Search results for "oftware"

Interpretable machine learning models for single-cell ChIP-seq imputation

2019

AbstractMotivationSingle-cell ChIP-seq (scChIP-seq) analysis is challenging due to data sparsity. High degree of data sparsity in biological high-throughput single-cell data is generally handled with imputation methods that complete the data, but specific methods for scChIP-seq are lacking. We present SIMPA, a scChIP-seq data imputation method leveraging predictive information within bulk data from ENCODE to impute missing protein-DNA interacting regions of target histone marks or transcription factors.ResultsImputations using machine learning models trained for each single cell, each target, and each genomic region accurately preserve cell type clustering and improve pathway-related gene i…

The CogALex-IV Shared Task on the Lexical Access Problem

2014

The shared task of the 4th Workshop on Cognitive Aspects of the Lexicon (CogALexIV) was devoted to a subtask of the lexical access problem, namely multi-stimulus association. In this task, participants were supposed to determine automatically an expected response based on a number of received stimulus words. We describe here the task definition, the theoretical background, the training and test data sets, and the evaluation procedure used for ranking the participating systems. We also summarize the approaches used and present the results of the evaluation. In conclusion, the outcome of the competition are a number of systems which provide very good solutions to the problem.

An evolutionary restricted neighborhood search clustering approach for PPI networks

2014

Protein-protein interaction networks have been broadly studied in the last few years, in order to understand the behavior of proteins inside the cell. Proteins interacting with each other often share common biological functions or they participate in the same biological process. Thus, discovering protein complexes made of a group of proteins strictly related can be useful to predict protein functions. Clustering techniques have been widely employed to detect significant biological complexes. In this paper, we integrate one of the most popular network clustering techniques, namely the Restricted Neighborhood Search Clustering (RNSC), with evolutionary computation. The two cost functions intr…

Farbkodierte Volumen-Rekonstruktionen zur dreidimensionalen Darstellung von CT-Daten

2008

PURPOSE To evaluate a technique of colored three-dimensional reconstructions without segmentation. MATERIAL AND METHODS Color-coded volume rendered images were reconstructed from the volume data of 25 thoracic, abdominal, musculoskeletal, and vascular helical CT scans using commercial software. The CT volume rendered voxels were encoded with color in the following manner. Opacity, hue, lightness, and chroma were assigned to each of four classes defined by CT number. Color-coded reconstructions were compared to the corresponding grey-scale coded reconstructions. RESULTS Color coded volume rendering enabled realistic visualisation of pathologic findings when there was sufficient difference in…

Adding Domain Analysis to Software Development Method

2002

The researchers in the field of software development regard the reuse of components as one possible approach when creating quality software in less time and with fewer people. When components are used and created in the software development, one critical success factor is the use of domain analysis (DA). We report an action case study where the DA technique is first integrated into an existing software development method and then refined based on the experience of using it in a pilot project. The results indicate that our approach produces reusable components across a company-wide domain and eases the use of them in other development projects within domain.

Corrigendum to “Intelligent agents for feature modelling in computer aided design” [J. Comput. Des. Eng. (2018) 19–40]

2018

A Structural $\mathcal{ SHOIN(D)}$ Ontology Model for Change Modelling

2013

This paper presents a complete structural ontology model suited for change modelling on \(\mathcal{ SHOIN(D)}\) ontologies. The application of this model is illustrated along the paper through the description of an ontology example inspired by the UOBM ontology benchmark and its evolution.

Proactive Handoff of Secondary User in Cognitive Radio Network Using Machine Learning Techniques

2021

Spectrum management always appears as an essential part of modern communication systems. Handoff is initiated when the signal strength of a current user deteriorates below a certain threshold. In cognitive radio network, the perception of handoff is different due to the presence of two categories of users: certified/primary user and uncertified/secondary user. The reason for the spectrum handoff arises when the primary user (PU) returns to one of its band used by the secondary user. The spectrum handoff is of two types: reactive handoff and proactive handoff. There are certain limitations in reactive handoff, such as it suffers from prolonged handoff latency and interference. In the proacti…

OWL2: The Next Step for OWL

2008

Since achieving W3C recommendation status in 2004, the Web Ontology Language (OWL) has been successfully applied to many problems in computer science. Practical experience with OWL has been quite positive in general; however, it has also revealed room for improvement in several areas. We systematically analyze the identied short-comings of OWL, such as expressivity issues, problems with its syntaxes, and deficiencies in the definition of OWL species. Furthermore, we present an overview of OWL 2 -- an extension to and revision of OWL that is currently being developed within the W3C OWL Working Group. Many aspects of OWL have been thoroughly reengineered in OWL 2, thus producing a robust plat…

Using proximity and spatial homogeneity in neighbourhood-based classifiers

1997

In this paper, a set of neighbourhood-based classifiers are jointly used in order to select a more reliable neighbourhood of a given sample and take an appropriate decision about its class membership. The approaches introduced here make use of two concepts: proximity and symmetric placement of the samples.