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   Articles with "annotation tool" as a keyword



MutAnt: mutation annotation tool predicts deleteriousness of missense mutations and improves mutation calling from transcriptomics.

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recommendations! Published in 2025 at "Human genetics"

DOI: 10.1007/s00439-025-02775-5

Abstract: Many pathogenic variants implicated in Mendelian diseases impair normal protein function, often through loss-of-function effects, while loss-of-function mutations in tumor suppressor genes commonly contribute to tumorigenesis. However, many disease-causing variants act through gain-of-function or other… read more here.

Keywords: tool predicts; function; mutant mutation; mutation ... See more keywords

OrganoLabeler: A Quick and Accurate Annotation Tool for Organoid Images

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recommendations! Published in 2024 at "ACS Omega"

DOI: 10.1021/acsomega.4c06450

Abstract: Organoids are self-assembled 3D cellular structures that resemble organs structurally and functionally, providing in vitro platforms for molecular and therapeutic studies. Generation of organoids from human cells often requires long and costly procedures with arguably… read more here.

Keywords: organolabeler quick; data sets; accurate annotation; annotation tool ... See more keywords

MedTator: a serverless annotation tool for corpus development

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recommendations! Published in 2022 at "Bioinformatics"

DOI: 10.1093/bioinformatics/btab880

Abstract: SUMMARY Building a high-quality annotation corpus requires expenditure of considerable time and expertise, particularly for biomedical and clinical research applications. Most existing annotation tools provide many advanced features to cover a variety of needs where… read more here.

Keywords: serverless annotation; medtator serverless; medtator; annotation ... See more keywords

Pharokka: a fast scalable bacteriophage annotation tool

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recommendations! Published in 2022 at "Bioinformatics"

DOI: 10.1093/bioinformatics/btac776

Abstract: Abstract Summary In recent years, there has been an increasing interest in bacteriophages, which has led to growing numbers of bacteriophage genomic sequences becoming available. Consequently, there is a need for a rapid and consistent… read more here.

Keywords: tool; pharokka fast; annotation tool; bacteriophage ... See more keywords

DLLabelsCT: Annotation tool using deep transfer learning to assist in creating new datasets from abdominal computed tomography scans, case study: Pancreas

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recommendations! Published in 2024 at "PLOS ONE"

DOI: 10.1371/journal.pone.0313126

Abstract: The utilization of artificial intelligence (AI) is expanding significantly within medical research and, to some extent, in clinical practice. Deep learning (DL) applications, which use large convolutional neural networks (CNN), hold considerable potential, especially in… read more here.

Keywords: dllabelsct; model; annotation; study ... See more keywords

Automatic Annotation Tool to Support Supervised Machine Learning for Scaphoid Fracture Detection

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recommendations! Published in 2018 at "Studies in health technology and informatics"

DOI: 10.3233/978-1-61499-921-8-210

Abstract: The aim of this work is to develop and validate an automatic annotation tool for the detection and bone localization of scaphoid fractures in radiology reports. To achieve this goal, a rule-based method using a… read more here.

Keywords: detection; tool support; tool; annotation tool ... See more keywords

Development and Preliminary Evaluation of a Visual Annotation Tool to Rapidly Collect Expert-Annotated Weight Errors in Pediatric Growth Charts

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recommendations! Published in 2019 at "Studies in health technology and informatics"

DOI: 10.3233/shti190344

Abstract: Patient weights can be entered incorrectly into electronic health record (EHR) systems. These weight errors can cause significant patient harm especially in pediatrics where weight-based dosing is pervasively used. Determining weight errors through manual chart… read more here.

Keywords: visual annotation; annotation tool; weight errors; annotated weight ... See more keywords

User-Centered Evaluation of a Visual Annotation Tool for Rapid Assessment of Pediatric Weight Entry Errors

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recommendations! Published in 2022 at "Studies in health technology and informatics"

DOI: 10.3233/shti220130

Abstract: Weight entry errors can cause significant patient harm in pediatrics due to pervasive weight-based dosing practices. While computerized algorithms can assist in error detection, they have not achieved high sensitivity and specificity to be further… read more here.

Keywords: tool; annotation; visual annotation; weight entry ... See more keywords

ANNO: A General Annotation Tool for Bilingual Clinical Note Information Extraction

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recommendations! Published in 2022 at "Healthcare Informatics Research"

DOI: 10.4258/hir.2022.28.1.89

Abstract: Objectives This study was conducted to develop a generalizable annotation tool for bilingual complex clinical text annotation, which led to the design and development of a clinical text annotation tool, ANNO. Methods We designed ANNO… read more here.

Keywords: annotation tool; regular expression; tool bilingual; annotation ... See more keywords