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      4. └ Z-stack viewer
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      7. 3D Probabilistic Modeling
      8. └ 3D viewer
      9. Visual Guide to Human Cells
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News Feed

For general news from the Allen Institute for Cell Science, visit alleninstitute.org

New Allen Cell Explorer Tutorial: Navigating the 3D Cell Viewer

11/30/2017

 
Picture
We have released a new tutorial video. The 3D Cell Viewer is a tool in the Allen Cell Explorer for viewing thousands of 3D images of cellular structures and organelles.

​Megan Riel-Mehan represents the Animated Cell group to present an overview of several major upgrades and an easier to use interface for the 3D Cell Viewer tool.
Picture

Extracting multiple cellular structures from single bright-field microscopy images

11/9/2017

 
Picture
The Allen Institute for Cell Science has developed a tool for the prediction of fluorescently labeled structures in live cells solely from 3D brightfield microscopy images. This approach can be used to predict several structures of interest from the same 3D brightfield image, and can potentially be used in applications as diverse as cross-modal image registration, quantification of live cell imaging, and determination of cell state changes. This approach avoids use of fluorescence microscopy, typically used to identify subcellular structures, and the accompanying dyes and proteins are often expensive, time-consuming, and damaging to the cells.
Learn more about this project in our paper Three dimensional cross-modal image inference: label-free methods for subcellular structure prediction.
Read preprinted article

Please come see us at theĀ 2017 ASCB | EMBO Meeting​ in Philadelphia December 2-6!

11/1/2017

 
Picture
In addition to hosting booth #639 in the exhibitor hall, researchers from the Allen Institute for Cell Science will present in several venues including:
  • 3 Special Interest Subgroup Meetings
  • a Tech Talk in the exhibitor hall
  • at Minisumposium (#6)
  • a virtual reality (VR) tour of our cells at booth #639
  • and in front of 5 posters

​We look forward to seeing you at the 2017 ASCB | EMBO Meeting​ in Philadelphia December 2–6!
Schedules & details for AICS at ASCB|EMBO 2017

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  • About
      Institute
      1. News feed
      2. What we do
      3. Publications
      4. Allen Institute | allenInstitute.org
      5. Careers
      Site
      1. Home page
      2. Site updates
      3. Archived content
  • Allen Cell Collection
      Order cells & plasmids
      1. Cell Catalog
      2. Cell Catalog quickview
      3. Cell Shorts (documentaries on labs using our cells)
      4. Support forum
      Lab methods
      1. Instructional videos for success in the lab
      2. Standard operating procedures (written methods)
      3. Illustrated overviews
      About our hiPS cells
      1. hiPS Cell Structure Overview
      2. Visual Guide to Human Cells
      3. Cell structure observations
      4. Why endogenous tagging?
      5. Differentiation into cardiomyocytes
      6. Genomics
      7. Download cell data (images, genomics, features)
  • Data & Digital Tools
      Online image analysis
      1. Cell Feature Explorer (plotting & 3D viewer)
      2. 3D cell viewer (pre2018)
      3. Deep cell zoom (216,016 cells)
      Online modeling viewers
      1. Visual Guide to Human Cells
      2. Simularium (4D visual analysis)
      3. Integrated Mitotic Stem Cell
      4. └ Z-stack viewer
      5. └ 3D viewer
      6. Allen Integrated Cell viewer
      7. Label-free examples viewer
      8. 3D probabilistic model viewer
      Desktop tools
      1. Allen Cell & Structure Segmenter
      2. AGAVE 3D pathtrace image viewer
      Data & code
      1. Download cell data (images, genomics, features)
      2. Code repositories & software
  • Analysis & Modeling
      Allen Integrated Cell models
      1. Overview
      2. Integrated Mitotic Stem Cell
      3. └ Z-stack viewer
      4. └ 3D viewer
      5. Label-free Determination
      6. └ 3D viewer
      7. 3D Probabilistic Modeling
      8. └ 3D viewer
      9. Visual Guide to Human Cells
      4D biology models
      1. Simularium (online 4D viewer)
      Methodologies
      1. Drug perturbation pilot study
      2. hiPS cells during mitosis
      3. Differentiation into cardiomyocytes
  • Publications
      Articles
      1. All journal publications
      2. Preprints (biorxiv, arxiv)
      Posters
      1. Select posters
  • Education
      Education resources
      1. All Resources
      2. Teaching materials
      Online tools popular with teachers
      1. Visual Guide to Human Cells
      2. Integrated Mitotic Stem Cell
      3. Cell Feature Explorer (interactive plotting & 3D viewer)
      4. 3D cell viewer (pre2018 data)
      5. hiPS cell structure overview
  • Support
      Questions
      1. FAQs
      2. Forum
      Tutorials for digital tools
      1. Digital tool tutorials with videos
      2. Visual Guide tutorial
      3. AGAVE user guide
      Lab methods
      1. Instructional videos for success in the lab
      2. Standard operating procedures (written methods)
      3. Illustrated overviews
  • šŸ”
      SEARCHBAR