Related papers: Automatic annotation of bioinformatics workflows w…
Motivation: The rapid growth of biological data has intensified the need for transparent, reproducible, and well-documented computational workflows. The ability to clearly connect the steps of a workflow in the code with their description…
Shared artifacts and environments play a prominent role in shaping the collaboration between their users. This article describes this role and explains how annotations can provide a bridge between direct communication and collaboration…
To be effective, state of the art machine learning technology needs large amounts of annotated data. There are numerous compelling applications in healthcare that can benefit from high performance automated decision support systems provided…
Collaborative tagging systems, such as Delicious, CiteULike, and others, allow users to annotate resources, e.g., Web pages or scientific papers, with descriptive labels called tags. The social annotations contributed by thousands of users,…
Despite biographies are widely spread within the Semantic Web, resources and approaches to automatically extract biographical events are limited. Such limitation reduces the amount of structured, machine-readable biographical information,…
Manual annotation of textual documents is a necessary task when constructing benchmark corpora for training and evaluating machine learning algorithms. We created a comprehensive directory of annotation tools that currently includes 93…
Unstructured information comprises a valuable source of data in clinical records. For text mining in clinical records, concept extraction is the first step in finding assertions and relationships. This study presents a system developed for…
Intensive care units (ICUs) are complex and data-rich environments. Data routinely collected in the ICUs provides tremendous opportunities for machine learning, but their use comes with significant challenges. Complex problems may require…
Generative large language models (LLMs) can be a powerful tool for augmenting text annotation procedures, but their performance varies across annotation tasks due to prompt quality, text data idiosyncrasies, and conceptual difficulty.…
Because of the increasing number of electronic data, designing efficient tools to retrieve and exploit documents is a major challenge. Current search engines suffer from two main drawbacks: there is limited interaction with the list of…
Automated decision support can accelerate tedious tasks as users can focus their attention where it is needed most. However, a key concern is whether users overly trust or cede agency to automation. In this paper, we investigate the effects…
Many complex discourse-level tasks can aid domain experts in their work but require costly expert annotations for data creation. To speed up and ease annotations, we investigate the viability of automatically generated annotation…
In large organisations, identifying experts on a given topic is crucial in leveraging the internal knowledge spread across teams and departments. So-called enterprise expert retrieval systems automatically discover and structure employees'…
The schema.org initiative led by the four major search engines curates a vocabulary for describing web content. The number of semantic annotations on the web are increasing, mostly due to the industrial incentives provided by those search…
We present a corpus of 5,000 richly annotated abstracts of medical articles describing clinical randomized controlled trials. Annotations include demarcations of text spans that describe the Patient population enrolled, the Interventions…
Along the design process of interactive system many intermediate artefacts (such as user interface prototypes, task models describing user work and activities, dialog models specifying system behavior, interaction models describing user…
Motivation: Ontologies are widely used in biology for data annotation, integration, and analysis. In addition to formally structured axioms, ontologies contain meta-data in the form of annotation axioms which provide valuable pieces of…
Bio-medical ontologies can contain a large number of concepts. Often many of these concepts are very similar to each other, and similar or identical to concepts found in other bio-medical databases. This presents both a challenge and…
Information and communications technology and technology-enhanced learning have unquestionably transformed traditional teaching-learning processes and are positioned as key factors to promote quality education, one of the basic sustainable…
This paper presents a software component that generates a user interface structure for populating a domain ontology. The core of this work is an algorithm that takes an ontology and returns a structure describing the user interface. The…