AIMC Topic: Models, Genetic

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Large-scale inference of gene function through phylogenetic annotation of Gene Ontology terms: case study of the apoptosis and autophagy cellular processes.

Database : the journal of biological databases and curation
We previously reported a paradigm for large-scale phylogenomic analysis of gene families that takes advantage of the large corpus of experimentally supported Gene Ontology (GO) annotations. This 'GO Phylogenetic Annotation' approach integrates GO ann...

Integrated Automatic Workflow for Phylogenetic Tree Analysis Using Public Access and Local Web Services.

Journal of integrative bioinformatics
At the present, coding sequence (CDS) has been discovered and larger CDS is being revealed frequently. Approaches and related tools have also been developed and upgraded concurrently, especially for phylogenetic tree analysis. This paper proposes an ...

Random Subspace Aggregation for Cancer Prediction with Gene Expression Profiles.

BioMed research international
. Precisely predicting cancer is crucial for cancer treatment. Gene expression profiles make it possible to analyze patterns between genes and cancers on the genome-wide scale. Gene expression data analysis, however, is confronted with enormous chall...

Reachable Set Estimation for Markovian Jump Neural Networks With Time-Varying Delays.

IEEE transactions on cybernetics
In this paper, the reachable set estimation problem is investigated for Markovian jump neural networks (NNs) with time-varying delays and bounded peak disturbances. Our goal is to find a set as small as possible which bounds all the state trajectorie...

State Estimation for Delayed Genetic Regulatory Networks With Reaction-Diffusion Terms.

IEEE transactions on neural networks and learning systems
This paper addresses the problem of state estimation for delayed genetic regulatory networks (DGRNs) with reaction-diffusion terms using Dirichlet boundary conditions. The nonlinear regulation function of DGRNs is assumed to exhibit the Hill form. Th...

Semi-supervised learning for genomic prediction of novel traits with small reference populations: an application to residual feed intake in dairy cattle.

Genetics, selection, evolution : GSE
BACKGROUND: Genomic prediction for novel traits, which can be costly and labor-intensive to measure, is often hampered by low accuracy due to the limited size of the reference population. As an option to improve prediction accuracy, we introduced a s...

A recurrence model for laryngeal cancer based on SVM and gene function clustering.

Acta oto-laryngologica
CONCLUSION: A prognostic model was obtained for LC. Several critical genes were unveiled. They could be potentially applied for LC recurrence prediction.

Inferring Unknown Biological Function by Integration of GO Annotations and Gene Expression Data.

IEEE/ACM transactions on computational biology and bioinformatics
Characterizing genes with semantic information is an important process regarding the description of gene products. In spite that complete genomes of many organisms have been already sequenced, the biological functions of all of their genes are still ...

Boolean regulatory network reconstruction using literature based knowledge with a genetic algorithm optimization method.

BMC bioinformatics
BACKGROUND: Prior knowledge networks (PKNs) provide a framework for the development of computational biological models, including Boolean models of regulatory networks which are the focus of this work. PKNs are created by a painstaking process of lit...

Computer-aided diagnosis system for lung nodules based on computed tomography using shape analysis, a genetic algorithm, and SVM.

Medical & biological engineering & computing
Lung cancer is the major cause of death among patients with cancer worldwide. This work is intended to develop a methodology for the diagnosis of lung nodules using images from the Image Database Consortium and Image Database Resource Initiative (LID...