Difference between revisions of "Main Page/SlicerCommunity"

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Go to <big>[[Main_Page/SlicerCommunity/2022|2022]] :: [[Main_Page/SlicerCommunity/2021|2021]] :: [[Main_Page/SlicerCommunity/2020|2020]] :: [[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] :: [[Main_Page/SlicerCommunity/2017|2017]] ::  [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] :: [[Main_Page/SlicerCommunity/2011-2014|2014-2011]] :: [[Main_Page/SlicerCommunity/2005-2010|2010-2000]]</big>
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=3D Slicer Enabled Research=
 
=3D Slicer Enabled Research=
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[[Documentation/{{documentation/currentversion}}/Slicer|3D Slicer]] is a free open source software package distributed under a BSD style [[License|license]] for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research. 
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[http://www.slicer.org 3D Slicer] is a free open source software package distributed under a BSD style [[Projects/slicerWeb:LicenseText|license]]. The majority of funding for the development of 3D slicer comes from a number of grants and contracts from the National Institutes of Health. See [http://www.slicer.org/wiki/Documentation/4.x/Acknowledgments Slicer Acknowledgments] for more information.
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The community that relies on 3D Slicer is large and active: (numbers below updated on December 1<sup>st</sup>, 2023)
  
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This page focuses on research that was done outside of our immediate collaboration community. That community is represented in the [http://www.slicer.org/publications/pages/display/?collection=11 publication database].
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*[https://download.slicer.org/download-stats/ 1,467,466+ downloads] in the last 11 years (269,677 in 2023, 206,541 in 2022)
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*[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28%223D+Slicer%22+OR+%22slicer+software%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= over 17.900+ literature search results on Google Scholar]
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**[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 13,400+ '''cancer''']
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**[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28brain%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 7.290+ '''brain''']
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**[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28lung%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 6,380+ '''lung''']
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**[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28breast%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 3,980+ '''breast''']
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**[https://scholar.google.com/scholar?hl=en&as_sdt=1%2C22&as_vis=1&q=%28prostate%29+AND+%28cancer+OR+tumor+OR+radiation%29+AND+%28%223D+Slicer%22+OR+%22slicer+org%22+OR+Slicer3D%29+-Slic3r+&btnG= 3,080+ '''prostate''']
  
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We invite you to provide information on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.
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*[https://pubmed.ncbi.nlm.nih.gov/?sort=pubdate&size=200&linkname=pubmed_pubmed_citedin&from_uid=22770690 2,147+ papers on PubMed citing the Slicer platform paper]
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<br>
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**Fedorov A., Beichel R., Kalpathy-Cramer J., Finet J., Fillion-Robin J-C., Pujol S., Bauer C., Jennings D., Fennessy F.M., Sonka M., Buatti J., Aylward S.R., Miller J.V., Pieper S., Kikinis R. 3D Slicer as an Image Computing Platform for the Quantitative Imaging Network. Magnetic Resonance Imaging. 2012 Nov;30(9):1323-41. PMID: 22770690. PMCID: PMC3466397.
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<big>[https://www.slicer.org/wiki/Main_Page/SlicerCommunity-2016 2016]:: [http://wiki.slicer.org/slicerWiki/index.php/Main_Page/SlicerCommunity-2015 2015] :: [http://wiki.slicer.org/slicerWiki/index.php/Main_Page/SlicerCommunity-2011-2014 2014-2011] :: [http://wiki.slicer.org/slicerWiki/index.php/Main_Page/SlicerCommunity-2005-2010 2010-2005]</big>
 
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=2017=
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*[https://na-mic.github.io/ProjectWeek/ 39 events in open source hackathon series] continuously running since 2005 with 3260 total participants
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*[https://discourse.slicer.org/ Slicer Forum] with +8,138 subscribers has approximately 275 posts every week
  
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==A Study of Volumetric Variations of Basal Nuclei in The Normal Human Brain by Magnetic Resonance Imaging==
 
  
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The research of Slicer community is represented in the [http://www.slicer.org/publications/pages/display/?collection=11 publication database].
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'''Publication:''' [http://www.ncbi.nlm.nih.gov/pubmed/28078760 Clin Anat. 2017 Jan 12. PMID: 28078760] 
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'''Authors:''' Elkattan A, Mahdy A, Eltomey M, Ismail R.
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The following is a sample of the research performed using 3D Slicer outside of the group that develops it. <includeonly> in {{#titleparts: {{PAGENAME}} | 2 | 3 }}</includeonly><noinclude>
  
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'''Institution:''' Department of Anatomy, Tanta University of Medical Sciences, Tanta, Egypt.
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[[Main_Page/SlicerCommunity/2023|2023]] :: [[Main_Page/SlicerCommunity/2022|2022]] :: [[Main_Page/SlicerCommunity/2021|2021]] :: [[Main_Page/SlicerCommunity/2020|2020]] :: [[Main_Page/SlicerCommunity/2019|2019]] :: [[Main_Page/SlicerCommunity/2018|2018]] ::
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[[Main_Page/SlicerCommunity/2017|2017]] :: [[Main_Page/SlicerCommunity/2016|2016]] :: [[Main_Page/SlicerCommunity/2015|2015]] ::
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[[Main_Page/SlicerCommunity/2011-2014|2011-2014]] :: [[Main_Page/SlicerCommunity/2005-2010|2000-2010]]
  
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'''Background/Purpose:''' Knowledge of the effects of healthy aging on brain structures is necessary to identify abnormal changes due to diseases. Many studies have demonstrated age-related volume changes in the brain using MRI. 60 healthy individuals who had normal MRI aged from 20 years to 80 years were examined and classified into three groups: Group I: 21 persons; nine males and 12 females aging between 20-39 years old. Group II: 22 persons; 11 males and 11 females aging between 40-59 years old. Group III: 17 persons; eight males and nine females aging between 60-80 years old. Volumetric analysis was done to evaluate the effect of age, gender and hemispheric difference in the caudate and putamen by the [http://slicer.org '''3D Slicer'''] 4.3.3.1 software using 3D T1-weighted images. Data were analyzed by student's unpaired t test, ANOVA and regression analysis. The volumes of the measured and corrected caudate nuclei and putamen significantly decreased with aging in males. There was a statistically insignificant relation between the age and the volume of the measured caudate nuclei and putamen in females but there was a statistically significant relation between the age and the corrected caudate nuclei and putamen. There was no significant difference on the caudate and putamen volumes between males and females. There was no significant difference between the right and left caudate nuclei volumes. There was a leftward asymmetry in the putamen volumes. The results can be considered as a base to track individual changes with time (aging and CNS diseases).
 
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==Theoretical Observation on Diagnosis Maneuver for Benign Paroxysmal Positional Vertigo==
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We invite you to provide information using our [https://discourse.slicer.org/ discussion forum] on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.
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</noinclude>
  
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{|width="100%"
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We monitor PubMed and related databases to update these lists, but if you know of other research related to the Slicer community that should be included here please email: marianna (at) bwh.harvard.edu.
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'''Publication:''' [http://www.ncbi.nlm.nih.gov/pubmed/28084876 Acta Otolaryngol. 2017 Jan 13:1-8. PMID: 28084876] 
 
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'''Authors:''' Yang XK, Zheng YY, Yang XG.
 
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'''Institution:''' Neurology Department , Wenzhou People's Hospital , Wenzhou , Zhejiang , PR China.
 
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'''Background/Purpose:''' To make a comprehensive analysis with a variety of diagnostic maneuvers is conducive to the correct diagnosis and classification of BPPV.
 
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OBJECTIVE:
 
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Based on the standard spatial coordinate-based semicircular canal model for theoretical observation on diagnostic maneuvers for benign paroxysmal positional vertigo (BPPV) to analyze the meaning and key point of each step of the maneuver.
 
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MATERIALS AND METHODS:
 
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This study started by building a standard model of semicircular canal with space orientation by segmentation of the inner ear done with the [http://slicer.org '''3D Slicer'''] software based on MRI scans, then gives a demonstration and observation of BPPV diagnostic maneuvers by using the model.
 
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RESULTS:
 
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The supine roll maneuver is mainly for diagnosis of lateral semicircular canal BPPV. The Modified Dix-Hallpike maneuver is more specific for the diagnosis of posterior semicircular canal BPPV. The side-lying bow maneuver designed here is theoretically suitable for diagnosis of anterior semicircular canal BPPV.
 
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==Anatomical Study and Locating Nasolacrimal Duct on Computed Topographic Image==
 
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'''Publication:''' [http://www.ncbi.nlm.nih.gov/pubmed/27977487 J Craniofac Surg. 2017 Jan;28(1):275-79. PMID: 27977487] 
 
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'''Authors:''' Zhang S, Cheng Y, Xie J, Wang Z, Zhang F, Chen L, Feng Y, Wang G.
 
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'''Institution:''' Department of Endocrine †Department of Neurosurgery, First Hospital of Jilin University, Changchun, China.
 
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'''Background/Purpose:''' We performed a novel anatomical and radiological investigation to understand the structure of nasolacrimal duct (NLD) and to provide data to help surgeons locate the openings of NLD efficiently based on landmarks.
 
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MATERIALS AND METHODS:
 
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We examined the NLD region using computed tomography images of 133 individuals and 6 dry skull specimens. Multiplanar reconstruction of the computed tomography images was performed, and the anatomical features of the NLD were studied in the coronal, sagittal, and axial planes. The long and short diameters of NLD were measured along its cross-section. The position of NLD was localized using the nostril, concha nasalis media, and medial orbital corner as landmarks. The free and open source software, 3D Slicer, was used for the segmentation of the NLD and 3D visualization of the superior and inferior openings of the NLD.
 
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RESULTS:
 
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The length, angle, and diameter of NLD were significantly influenced by the age in females compared to those in males. The inferior opening of the NLD could be located efficiently using the nostril and the midsagittal line while the superior opening of NLD could be located using the medial orbital corner. Third, [http://slicer.org '''3D Slicer'''] enabled us to measure the distance between the skin and the bony structure in the image.
 
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CONCLUSION:
 
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Our study indicates that the sex and age of the patient should be considered while selecting the optimal NLD stent for a patient, and that the precise location of NLD in reference to landmarks can simplify the surgical difficulties and reduce the risk of injury during the transnasal operation.  
 
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Latest revision as of 06:37, 1 December 2023

Home < Main Page < SlicerCommunity


3D Slicer Enabled Research

3D Slicer is a free open source software package distributed under a BSD style license for analysis, integration, and visualization of medical images. 3D Slicer allows even those with limited image processing experience to effectively explore and quantify their imaging data for hypothesis-driven research.


The community that relies on 3D Slicer is large and active: (numbers below updated on December 1st, 2023)

  • 2,147+ papers on PubMed citing the Slicer platform paper
    • Fedorov A., Beichel R., Kalpathy-Cramer J., Finet J., Fillion-Robin J-C., Pujol S., Bauer C., Jennings D., Fennessy F.M., Sonka M., Buatti J., Aylward S.R., Miller J.V., Pieper S., Kikinis R. 3D Slicer as an Image Computing Platform for the Quantitative Imaging Network. Magnetic Resonance Imaging. 2012 Nov;30(9):1323-41. PMID: 22770690. PMCID: PMC3466397.


The following is a sample of the research performed using 3D Slicer outside of the group that develops it.

2023 :: 2022 :: 2021 :: 2020 :: 2019 :: 2018 :: 2017 :: 2016 :: 2015 :: 2011-2014 :: 2000-2010


We invite you to provide information using our discussion forum on how you are using 3D Slicer to produce peer-reviewed research. Information about the scientific impact of this tool is helpful in raising funding for the continued support.


We monitor PubMed and related databases to update these lists, but if you know of other research related to the Slicer community that should be included here please email: marianna (at) bwh.harvard.edu.

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