Article
Computer Science, Artificial Intelligence
Shibing Zhou, Fei Liu, Wei Song
Summary: Estimating the optimal number of clusters (NC) is crucial in cluster analysis. A novel internal clustering validity index BWC is proposed in this paper to improve the Silhouette index, validating clustering results and estimating the optimal NC for various types of data sets. Theoretical analysis and experimental studies demonstrate the effectiveness and efficiency of the new index and method.
NEURAL PROCESSING LETTERS
(2021)
Article
Ecology
Mario Elia, Vincenzo Giannico, Davide Ascoli, Juan Pablo Arganaraz, Marina D'Este, Giuseppina Spano, Raffaele Lafortezza, Giovanni Sanesi
Summary: The study proposed a systematic pyrogeographic analytical approach and used the Affinity Propagation algorithm to cluster regions in Italy. Seven different pyroregion clusters were identified, with two main gradients of increasing temperatures and exposure to droughts, and increasing population density in lower elevation areas influencing the variability of wildfire metrics observed in the current pyroregions.
ECOLOGICAL PROCESSES
(2022)
Article
Engineering, Electrical & Electronic
Joon-Yong Lee
Summary: In this letter, we propose an ultrawideband channel clustering algorithm using a modified affinity propagation (AP) method. Unlike typical AP algorithms, we define similarity to reflect amplitude discontinuity observed in Saleh-Valenzuela models. The algorithm was tested on simulated channel impulse response and measured propagation data in an indoor environment, and reasonable clustering results were obtained.
IEEE ANTENNAS AND WIRELESS PROPAGATION LETTERS
(2023)
Article
Computer Science, Information Systems
Issam Dagher, Sandy Mikhael, Oubaida Al-Khalil
Summary: Clustering is an important technique in data mining that separates data points into different groups based on similarity. Gabor face clustering using affinity propagation and structural similarity index outperforms other well known clustering algorithms in experimental results.
MULTIMEDIA TOOLS AND APPLICATIONS
(2021)
Article
Chemistry, Analytical
Seju Park, Han-Shin Jo, Cheol Mun, Jong-Gwan Yook
Summary: The proposed improved affinity propagation clustering algorithm addresses the issue of high computational complexity in joint transmission by fixing preferences and adapting threshold values to system parameters. Additionally, a greedy merging algorithm is used to mitigate inter-cluster interference. Experimental results demonstrate that the algorithm outperforms existing ones in terms of performance and energy efficiency.
Article
Computer Science, Information Systems
Xiongfeng Yan, Huan Chen, Haoran Huang, Qian Liu, Min Yang
Summary: The study introduces a novel building typification approach using affinity propagation exemplar-based clustering to maintain the overall distribution characteristics while preserving important individual buildings.
ISPRS INTERNATIONAL JOURNAL OF GEO-INFORMATION
(2021)
Article
Public, Environmental & Occupational Health
Amber Kunkel, Gabriella Veytsel, Sarah Bonaparte, Haillie Meek, Xiaoyue Ma, Amy J. Davis, Jesse Bonwitt, Ryan M. Wallace
Summary: This study aimed to evaluate the historical definition of rabies-free counties, propose improvements, and develop a model for estimating the probability of terrestrial rabies freedom and reported county-level cases. The analysis of data from the National Rabies Surveillance System showed that the historical definition is reasonable for identifying counties without raccoon and skunk rabies transmission. The rabies prediction model presented in the study can measure different levels of risk. However, even counties with a high probability of freedom should maintain rabies testing capacity due to potential changes in epidemiology.
JMIR PUBLIC HEALTH AND SURVEILLANCE
(2023)
Article
Computer Science, Artificial Intelligence
Adan Jose-Garcia, Julia Handl, Wilfrido Gomez-Flores, Mario Garza-Fabre
Summary: This study presents an evolutionary algorithm for multiview cluster analysis, addressing settings with a larger number of views. The method can effectively handle multiple data views and overcomes limitations of existing algorithms. Experimental results confirm the feasibility and efficacy of the algorithm in dealing with multiple data views.
APPLIED SOFT COMPUTING
(2021)
Article
Environmental Sciences
Jing Liu, Guisheng Liao, Jingwei Xu, Shengqi Zhu, Cao Zeng, Filbert H. Juwono
Summary: In this study, a novel unsupervised affinity propagation (AP) clustering radar detection algorithm is proposed to suppress clutter and detect targets for non-side-looking airborne radar. The algorithm utilizes selected power points and space-time adaptive processing (STAP) weight vector to design a matrix-transformation-based weighted input data. Two rounds of weighted AP clustering are performed using the similarity matrix, responsibility values, and availability values. A detection-discriminant criterion is then applied to judge target detection and suppress clutter. Simulations demonstrate the superiority of the proposed unsupervised algorithm in terms of detection probability and target-detection performance compared to conventional STAP, ADC, and JDL algorithms, as well as various CFAR algorithms based on SO, GO, and OS. The algorithm effectively handles the range dependence in clutter characteristics and non-independent identically distributed (non-IID) samples of non-side-looking radar.
Article
Computer Science, Artificial Intelligence
Ali Senol
Summary: In this study, a novel clustering algorithm called MCMSTClustering is proposed to handle high-dimensional, imbalanced, and/or varying-density datasets. The algorithm defines micro-clusters using KD-Tree data structure, constructs macro-clusters using minimum spanning tree on micro-clusters, and regulates defined clusters to improve accuracy. Experimental results confirm the success of the proposed algorithm in terms of clustering quality and acceptable run-time, and its effectiveness in solving various clustering problems in the literature.
NEURAL COMPUTING & APPLICATIONS
(2023)
Article
Computer Science, Information Systems
Yuxian Duan, Changyun Liu, Song Li, Xiangke Guo, Chunlin Yang
Summary: This article introduces an improved affinity propagation algorithm based on optimization of preference (APBOP) for automatic clustering on high-dimensional data. APBOP aims to address the challenges of feature extraction from high-dimensional data and the sensitivity of the clustering performance to preference. The proposed method utilizes dimensionality reduction and preference optimization techniques to improve the effectiveness of affinity propagation.
INFORMATION SCIENCES
(2023)
Article
Computer Science, Artificial Intelligence
Omar Maddouri, Xiaoning Qian, Byung-Jun Yoon
Summary: Clustering data into meaningful subsets is a major task in scientific data analysis. In this paper, we propose a novel clustering algorithm, called Geometric-AP, which extends the original Affinity Propagation (AP) algorithm to leverage the network topology for generating smooth clusters. Extensive performance assessment shows that Geometric-AP significantly enhances the quality of clustering results compared to existing schemes.
IEEE TRANSACTIONS ON KNOWLEDGE AND DATA ENGINEERING
(2023)
Article
Environmental Sciences
Xu Guo, Zhaoxian Yang, Chao Li, Hanxiang Xiong, Chuanming Ma
Summary: In the northern plains of Laizhou City, groundwater quality is threatened by both seawater intrusion and agricultural pollution. This study assesses the Intrinsic Aquifer Vulnerability (IAV) using two classic IAV models and a clustering algorithm. Results show areas with high vulnerability but low contamination levels, as well as areas with high vulnerability and high contamination levels.
ENVIRONMENTAL RESEARCH
(2023)
Article
Computer Science, Hardware & Architecture
Qifen Yang, Ziyang Li, Gang Han, Wanyi Gao, Shuhua Zhu, Xiaotian Wu, Yuhui Deng
Summary: Spectral clustering algorithm has become popular in recent years for data clustering problems. However, its performance is affected by the quality of the similarity matrix and its stability is compromised by the use of the K-means algorithm. Therefore, FDAP-SC proposes a new approach that improves neighbor information retrieval and uses shared nearest neighbors for constructing the similarity matrix. It also calculates clustering centers through message passing between nodes. Experimental results show that FDAP-SC outperforms existing algorithms in terms of neighbor determination, handling complex shape datasets, and achieving high accuracy on various datasets.
JOURNAL OF SUPERCOMPUTING
(2022)
Article
Computer Science, Artificial Intelligence
Zhongbo Hu, Ting Zhou, Qinghua Su, Mianfang Liu
Summary: This paper proposes a niching backtracking search algorithm with adaptive local search to address the problem of multimodal multiobjective optimization. By adopting the affinity propagation clustering method to form multiple niches and developing a novel mutation based on affinity propagation clustering, the algorithm shows improved performance. Experimental results demonstrate that the proposed algorithm outperforms other algorithms in various benchmark functions and practical application problems.
SWARM AND EVOLUTIONARY COMPUTATION
(2022)
Article
Oncology
Barbara Zellinger, Ulrich Bodenhofer, Immanuela A. Englaender, Cornelia Kronberger, Brane Grambozov, Elvis Ruznic, Markus Stana, Josef Karner, Gerd Fastner, Karl Sotlar, Felix Sedlmayer, Franz Zehentmayr
Summary: The study demonstrated that hsa-miR-3651 can predict local control in early breast cancer by targeting the downstream protein FRMD3. Through computational analysis and validation experiments, the correlation between the two was revealed. This research may contribute to the development of personalized therapies for breast cancer.
Article
Agriculture, Dairy & Animal Science
Anne K. Schuetz, E. Tobias Krause, Mareike Fischer, Thomas Mueller, Conrad M. Freuling, Franz J. Conraths, Timo Homeier-Bachmann, Hartmut H. K. Lentz
Summary: Monitoring animal behavior is crucial for assessing their health and welfare. This study presents a method using computer vision to automatically analyze the behavior of red foxes. By detecting their body posture and activity, the behavior of the animals can be continuously monitored and identified. This cost-efficient and real-time evaluation tool proves to be powerful for assessing animal behavior in experimental settings.
Article
Medical Informatics
Susanne Suessner, Norbert Niklas, Ulrich Bodenhofer, Jens Meier
Summary: This study used machine learning models to predict fainting during blood donation. By analyzing questionnaire data and weather data, it was found that factors such as systolic and diastolic blood pressure, ambient temperature, humidity, and barometric pressure played important roles in predicting fainting reactions.
BMC MEDICAL INFORMATICS AND DECISION MAKING
(2022)
Article
Mathematics, Applied
Mareike Fischer
Summary: Phylogenetic trees are important in evolutionary research. This study demonstrates that maximum parsimony can serve as a justified tree reconstruction criterion when the number of changes in the data is relatively small.
ANNALS OF COMBINATORICS
(2022)
Article
Virology
Jens H. Kuhn, Scott Adkins, Sergey Alkhovsky, Tatjana Avsic-Zupanc, Maria A. Ayllon, Justin Bahl, Anne Balkema-Buschmann, Matthew J. Ballinger, Martina Bandte, Martin Beer, Nicolas Bejerman, Eric Bergeron, Nadine Biedenkopf, Laurent Bigarre, Carol D. Blair, Kim R. Blasdell, Steven B. Bradfute, Thomas Briese, Paul A. Brown, Remy Bruggmann, Ursula J. Buchholz, Michael J. Buchmeier, Alexander Bukreyev, Felicity Burt, Carmen Buettner, Charles H. Calisher, Thierry Candresse, Jeremy Carson, Inmaculada Casas, Kartik Chandran, Remi N. Charrel, Yuya Chiaki, Anya Crane, Mark Crane, Laurent Dacheux, Elena Dal Bo, Juan Carlos de la Torre, Xavier de Lamballerie, William M. de Souza, Rik L. de Swart, Nolwenn M. Dheilly, Nicholas Di Paola, Francesco Di Serio, Ralf G. Dietzgen, Michele Digiaro, J. Felix Drexler, W. Paul Duprex, Ralf Duerrwald, Andrew J. Easton, Toufc Elbeaino, Koray Ergunay, Guozhong Feng, Claudette Feuvrier, Andrew E. Firth, Anthony R. Fooks, Pierre B. H. Formenty, Juliana Freitas-Astua, Selma Gago-Zachert, Maria Laura Garcia, Adolfo Garcia-Sastre, Aura R. Garrison, Scott E. Godwin, Jean-Paul J. Gonzalez, Joelle Gouy de Bellocq, Anthony Grifths, Martin H. Groschup, Stephan Gunther, John Hammond, Jussi Hepojoki, Melanie M. Hierweger, Seiji Hongo, Masayuki Horie, Hidenori Horikawa, Holly R. Hughes, Adam J. Hume, Timothy H. Hyndman, Daohong Jiang, Gilda B. Jonson, Sandra Junglen, Fujio Kadono, David G. Karlin, Boris Klempa, Jonas Klingstrom, Michel C. Koch, Hideki Kondo, Eugene Koonin, Jarmila Krasova, Mart Krupovic, Kenji Kubota, Ivan Kuzmin, Lies Laenen, Amy J. Lambert, Jianrong Li, Jun-Min Li, Francois Liefrig, Igor S. Lukashevich, Dongsheng Luo, Piet Maes, Marco Marklewitz, Sergio H. Marshall, Shin-Yi L. Marzano, John W. McCauley, Ali Mirazimi, Peter G. Mohr, Nick J. G. Moody, Yasuaki Morita, Richard N. Morrison, Elke Muhlberger, Rayapati Naidu, Tomohide Natsuaki, Jose A. Navarro, Yutaro Neriya, Sergey Netesov, Gabriele Neumann, Norbert Nowotny, Francisco M. Ochoa-Corona, Gustavo Palacios, Laurane Pallandre, Vicente Pallas, Anna Papa, Sofa Paraskevopoulou, Colin R. Parrish, Alex Pauvolid-Correa, Janusz T. Paweska, Daniel R. Perez, Florian Pfaf, Richard K. Plemper, Thomas S. Postler, Francoise Pozet, Sheli R. Radoshitzky, Pedro L. Ramos-Gonzalez, Marius Rehanek, Renato O. Resende, Carina A. Reyes, Victor Romanowski, Dennis Rubbenstroth, Luisa Rubino, Artemis Rumbou, Jonathan A. Runstadler, Melanie Rupp, Sead Sabanadzovic, Takahide Sasaya, Heike Schmidt-Posthaus, Martin Schwemmle, Torsten Seuberlich, Stephen R. Sharpe, Mang Shi, Manuela Sironi, Sophie Smither, Jin-Won Song, Kirsten M. Spann, Jessica R. Spengler, Mark D. Stenglein, Ayato Takada, Robert B. Tesh, Jana Tesikova, Natalie J. Thornburg, Nicole D. Tischler, Yasuhiro Tomitaka, Keizo Tomonaga, Noel Tordo, Kenta Tsunekawa, Massimo Turina, Ioannis E. Tzanetakis, Anna Maria Vaira, Bernadette van den Hoogen, Bert Vanmechelen, Nikos Vasilakis, Martin Verbeek, Susanne von Bargen, Jiro Wada, Victoria Wahl, Peter J. Walker, Anna E. Whitfeld, John Williams, Yuri Wolf, Junki Yamasaki, Hironobu Yanagisawa, Gongyin Ye, Yong-Zhen Zhang, Arnfnn Lodden Okland
Summary: This article presents the updated taxonomy of Negarnaviricota, including the addition of new families, genera, and species, renaming and moving of species, and correction of misspelled names as accepted by the International Committee on Taxonomy of Viruses (ICTV).
ARCHIVES OF VIROLOGY
(2022)
Article
Multidisciplinary Sciences
Kaspar Matiasek, Florian Pfaff, Herbert Weissenboeck, Claudia Wylezich, Jolanta Kolodziejek, Sofia Tengstrand, Frauke Ecke, Sina Nippert, Philip Starcky, Benedikt Litz, Jasmin Nessler, Peter Wohlsein, Christina Baumbach, Lars Mundhenk, Andrea Aebischer, Sven Reiche, Pia Weidinger, Karin M. Olofsson, Cecilia Rohdin, Christiane Weissenbacher-Lang, Julia Matt, Marco Rosati, Thomas Flegel, Birger Hornfeldt, Dirk Hoeper, Rainer G. Ulrich, Norbert Nowotny, Martin Beer, Cecilia Ley, Dennis Rubbenstroth
Summary: 'Staggering disease', a neurological illness that has posed a threat to European domestic cats for almost five decades, has finally been linked to the Rustrela virus (RusV). RusV, a relative of rubella virus, was detected in the brains of cats with clinical signs of 'staggering disease' from Sweden, Austria, and Germany, but not in unaffected control cats. Additionally, RusV was found to infect wood mice in Sweden. This discovery suggests that RusV may be responsible for neuropathologies in other mammals, including humans.
NATURE COMMUNICATIONS
(2023)
Article
Microbiology
Ann Kathrin Ahrens, Hans-Christoph Selinka, Claudia Wylezich, Hubert Wonnemann, Ole Sindt, Hartmut H. H. Hellmer, Florian Pfaff, Dirk Hoeper, Thomas C. C. Mettenleiter, Martin Beer, Timm C. C. Harder
Summary: Avian influenza viruses (AIV) have a wide host range and can occasionally be transmitted to humans. Surface water plays a crucial role in AIV epidemiology as it serves as a reservoir in aquatic wild birds. However, environmental samples often have low virus loads, making further subtype and pathotype testing difficult. Passive surveillance based on oral and cloacal swabs of diseased and dead wild birds remains the most sensitive method.
MICROBIOLOGY SPECTRUM
(2023)
Article
Virology
Natalia Golender, Eyal Klement, Lior Ofer, Bernd Hoffmann, Kerstin Wernike, Martin Beer, Florian Pfaff
Summary: A new ephemerovirus, named Hefer Valley virus, was discovered in a Holstein-Friesian cow in Israel, causing severe and fatal arboviral-like symptoms. The virus belongs to the family Rhabdoviridae and is likely a new species within the genus Ephemerovirus. Further investigations are needed to determine the viral vector and prevalence in the cattle population.
ARCHIVES OF VIROLOGY
(2023)
Article
Mathematics, Applied
Mareike Fischer, Tom Niklas Hamann, Kristina Wicke
Summary: Phylogenetic networks play a crucial role in evolutionary research by describing non-treelike processes. Among the different types of networks, tree-based networks are of great interest but identifying them in the unrooted case is a complex problem. Edge-based networks, on the other hand, are more biologically plausible and can be identified efficiently. However, measures of proximity for edge-basedness have not been established yet.
DISCRETE APPLIED MATHEMATICS
(2023)
Article
Immunology
Charlie Fricke, Florian Pfaff, Lorenz Ulrich, Nico Joel Halwe, Jacob Schoen, Laura Timm, Weda Hoffmann, Susanne Rauch, Benjamin Petsch, Donata Hoffmann, Martin Beer, Bjoern Corleis, Anca Dorhoi
Summary: Our study on hACE2 transgenic mice reveals the early immune responses to different SARS-CoV-2 variants. Infection with Beta (B.1.351) VOC leads to prompt viral spread to the lungs and increased inflammatory responses. SARS-CoV-2-specific antibodies and T cells developed within the first 7 days postinfection play a crucial role in reducing viral transmission and replication. These findings contribute to the understanding of immediate immune responses to SARS-CoV-2 and are important for developing interventions against various variants.
EUROPEAN JOURNAL OF IMMUNOLOGY
(2023)
Article
Virology
Sina Nippert, Dennis Rubbenstroth, Jessica Anna Geers, Arnt Ebinger, Donata Hoffmann, Angele Breithaupt, Claudia Wylezich, Xuejing Wang, Viola C. Haring, Philip Starcky, Paola Fruci, Christoph Langner, Christin Trapp, Heiko Schulz, Wilko Stubbe, Christian Imholt, Gerald Heckel, Martin Beer, Florian Pfaff, Rainer G. Ulrich
Summary: The Rustrela virus (RusV) was found in yellow-necked field mice as a reservoir and showed high diversification in northeastern Germany. The virus had a high level of genetic variability and was mainly distributed in the central nervous system. The study suggests the need to assess the zoonotic potential of RusV and investigate encephalitis cases in mammals.
Article
Immunology
Florian Pfaff, Katharina Kramer, Jacqueline King, Kati Franzke, Tanja Rosenberger, Dirk Hoeper, Patricia Koenig, Donata Hoffmann, Martin Beer
Summary: We have identified a new poxvirus in a gray seal (Halichoe-rus grypus) found in the North Sea, Germany. The affected juvenile seal exhibited pox-like skin lesions and deteriorating health, leading to its euthanization. Detailed analysis using histology, electron microscopy, sequencing, and PCR confirmed the presence of an undescribed poxvirus belonging to the Chordopoxvirinae subfamily, which we have tentatively named Wadden Sea poxvirus.
EMERGING INFECTIOUS DISEASES
(2023)
Article
Immunology
Madeleine de le Roi, Christina Puff, Peter Wohlsein, Florian Pfaff, Martin Beer, Wolfgang Baumgaertner, Dennis Rubbenstroth
Summary: A retrospective investigation of tissue samples from 3 lions revealed the presence of rustrela virus (RusV), which was confirmed through various methods such as PCR, immunohistochemistry, and in situ hybridization. RusV antigens and RNA were detected in cortical neurons, axons, astrocytes, and Purkinje cells.
EMERGING INFECTIOUS DISEASES
(2023)
Article
Mathematics, Applied
Mirko Wilde, Mareike Fischer
Summary: Phylogenetic trees are commonly used to model evolution. This manuscript presents new findings on the relationship between the maximum parsimony method and the definition of phylogenetic trees. The study shows that the set of characters with parsimony score k can uniquely define a binary phylogenetic tree T with n > 4k leaves. Additionally, the research expands this understanding to identify the range of n values for which trees sharing the same A(k)-alignment can exist. The study also highlights the relationship between the nearest neighbor interchange operation and the uniqueness of the A(k)-alignment.
DISCRETE APPLIED MATHEMATICS
(2023)
Letter
Medicine, General & Internal
Florian Pfaff, Donata Hoffmann, Martin Beer