Results 91 to 100 of about 1,578,861 (367)

Minimum Information About a Simulation Experiment (MIASE) [PDF]

, 2011
Reproducibility of experiments is a basic requirement for science. Minimum Information (MI) guidelines have proved a helpful means of enabling reuse of existing work in modern biology. The Minimum Information Required in the Annotation of Models (MIRIAM)
Hucka, Michael, Waltemath, Dagmar
core   +3 more sources

Integration of single‐cell and bulk RNA‐sequencing data reveals the prognostic potential of epithelial gene markers for prostate cancer

Molecular Oncology, EarlyView.
Prostate cancer is a leading malignancy with significant clinical heterogeneity in men. An 11‐gene signature derived from dysregulated epithelial cell markers effectively predicted biochemical recurrence‐free survival in patients who underwent radical surgery or radiotherapy.
Zhuofan Mou, Lorna W. Harries
wiley   +1 more source

Metacognition: computation, biology and function [PDF]

Philosophical Transactions of the Royal Society B: Biological Sciences, 2012
Many complex systems maintain a self-referential check and balance. In animals, such reflective monitoring and control processes have been grouped under the rubric of metacognition. In this introductory article to a Theme Issue on metacognition, we review recent and rapidly progressing developments from neuroscience, cognitive psychology, computer ...
Raymond J. Dolan, Chris D. Frith, Chris D. Frith, Chris D. Frith, Stephen M. Fleming   +4 more
openaire   +3 more sources

Protein Domain Boundary Predictions: A Structural Biology Perspective [PDF]

, 2009
One of the important fields to apply computational tools for domain boundaries prediction is structural biology. They can be used to design protein constructs that must be expressed in a stable and functional form and must produce diffraction-quality ...
Carugo, Oliviero (Department of Structural and Computational Biology, Centre for Molecular Biology, University of Vienna), Kirillova, Svetlana (Max F. Perutz Laboratories), Kumar, Suresh (Max F. Perutz Laboratories), Sampath Ranjan, Sureshkumar (Department of Structural and Computational Biology, Centre for Molecular Biology, University of Vienna)   +3 more
core   +2 more sources

Analysis of comprehensive genomic profiling of solid tumors with a novel assay for broad analysis in clinical diagnostics

Molecular Oncology, EarlyView.
In molecular cancer diagnostics, comprehensive genomic profiling (CGP) is going to replace the small NGS panels since it provides all clinically relevant somatic variants as well as genomic biomarkers with clinical value. Here, we compared two CGP assays and demonstrate that the choice for diagnostic implementation will depend on the specific ...
Guy Froyen, Pieter‐Jan Volders, Ellen Geerdens, Severine Berden, Joni Van der Meulen, Aaron De Cock, Stefanie Vermeire, Jacques Van Huysse, Marie de Barsy, Gabriela Beniuga, Wendy W. J. de Leng, Anne M. L. Jansen, Imke Demers, Zeliha Ozgur, Hendrikus Jan Dubbink, Ernst‐Jan M. Speel, Wilfred F. J. van IJcken, Brigitte Maes   +17 more
wiley   +1 more source

Computing Pathways to Systems Biology: Key Contributions of Computational Methods in Pathway Identification [PDF]

arXiv, 2013
Understanding large molecular networks consisting of entities such as genes, proteins or RNAs that interact in complex ways to drive the cellular machinery has been an active focus of systems biology. Computational approaches have played a key role in systems biology by complementing theoretical and experimental approaches.
arxiv  

Avida: a software platform for research in computational evolutionary biology [PDF]

, 2004
Avida is a software platform for experiments with self-replicating and evolving computer programs. It provides detailed control over experimental settings and protocols, a large array of measurement tools, and sophisticated methods to analyze and post ...
Ofria, Charles, Wilke, Claus O.
core   +1 more source

Molecular and functional profiling unravels targetable vulnerabilities in colorectal cancer

Molecular Oncology, EarlyView.
We used whole exome and RNA‐sequencing to profile divergent genomic and transcriptomic landscapes of microsatellite stable (MSS) and microsatellite instable (MSI) colorectal cancer. Alterations were classified using a computational score for integrative cancer variant annotation and prioritization.
Efstathios‐Iason Vlachavas, Konstantinos Voutetakis, Vivian Kosmidou, Spyridon Tsikalakis, Spyridon Roditis, Konstantinos Pateas, Ryangguk Kim, Kymberleigh Pagel, Stephan Wolf, Gregor Warsow, Antonia Dimitrakopoulou‐Strauss, Georgios N. Zografos, Alexander Pintzas, Johannes Betge, Olga Papadodima, Stefan Wiemann   +15 more
wiley   +1 more source

The computational stance in biology [PDF]

Philosophical Transactions of the Royal Society B: Biological Sciences, 2019
The goal of this article is to call attention to, and to express caution about, the extensive use of computation as an explanatory concept in contemporary biology. Inspired by Dennett's ‘intentional stance’ in the philosophy of mind, I suggest that a ‘computational stance’ can be a productive approach to evaluating the value of computational concepts ...
openaire   +3 more sources

Correction: Mathematical modeling of the molecular switch of TNFR1-mediated signaling pathways applying Petri net formalism and in silico knockout analysis.

PLoS Computational Biology, 2023
[This corrects the article DOI: 10.1371/journal.pcbi.1010383.].
PLOS Computational Biology Staff
doaj   +1 more source