Brandeis EM Documentation

Frequently Asked Questions for Brandeis CryoEM

  • FAQ
  • EM room conditions

    Here you can find some information about operating instructions, calibration data info, etc..

  • Temperature and Humidity - Data Plots for F30 and F20 Rooms
    F30 Room: 2014, 2013, 2012, 2011, 2010, 2009, 2008. Since Oct. 15, 2008.
    F20 Room: 2014, 2013, 2012, 2011, 2010. Since April 27, 2010

    Morgagni Related

  • Operating Morgagni 268 Microscope
    A brief operating manual for Morgagni 268.

  • AMT CCD Imaging
    An operating manual for AMT CCD equipped on Morgagni 268.

    CM12 Related

  • Operating CM12
    A step-by-step guide to align CM12 and setup low-dose imaging conditions.

  • Ultrascan 1000 CCD with CM12
    Some information about this Gatan US1000 CCD and calibration results with CM12.

  • CM12 Quiz.pdf
    CM12 Quiz. See how much you know about CM12.

    TF20 & TF30 Related

  • Falcon Hack

  • Using Falcon Hack

  • Using Falcon II camera on Tecnai F30

  • Magnification table of Falcon II on F30

  • Magnification Table of US4000 on F20

  • Conversioncy Efficient of Various Cameras at Brandeis

  • Note on K2 after GMS Upgraded to 2.2.0.1518 on Jan 18, 2013
    Some Information on K2 Camera Performance After GMS Upgrade.

  • Work with Cameras on F20
    Information about Falcon, Orius and US4000 on F20.

  • Conversion Efficiency of Cameras at Brandeis
    A table containing CountsPerElectron values after Faraday cage calibration.

  • FEI Eagle 4K CCD on TF20
    Some basic information about the FEL Eagle 4K CCD installed on TF20.

  • Cryo Holder Insertion for TF30
    A pdf file describing the correct steps to inserting cryo holder into F30.

  • F30 Operator's Reminding List
    F30 Operator's Reminding list.

  • Operating F20/F30 for Single Particle with SerialEM
    A very brief, but fairly complete checking list for F20 or F30 operation for single particle data collection using SerialEM.

  • Procedures for Tecnai TF30 Shutdown and Startup
    How to shutdown and startup TF30 properly.

  • GIF Distortion Field Correction
    GIF Distortion Field Correction - procedure and results.

  • Image Distortion Field off GIF Camera Since Aug 08, 2008
    GIF Image Distortion Field Since Aug 08, 2008

  • Image Distortion Field of GIF Camera Since Dec 01, 2011
    GIF Image Distortion Field Since Dec. 01, 2011

  • Image Distortion Field of GIF Camera Since K2 install Aug 01, 2012
    GIF Image Distortion Field Since K2 camera Installation at Aug. 01, 2012

  • Image Distortion Field of GIF Camera Since Jan 01, 2014
    GIF Image Distortion Field Since Jan. 01, 2014

  • Image Distortion Field of Gatan US4000 Camera on Tecnai F20
    Image Distortion Field of Gatan US4000 Camera on Tecnai F20

  • Magnification Gradient Table for Gatan US4000 CCD Camera on Tecnai F20
    Magnification Gradient Table for Gatan US4000 CCD Camera on Tecnai F20

    SerialEM Related

  • Deal With Large Data Size for K2 Movie Stack

  • Setup SerialEM for K2 on FEI Scope

  • Magnification Gradient Table for Gatan US4000 CCD Camera on Tecnai F20

  • SerialEM HowTo: Macros Explaining

  • SerialEM HowTo: Off-line Target Picking

  • SerialEM HowTo: Positioning X,Y

  • SerialEM HowTo: Positioning Z

  • SerialEM HowTo: Vary Defocus Value in Fly

  • SerialEM HowTo: Fix Scripting Beam Blank

  • SerialEM HowTo: Align To Hole

  • SerialEM HowTo: Drift Control

  • SerialEM HowTo: Take Multiple Shots around A Hole using Image Shift

  • SerialEM HowTo: Speed Up

  • Operating F20/F30 for Single Particle with SerialEM
    A very brief, but fairly complete checking list for F20 or F30 operation for single particle data collection using SerialEM.

  • SerialEM Help Files
    The latest SerialEM help file can be found as SerialEM.chm. There is also one in html and pdf format. The *.html is always up to date, as it is a direct link to the source in ftp archive.

  • Some FEI documents in pdf format
    Tecnai on-line help -- Alignment
    Tecnai on-line help -- Userinterface
    Tecnai on-line help -- Options
    Tecnai on-line help -- Freeware

    Some General Information

  • EM Lab Policies

  • Cryo Grid Storage Record
    A table recording the ownership of the cylinder and tubes for our auto-filling, string-free cryo grids storage system. It has brief description for the system we designed for cryo grids storage.

  • Negative Stain Procedure
    A guide to make 1% UA solution from stock and the steps to negatively staining an EM grid.

  • UA preparation
    A guide to make uranyl acetate solution for negative staining.

  • work-Study Student Handbook
    This handbook contains all the information about the microscope lab setup, maintaining procedures, resource of the supplies, instruction for making negative stain solutions, etc..