Biomedical domains
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To introduce blockchain technologies, including their benefits, pitfalls, and the latest applications, to the biomedical and health care domains. Target Audience: Biomedical and health care informatics researchers who would like to learn about blockchain technologies and their applications in the biomedical/health care domains.
10p visteverogers 24-06-2023 2 2 Download
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Finding relevant datasets is important for promoting data reuse in the biomedical domain, but it is challenging given the volume and complexity of biomedical data. Here we describe the development of an open source biomedical data discovery system called DataMed, with the goal of promoting the building of additional data indexes in the biomedical domain.
9p visteverogers 24-06-2023 3 2 Download
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Distributional semantics algorithms, which learn vector space representations of words and phrases from large corpora, identify related terms based on contextual usage patterns. We hypothesize that distributional semantics can speed up lexicon expansion in a clinical domain, radiology, by unearthing synonyms from the corpus.
7p visteverogers 24-06-2023 5 1 Download
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Despite the success and fast adaptation of deep learning models in biomedical domains, their lack of interpretability remains an issue. Here, we introduce Enhanced Integrated Gradients (EIG), a method to identify significant features associated with a specific prediction task. Using RNA splicing prediction as well as digit classification as case studies, we demonstrate that EIG improves upon the original Integrated Gradients method and produces sets of informative features.
22p viarchimedes 26-01-2022 16 0 Download
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Lecture Biomedical Signal Processing and Modeling: Filtering for Removal of Artifact - Nguyen Cong Phuong provide students with knowledge about introduction; random, structured, and physiological noise; illustration of the problem with case studies; fundamental concepts of filtering; time domain filters; frequency domain filters;...
165p tanmocphong 19-01-2022 13 0 Download
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Lecture Biomedical Signal Processing and Modeling: Frequency Domain Characterization - Nguyen Cong Phuong provide students with knowledge about introduction; estimation of the PSD; measures derived from PSDs; the periodogram; the Blackman – Tukey method: smoothing a single periodogram;...
31p tanmocphong 19-01-2022 8 0 Download
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Deep learning has made tremendous successes in numerous artificial intelligence applications and is unsurprisingly penetrating into various biomedical domains. High-throughput omics data in the form of molecular profile matrices, such as transcriptomes and metabolomes, have long existed as a valuable resource for facilitating diagnosis of patient statuses/stages.
12p visilicon2711 20-08-2021 15 1 Download
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Automatic extraction of biomedical events from literature, that allows for faster update of the latest discoveries automatically, is a heated research topic now. Trigger word recognition is a critical step in the process of event extraction. Its performance directly influences the results of the event extraction.
18p vilichoo2711 25-06-2021 12 1 Download
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Semantic similarity measures estimate the similarity between concepts, and play an important role in many text processing tasks. Approaches to semantic similarity in the biomedical domain can be roughly divided into knowledge based and distributional based methods.
13p viwyoming2711 16-12-2020 6 1 Download
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Most of the institutional and research information in the biomedical domain is available in the form of English text. Even in countries where English is an official language, such as the United States, language can be a barrier for accessing biomedical information for non-native speakers.
10p viwyoming2711 16-12-2020 7 0 Download
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Professionals in the biomedical domain are confronted with an increasing mass of data. Developing methods to assist professional end users in the field of Knowledge Discovery to identify, extract, visualize and understand useful information from these huge amounts of data is a huge challenge.
10p viwyoming2711 16-12-2020 9 1 Download
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Concept recognition is an essential task in biomedical information extraction, presenting several complex and unsolved challenges. The development of such solutions is typically performed in an ad-hoc manner or using general information extraction frameworks, which are not optimized for the biomedical domain and normally require the integration of complex external libraries and/or the development of custom tools.
21p viwyoming2711 16-12-2020 7 1 Download
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Biomedical named entity recognition (BioNER) is an important task for understanding biomedical texts, which can be challenging due to the lack of large-scale labeled training data and domain knowledge. To address the challenge, in addition to using powerful encoders (e.g., biLSTM and BioBERT), one possible method is to leverage extra knowledge that is easy to obtain.
17p viwyoming2711 16-12-2020 13 1 Download
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Text mining is increasingly used in the biomedical domain because of its ability to automatically gather information from large amount of scientific articles. One important task in biomedical text mining is relation extraction, which aims to identify designated relations among biological entities reported in literature.
18p vikentucky2711 26-11-2020 5 1 Download
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The proliferation of the scientific literature in the field of biomedicine makes it difficult to keep abreast of current knowledge, even for domain experts. While general Web search engines and specialized information retrieval (IR) systems have made important strides in recent decades, the problem of accurate knowledge extraction from the biomedical literature is far from solved.
14p vikentucky2711 26-11-2020 14 1 Download
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Biomedical ontologies are increasingly instrumental in the advancement of biological research primarily through their use to efficiently consolidate large amounts of data into structured, accessible sets. However, ontology development and usage can be hampered by the segregation of knowledge by domain that occurs due to independent development and use of the ontologies.
15p vikentucky2711 26-11-2020 9 1 Download
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Semantic approaches such as concept-based information retrieval rely on a corpus in which resources are indexed by concepts belonging to a domain ontology. In order to keep such applications up-to-date, new entities need to be frequently annotated to enrich the corpus.
10p vikentucky2711 24-11-2020 16 1 Download
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Coreference resolution is the task of finding strings in text that have the same referent as other strings. Failures of coreference resolution are a common cause of false negatives in information extraction from the scientific literature.
14p viflorida2711 30-10-2020 9 2 Download
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Literature based discovery (LBD) automatically infers missed connections between concepts in literature. It is often assumed that LBD generates more information than can be reasonably examined.
9p viflorida2711 30-10-2020 10 1 Download
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Biomedical named entity recognition(BNER) is a crucial initial step of information extraction in biomedical domain. The task is typically modeled as a sequence labeling problem. Various machine learning algorithms, such as Conditional Random Fields (CRFs), have been successfully used for this task. However, these state-of-the-art BNER systems largely depend on hand-crafted features.
11p viconnecticut2711 29-10-2020 21 1 Download