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Standard Operating procedures

(written methods)
Protocols.io articles
for cells in the lab
for microscopy

Protocols published on Protocols.io

Picture
Illumination Power and illumination stability
Protocols.io, February 2022. Nathalie G, Steve B, Rodrigo RB, Fabio B, Laszlo B, Veronika B, Ulrike B, Manel B, Craig B, Mariana TC, Pina C, Richard C, Nasser DM, Sam D, Frank E, Orestis F, Andreas F, Manfred G, David G, Marcel K, Birgit H, Gabriel K, Alex JL, Jeffrey MLD, Pascal L, Miso M, Michael SN, Britta SD, Stanley S, Sathya S, Roland T, Tse-Luen W, Kees VDO, Chloë VOT, Roland N, Laurent G. 
Picture
Maintenance of Undifferentiated hiPSC Cultures and Differentiation to Cardiomyocytes on Glass Surfaces
Protocols.io, March 2021. Angelique N, Stephanie QD, Kaytlyn G, Melissa H, Caroline H, Ruwanthi NG.

Standard operating procedures for cells in the lab

SOP: Cardiomyocyte differentiation methods v1.2.pdf
File Size: 633 kb
File Type: pdf
Download File

updated:
February 2020

SOP: Microscopy pipeline workflow image acquisition v1.0.pdf
File Size: 1793 kb
File Type: pdf
Download File


SOP: Sub-resolution and focal check beads solution for alignment and psf measurements v1.0.pdf
File Size: 142 kb
File Type: pdf
Download File


SOP: Fluorescent dye solution for flat field correction v1.0.pdf
File Size: 273 kb
File Type: pdf
Download File


SOP: Cell line scaleup & banking v1.3.pdf
File Size: 635 kb
File Type: pdf
Download File

updated:
February 2020

SOP: CellMask and NucBlue v1.0.pdf
File Size: 11249 kb
File Type: pdf
Download File


SOP: WTC culture v1.7.pdf
File Size: 656 kb
File Type: pdf
Download File

updated:
February 2020

SOP: RNP transfection v1.0.pdf
File Size: 2156 kb
File Type: pdf
Download File


SOP: Cell plating for imaging v1.0.pdf
File Size: 2750 kb
File Type: pdf
Download File


SOP: ddPCR CNV assay for screening clones v1.0.pdf
File Size: 2963 kb
File Type: pdf
Download File

Download file
SOP: Cardiomyocyte differentiation methods_v1.2.pdf
Download file
SOP: Microscopy pipeline workflow image acquisition v1.0.pdf
Download file
SOP: Sub-resolution and focal check beads solution for alignment and psf measurements v1.0.pdf
Download file
SOP: Fluorescent dye solution for flat field correction v1.0.pdf
Download file
SOP: CellMask and NucBlue v1.0.pdf
Download file
SOP: Cell line scaleup and banking v1.0.pdf
Download file
SOP: WTC culture v1.6.pdf (Updated January 2019)
Download file
SOP: RNP transfection v1.0.pdf
Download file
SOP: Cell plating for imaging v1.0.pdf
Download file
SOP: ddPCR CNV assay for screening clones v1.0.pdf
 

Standard operating procedures for microscopy

SOP: Sub-resolution and focal check beads solution for alignment and psf measurements v1.0.pdf
File Size: 142 kb
File Type: pdf
Download File


SOP: Microscopy pipeline workflow image acquisition v1.0.pdf
File Size: 1793 kb
File Type: pdf
Download File


SOP: Fluorescent dye solution for flat field correction v1.0.pdf
File Size: 273 kb
File Type: pdf
Download File


SOP: Automated 96-well plate matrigel coating.pdf
File Size: 258 kb
File Type: pdf
Download File


SOP: Automated 96-well plate seeding.pdf
File Size: 252 kb
File Type: pdf
Download File


SOP: Automated daily feeding & imaging of ipscs.pdf
File Size: 425 kb
File Type: pdf
Download File

Download file
SOP: Microscopy pipeline workflow image acquisition v1.0.pdf
Download file
SOP: Sub-resolution and focal check beads solution for alignment and psf measurements v1.0.pdf
Download file
SOP: Fluorescent dye solution for flat field correction v1.0.pdf
Download file
SOP: Automated 96-well plate matrigel coating.pdf
Download file
SOP: Automated 96-well plate seeding.pdf
Download file
SOP: Automated daily feeding & imaging of iPSCs.pdf

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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
  • 🔍
      SEARCHBAR