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检索条件"任意字段=6th International Conference on Bioinformatics Models, Methods and Algorithms, BIOINFORMATICS 2015"

共 237 条记录，以下是91-100 订阅

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the systems toxicology challenge: How to leverage omics data to predict mechanisms of toxicity? 15

The systems toxicology challenge: How to leverage omics data...

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6th ACM conference on bioinformatics, Computational Biology, and Health Informatics, BCB 2015

作者： Ivanov, Nikolai V. Poussin, Carine Boué, Stéphanie Martin, Florian Sewer, Alain Titz, Bjoern Peitsch, Manuel C. Hoeng, Julia Philip Morris International R and D Neuchâtel2000 Switzerland

ISBN: (纸本)9781450338530

Risk assessment in the context of 21st century toxicology relies on the elucidation and understanding of mechanisms of toxicity. For that purpose, datasets generated by high-throughput technologies (e.g., high-throughput/content screening) combined with various omics data types are now generated in vitro to test large and diverse set of chemicals (e.g. ToxCast). the development of relevant computational approaches for the analysis and integration of these big data remains challenging and requires qualitative and quantitative evaluation. the current scope of sbv IMPROVER (Industrial Methodology for Process Verification in Research;http://***) is the verification of methods and concepts in systems biology research via challenges opened to the scientific community. Previous challenges brought new insights on methods and their associated results that address questions about diagnostic signatures, the translatability of biological responses/processes across species, and the relevance of biological causal network models. A new sbv IMPROVER challenge will be introduced aiming at evaluating (i) methodologies for the identification of specific biomarkers of exposure and (ii) the predictability by omics data of toxicity mechanisms when cells/tissues in vitro or whole organisms are exposed to individual chemical molecules or mixtures. Participants will be provided with high quality data sets to develop predictive models/classifiers. For this challenge, the integration of a priori biological knowledge in the development of computational approaches may be required to enable biological interpretability/understanding of the predictions. the results and post-challenge analyses will be shared with the scientific community, and will open new avenues in the field of systems toxicology. Copyright is held by the author/owner(s).

关键词： Risk assessment

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Estimation of arbitrary human models from anthropometric dimensions 6th

Estimation of arbitrary human models from anthropometric dim...

引用

6th international conference on Digital Human Modeling, DHM 2015 Held as Part of 17th international conference on Human-Computer Interaction, HCI international 2015

作者： Endo, Yui Tada, Mitsunori Mochimaru, Masaaki Digital Human Research Center National Institute of Advanced Science and Technology Tsukuba Japan

ISBN: (纸本)9783319210698

In this paper, we describe a novel approach for reconstructing arbitrary whole-body human models from an arbitrary sparse subset of anthropometric dimensions. Firstly, a comprehensive set of dimensions is estimated from the subset via the principal component space for the dimensions. then, a skin surface model with the obtained comprehensive set of dimensions is constructed by deforming a whole-body human model template. the result is validated based on the error distribution of the dimensions of the obtained surface mesh for the target. © Springer international Publishing Switzerland 2015.

关键词： Anthropometry

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Computational simulation of blood flow in a DeBakey type i aortic dissection 15

Computational simulation of blood flow in a DeBakey type i a...

引用

15th IEEE international conference on bioinformatics and Bioengineering, BIBE 2015

作者： Djorovic, Smiljana Filipovic, Nenad Stojic, Vladislava Velicki, Lazar Faculty of Mechanical Engineering University of Kragujevac 6 Sestre Janjic Street Kragujevac34000 Serbia Faculty of Medical Science University of Kragujevac 69 Svetozar Markovic Street Kragujevac34 000 Serbia Institute of Cardiovascular Diseases in Sremska Kamenica 4 Put Doktora Goldmana Street Sremska Kamenica21208 Serbia

ISBN: (纸本)9781467379830

the main purpose of this study is to examine how flow field in aortic dissection is affected by its geometry and flow condition. Two models of DeBakey type I aortic dissection, which involves the entire aorta, were analyzed. Patient-specific geometries were reconstructed, based on Computed tomography (CT) scan images, in order to obtain 3D finite element meshes. Computational fluid dynamics (CFD), which uses numeric methods and algorithms for the simulation of blood flow by solving the Navier-Stokes equations on computational meshes, enhances the understanding of disease progression. For that purpose, the major fluid dynamic parameters and indicators of disease progression, such as velocity field, pressure and shear stress, were computed and analyzed. the computed results showed higher velocities in the ascending aorta, the inlet and outlet tears and the iliac arteries, in case of both models. the pressure distribution showed high zones in the ascending aorta, while the shear stress distribution showed low zones in the aneurysm part, in case of both models. In summary, the presented study can be extended to a larger patient group in a longitudinal study with the goal to determine the potential value of CFD simulations in prediction of aneurysmal growth and rupture. © 2015 IEEE.

关键词： Navier Stokes equations

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6th international conference on Fundamentals of Software Engineering, FSEN 2015

6th International Conference on Fundamentals of Software Eng...

引用

6th international conference on Fundamentals of Software Engineering, FSEN 2015

ISBN: (纸本)9783319246437

the proceedings contain 21 papers. the special focus in this conference is on Fundamentals of Software Engineering. the topics include: Towards smart systems of systems;automated integration of service-oriented software systems;software architecture modeling and evaluation based on stochastic activity networks;modeling and efficient verification of broadcasting actors;a theory of integrating tamper evidence with stabilization;a safe stopping protocol to enable reliable reconfiguration for component-based distributed systems;efficient architecture-level configuration of large-scale embedded software systems;benchmarks for parity games;incremental realization of safety requirements;analyzing mutable checkpointing via invariants;high performance computing applications using parallel data processing units;improved iterative methods for verifying markov decision processes;a pre-congruence format for xy-simulation;tooled process for early validation of sysML models using modelica simulation;painless support for static and runtime verification of component-based applications;linear evolution of domain architecture in service-oriented software product lines;an interval-based approach to modelling time in event-B and from event-B models to dafny code contracts.

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6th international conference on Pattern Recognition and Machine Intelligence, PReMI 2015

作者： Maji, Pradipta Shah, Ekta Paul, Sushmita Biomedical Imaging and Bioinformatics Lab Machine Intelligence Unit Indian Statistical Institute Kolkata India Laboratory of Systems Tumor Immunology Department of Dermatology University of Erlangen-Nurnberg Erlangen Germany

One of the important problems in functional genomics is how to select the disease genes. In this regard, the paper presents a new similarity measure to compute the functional similarity between two genes. It is based on the information of protein-protein interaction networks. A new gene selection algorithm is introduced to identify disease genes, integrating judiciously the information of gene expression profiles and protein-protein interaction networks. the proposed algorithm selects a set of genes from microarray data as disease genes by maximizing the relevance and functional similarity of the selected genes. the performance of the proposed algorithm, along with a comparison with other related methods, is demonstrated on colorectal cancer data set. © Springer international Publishing Switzerland 2015.

关键词： Proteins

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Impact of threshold Computation methods in Hardware Wavelet Denoising Implementations for Neural Signal Processing 7th

Impact of Threshold Computation Methods in Hardware Wavelet ...

引用

5th international conference on bioinformatics models, methods and algorithms (bioinformatics) is part of 7th international Joint conference on Biomedical Engineering Systems and Technologies (BIOSTEC)

作者： Carta, Nicola Pani, Danilo Raffo, Luigi Univ Cagliari DIEE Deptartment Elect & Elect Engn Via Marengo 3 I-09123 Cagliari Italy

ISBN: (纸本)9783319261294;9783319261287

Wavelet denoising effectiveness has been proven in neural signal processing applications characterized by a low SNR. this non-linear approach is implemented through the application of some thresholds on the detail signals coming from a sub-band decomposition. the computation of the thresholds could exhibit a high latency when involving some estimators such as the Median Absolute Deviation (MAD), which is critical for real-time applications. When a VLSI implementation is pursued for low-power purposes, such as in the neuroprosthetic field, these aspects cannot be overlooked. this paper presents an analysis of the main VLSI hardware implementation figures related to this specific aspect of the signal denoising by wavelet processing. Xilinx System Generator has been exploited as a design and co-simulation tool to ease the hardware development on off-the-shelf FPGA platforms. the MAD estimator has been both combinatorially and sequentially implemented, and compared against the sample standard deviation. the study reveals similar performance on the neural signals but dramatically worse implementation figures for the MAD. the combinatorial version of the MAD actually prevents an efficient implementation on medium-small devices. this result is important to perform a correct implementation choice for implantable real-time systems, where the device size is relevant for an usable realization.

关键词： Wavelet denoising Neural signal processing FPGA Design tools

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Developing robust predictive models for head and neck cancer across microarray and RNA-seq data 15

Developing robust predictive models for head and neck cancer...

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6th ACM conference on bioinformatics, Computational Biology, and Health Informatics, BCB 2015

作者： Kaddi, Chanchala D. Wang, May D. Wallace H. Coulter Department of Biomedical Engineering Georgia Institute of Technology AtlantaGA United States

ISBN: (纸本)9781450338530

Increased understanding of the transcriptomic patterns underlying head and neck squamous cell carcinoma (HNSCC) can facilitate earlier diagnosis and better treatment outcomes. Integrating knowledge from multiple studies is necessary to identify fundamental, consistent gene expression signatures that distinguish HNSCC patient samples from disease-free samples, and particularly for detecting HNSCC at an early pathological stage. this study utilizes feature integration and heterogeneous ensemble modeling techniques to develop robust models for predicting HNSCC disease status in both microarray and RNAseq datasets. Several alternative models demonstrated good performance, with MCC and AUC values exceeding 0.8. these models were also applied to discriminate between early pathological stage HNSCC and normal RNA-seq samples, showing encouraging results. the predictive modeling workflow was integrated into a software tool with a graphical user interface. this tool enables HNSCC researchers to harness frequently observed transcriptomic features and ensembles of previously developed models when investigating new HNSCC gene expression datasets. Copyright is held by the author/owner(s).

关键词： RNA

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Utilizing abstract phase spaces in swarm design and validation 6th

Utilizing abstract phase spaces in swarm design and validati...

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6th international conference on Swarm Intelligence, ICSI 2015 held in conjunction with the 2nd BRICS Congress on Computational Intelligence, CCI 2015

作者： Kazadi, Sanza Jin, Dexin Li, M. Jisan Research Institute 308 S. Palm Ave. AlhambraCA91803 United States

ISBN: (纸本)9783319204659

We introduce a swarm design methodology. the methodology uses a seven step process involving a high-level phase space to map the desired goal to a set of behaviors, castes, deployment schedules, and provably optimized strategies. We illustrate the method on the stickpulling task. © Springer international Publishing Switzerland 2015.

关键词： Phase space methods

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Integrative clustering of cancer genome data using infinite relational models 7

Integrative clustering of cancer genome data using infinite ...

引用

7th international conference on bioinformatics and Computational Biology, BICOB 2015

作者： Chikahara, Yoichi Niida, Atsushi Yamaguchi, Rui Imoto, Seiya Miyano, Satoru Human Genome Center Institute of Medical Science University of Tokyo 4-6-1 Shirokanedai Minato-ku Tokyo108-8639 Japan

ISBN: (纸本)9781880843994

From the late 90s until today, the advances in high-throughput measurement technologies are remarkable and producing a huge amount of cancer genomic data. Due to the complexity of data, however, we have not still got a fully integrated view of genetic and transcriptional changes that differ among individuals. To visualize the differences in genetic and transcriptional data among patient samples, we focus on grouping of three types of features, i.e., genes, patient samples, and expression modules. We propose an integrative framework based on the biclustering of multiple types of biological data, i.e., copy number, gene expression, and module activity, by extending the Infinite Relational models (IRM), a non-parametric Bayesian model used to perform a biclustering of binary data, for continuous data. We demonstrate an utility of the model using a colorectal cancer (CRC) dataset. Our result discovers a clinical insight that the activity of modules related to an immune system is associated with CRC patients survival, which demonstrates the ability of our novel integrative approach to group not only genes and modules but also patient samples based on their genetic and transcriptional alterations. Copyright ISCA, BICOB 2015.

关键词： Clustering algorithms

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6th international conference on Agents and Artificial Intelligence, ICAART 2014

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6th international conference on Agents and Artificial Intelligence, ICAART 2014

ISBN: (纸本)9783319275420

the proceedings contain 11 papers. the special focus in this conference is on Transactions on Computational Collective Intelligence. the topics include: Developing embodied agents for education applications with accurate synchronization of gesture and speech;abstraction of heterogeneous supplier models in hierarchical resource allocation;shape recognition through tactile contour tracing;real-time tear film classification through cost-based feature selection;scalarized and Pareto knowledge gradient for multi-objective multi-armed bandits;extensibility based multiagent planner with plan diversity metrics;concurrent and distributed shortest-path searches in multiagent-based transport systems;overcoming limited onboard sensing in swarm robotics through local communication and the benefits of pattern-recognition when solving problems in a complex domain.

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