AIMC Topic: Gene Regulatory Networks

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Multivariate Quantitative Multifactor Dimensionality Reduction for Detecting Gene-Gene Interactions.

Human heredity
OBJECTIVES: To determine gene-gene interactions and missing heritability of complex diseases is a challenging topic in genome-wide association studies. The multifactor dimensionality reduction (MDR) method is one of the most commonly used methods for...

Semi-supervised Learning for the BioNLP Gene Regulation Network.

BMC bioinformatics
BACKGROUND: The BioNLP Gene Regulation Task has attracted a diverse collection of submissions showcasing state-of-the-art systems. However, a principal challenge remains in obtaining a significant amount of recall. We argue that this is an important ...

Extending the evaluation of Genia Event task toward knowledge base construction and comparison to Gene Regulation Ontology task.

BMC bioinformatics
BACKGROUND: The third edition of the BioNLP Shared Task was held with the grand theme "knowledge base construction (KB)". The Genia Event (GE) task was re-designed and implemented in light of this theme. For its final report, the participating system...

Overview of the Cancer Genetics and Pathway Curation tasks of BioNLP Shared Task 2013.

BMC bioinformatics
BACKGROUND: Since their introduction in 2009, the BioNLP Shared Task events have been instrumental in advancing the development of methods and resources for the automatic extraction of information from the biomedical literature. In this paper, we pre...

Adaptable, high recall, event extraction system with minimal configuration.

BMC bioinformatics
BACKGROUND: Biomedical event extraction has been a major focus of biomedical natural language processing (BioNLP) research since the first BioNLP shared task was held in 2009. Accordingly, a large number of event extraction systems have been develope...

Optimal combination of feature selection and classification via local hyperplane based learning strategy.

BMC bioinformatics
BACKGROUND: Classifying cancers by gene selection is among the most important and challenging procedures in biomedicine. A major challenge is to design an effective method that eliminates irrelevant, redundant, or noisy genes from the classification,...

PsyGeNET: a knowledge platform on psychiatric disorders and their genes.

Bioinformatics (Oxford, England)
UNLABELLED: PsyGeNET (Psychiatric disorders and Genes association NETwork) is a knowledge platform for the exploratory analysis of psychiatric diseases and their associated genes. PsyGeNET is composed of a database and a web interface supporting data...

Disentangling multidimensional spatio-temporal data into their common and aberrant responses.

PloS one
With the advent of high-throughput measurement techniques, scientists and engineers are starting to grapple with massive data sets and encountering challenges with how to organize, process and extract information into meaningful structures. Multidime...

The potential of AOP networks for reproductive and developmental toxicity assay development.

Reproductive toxicology (Elmsford, N.Y.)
Historically, the prediction of reproductive and developmental toxicity has largely relied on the use of animals. The adverse outcome pathway (AOP) framework forms a basis for the development of new non-animal test methods. It also provides biologica...

Bioinformatics, interaction network analysis, and neural networks to characterize gene expression of radicular cyst and periapical granuloma.

Journal of endodontics
INTRODUCTION: Bioinformatics has emerged as an important tool to analyze the large amount of data generated by research in different diseases. In this study, gene expression for radicular cysts (RCs) and periapical granulomas (PGs) was characterized ...