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Computational methods and optimizations for containment and complementarity in web data cubes

Marios Meimaris, George Papastefanatos, Panos Vassiliadis, Ioannis Anagnostopoulos
2018 Information Systems  
Specifically, we define the notions of containment and complementarity between points in multidimensional dataspaces, as different aspects of relatedness, and we propose a baseline method for computing  ...  In this paper we define two types of relationships between multidimensional RDF data, and we propose algorithms for efficient and scalable computation of these relationships.  ...  Execution time is measured as the time needed for data pre-processing and for computing complementarity and containment properties.  ... 
doi:10.1016/j.is.2018.02.010 fatcat:xtzdi5t6fvcnxhzz7czyhs3cxy

Paving the Way for Interoperability in Digital Libraries: The DL.org Project

Katerina El Raheb, George Athanasopoulos, Leonardo Candela, Donatella Castelli, Perla Innocenti, Yannis Ioannidis, Akrivi Katifori, Anna Nika, Stephanie Parker, Seamus Ross, Costantino Thanos, Eleni Toli (+1 others)
2011 New Trends in Qualitative and Quantitative Methods in Libraries  
Earth observations data cubes (EODCs) are a paradigm transforming the way users interact with large spatio-temporal Earth observation (EO) data.  ...  The novelty of the approach results in different innovative solutions and the lack of commonly agreed definition of EODC.  ...  Acknowledgments: The authors would like to thank the Swiss Federal Office for the Environment (FOEN) for their financial support to the Swiss Data Cube.  ... 
doi:10.1142/9789814350303_0042 fatcat:2rhc7i7vwzfq3bukjktvfdv37q

Computational Cell Biology

J. Sneyd
2003 Mathematical Medicine and Biology  
Semantics and computation of descriptive rules in an n-ary relation 8 5.22. Comparing Intended and Real Usage in Web Portal: Temporal Logic and Data Mining 8 6. Other Grants and Activities . . . . . .  ...  Scientific Foundations Introduction The expanded name for the Combining research group is "Computational Biology and Data-Mining".  ... 
doi:10.1093/imammb/20.1.131 fatcat:2cmq6zcr6bb7holvjztfu26i6y

Computational Cell Biology

S. Schnell
2003 Briefings in Bioinformatics  
Semantics and computation of descriptive rules in an n-ary relation 8 5.22. Comparing Intended and Real Usage in Web Portal: Temporal Logic and Data Mining 8 6. Other Grants and Activities . . . . . .  ...  Scientific Foundations Introduction The expanded name for the Combining research group is "Computational Biology and Data-Mining".  ... 
doi:10.1093/bib/4.1.87 fatcat:szv5ps3zovawbhrotxdktxrgwe

Computational Cell Biology

J. Sneyd
2003 Mathematical Medicine and Biology  
Semantics and computation of descriptive rules in an n-ary relation 8 5.22. Comparing Intended and Real Usage in Web Portal: Temporal Logic and Data Mining 8 6. Other Grants and Activities . . . . . .  ...  Scientific Foundations Introduction The expanded name for the Combining research group is "Computational Biology and Data-Mining".  ... 
doi:10.1093/imammb20.1.131 fatcat:6sml7goilrdvjphvvhsuerpyuy

Computational cell biology

2003 ChoiceReviews  
Semantics and computation of descriptive rules in an n-ary relation 8 5.22. Comparing Intended and Real Usage in Web Portal: Temporal Logic and Data Mining 8 6. Other Grants and Activities . . . . . .  ...  Scientific Foundations Introduction The expanded name for the Combining research group is "Computational Biology and Data-Mining".  ... 
doi:10.5860/choice.40-2772 fatcat:d73sxzlqk5hldghxuy3huohqau

MolCom: a method to compare protein molecules based on 3-D structural and chemical similarity

S.D. O'Hearn, A.J. Kusalik, J.F. Angel
2003 Protein Engineering Design & Selection  
This paper describes an improved method for conducting global feature comparisons of protein molecules in three dimensions and for producing a new form of multiple structure alignment.  ...  The accuracy of MolCom was found to be over 99% and the similarity scores correlated strongly with the z-scores of the Alignment by Incremental Combinatorial Extension of the Optimal Path method.  ...  (Prasad et al., 2001) ] and other collections of properties for comparing surfaces and for exploring complementarity in structures. A fast alignment method is under development.  ... 
doi:10.1093/proeng/gzg016 pmid:12702796 fatcat:x2bomaex6raidownsbbzusiq5m

A bagging and importance sampling approach to Support Vector Machines [article]

R. Bárcenas, M. D. Gónzalez--Lima, A. J. Quiroz
2018 arXiv   pre-print
The performance of the methodology is evaluated in benchmark examples and theoretical aspects of subsample methods are discussed.  ...  An importance sampling and bagging approach to solving the support vector machine (SVM) problem in the context of large databases is presented and evaluated.  ...  Their hospitality and support is gratefully acknowledged.  ... 
arXiv:1808.05917v1 fatcat:rk4ueovzlrernkrpspun4m2tpi

Recent Advances in Volume Visualization

Ken Brodlie, Jason Wood
2001 Computer graphics forum (Print)  
In isosurfacing, we see how the original marching cubes algorithm has matured, with improvements in robustness, topological consistency, accuracy and performance.  ...  In the past few years, there have been key advances in the three main approaches to the visualization of volumetric data: isosurfacing, slicing and volume rendering, which together make up the field of  ...  Acknowledgements Thanks to Adriano Lopes for Figure 4 and Figure 5 .  ... 
doi:10.1111/1467-8659.00484 fatcat:trcbpzk7jbco5miqtgdniitjpe

Ofatumumab Monoclonal Antibody Affinity Maturation Through in silico Modeling

Zahra Payandeh, Masoumeh Rajabibazl, Yousef Mortazavi, Azam Rahimpour, Amir Hossein Taromchi
2017 Iranian Biomedical Journal  
In the present study, the designed anti-CD20 antibodies showed to have potential for improved affinity compared to commercial Ofatumumab.  ...  ACKNOWLEDGMENTS The present study has been financially supported by Research Department of the School of Medicine Shahid Beheshti University of Medical Sciences, Tehran, Iran (grant No. 9571) and Zanjan  ...  Combinatorial and computational methods, alone or in combination, may be employed to optimize the binding properties of natural protein-protein interactions for various biomedical and synthetic biology  ... 
pmid:28992681 pmcid:PMC5889503 fatcat:7pvzljex5ze4dggralvmy3lv3q

On proteins, grids, correlations, and docking

Miriam Eisenstein, Ephraim Katchalski-Katzir
2004 Comptes rendus. Biologies  
Inclusion of electrostatics often improves the results of geometric docking for soluble proteins, whereas hydrophobic complementarity is more important in construction of oligomers.  ...  Geometric surface complementarity is the dominant descriptor in docking.  ...  MolFit can be downloaded from our web site: http://www.weizmann.ac.il/Chemical_Research_ Support/molfit/.  ... 
doi:10.1016/j.crvi.2004.03.006 pmid:15255472 fatcat:gxngip3vrnhktpljo7lo4jc54e

USRCAT: real-time ultrafast shape recognition with pharmacophoric constraints

Adrian M Schreyer, Tom Blundell
2012 Journal of Cheminformatics  
The Ultrafast Shape Recognition (USR) algorithm is capable of screening millions of compounds and is therefore suitable for usage in a web service.  ...  Online chemical databases that offer a shape-based similarity method might also find advantage in using USRCAT due to its accuracy and performance.  ...  Acknowledgements The authors would like to thank OpenEye Scientific Software for providing an academic license. AMS is funded by the Wellcome Trust.  ... 
doi:10.1186/1758-2946-4-27 pmid:23131020 pmcid:PMC3505738 fatcat:hrlzbfavpvdidom2qrupque45e

MicroRNAs – targeting and target prediction

Takaya Saito, Pal Sætrom
2010 New Biotechnology  
MicroRNAs (miRNAs) are a class of small noncoding RNAs that can regulate many genes by base pairing to sites in mRNAs.  ...  This review outlines the features associated with animal miRNA targeting and describes currently available prediction tools.  ...  Both species of pre-computed prediction and the species available on the web tool are listed.  ... 
doi:10.1016/j.nbt.2010.02.016 pmid:20219708 fatcat:4nt7sf7lg5dnnntfxfp72kstr4

Computer-aided detection for pulmonary nodule identification: improving the radiologist's performance?

Alessandra Retico
2013 Imaging in Medicine  
This kind of service allows for CT data uploading through secure web protocols.  ...  In addition, if the web-based on-demand CAD service paradigm is adopted, the quality of the CAD output can be optimized.  ...  n The procedure presented in this paper to enhance the abnormal curvature of anatomic surfaces has been useful to many CAD developers.  ... 
doi:10.2217/iim.13.24 fatcat:ogmrnzvmu5bcxlmsdwpirvmgze

Joint Characterization of Spatiotemporal Data Manifolds [article]

Daniel Sousa, Christopher Small
2021 arXiv   pre-print
These properties are compensated by the greater interpretability, significantly lower computational demand and diminished sensitivity to spatial aliasing for PCs/EOFs than LE or t-SNE.  ...  Characterization can be considered the complement to modeling by helping guide assumptions about generative processes and their representation in the data.  ...  Thompson, Phil Townsend, and Ting Zheng for fruitful and interesting conversations.  ... 
arXiv:2108.09545v1 fatcat:ol7sbjgsznaufj5obblcnrerji
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