David Clunie

David Clunie
PixelMed Publishing, LLC

MBBS

About

99
Publications
33,240
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
1,211
Citations

Publications

Publications (99)
Preprint
Full-text available
The ability to exchange and use microscopy data is critical for biomedical research, but interoperable tools are currently lacking. Slim is an open-source web viewer that implements the Digital Imaging and Communications in Medicine (DICOM) standard to enable interactive visualization and annotation of brightfield and multiplexed immunofluorescence...
Article
Full-text available
Purpose/Objective(s) National Cancer Institute (NCI) Cancer Research Data Commons (CRDC) aims to establish a cloud-based data science infrastructure. Imaging Data Commons (IDC) is a component of CRDC supported by the Cancer Moonshot™, which aims to enable access and exploration of de-identified imaging data, and to support integrated analyses with...
Preprint
Full-text available
This white paper describes the technical details of best practices for coordinate-based geometric description of planar annotations encoded in DICOM Structured Reports (SR) for communicating user and machine created annotations about images, including quantitative measurements and categorical statements about regions of interest and other image-rel...
Article
Full-text available
p>The National Cancer Institute (NCI) Cancer Research Data Commons (CRDC) aims to establish a national cloud-based data science infrastructure. Imaging Data Commons (IDC) is a new component of CRDC supported by the Cancer Moonshot{trade mark, serif}. The goal of IDC is to enable a broad spectrum of cancer researchers, with and without imaging exper...
Article
Full-text available
Diagnostic and evidential static image, video clip, and sound multimedia are captured during routine clinical care in cardiology, dermatology, ophthalmology, pathology, physiatry, radiation oncology, radiology, endoscopic procedural specialties, and other medical disciplines. Providers typically describe the multimedia findings in contemporaneous e...
Preprint
Full-text available
Machine learning is revolutionizing image-based diagnostics in pathology and radiology. ML models have shown promising results in research settings, but their lack of interoperability has been a major barrier for clinical integration and evaluation. The DICOM a standard specifies Information Object Definitions and Services for the representation an...
Conference Paper
As part of the Open Source Initiative for Perfusion Imaging (OSIPI), the aim of this work is to develop guidelines for reporting of contrast-basedperfusion analysis in order to improve reproducibility, reusability and interoperability of perfusion analysis. For this, a perfusion analysis lexicon isdeveloped, which provides standardized nomenclature...
Article
Full-text available
There is optimism that artificial intelligence (AI) will result in positive clinical outcomes, which is driving research and investment in the use of AI for skin disease. At present, AI for skin disease is embedded in research and development and not practiced widely in clinical dermatology. Clinical dermatology is also undergoing a technological t...
Article
Full-text available
The small animal imaging Digital Imaging and Communications in Medicine (DICOM) acquisition context structured report (SR) was developed to incorporate pre-clinical data in an established DICOM format for rapid queries and comparison of clinical and non-clinical datasets. Established terminologies (i.e., anesthesia, mouse model nomenclature, veteri...
Article
Full-text available
A standard format for neurophysiology data is urgently needed to improve clinical care and promote research data exchange. Previous neurophysiology format standardization projects have provided valuable insights into how to accomplish the project. In medical imaging, the Digital Imaging and Communication in Medicine (DICOM) standard is widely adopt...
Article
Full-text available
In order for enterprise imaging to be successful across a multitude of specialties, systems, and sites, standards are essential to categorize and classify imaging data. The HIMSS-SIIM Enterprise Imaging Community believes that the Digital Imaging Communications in Medicine (DICOM) Anatomic Region Sequence, or its equivalent in other data standards,...
Article
Full-text available
The meaning of the term ‘abdomen’ has become increasingly ambiguous, as it has to satisfy the contemporary requirements of natural language discourse, literature, gross and radiological anatomy and its role in ontologies supporting electronic records and data modelling. It is critical that there is an agreed understanding of the semantics of the ab...
Article
As the use of digital techniques in toxicologic pathology expands, challenges of scalability and interoperability come to the fore. Proprietary formats and closed single-vendor platforms prevail but depend on the availability and maintenance of multiformat conversion libraries. Expedient for small deployments, this is not sustainable at an industri...
Preprint
Full-text available
In this paper we explore extending the concept of common cross-study Common Data Element concepts beyond simple demographics to cover disease-specific concepts relevant to imaging. We test interactively linking the resulting database to the associated images in a federated manner. We examine the use of existing standards, not only for terminology,...
Article
Full-text available
Purpose: The dataset contains annotations for lung nodules collected by the Lung Imaging Data Consortium and Image Database Resource Initiative (LIDC) stored as standard DICOM objects. The annotations accompany a collection of Computed Tomography (CT) scans for over 1000 subjects annotated by multiple expert readers, and correspond to "nodules ≥ 3...
Article
Full-text available
PURPOSE We summarize Quantitative Imaging Informatics for Cancer Research (QIICR; U24 CA180918), one of the first projects funded by the National Cancer Institute (NCI) Informatics Technology for Cancer Research program. METHODS QIICR was motivated by the 3 use cases from the NCI Quantitative Imaging Network. 3D Slicer was selected as the platform...
Preprint
Full-text available
The Lung Imaging Data Consortium and Image Database Resource Initiative (LIDC) conducted a multi-site reader study that produced a comprehensive database of Computed Tomography (CT) scans for over 1000 subjects annotated by multiple expert readers. The result is hosted in the LIDC-IDRI collection of The Cancer Imaging Archive (TCIA). Annotations th...
Article
Purpose: We summarize the AAPM TG248 Task Group report on interoperability assessment for the commissioning of medical imaging acquisition systems in order to bring needed attention to the value and role of quality assurance testing throughout the imaging chain. Methods: To guide the clinical physicist involved in commissioning of imaging system...
Article
Full-text available
Multiparametric Magnetic Resonance Imaging (mpMRI) is widely used for characterizing prostate cancer. Standard of care use of mpMRI in clinic relies on visual interpretation of the images by an expert. mpMRI is also increasingly used as a quantitative imaging biomarker of the disease. Little is known about repeatability of such quantitative measure...
Preprint
Full-text available
The Lung Imaging Data Consortium and Image Database Resource Initiative (LIDC) conducted a multi-site reader study that produced a comprehensive database of Computed Tomography (CT) scans for over 1000 subjects annotated by multiple expert readers. The result is hosted in the LIDC-IDRI collection of The Cancer Imaging Archive (TCIA). Annotations th...
Preprint
Full-text available
The Lung Imaging Data Consortium and Image Database Resource Initiative (LIDC) conducted a multi-site reader study that produced a comprehensive database of Computed Tomography (CT) scans for over 1000 subjects annotated by multiple expert readers. The result is hosted in the LIDC-IDRI collection of The Cancer Imaging Archive (TCIA). Annotations th...
Article
Full-text available
Background Digital Imaging and Communications in Medicine (DICOM®) is the standard for the representation, storage, and communication of medical images and related information. A DICOM file format and communication protocol for pathology have been defined; however, adoption by vendors and in the field is pending. Here, we implemented the essential...
Data
Selected DICOM attributes for digital pathology
Article
Full-text available
As digital pathology systems for clinical diagnostic work applications become mainstream, interoperability between these systems from different vendors becomes critical. For the first time, multiple digital pathology vendors have publicly revealed the use of the digital imaging and communications in medicine (DICOM) standard file format and network...
Article
Imaging is increasingly being used in dermatology for documentation, diagnosis, and management of cutaneous disease. The lack of standards for dermatologic imaging is an impediment to clinical uptake. Standardization can occur in image acquisition, terminology, interoperability, and metadata. This paper presents the International Skin Imaging Colla...
Article
Full-text available
Quantitative analysis of clinical image data is an active area of research that holds promise for precision medicine, early assessment of treatment response, and objective characterization of the disease. Interoperability, data sharing, and the ability to mine the resulting data are of increasing importance, given the explosive growth in the number...
Article
Full-text available
This white paper explores the technical challenges and solutions for acquiring (capturing) and managing enterprise images, particularly those involving visible light applications. The types of acquisition devices used for various general-purpose photography and specialized applications including dermatology, endoscopy, and anatomic pathology are re...
Article
Full-text available
Background. Imaging biomarkers hold tremendous promise for precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research necessitates interoperability with the clinical systems. Comparison with the establis...
Data
Example of a populated TID 1500 imaging measurements container
Data
Background and motivation for using DICOM to encode patient clinical information
Data
QIICR PET SUV measurements of interest and their corresponding codes
Data
QIICR Iowa Head and Neck Clinical Data DICOM SR Template
Article
Full-text available
Background. Imaging biomarkers hold tremendous promise in the precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research necessitates interoperability with the clinical systems. Comparison with the estab...
Article
Full-text available
Background. Imaging biomarkers hold tremendous promise in the precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research necessitates interoperability with the clinical systems. Comparison with the estab...
Article
Full-text available
Background. Imaging biomarkers hold tremendous promise in the precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research necessitates interoperability with the clinical systems. Comparison with the estab...
Article
Full-text available
Background. Imaging biomarkers hold tremendous promise in the precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research necessitates interoperability with the clinical systems. Comparison with the estab...
Conference Paper
Full-text available
Though considerable progress has been made towards standardizing coded information in orders, worklists, images and structured reports for such things as anatomy, standardization of procedures codes, other than those used purely for reimbursement purposes, has been slow. Most sites throughout the world still use locally defined codes for ordering...
Article
Full-text available
Purpose: To determine the extent of variations in computing standardized uptake value (SUV) by body weight (SUV(BW)) among different software packages and to propose a Digital Imaging and Communications in Medicine (DICOM) reference test object to ensure the standardization of SUV computation between medical image viewing workstations. Materials...
Article
Full-text available
Deidentification of medical images requires attention to both header information as well as the pixel data itself, in which burned-in text may be present. If the pixel data to be deidentified is stored in a compressed form, traditionally it is decompressed, identifying text is redacted, and if necessary, pixel data are recompressed. Decompression w...
Article
Full-text available
To determine the variability of lesion size measurements in computed tomography data sets of patients imaged under a "no change" ("coffee break") condition and to determine the impact of two reading paradigms on measurement variability. Using data sets from 32 non-small cell lung cancer patients scanned twice within 15 minutes ("no change"), measur...
Data
Full-text available
Data
Full-text available
Data
Full-text available
Article
Full-text available
This article summarizes the consensus reached at the Summit on Color in Medical Imaging held at the Food and Drug Administration (FDA) on May 8-9, 2013, co-sponsored by the FDA and ICC (International Color Consortium). The purpose of the meeting was to gather information on how color is currently handled by medical imaging systems to identify areas...
Article
To estimate and statistically compare the bias and variance of radiologists measuring the size of spherical and complex synthetic nodules. This study did not require the institutional review board approval. Six radiologists estimated the size of 10 synthetic nodules embedded within an anthropomorphic thorax phantom from computed tomography scans at...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1) Identify the importance of quantitative imaging principles in the setting of clinical trials. 2) identify the role of standards, including DICOM and others, in the successful application of quantitative imaging principles. 3) Analyze quantitative imaging techniques and apply this knowledge to protocol development in the setti...
Article
Radiation Dose Structured ReportsMultiple diagnostic and/or interventional systems may expose a patient to radiation. The DICOM Information Object Definition (IOD) for these modalities may include acquisition data concerning the irradiation in each image instance produced. Yet, the aggregate irradiation information may not be easily determined from...
Poster
Full-text available
CONCLUSION Standard DICOM compression schemes, especially JPEG-LS, should be used for breast tomosynthesis data. BACKGROUND Availability & use of digital breast tomosynthesis is increasing & the size of the reconstructed images are an infrastructure challenge. Proprietary solutions are feasible, but it is desirable to re-use PACS standards & infras...
Conference Paper
PURPOSE To characterize the bias and variation in reader measurement of phantom nodule volumes in CT imagery from multiple scanners. METHOD AND MATERIALS The QIBA 1C project is a study of reader measurements of volume and longest in-slice diameter on 6 synthetic nodules placed in an anthropomorphic phantom. The phantom was imaged on 6 CT scanners:...
Conference Paper
Full-text available
BACKGROUND Use-cases for distribution of results for those without access to the authoring tool include referring physicians, external reviewers, public access, central review of site reads, review by regulators, & data mining. Either a standard format, or a review tool that is agnostic to the format is needed. A single universal format for results...
Article
Full-text available
Data sharing is increasingly recognized as critical to cross-disciplinary research and to assuring scientific validity. Despite National Institutes of Health and National Science Foundation policies encouraging data sharing by grantees, little data sharing of clinical data has in fact occurred. A principal reason often given is the potential of ina...
Conference Paper
PURPOSE To determine the minimum detectable change in size of lung lesions by investigating 1D, 2D, and 3D measurement variability when patients are repeatedly imaged with CT under a “no change” (“coffee break”) condition. METHOD AND MATERIALS The CT datasets used were those of 32 non-small cell lung cancer patients scanned twice within 15 minutes...
Article
Full-text available
Periodically an article appears in the scientific or medical literature describing some new reversible (lossless) or irreversible (lossy) image compression scheme, and either explicitly or buried within it, is a reference to the scheme’s applicability to medical image compression. It is no secret that the medical community makes extensive use of di...
Article
Full-text available
The purpose of this work was to estimate bias in measuring the size of spherical and non-spherical lesions by radiologists using three sizing techniques under a variety of simulated lesion and reconstruction slice thickness conditions. We designed a reader study in which six radiologists estimated the size of 10 synthetic nodules of various sizes,...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1) Review integration challenges involved in Sharing Images on CD, DVD and USB. 2) Learn about the relevant data standards. 3) Understand how the IHE Portable Data for Imaging Profile (PDI), the IHE Import Reconciliation Workflow (IRWF) Profile and the IHE Basic Image Review (BIR) Profile address those challenges based on standa...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1) Learn about the role of imaging in therapy assessment. 2) Learn about traditional lesion measurement methods and their role in therapy assessment. 3) Learn the distinctions between change detection and traditional lesion measurement methods. 4) Learn about the status of some change detection methods as they apply to different...
Conference Paper
Full-text available
PURPOSE/AIM - Summarize issues with existing FFDM modalities, vendor-matched & third-party displays - Review MQSA requirements for display & annotation - Discuss user requirements identified by expert group - Discuss solutions chosen by technical consensus group as embodied in IHE profile - Summarize testing experience - Identify lessons for PACS...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1. Review the current status of medical image compression technology and the relevance to observer performance. 2. Review the adoption of standard compression schemes by DICOM. 3. Discuss the future directions in compression technology and standardization and its benefits for large volumes of 3D and 4D data. ABSTRACT The increa...
Article
Full-text available
The use of biomarkers derived from radiological images as surrogate end-points in therapeutic cancer clinical trials is well established. DICOM is the ubiquitous standard for the interchange of images for both clinical use as well as research. It also has capabilities for the exchange of image-related information, including categorical and quantita...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1. Become familiar with recent additions to the DICOM standard, including new image objects for enhanced multi-frame CT and MR interchange. 2. Appreciate the new applications that the new objects enable. 3. Understand potential performance issues related to the rapidly expanding size of CT and MR studies, and the role of the new...
Conference Paper
Full-text available
LEARNING OBJECTIVES 1) Describe DICOM and its components relevant to DR and CR. 2) Describe the history and limitations of encoding projection radiography images in DICOM. 3) Describe the requirements and design of the DICOM Digital X-ray (DX) object. 4) Discuss implementation strategies for producing DX objects and optimizing RIS/acquisition/PACS/...
Conference Paper
Full-text available