BACKGROUND: Cancer is a complex disease driven by somatic genomic alterations (SGAs) that perturb signaling pathways and consequently cellular function. Identifying patterns of pathway perturbations would provide insights into common disease mechanis...
Proceedings of the National Academy of Sciences of the United States of America
Mar 13, 2017
Social behavior is often shaped by the rich storehouse of biographical information that we hold for other people. In our daily life, we rapidly and flexibly retrieve a host of biographical details about individuals in our social network, which often ...
This paper concerns the generation of distributed vector representations of biomedical concepts from structured knowledge, in the form of subject-relation-object triplets known as semantic predications. Specifically, we evaluate the extent to which a...
Since the popularization of biological network inference methods, it has become crucial to create methods to validate the resulting models. Here we present GFD-Net, the first methodology that applies the concept of semantic similarity to gene network...
BACKGROUND: Clinical information is often stored as free text, e.g. in discharge summaries or pathology reports. These documents are semi-structured using section headers, numbered lists, items and classification strings. However, it is still challen...
BACKGROUND: Ontologies are widely used as metadata in biological and biomedical datasets. Measures of semantic similarity utilize ontologies to determine how similar two entities annotated with classes from ontologies are, and semantic similarity is ...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Feb 10, 2017
Semantic role labeling (SRL), which extracts shallow semantic relation representation from different surface textual forms of free text sentences, is important for understanding clinical narratives. Since semantic roles are formed by syntactic consti...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Feb 10, 2017
Words which have different representations but are semantically related, such as dementia and delirium, can pose difficult issues in understanding text. We explore the use of interaction frequency data between semantic elements as a means to differen...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Feb 10, 2017
Scientific reproducibility is key to scientific progress as it allows the research community to build on validated results, protect patients from potentially harmful trial drugs derived from incorrect results, and reduce wastage of valuable resources...
AMIA ... Annual Symposium proceedings. AMIA Symposium
Feb 10, 2017
We present an approach for manually and automatically classifying the resource type of medical questions. Three types of resources are considered: patient-specific, general knowledge, and research. Using this approach, an automatic question answering...