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284 results for “Prostate biopsy”
Data on the detection of clinically significant prostate cancer by magnetic resonance imaging (MRI)-guided targeted and systematic biopsy
<p>This is a dataset from the original publication “Reasons for missing clinically significant prostate cancer by targeted magnetic resonance imaging/ultrasound fusion-guided biopsy”. From 01/2014 to 04/2019 a sample collective of 785 patients with 3T multiparametric magnetic resonance imaging (mp-MRI) of the prostate and subsequent combined systematic biopsy (SB) and magnetic resonance imaging/ultrasound (US) fusion-guided biopsy (TB) was retrospectively analyzed. Prostate carcinoma (PCa) detection by TB and/or additional SB was analyzed.</p>
DICOM converted annotations for the Prostate-MRI-US-Biopsy collection
<p>This dataset contributes DICOM-converted annotations to the publicly available National Cancer Institute Imaging Data Commons [1] Prostate-MRI-US-Biopsy collection (<a href="https://portal.imaging.datacommons.cancer.gov/explore/filters/?collection_id=Community&collection_id=prostate_mri_us_biopsy">https://portal.imaging.datacommons.cancer.gov/explore/filters/?collection_id=Community&collection_id=prostate_mri_us_biopsy</a>). Prostate-MRI-US-Biopsy collection was initially released by The Cancer Imaging Archive (TCIA) [2,3,4]. While the images in this collection are stored in the standard DICOM format, the collection is also accompanied by 1017 semi-automatic segmentations of the prostate and 1317 manual segmentations of target lesions in the STL format. Although STL is a common and practical format for 3D printing, it is not interoperable with many visualization and analysis tools commonly used in medical imaging research and does not provide any standard means to communicate metadata, among other limitations.</p><p>This dataset contains segmentations of the prostate and target lesions harmonized into DICOM representation. Specifically, we created DICOM Encapsulated 3D Manufacturing Model objects (M3D modality) that includes the original STL content enriched with the DICOM metadata. Furthermore, we created an alternative encoding of the surface segmentations by rasterizing them and saving the result as a DICOM Segmentation object (SEG modality). As a result, the contributed DICOM objects can be stored in any DICOM server that supports those objects (including Google Healthcare DICOM stores), and the DICOM Segmentations can be visualized using off-the-shelf tools, such as OHIF Viewer.</p><p>Conversion from STL to DICOM M3D modality was performed using PixelMed toolkit (<a href="https://www.pixelmed.com/dicomtoolkit.html">https://www.pixelmed.com/dicomtoolkit.html</a>). Conversion from STL to DICOM SEG was done in 2 steps. We used Slicer (<a href="https://www.slicer.org/">https://www.slicer.org/</a>) to rasterize the surface segmentation to the matrix of the segmented image, which were next converted to DICOM SEGs using dcmqi (<a href="https://github.com/QIICR/dcmqi">https://github.com/QIICR/dcmqi</a>) [5]. Resulting objects were validated using dicom3tools dciodvfy (<a href="https://www.dclunie.com/dicom3tools.html">https://www.dclunie.com/dicom3tools.html</a>). Details describing the conversion process as well as the details on how to access the encapsulated STL content from the DICOM m3D files are provided in this GitHub repository: <a href="https://github.com/ImagingDataCommons/prostate_mri_us_biopsy_dcm_conversion">https://github.com/ImagingDataCommons/prostate_mri_us_biopsy_dcm_conversion</a>.</p><p>Specific files included in the record are:</p><ol><li><strong>Prostate-MRI-US-Biopsy-DICOM-Annotations.zip</strong>: DICOM M3D and SEG files, organized into the folder hierarchy following this pattern: Prostate-MRI-US-Biopsy/%PatientID/%StudyInstanceUID/%SeriesNumber-%Modality-%SeriesDescription.dcm</li><li><strong>referenced_images_sorted-idc_file_manifest.s5cmd</strong>: IDC manifest for downloading the T2W MRI images corresponding to the annotations. To download the files in this manifest, first install s5cmd (<a href="https://github.com/peak/s5cmd">https://github.com/peak/s5cmd</a>), and run the following command: s5cmd --no-sign-request --endpoint-url https://s3.amazonaws.com run referenced_images_sorted-idc_file_manifest.s5cmd. Files will be organized in the Prostate-MRI-US-Biopsy/%PatientID/%StudyInstanceUID/ folder hierarchy upon download.</li></ol><p><strong>References</strong></p><p>[1] Fedorov, A., Longabaugh, W. J. R., Pot, D., Clunie, D. A., Pieper, S., Aerts, H. J. W. L., Homeyer, A., Lewis, R., Akbarzadeh, A., Bontempi, D., Clifford, W., Herrmann, M. D., Höfener, H., Octaviano, I., Osborne, C., Paquette, S., Petts, J., Punzo, D., Reyes, M., Schacherer, D. P., Tian, M., White, G., Ziegler, E., Shmulevich, I., Pihl, T., Wagner, U., Farahani, K. & Kikinis, R. NCI Imaging Data Commons. <i>Cancer Res.</i> <strong>81,</strong> 4188–4193 (2021). doi: <a href="https://dx.doi.org/10.1158/0008-5472.CAN-21-0950">10.1158/0008-5472.CAN-21-0950</a>. </p><p>[2] Natarajan, S., Priester, A., Margolis, D., Huang, J., & Marks, L. (2020). Prostate MRI and Ultrasound With Pathology and Coordinates of Tracked Biopsy (Prostate-MRI-US-Biopsy) (version 2) [Data set]. The Cancer Imaging Archive. DOI: <a href="https://doi.org/10.7937/TCIA.2020.A61IOC1A">10.7937/TCIA.2020.A61IOC1A</a></p><p>[3] Sonn GA, Natarajan S, Margolis DJ, MacAiran M, Lieu P, Huang J, Dorey FJ, Marks LS. Targeted biopsy in the detection of prostate cancer using an office based magnetic resonance ultrasound fusion device. Journal of Urology 189, no. 1 (2013): 86-91. DOI: <a href="https://doi.org/10.1016/j.juro.2012.08.095">10.1016/j.juro.2012.08.095</a> </p><p>[4] Clark K, Vendt B, Smith K, Freymann J, Kirby J, Koppel P, Moore S, Phillips S, Maffitt D, Pringle M, Tarbox L, Prior F. The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository, Journal of Digital Imaging, Volume 26, Number 6, December, 2013, pp 1045-1057. DOI: <a href="https://doi.org/10.1007/s10278-013-9622-7">10.1007/s10278-013-9622-7</a></p><p>[5] Herz, C., Fillion-Robin, J.-C., Onken, M., Riesmeier, J., Lasso, A., Pinter, C., Fichtinger, G., Pieper, S., Clunie, D., Kikinis, R. & Fedorov, A. dcmqi: An Open Source Library for Standardized Communication of Quantitative Image Analysis Results Using DICOM. <i>Cancer Res. </i><strong>77,</strong> e87–e90 (2017). DOI: <a href="https://dx.doi.org/10.1158/0008-5472.CAN-17-0336">10.1158/0008-5472.CAN-17-0336</a>.</p>
PSMA-PET for Biopsy and Treatment Guidance in Primary Prostate Cancer
ClinicalTrials.gov study NCT03429244. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Developing an Imaging-Based Tool to Identify Areas for Prostate Cancer Biopsy
ClinicalTrials.gov study NCT03585660. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
Optimization of Prostate Biopsy - Micro-Ultrasound Versus MRI
ClinicalTrials.gov study NCT05220501. IPD Sharing: NO. Countries: 8. Publications: 1.
Self-Administered Nitrous Oxide (SANO) During Transrectal Prostate Biopsy to Reduce Patient Anxiety and Pain
ClinicalTrials.gov study NCT05803096. IPD Sharing: NO. Countries: 1. Publications: 4.
Clinical Evaluation of the PROGENSA(Registered Trademark) Prostate Cancer Gene 3 (PCA3) Assay in Men With a Previous Negative Biopsy Result
ClinicalTrials.gov study NCT01024959. IPD Sharing: Not stated. Countries: 1. Publications: 1.
ARFI Imaging for Targeted Prostate Biopsy
ClinicalTrials.gov study NCT04607135. IPD Sharing: NO. Countries: 1. Publications: 2.
Antibiotic Prophylaxis for Transrectal Prostate Biopsy
ClinicalTrials.gov study NCT01659866. IPD Sharing: YES. Countries: 1. Publications: 1.
Detection of Clinically Significant Prostate Cancer Using Transperineal Targeted Biopsy Compared to Standard Transrectal Biopsy
ClinicalTrials.gov study NCT03044197. IPD Sharing: NO. Countries: 1. Publications: 1.
68Ga PSMA 11 PET/MRI and 68Ga RM2 PET/MRI for Biopsy Guidance in Patients With Suspected Prostate Cancer
ClinicalTrials.gov study NCT03809078. IPD Sharing: NO. Countries: 1. Publications: 1.
Combining High-frequency Micro-ultrasound and Multiparametric MRI Target Biopsy for Detecting Prostate Cancer
ClinicalTrials.gov study NCT06579911. IPD Sharing: NO. Countries: 1. Publications: 10.
A Prospective Randomized Trial of Two Different Prostate Biopsy Schemes
ClinicalTrials.gov study NCT02825225. IPD Sharing: NO. Countries: 1. Publications: 20.
Whether Transperineal Prostate Biopsy Under Local-anaesthesia Using a Transperineal-access System is Non-inferior to Standard Transrectal Biopsy to Detect Prostate Cancer in Biopsy-naïve Men
ClinicalTrials.gov study NCT04108871. IPD Sharing: Not stated. Countries: 1. Publications: 8.
Pain Comparison Whit Visual Analog Scale (EVA) Between Four Analgesic Methods During Trans Rectal Prostatic Biopsy
ClinicalTrials.gov study NCT03442075. IPD Sharing: NO. Countries: 1. Publications: 6.
Dutasteride Followed By Ultrasound-Guided Biopsy in Finding Prostate Cancer
ClinicalTrials.gov study NCT00398281. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Choline PET/CT and MRI for Targeted Prostate Biopsy
ClinicalTrials.gov study NCT01751737. IPD Sharing: NO. Countries: 1. Publications: 1.
Conducting Active Surveillance Without Prostate Biopsy for Patients With Low-risk Suspected Prostate Cancer
ClinicalTrials.gov study NCT05940415. IPD Sharing: NO. Countries: 1. Publications: 11.
Personalized Optimization of Systematic Prostate Biopsy
ClinicalTrials.gov study NCT05998278. IPD Sharing: NO. Countries: 1. Publications: 1.
Efficacy of Diclofenac Suppository for Pain Control in Ultrasound Guided Biopsy of Prostate
ClinicalTrials.gov study NCT01939743. IPD Sharing: Not stated. Countries: 1. Publications: 2.
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