ALLEN CELL EXPLORER
  • 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
  • 🔍
      SEARCHBAR

News Feed

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

Allen Cell Explorer Distributes Terabytes of Data on AWS to Empower Scientists WorldwideWith Quilt Data, an APN Advanced Technology Partner

9/29/2019

 
Amazon Web Services (AWS) interviewed research engineer at the Allen Institute for Cell Science, Jackson Brown about using a service called Quilt to provide efficient public access to the large datasets produced by the Allen Institute for Cell Science. 
Picture
Picture
Read full story on AWS.amazon.com

Allen Cell Structure Segmenter: A Machine learning toolkit that lets biologists navigate their way through a 3D cell

8/6/2019

 
​We present the Allen Cell Structure Segmenter, a python-based, open-source toolkit that combines classic 3D image segmentation with artificial intelligence to detect cellular structures.
Picture
​Read more about this new toolkit and how it can help biologists analyze their 3D images of cells and be more quantitative with their results.
Allen Cell Structure Segmenter page
Read the release article

Allen Institute for Cell Science Debuts First Comprehensive View of Human Cell Division

5/22/2019

 
Picture
The Allen Institute today released the Integrated Mitotic Stem Cell, a data-driven model and visualization tool that captures — for the first time — a holistic view of human cell division. By enabling a deeper understanding of how healthy human cells divide, a process known as mitosis, the model will further basic biology research as well as studies of cancer, a disease that often results from cell division gone awry.
Explore the Integrated Mitotic Stem Cell
Read the press release

New VR game lets you learn about cells by tossing them

2/19/2019

 
Picture
The app, now on display at Pacific Science Center, teaches users the stages of cell division through interactions with 3D models of human cells.
View article & video interview

Seattle Cell Science Symposium 2018

12/4/2018

 

An open house showcasing Seattle-area cell biology research

Picture
Join us for the third annual Seattle Cell Science Symposium, a full-day event showcasing research in the Seattle-area cell biology community. 
The Seattle Cell Science Symposium is an event for scientists in our region to share current work through presentations, lightning talks and poster sessions. Community engagement and open science are central principles of the Allen Institute for Cell Science, and we look forward to the Seattle community coming together for this event.
Event highlights include:
  • Presentations from researchers in the Seattle area
  • Research goals and progress at the Allen Institute for Cell Science
  • Dynamic poster session
Registration closed
Agenda

Allen Cell Discussion Forum launched

9/27/2018

 
A new online discussion forum offers a meeting spot for the gene-editing and stem cell research community to interact with one another and with the scientists that created the Allen Institute's fluorescently tagged human induced pluripotent stem cell (hiPSC) line collection.
Picture
Read & post on the forum

New article: "5 things we (still) don't know about cells" posted

9/24/2018

 
Picture
Researchers at the Allen Institute for Cell Science were interviewed around the question "what don't we know about cells?" A full article summarizing their responses is available at alleninstitute.org.



Read the full article

Machine Learning Technique to Predict Human Cells' Organization Published in Nature Methods

9/17/2018

 
Scientists at the Allen Institute have used machine learning to train computers to see parts of the cell the human eye cannot easily distinguish. Using 3D images of fluorescently labeled cells, the research team taught computers to find structures inside living cells without fluorescent labels, using only black and white images generated by an inexpensive technique known as brightfield microscopy. A study describing the new technique is published today in the journal Nature Methods.
Read full press release

Jove Video Journal released

9/5/2018

 
Picture
Our new Jove Video Journal article presents a protocol we developed for tagging endogenously expressed proteins with fluorescent tags in human induced pluripotent stem cells using CRISPR/Cas9. Putatively edited cells are enriched by fluorescence activated cell sorting and clonal cell lines are generated.

New fluorescently tagged cell lines available, including first ‘silent’ tagged line

6/19/2018

 
The Allen Cell Collection now contains five new fluorescently tagged stem cell lines, including the first cells in the collection with a tag specific to heart muscle cells, or cardiomyocytes. To date, all the cell lines have been gene edited to carry a fluorescent marker that is produced in undifferentiated cells, before they go on to become specific cell types, like cardiomyocytes, nerve cells or liver cells.
Read full article
<<Previous
Forward>>

    Overview

    To receive the Allen Institute e-newsletter, sign up here.

    Archives

    January 2023
    December 2022
    October 2022
    April 2022
    February 2022
    January 2022
    November 2021
    October 2021
    June 2021
    May 2021
    April 2021
    March 2021
    November 2020
    October 2020
    August 2020
    April 2020
    September 2019
    August 2019
    May 2019
    February 2019
    December 2018
    September 2018
    June 2018
    May 2018
    March 2018
    February 2018
    January 2018
    December 2017
    November 2017
    October 2017
    September 2017
    August 2017
    June 2017
    May 2017
    April 2017
    March 2017
    February 2017
    December 2016
    November 2016
    August 2016
    June 2016

    Categories

    All

    RSS Feed

Home

Terms of Use

Citation Policy

Privacy Policy

FAQs

Help

Send us a message

Our diversity, equity & inclusion commitment
Copyright © 2023 Allen Institute. All Rights Reserved.
cellscience.alleninstitute.org
  • 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
  • 🔍
      SEARCHBAR