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

Cell Structure Observations

Observations about microscopy videos for each of the 16 cell lines available in our Cell Catalog & 3D Cell Viewer.

Plasma Membrane visualized via CAAX domain of K-Ras

4/24/2018

 
Figure 1. Timelapse movie of plasma membrane. Timelapse movie of a live hiPS cell colony expressing the CAAX domain of K-Ras tagged with mTagRFP-T. Cells were imaged in 3D on a spinning-disk confocal microscope every 5 min. Panels show the same colony at different z-positions. Left) The bottom z-section of the cells. Middle) A maximum intensity projection through the middle 5 z-sections of the cells. Right) A maximum intensity projection through the top 12 z-sections of the cells. Frames in each panel were histogram matched to adjust for photobleaching. Movie plays at 1500x real time. Scale bar = 5 µm.

Figure 2. Timelapse movie of plasma membrane. Timelapse movie of a live hiPS cells in an epithelial sheet containing both unedited cells (which remain unseen in black), and cells expressing the CAAX domain of K-Ras tagged with mTagRFP-T. Cells were imaged in 3D on a spinning-disk confocal microscope every 3 min; the top and bottom z-sections are shown pseudocolored in green and magenta, respectively. Movie plays at 1800x real time. Scale bar = 10 µm.
 
Observations
  • The plasma membrane of the cell forms a barrier between the cytoplasm and the extracellular space and neighboring cells. We labeled CAAX, the membrane-targeting domain of K-Ras with mTagRFP-T to label the plasma membrane.
  • In hiPS cells the plasma membrane exhibits differing behavior depending on the location in the cell. At the bottom of the cell, the membrane surrounds dynamic lamellar protrusions, which overlap with neighboring cells. At the middle region of cells, the plasma membrane clearly outlines the boundaries between cells. At the very top of cells, the membrane surrounds dynamic microvilli, seen as small textured puncta.
  • In addition, bright puncta are present throughout the cell, with a greater number near the top of the cell. These are likely endosomes created by plasma membrane taken into the cell.
  • By mixing the cells expressing this FP-tagged CAAX domain with unedited cells, the behavior of individual cells within a colony can be observed more clearly. Pseudocoloring a frame from the bottom of a z-stack in a different color from a frame from the top of the same stack permits visualization of the different behavior of the cell at each location. The bottom of the cell changes shape and explores more space than the top of the cell. The tops of cells appear anchored in space, consistent with the localization of cell junctional proteins to apical cell-cell boundaries. ​

    About

    Observations and descriptions from the microscope

    Archives

    February 2019
    August 2018
    April 2018
    October 2017
    April 2017
    March 2017

    Categories

    All
    3-channel
    3D Rotation
    Actin
    Actinomyosin
    Actin Structures
    Adhesions
    Cardiomyocyte
    Cell Cell Contacts
    Cell-cell Contacts
    Cell Contacts
    Cell Division
    Cell Membrane
    Centrin
    Centrioles
    Chromatin
    Colony
    Connexin
    Connexin-43
    Desmoplakin
    Desmosomes
    DNA
    Endoplasmic Reticulum
    Endosome
    ER
    Fibrillarin
    FUS
    Gap Junctions
    Golgi Apparatus
    H2B
    Histone
    K-Ras
    Lamin
    Lamin B1
    LAMP1
    Lysosomes
    MEGFP
    Membrane
    Microtubule
    Mitochondria
    Mitosis
    MLC-2a
    MLC 2v
    MTagRFP-T
    Muscle
    Myosin
    Nuclear
    Nuclear Envelope
    Nuclear Pores
    Nucleolus
    Nucleophosmin
    Nucleoporin
    Nucleus
    Nup153
    Paraspeckles
    Paxillin
    Peroxisome
    Plasma Membrane
    PMP34
    Rab-5A
    Ras
    RNA-binding Protein
    Sarcomere
    Sarcomere M-line
    Sarcomere Thick Filaments
    Sarcoplasmic Reticulum
    Sec61
    SERCA2
    Sialyltransferase 1
    SMC 1A
    ß-actin
    ST6GAL1
    Stress Granules
    Tight Junctions
    Time Lapse
    Time Series
    Titin
    Tom20
    Troponin
    Tubulin
    ZO1
    Z Stack

    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