Filters








483 Hits in 9.1 sec

On Mining Protein Unfolding Simulation Data with Inductive Logic Programming [chapter]

Rui Camacho, Alexssander Alves, Cândida G. Silva, Rui M. M. Brito
Advances in Soft Computing  
In this paper we report on the use of Inductive Logic Programming (ILP) techniques to analyse the trajectories of protein unfolding simulations.  ...  The paper describes ongoing work on one of several problems of interest in the protein unfolding setting.  ...  Acknowledgments This work has been partially supported by projects "Searching for high level rules in protein folding and unfolding: from amyloid diseases to protein structure prediction" (PTDC/BIA-PRO  ... 
doi:10.1007/978-3-540-85861-4_21 fatcat:kza2bh5ofrfnhmrkmmolvecsla

METHODS AND TOOLS FOR HYPOTHESIS-DRIVEN RESEARCH SUPPORT: A SURVEY

2015 Informatika i ee Primeneniya  
simulated data practically in all research domains.  ...  The principal goal of DIR is an extraction (inference) of knowledge from data.  ...  Both B and O are the logic programs (set of rules in some rule language).  ... 
doi:10.14357/19922264150104 fatcat:g4j3jorg5verhpgpmuaxnv7gnu

Pathway analysis for BioAmbients

Henrik Pilegaard, Flemming Nielson, Hanne Riis Nielson
2008 The Journal of Logic and Algebraic Programming  
In this paper we define a pathway analysis, based on static analysis techniques from programming languages, and show how it can be used to establish useful, finite, approximations to the set of causal  ...  Finally, a data-mining facility based on logical languages could easily be implemented on top of the computed graphs and automata. We start by showing some basic properties of free names: Fact 19.  ...  use of static data flow analysis in conjunction with process calculi.  ... 
doi:10.1016/j.jlap.2008.05.006 fatcat:rr52l4n2bbco7m6ns3lrmtgb6a

Papertitles

2019 2019 8th International Conference on Modeling Simulation and Applied Optimization (ICMSAO)  
Fused Hyperspectral Data for Improved LULC Classification Comparisons and Appropriate Solutions to Prevent Data Threats of Cloud Computing, Applied in Green Environment Constant Current Fuzzy Logic Controller  ...  Data Online QoE Prediction Model Based on Stacked Multiclass Incremental Support Vector Machine Optimal time frame required to accurately estimate Ktrans,vp and ve using graphical method: Simulation Study  ... 
doi:10.1109/icmsao.2019.8880446 fatcat:hitkakka4fbw5klyxiqdfnooeq

Scaling up classification rule induction through parallel processing

Frederic Stahl, Max Bramer
2012 Knowledge engineering review (Print)  
One of the most important of these data mining technologies is the classification of newly recorded data. This paper surveys advances in parallelisation in the field of classification rule induction.  ...  The fast increase in the size and number of databases demands data mining approaches that are scalable to large amounts of data.  ...  Examples for such large scale simulations are Molecular Dynamics simulations that are conducted in order to find rules to describe the folding, unfolding or malfolding of proteins.  ... 
doi:10.1017/s0269888912000355 fatcat:wbm4gvuu4jbsxoe2qmvl5ae6ne

Grid-enabling data mining applications with DataMiningGrid: An architectural perspective

Vlado Stankovski, Martin Swain, Valentin Kravtsov, Thomas Niessen, Dennis Wegener, Jörg Kindermann, Werner Dubitzky
2008 Future generations computer systems  
Based on the Globus Toolkit and other open technology and standards, the DataMiningGrid system provides tools and services facilitating the grid-enabling of data mining applications without any intervention  ...  The DataMiningGrid system has been designed to meet the requirements of modern and distributed data mining scenarios.  ...  Use case 2: Analysis of molecular dynamics protein unfolding simulation data: Computer simulations based on molecular dynamics generate large volumes of data (>100 MB per simulation) [9] .  ... 
doi:10.1016/j.future.2007.05.004 fatcat:suxcdcyllrekjbr2h4mo7v2wqi

Attribute Exploration of Gene Regulatory Processes [article]

Johannes Wollbold
2012 arXiv   pre-print
A comparison with the temporal expressivity of Description Logics is made.  ...  observed data.  ...  on the protein-protein interaction level.  ... 
arXiv:1204.1995v1 fatcat:dqymfce6l5caxkao7mm34yuphy

The Capabilities of Chaos and Complexity [chapter]

D Abel
2011 Models and Applications of Chaos Theory in Modern Sciences  
Many thanks to Kirk Durston and David Chiu at the University of Guelph for their willingness to share their impressive experimental data.  ...  [italics mine] Inanimate nature does not do "numerical simulations." Where exactly within natural physicodynamic interactions did "control strategy" come from?  ...  The Cybernetic Cut is logically, not empirically, absolute. Science does not expect induction to be absolute.  ... 
doi:10.1201/b11408-13 fatcat:xww5era7trfa7p6op3hgyp5phy

The Capabilities of Chaos and Complexity

David Abel
2009 International Journal of Molecular Sciences  
Many thanks to Kirk Durston and David Chiu at the University of Guelph for their willingness to share their impressive experimental data.  ...  [italics mine] Inanimate nature does not do "numerical simulations." Where exactly within natural physicodynamic interactions did "control strategy" come from?  ...  The Cybernetic Cut is logically, not empirically, absolute. Science does not expect induction to be absolute.  ... 
doi:10.3390/ijms10010247 pmid:19333445 pmcid:PMC2662469 fatcat:pzzwtzm3zbhujnoio54kpwcena

Anti-inflammatory effects of reactive oxygen species – a multi-valued logical model validated by formal concept analysis

Johannes Wollbold, Robert Jaster, Sarah Müller, Katja Rateitschak, Olaf Wolkenhauer
2014 BMC Systems Biology  
To explain published data and to understand ROS effects during the onset of acute pancreatitis, a model using multi-valued logic is constructed.  ...  At the same time, FCA helps to reveal subtle differences between data and simulations. The FCA visualization underlines the protective role of ROS against necrosis.  ...  Results and discussion shows the network, the logical functions and compares simulation results with the data.  ... 
doi:10.1186/s12918-014-0101-7 pmid:25315877 pmcid:PMC4229622 fatcat:mmpa6ie7nfbgfhryrmddkvgmyy

Award Winners and Abstracts of the 30th Anniversary Symposium of The Protein Society, Baltimore, MD, July 16-19, 2016

2016 Protein Science  
We go on to demonstrate that this rapid search capability enables a novel approach to protein surface design, based on mining motif matches for sequence-structure relationships.  ...  Results of these simulations were compared with bulk mechanical unfolding of I27 by pulling along the N-C direction.  ...  Tyrosine nitration in a protein is associated with the pathogenesis of highly fatal astrocytomas.  ... 
doi:10.1002/pro.3026 pmid:27783432 pmcid:PMC5081090 fatcat:c4k7luvl4vczfpol76ycqo4nji

Neighbouring Proximity - An Key Impact Factor of Deep Machine Learning

Hongyuan Shi, Yunke Li, Liang Chen, Fan Jiang
2018 2018 IEEE 17th International Conference on Cognitive Informatics & Cognitive Computing (ICCI*CC)  
It has an outstanding capability to extract and represent the features of raw data and it has been applied to many domains, such as image processing, pattern recognition, computer vision, machine translation  ...  Inductive logic programming (ILP) is another representative of symbolism based on clause logic framework.  ...  Symbolists proposed two kinds of models: decision tree learning and inductive logic programming.  ... 
doi:10.1109/icci-cc.2018.8482089 dblp:conf/IEEEicci/ShiLCJ18 fatcat:t7misysu3bdhjgbx2uwnbrshf4

Causality Is Logically Definable—Toward an Equilibrium-Based Computing Paradigm of Quantum Agent and Quantum Intelligence (QAQI) (Survey and Research)

Wen-Ran Zhang, Karl E. Peace
2014 Journal of Quantum Information Science  
Applicability is illustrated; major challenges are identified in equilibrium based causal inference and quantum data mining. 229 or animals.  ...  In the survey, Aristotle's causality principle and its historical extensions by , and the causal set initiative are reviewed; bipolar dynamic logic (BDL) is introduced as a causal logic for bipolar inductive  ...  Text for bipolar data mining.  ... 
doi:10.4236/jqis.2014.44021 fatcat:no4u6ddglvcsxbjnhh3dcqnouy

Abstracts of the 29th Annual Symposium of The Protein Society

2015 Protein Science  
Conformational changes of PHD2 on 2OG and CODD binding were consistent with crystallographic analyses.  ...  The interactions of SPM-1 with various potential inhibitors were reported by 19F-NMR, which enabled monitoring SPM-1 conformational changes on ligand binding and informed on binding strength by enabling  ...  To exert its functions on DNA, TraI works in close co-ordination with other relaxosome proteins like TraY, TraM and the integration host factor.  ... 
doi:10.1002/pro.2823 pmid:26452528 pmcid:PMC4632850 fatcat:ejmksoqj3zbsrkabl4jyp7emgi

Bridging the gap between medical and bioinformatics: An ontological case study in colon carcinoma

Anand Kumar, Yum Lina Yip, Barry Smith, Pierre Grenon
2006 Computers in Biology and Medicine  
In this paper, we describe a large multi-granular datasource built by using ontological principles and focusing on the case of colon carcinoma.  ...  Such information integration is also important for the integration of genomics information with the information contained in the electronic patient records in such a way that real time conclusions can  ...  Acknowledgements Work on this paper was carried out under the auspices of the Wolfgang Paul Program of the Humboldt Foundation and also of the EU Network of Excellence in Semantic Datamining and the project  ... 
doi:10.1016/j.compbiomed.2005.07.001 pmid:16343472 fatcat:2aqhca7ucrftdnrrmhn24554vu
« Previous Showing results 1 — 15 out of 483 results