16 papers · ranked by Valyu relevance
Jana Lasser, Eleni Katifori
Background The analysis of complex networks both in general and in particular as pertaining to real biological systems has been the focus of intense scientific attention in the past and present. In this paper we introduce two tools that provide fast and efficient means for the processing and quantification of…
Karoline Faust, Jeroen Raes
Here we present the Cytoscape app version of our association network inference tool CoNet. Though CoNet was developed with microbial community data from sequencing experiments in mind, it is designed to be generic and can detect associations in any data set where biological entities (such as genes, metabolites or…
Authors not listed
Because topology plays a key role in many chemical and physical properties of materials, identification of topology from crystalline structures is a common and important task in materials science. We present here a new web application, CrystalNets, whose user-friendly interface allows scientists to identify and…
Authors not listed
Topology is key to the determination of many physical and chemical properties of materials, such as electrical and optical properties, magnetic properties, thermal and mechanical behaviour, etc. However, despite the growing number of databases of crystalline materials available, there has been very little systematic…
Tingting Zhao, Yawen Guan, Dan Tu, Lixia Yuan + 1 more
4.2.3#### HRF image segmentation [fig7] shows three DR fundus images from the HRF dataset, their ground-truth images of retinal blood vessels, and the identification results of attention U-Net, U-Net++, and NAU-Net. [fig7] shows that after the training, attention U-Net successfully detects most of the large vessels…
Tao Zhou, YaLi Dong, HuiLing Lu, XiaoMin Zheng + 2 more
'SenBao Hou'] Lung cancer is one of the malignant tumors with high morbidity and mortality, and lung nodules are the early stages of lung cancer. The symptoms of pulmonary nodules are not obvious in the clinic, and the optimal treatment time is missed due to the missed diagnosis in the clinic. A parallel U-Net network…
Zhen-Qi Liu, Vincent Bazinet, Justine Y. Hansen, Filip Milisav + 7 more
Brain imaging is an increasingly inter-disciplinary field, encompassing multiple data types and multiple analytic traditions. Projects typically involve many moving parts, such as building customized preprocessing pipelines, transforming between data formats, preparing datasets for analysis, and ultimately displaying…
Pol Llagostera, Carles Comas, Matthias Eckardt
The statistical analysis of structured spatial point process data where the event locations are determined by an underlying spatially embedded relational system has become a vivid field of research. Despite a growing literature on different extensions of point process characteristics to linear network domains, most…
Kakajan Komurov, Serkan Dursun, Serkan Erdin, Prahlad T Ram
Background Functional analyses of genomic data within the context of a priori biomolecular networks can give valuable mechanistic insights. However, such analyses are not a trivial task, owing to the complexity of biological networks and lack of computational methods for their effective integration with experimental…
Sarah Lutteropp, Céline Scornavacca, Alexey M. Kozlov, Benoit Morel + 1 more
Phylogenetic networks are used to represent non-treelike evolutionary scenarios. Current, actively developed approaches for phylogenetic network inference jointly account for non-treelike evolution and incomplete lineage sorting (ILS). Unfortunately, this induces a very high computational complexity. Hence, current…
James Scott-Brown, Benjamin Bach
—This paper introduces NetPanorama, a domain-specific language and declarative grammar for interactive network visualizations. Exploring complex networks with multivariate, geographical, or temporal information often require bespoke visualization designs, such as adjacency matrices, arc-diagrams, small multiples…
Liam Mclaughlin, Mia Curic, Siddhartha Sharma, Jorge Villazon + 8 more
Recent advances in high-resolution imaging and spatial transcriptomics have enabled reconstruction of complex 3D tissue maps, providing unprecedented insights into cellular connectivity, organization, and tissue architecture. However, standardization challenges hinder integration, sharing, and analysis of these…
Mariano E. Brito, Ellen Höpner, David Beyer, Christian Holm
Combining a mean-field swelling model—which incorporates the Poisson-Boltzmann cell model for describing the electrostatics of microgels and a Flory-Rehner-based model for describing the polymer network—with the law of mass action to account for chemical reactions, we present a comprehensive swelling model for weakly…
Zhimian Hao, Magda Barecka, Alexei Lapkin
Net zero requires an accelerated transition from fossil fuels to renewables. Carbon capture and utilization (CCU) can be an effective intermediate solution for the decarbonization of fossil fuels. However, many research works contain renewables in the design of CCU systems, which may mislead stakeholders regarding the…
Basheer Al‐Duwairi, Moath Jarrah, Ahmed S. Shatnawi
Fast Flux service networks (FFSNs) are used by adversaries to achieve a high resilient technique for their malicious servers while keeping them hidden from direct access. In this technique, a large number of botnet machines, that are known as flux agents, work as proxies to relay the traffic between end users and a…
Bishwajit Prasad Gond, Durga Prasad Mohapatra
As malware continues to become more complex and harder to detect, Malware Analysis needs to continue to evolve to stay one step ahead. One promising key area approach focuses on using system calls and API Calls, the core communication between user applications and the operating system and their kernels. These calls…