoV-specific T-cell immunity, especially in the intestinal mucosa. These findings can guide the development of future vaccines and novel cellular therapeutics.
CELLULAR AND MOLECULAR GASTROENTEROLOGY AND HEPATOLOGY
(2021)
Article
Multidisciplinary Sciences
Yanxiang Deng, Marek Bartosovic, Sai Ma, Di Zhang, Petra Kukanja, Yang Xiao, Graham Su, Yang Liu, Xiaoyu Qin, Gorazd B. Rosoklija, Andrew J. Dwork, J. John Mann, Mina L. Xu, Stephanie Halene, Joseph E. Craft, Kam W. Leong, Maura Boldrini, Goncalo Castelo-Branco, Rong Fan
Summary: This study presents a new method for spatial chromatin accessibility profiling in tissues, allowing researchers to explore the spatial epigenetic information at the cellular level and genome scale. The technology has been successfully applied to understand gene regulators in the development of the central nervous system and immune cell types in tonsil tissue. This advancement in spatial biology improves our understanding of cell identity, cell state, and cell fate decision in relation to epigenetic underpinnings in development and disease.
Article
Humanities, Multidisciplinary
Kerstin K. Zander, Stephen T. Garnett, Harald Sterly, Sonja Ayeb-Karlsson, Barbora Sedova, Hermann Lotze-Campen, Carmen Richerzhagen, Hunter S. Baggen
Summary: There is a strong association between human mobility and environmental and climatic factors. Automated textual analysis is used to explore this relationship. The analysis reveals opportunities for collaboration within environmental mobility research, particularly in integrating adaptation and impact research. However, research on migration destinations and the fate of environmentally influenced migrants is lacking, as well as research on gender and Indigenous issues, and adaptive capacity and capacity-building within the Impact theme.
HUMANITIES & SOCIAL SCIENCES COMMUNICATIONS
(2022)
Article
Agricultural Engineering
Ndiye M. Kebonye, Peter N. Eze, Prince C. Agyeman, Kingsley John, Samuel K. Ahado
Summary: The study compared the performance of KSOM-NN and t-SNE in characterizing soil quality indicators in agricultural dryland, with t-SNE showing superior visualization capabilities. Strong positive associations were found between some soil quality indicators, and the results have implications for agricultural soil management and decision-making. The study also provides preliminary findings for verifying detailed aspects of soil biogeochemistry in the future.
BIOSYSTEMS ENGINEERING
(2021)
Review
Immunology
Anna Estrada Brull, Camilla Panetti, Nicole Joller
Summary: Regulatory T cells (Tregs) not only suppress immune responses, but also promote tissue homeostasis, regeneration, and repair in non-lymphoid tissues. This review discusses the migration of Tregs to peripheral tissues, their functions in different tissues, and their interactions with non-immune cells.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Biology
Gaetana Restivo, Aizhan Tastanova, Zsolt Balazs, Federica Panebianco, Maren Diepenbruck, Caner Ercan, Bodgan-T Preca, Juerg Hafner, Walter P. Weber, Christian Kurzeder, Marcus Vetter, Simone Munst Soysal, Christian Beisel, Mohamed Bentires-Alj, Salvatore Piscuoglio, Michael Krauthammer, Mitchell P. Levesque
Summary: Fresh and slow-frozen tissues from various malignancies are comparable and suitable for different methods, including culture establishment and RNA sequencing, with similar results to freshly analyzed material.
COMMUNICATIONS BIOLOGY
(2022)
Article
Cell Biology
Julia Raitanen, Bernadette Barta, Marcus Hacker, Dietmar Georg, Theresa Balber, Markus Mitterhauser
Summary: Radiation therapy is an effective tool in cancer treatment, but its success rate varies. A study compared the radiation responses of 2D and 3D cell culture models of different human cancer cell lines. The results showed significant differences in radiation sensitivity between the two models, with 3D spheroids exhibiting higher resistance to radiation.
Article
Biology
Michael L. Wood, Colin D. Veal, Rita Neumann, Nicolas M. Suarez, Jenna Nichols, Andrei J. Parker, Diana Martin, Simon P. R. Romaine, Veryan Codd, Nilesh J. Samani, Adriaan A. Voors, Maciej Tomaszewski, Louis Flamand, Andrew J. Davison, Nicola J. Royle
Summary: Human herpesviruses 6A and 6B can transition between telomere-integrated and free virus forms, with mainly maternal transmission of acquired virus observed in families. Some healthy adults have shown telomere integration of acqHHV-6B in saliva, indicating latency. The excision of viral genome from telomeres in iciHHV-6B carriers is high and tissue-specific, with potential reactivation from circular extrachromosomal forms.
Article
Spectroscopy
M. Karnachoriti, I. Stathopoulos, M. Kouri, E. Spyratou, S. Orfanoudakis, D. Lykidis, M. Lambropoulou, N. Danias, N. Arkadopoulos, E. P. Efstathopoulos, Y. S. Raptis, I. Seimenis, A. G. Kontos
Summary: Human colorectal tissues from ten cancer patients were analyzed using multiple micro-Raman spectroscopic measurements. Different spectral profiles were observed for different tissue types, including the predominant 'typical' colorectal tissue, as well as those with high lipid, blood, or collagen content. Principal component analysis revealed specific Raman bands related to amino acids, proteins, and lipids, allowing efficient discrimination between normal and cancer tissues. Tree-based machine learning was applied to identify significant spectroscopic features for accurate cancer tissue identification and to match spectroscopic results with biochemical changes.
SPECTROCHIMICA ACTA PART A-MOLECULAR AND BIOMOLECULAR SPECTROSCOPY
(2023)
Article
Genetics & Heredity
Ruya Sun, Chunmei Cui, Yuan Zhou, Qinghua Cui
Summary: This study found a globally positive correlation between various biofluids and human tissues, but significantly varied consistency levels were observed between mRNA and lncRNA. Higher correlation was found between biofluid types and functionally related and anatomically closer tissues. Donor biological sex proved to be an important influencing factor in biofluid-tissue correlation.
Article
Genetics & Heredity
Cassandra R. Woolley, Julia H. Chariker, Eric C. Rouchka, Easton E. Ford, Elizabeth A. Hudson, Sabine J. Waigel, Melissa L. Smith, Thomas C. Mitchell
Summary: Long-read sequencing technologies can accurately generate full-length mRNA transcript isoforms, which are valuable for studying lymphocyte functional plasticity in human health and disease. However, there is currently a lack of long-read isoform-aware reference transcriptomes for human circulating lymphocytes. In this study, lymphocyte populations were isolated from peripheral blood of a healthy donor, and high-quality RNA samples were obtained for isoform sequencing and RNA-Seq analysis. Many novel transcript isoforms were identified in each sample using both isoform sequencing and RNA-Seq data.
G3-GENES GENOMES GENETICS
(2022)
Article
Robotics
F. Ciardo, D. De Tommaso, A. Wykowska
Summary: This study examined the impact of behavioral variability on the ascription of humanness to robots in human-robot interaction. The results suggest that certain features of behavioral variability, such as the range of variability, may be used by observers to attribute humanness to humanoid robots.
Article
Biochemical Research Methods
Erdogan Taskesen, Frank J. T. Staal, Marcel J. T. Reinders
BMC BIOINFORMATICS
(2015)
Article
Biochemical Research Methods
Erdogan Taskesen, Sepideh Babaei, Marcel M. J. Reinders, Jeroen de Ridder
BMC BIOINFORMATICS
(2015)
Article
Cell & Tissue Engineering
Farbod Famili, Martijn H. Brugman, Erdogan Taskesen, Brigitta E. A. Naber, Riccardo Fodde, Frank J. T. Staal
Correction
Genetics & Heredity
Suzanne Sniekers, Sven Stringer, Kyoko Watanabe, Philip R. Jansen, Jonathan R. I. Coleman, Eva Krapohl, Erdogan Taskesen, Anke R. Hammerschlag, Aysu Okbay, Delilah Zabaneh, Najaf Amin, Gerome Breen, David Cesarini, Christopher F. Chabris, William G. Iacono, M. Arfan Ikram, Magnus Johannesson, Philipp Koellinger, James J. Lee, Patrik K. E. Magnusson, Matt Mcgue, Mike B. Miller, William E. R. Ollier, Antony Payton, Neil Pendleton, Robert Plomin, Cornelius A. Rietveld, Henning Tiemeier, Cornelia M. van Duijn, Danielle Posthuma
Article
Genetics & Heredity
Suzanne Sniekers, Sven Stringer, Kyoko Watanabe, Philip R. Jansen, Jonathan R. I. Coleman, Eva Krapohl, Erdogan Taskesen, Anke R. Hammerschlag, Aysu Okbay, Delilah Zabaneh, Najaf Amin, Gerome Breen, David Cesarini, Christopher F. Chabris, William G. Iacono, M. Arfan Ikram, Magnus Johannesson, Philipp Koellinger, James J. Lee, Patrik K. E. Magnusson, Matt Mcgue, Mike B. Miller, William E. R. Ollier, Antony Payton, Neil Pendleton, Robert Plomin, Cornelius A. Rietveld, Henning Tiemeier, Cornelia M. van Duijn, Danielle Posthuma
Article
Multidisciplinary Sciences
Kyoko Watanabe, Erdogan Taskesen, Arjen van Bochoven, Danielle Posthuma
NATURE COMMUNICATIONS
(2017)
Article
Hematology
Rastislav Horos, Hanna IJspeert, Dagmar Pospisilova, Regine Sendtner, Charlotte Andrieu-Soler, Erdogan Taskesen, Andrzej Nieradka, Radek Cmejla, Michael Sendtner, Ivo P. Touw, Marieke von Lindern
Article
Hematology
Richard F. Schlenk, Erdogan Taskesen, Yvette van Norden, Juergen Krauter, Arnold Ganser, Lars Bullinger, Verena I. Gaidzik, Peter Paschka, Andrea Corbacioglu, Gudrun Goehring, Andrea Kuendgen, Gerhard Held, Katharina Goetze, Edo Vellenga, Juergen Kuball, Urs Schanz, Jakob Passweg, Thomas Pabst, Johan Maertens, Gert J. Ossenkoppele, Ruud Delwel, Hartmut Doehner, Jan J. Cornelissen, Konstanze Doehner, Bob Lowenberg
Article
Hematology
Erdogan Taskesen, Marije Havermans, Kirsten van Lom, Mathijs A. Sanders, Yvette van Norden, Eric Bindels, Remco Hoogenboezem, Marcel J. T. Reinders, Maria E. Figueroa, Peter J. M. Valk, Bob Lowenberg, Ari Melnick, Ruud Delwel
Article
Oncology
A. Zebisch, A. Woelfler, I. Fried, O. Wolf, K. Lind, C. Bodner, M. Haller, A. Drasche, D. Pirkebner, D. Matallanas, O. Rath, K. Blyth, R. Delwel, E. Taskesen, F. Quehenberger, W. Kolch, J. Troppmair, H. Sill
Article
Multidisciplinary Sciences
Erdogan Taskesen, Sjoerd M. H. Huisman, Ahmed Mahfouz, Jesse H. Krijthe, Jeroen de Ridder, Anja van de Stolpe, Erik van den Akker, Wim Verheagh, Marcel J. T. Reinders
SCIENTIFIC REPORTS
(2016)
Meeting Abstract
Behavioral Sciences
Richard Karlsson Linner, Pietro Biroli, Mark Fontana, Anke Hammerschlaag, Edward Kong, Mael Lebreton, Fleur Meddens, Michel Nivard, Aysu Okbay, Niels Rietveld, Erdogan Taskesen, Patrick Turley, Ronald De Vlaming, Robbee Wedow, Abdel Abdellaoui, Yanchun Bao, Laura Buzdugan, Chiayen Chen, Peter Eibich, Pierre Fontanillas, Peter Joshi, Ville Karhunen, Christina Lill, Gerardus Meddens, Gerard Muntane, Sandra Sanchez-roige, Frank Van Rooij, Murray Stein, Adam Auton, David Clark, Andrew Conlin, Conor Dolan, Urs Fischbacher, Patrick Groenen, Gregor Hasler, Albert Hofman, M. Arfan Ikram, Sonia Jain, Robert Karlsson, James Mackillop, Minna Mannikko, Carlos Morcillo-suarez, Klaus Schmidt, Melissa Smart, Matthias Sutter, Roy Thurik, Andre Uitterlinden, Jon White, Harriet de Wit, Lars Bertram, Dorret Boomsma, Ernst Fehr, Magnus Johannesson, Meena Kumari, Patrik K. E. Magnusson, Arcadi Navarro, Abraham Palmer, Daniel Schunk, Rauli Svento, Henning Tiemeier, Paul Timmers, Robert Ursano, Gert Wagner, James Wilson, James Lee, Jake Gratten, David Laibson, Danielle Posthuma, David Cesarini, Daniel Benjamin, Philipp Koellinger, Jonathan Beauchamp
Meeting Abstract
Behavioral Sciences
Edward Kong, Adam Auton, Pierre Fontanillas, Sonia Jain, Chiayen Chen, Murray Stein, Lars Bertram, Peter Eibich, Christina Lill, Gert Wagner, Anke Hammerschlaag, Danielle Posthuma, Erdogan Taskesen, Andrew Conlin, Ville Karhunen, Minna Mannikko, Rauli Svento, Michel Nivard, Dorret Boomsma, Abdel Abdellaoui, Conor Dolan, Harriet de Wit, Abraham Palmer, James Mackillop, Sandra Sanchez-Roige, Albert Hofman, M. Arfan Ikram, Henning Tiemeier, Andre Uitterlinden, Frank Van Rooij, Patrick Groenen, Roy Thurik, Jonathan Beauchamp, Daniel Benjamin, Pietro Biroli, David Cesarini, Ronald De Vlaming, Mark Fontana, Richard Karlsson, Philipp Koellinger, David Laibson, Mael Lebreton, James Lee, Fleur Meddens, Gerardus Meddens, Aysu Okbay, Niels Rietveld, Patrick Turley, Robbee Wedow, Jake Gratten, Magnus Johannesson, Robert Karlsson, Patrik K. E. Magnusson, Yanchun Bao, Meena Kumari, Melissa Smart, Jon White, Peter Joshi, James Wilson, David Clark, Laura Buzdugan, Ernst Fehr, Urs Fischbacher, Gregor Hasler, Carlos Morcillo-Suarez, Gerard Muntane, Arcadi Navarro, Klaus Schmidt, Daniel Schunk, Matthias Sutter
Correction
Genetics & Heredity
Suzanne Sniekers, Sven Stringer, Kyoko Watanabe, Philip R. Jansen, Jonathan R. I. Coleman, Eva Krapohl, Erdogan Taskesen, Anke R. Hammerschlag, Aysu Okbay, Delilah Zabaneh, Najaf Amin, Gerome Breen, David Cesarini, Christopher F. Chabris, William G. Iacono, M. Arfan Ikram, Magnus Johannesson, Philipp Koellinger, James J. Lee, Patrik K. E. Magnusson, Matt McGue, Mike B. Miller, William E. R. Ollier, Antony Payton, Neil Pendleton, Robert Plomin, Cornelius A. Rietveld, Henning Tiemeier, Cornelia M. van Duijn, Danielle Posthuma
