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    driving a new revolution in the exploration of complex biological systems by providing near seamless views across multiple scales of resolution These datasets provide the necessary breadth and depth to analyze multicellular cellular and subcelluar structure across large swathes of neural tissue While these new imaging procedures are generating extremely large datasets of enormous value the quantities are such that no single user or even laboratory team can possibly analyze the full content of their own imaging activities through traditional means To address this challenge we propose to further develop and refine a prototype hybrid system for high throughput segmentation of large neuropil datasets that 1 advances automatic algorithms for segmentation of cellular and sub cellular structures using machine learning techniques 2 couples these techniques to a scalable and flexible process or tool suite allowing multiple users to simultaneously review edit and curate the results of these automatic approaches and 3 builds a knowledge base of training data guiding and improving automated processing This system will allow project scientists to select areas of interest execute automatic segmentation algorithms and distribute workload curate data and deposit final results into the Cell Centered Database Martone et al 2008 via accessible web interfaces Public Health Relevance Emerging techniques in cellular and subcellular 3D imaging are generating datasets of enormous value to the study of disease processes and to the pursuit of greater insight into the structure and function of the nervous system To unlock the potential of these data new solutions are needed to improve the capability to segment and label the individual molecular subcellular and cellular components within very large volumetric expanses To address this challenge we propose a hybrid system for high throughput segmentation of large neuropil datasets that advances machine learning algorithms for automatic segmentation and couples these techniques to

    Original URL path: http://longbeach.crbs.ucsd.edu/ (2016-02-17)
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  • slash - Knowledge Base
    js wav mp3 eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Knowledge Base Community Help Can t find something in the Knowledge Base Try the community Questions Answers and see if it has already been addressed by the community Feature Requests Have an idea or feature request Let us know Trouble Report Found a bug Let us know Search for articles Enter keyword or phrase Articles Most Popular Articles Frequently Asked Questions Frequently Asked Questions Earning points in the Questions Answers forum Where do I go for documentation I registered in the past but cannot log in anymore Most Recent Articles Where do I go for documentation Why is Hispanic Latino not a racial background choice Group Guidelines Tips What are groups Earning points in the Questions Answers forum Categories Login Registration 9 Why is Hispanic Latino not a racial background choice How do I change my password I registered but cannot log in Members Groups 3 Group Guidelines Tips What are groups Frequently Asked Questions Miscellaneous 6 Where do I go for documentation Why do I need Java How to Enable Cookies Resources 1 Frequently Asked Questions Reward Points 1 Earning points

    Original URL path: http://longbeach.crbs.ucsd.edu/kb/ (2016-02-17)
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    png gif pdf zip mpg mpeg avi mov wmv asf asx ra rm txt rtf doc xsl html js wav mp3 eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Questions and Answers Search New Question Need an Answer Can t find an answer in our Knowledge Base or by Search Ask your fellow slash members Popular Recent All Open Closed All 0 0

    Original URL path: http://longbeach.crbs.ucsd.edu/answers/ (2016-02-17)
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    avi mov wmv asf asx ra rm txt rtf doc xsl html js wav mp3 eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Wish List example Add a Wish Help us improve slash by submitting your ideas Search for Wishes Search Feedback Submitter Date All Active Accepted Rejected Granted All 0 0 of 0 There are currently no wishes on this list Be

    Original URL path: http://longbeach.crbs.ucsd.edu/wishlist/ (2016-02-17)
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  • slash - Tools
    screenshot optional jpg jpeg jpe bmp tif tiff png gif pdf zip mpg mpeg avi mov wmv asf asx ra rm txt rtf doc xsl html js wav mp3 eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Tools Download Tools Cytoseg IMOD Plugins Expert Segmentation Tracing Tubes in IMOD IMOD Plugins Bead Helper Plugin Finding Round Compartments Interpolator Plugin Livewire Name Wizard Plugin

    Original URL path: http://longbeach.crbs.ucsd.edu/tools (2016-02-17)
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    eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Contact Support Contact Email This email address is being protected from spambots You need JavaScript enabled to view it Contact Form We welcome your feedback and invite you to let us know if you have trouble accessing this site Please send us an email using this form and describe the problem in as much detail

    Original URL path: http://longbeach.crbs.ucsd.edu/contact (2016-02-17)
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  • slash - Discover
    a screenshot optional jpg jpeg jpe bmp tif tiff png gif pdf zip mpg mpeg avi mov wmv asf asx ra rm txt rtf doc xsl html js wav mp3 eps ppt pps swf tar tex gz slash Tools Support Discover About Help Search Search Discover SLASH IMOD Stereology Plugin Added To help expedite analysis of data we have built a special SLASH Stereology plugin into IMOD Read more SLASH

    Original URL path: http://longbeach.crbs.ucsd.edu/discover (2016-02-17)
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  • slash - About
    team members directly sponsored by and involved in the SLASH project however there are also others we have not listed here who have contributed to SLASH These people should be attributed on the pages and or code they submit on this website As SLASH grows it will become more and more reliant on other people spreading the word and sharing their tools to segment huge volumes so please contact us to become a part of this initiative Mark Ellsiman web One of the principle invesigators and the director at the National Center for Microscopy and Imaging Research NCMIR Mark helps guides directions for SLASH and incorporation of important biological projects Tolga Tasdize web One of the principle investigator and also a faculty member at the The Scientific Computing and Imaging Institute SCI Rick Giuly Rick s current research includes routines for automatic segmentation of mitochondria and other organelles to compliment efforts by SCI on top of organizing SLASH meetings Elizabeth Jurrus Liz s current research interests include developing techniques for the automated analysis of biomedical data including learning algorithms to handle massive datasets David Lee David helps head a citizen science initiative to ascertain how members of the public can be useful in verification and refinement of automated algorithms Andrew Noske web Andrew works on development of manual tools for rapid correction of automatic segmentation which he deploys into IMOD His main project however it developing a citizen science game where users help proofread and segment selected datasets Willy Wong Willy manages the Cell Centered Database CCDB a system for storing massive 2D and 3D images from light and electron microscopy used very heavily by SLASH Vadim Astakhov Vadim is our primary system architect who helps integrate all systems together and together with Willy has the task of tying algorithms

    Original URL path: http://longbeach.crbs.ucsd.edu/about (2016-02-17)
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