Cargando…

REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays

Deep learning has shown recent success in classifying anomalies in chest x-rays, but datasets are still small compared to natural image datasets. Supervision of abnormality localization has been shown to improve trained models, partially compensating for dataset sizes. However, explicitly labeling t...

Descripción completa

Detalles Bibliográficos
Autores principales: Bigolin Lanfredi, Ricardo, Zhang, Mingyuan, Auffermann, William F., Chan, Jessica, Duong, Phuong-Anh T., Srikumar, Vivek, Drew, Trafton, Schroeder, Joyce D., Tasdizen, Tolga
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9206650/
https://www.ncbi.nlm.nih.gov/pubmed/35717401
http://dx.doi.org/10.1038/s41597-022-01441-z
_version_ 1784729376936427520
author Bigolin Lanfredi, Ricardo
Zhang, Mingyuan
Auffermann, William F.
Chan, Jessica
Duong, Phuong-Anh T.
Srikumar, Vivek
Drew, Trafton
Schroeder, Joyce D.
Tasdizen, Tolga
author_facet Bigolin Lanfredi, Ricardo
Zhang, Mingyuan
Auffermann, William F.
Chan, Jessica
Duong, Phuong-Anh T.
Srikumar, Vivek
Drew, Trafton
Schroeder, Joyce D.
Tasdizen, Tolga
author_sort Bigolin Lanfredi, Ricardo
collection PubMed
description Deep learning has shown recent success in classifying anomalies in chest x-rays, but datasets are still small compared to natural image datasets. Supervision of abnormality localization has been shown to improve trained models, partially compensating for dataset sizes. However, explicitly labeling these anomalies requires an expert and is very time-consuming. We propose a potentially scalable method for collecting implicit localization data using an eye tracker to capture gaze locations and a microphone to capture a dictation of a report, imitating the setup of a reading room. The resulting REFLACX (Reports and Eye-Tracking Data for Localization of Abnormalities in Chest X-rays) dataset was labeled across five radiologists and contains 3,032 synchronized sets of eye-tracking data and timestamped report transcriptions for 2,616 chest x-rays from the MIMIC-CXR dataset. We also provide auxiliary annotations, including bounding boxes around lungs and heart and validation labels consisting of ellipses localizing abnormalities and image-level labels. Furthermore, a small subset of the data contains readings from all radiologists, allowing for the calculation of inter-rater scores.
format Online
Article
Text
id pubmed-9206650
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Nature Publishing Group UK
record_format MEDLINE/PubMed
spelling pubmed-92066502022-06-20 REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays Bigolin Lanfredi, Ricardo Zhang, Mingyuan Auffermann, William F. Chan, Jessica Duong, Phuong-Anh T. Srikumar, Vivek Drew, Trafton Schroeder, Joyce D. Tasdizen, Tolga Sci Data Data Descriptor Deep learning has shown recent success in classifying anomalies in chest x-rays, but datasets are still small compared to natural image datasets. Supervision of abnormality localization has been shown to improve trained models, partially compensating for dataset sizes. However, explicitly labeling these anomalies requires an expert and is very time-consuming. We propose a potentially scalable method for collecting implicit localization data using an eye tracker to capture gaze locations and a microphone to capture a dictation of a report, imitating the setup of a reading room. The resulting REFLACX (Reports and Eye-Tracking Data for Localization of Abnormalities in Chest X-rays) dataset was labeled across five radiologists and contains 3,032 synchronized sets of eye-tracking data and timestamped report transcriptions for 2,616 chest x-rays from the MIMIC-CXR dataset. We also provide auxiliary annotations, including bounding boxes around lungs and heart and validation labels consisting of ellipses localizing abnormalities and image-level labels. Furthermore, a small subset of the data contains readings from all radiologists, allowing for the calculation of inter-rater scores. Nature Publishing Group UK 2022-06-18 /pmc/articles/PMC9206650/ /pubmed/35717401 http://dx.doi.org/10.1038/s41597-022-01441-z Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Data Descriptor
Bigolin Lanfredi, Ricardo
Zhang, Mingyuan
Auffermann, William F.
Chan, Jessica
Duong, Phuong-Anh T.
Srikumar, Vivek
Drew, Trafton
Schroeder, Joyce D.
Tasdizen, Tolga
REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title_full REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title_fullStr REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title_full_unstemmed REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title_short REFLACX, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
title_sort reflacx, a dataset of reports and eye-tracking data for localization of abnormalities in chest x-rays
topic Data Descriptor
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9206650/
https://www.ncbi.nlm.nih.gov/pubmed/35717401
http://dx.doi.org/10.1038/s41597-022-01441-z
work_keys_str_mv AT bigolinlanfrediricardo reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT zhangmingyuan reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT auffermannwilliamf reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT chanjessica reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT duongphuonganht reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT srikumarvivek reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT drewtrafton reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT schroederjoyced reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays
AT tasdizentolga reflacxadatasetofreportsandeyetrackingdataforlocalizationofabnormalitiesinchestxrays