AIMC Topic: Data Mining

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Making adjustments to event annotations for improved biological event extraction.

Journal of biomedical semantics
BACKGROUND: Current state-of-the-art approaches to biological event extraction train statistical models in a supervised manner on corpora annotated with event triggers and event-argument relations. Inspecting such corpora, we observe that there is am...

The Ontology of Biological and Clinical Statistics (OBCS) for standardized and reproducible statistical analysis.

Journal of biomedical semantics
BACKGROUND: Statistics play a critical role in biological and clinical research. However, most reports of scientific results in the published literature make it difficult for the reader to reproduce the statistical analyses performed in achieving tho...

Gene Ontology synonym generation rules lead to increased performance in biomedical concept recognition.

Journal of biomedical semantics
BACKGROUND: Gene Ontology (GO) terms represent the standard for annotation and representation of molecular functions, biological processes and cellular compartments, but a large gap exists between the way concepts are represented in the ontology and ...

Automated detection of discourse segment and experimental types from the text of cancer pathway results sections.

Database : the journal of biological databases and curation
Automated machine-reading biocuration systems typically use sentence-by-sentence information extraction to construct meaning representations for use by curators. This does not directly reflect the typical discourse structure used by scientists to con...

Unsupervised class labeling of diffuse lung diseases using frequent attribute patterns.

International journal of computer assisted radiology and surgery
PURPOSE: For realizing computer-aided diagnosis (CAD) of computed tomography (CT) images, many pattern recognition methods have been applied to automatic classification of normal and abnormal opacities; however, for the learning of accurate classifie...

Training and evaluation corpora for the extraction of causal relationships encoded in biological expression language (BEL).

Database : the journal of biological databases and curation
Success in extracting biological relationships is mainly dependent on the complexity of the task as well as the availability of high-quality training data. Here, we describe the new corpora in the systems biology modeling language BEL for training an...

Knowledge Discovery from Biomedical Ontologies in Cross Domains.

PloS one
In recent years, there is an increasing demand for sharing and integration of medical data in biomedical research. In order to improve a health care system, it is required to support the integration of data by facilitating semantic interoperability s...

The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge.

Database : the journal of biological databases and curation
Biomedical text mining methods and technologies have improved significantly in the last decade. Considerable efforts have been invested in understanding the main challenges of biomedical literature retrieval and extraction and proposing solutions to ...

Mining biomedical images towards valuable information retrieval in biomedical and life sciences.

Database : the journal of biological databases and curation
Biomedical images are helpful sources for the scientists and practitioners in drawing significant hypotheses, exemplifying approaches and describing experimental results in published biomedical literature. In last decades, there has been an enormous ...

Computational analysis of memory capacity in echo state networks.

Neural networks : the official journal of the International Neural Network Society
Reservoir computing became very popular due to its potential for efficient design of recurrent neural networks, exploiting the computational properties of the reservoir structure. Various approaches, ranging from appropriate reservoir initialization ...