User Resources

Facility user policies:

  • COVID-19 related policies and phased reopening plans

User Policies_CUNY ASRC Imaging_COVID-19 phased opening_e4


  • Reservation schedule 

Starting from 11/01/2021, we are back using Badger system to make instrument reservations. For experienced users, who do not need assistance from facility staff, please make reservations directly in Badger system following the facility user policies. For non-experienced users, who need staff assistance or training purposes, please contact the facility staff to confirm availability before making reservations in Badger. New users must finish all the user registration steps and are able to login Badger with their accounts before scheduling training.

CUNY-ASRC-Imaging-Facility_Badger SOP


  • General user policies
  1. General
  2. Safety
  3. Reservation
  4. Off hours policy
  5. Acknowledgement

CUNY-ASRC-Imaging-Facility_General User Policies

  • Computer use policy:

CryoEM Data Processing Computer

User Policies_CUNY ASRC Imaging_cryoEM data processing

Image Reconstruction Computer (Window OS with Amira/Avizo and other softwares)

User Policies_CUNY ASRC Imaging_Image Reconstruction Computer


Badger instruction:

CUNY-ASRC-Imaging-Facility_Badger SOP

Badger Dashboard:


Instrument instructions and documents:

  • Titan Halo 300kV TEM

SOP_Titan Halo 300kV TEM Procedure_2021 e2

SOP_Cryoholder controller & puming station

SOP_Homemade LN2 AutoFill e2

serialEM-note02-Single particle data collection – stitching MMM – MR e3

serialEM-note03-setup-LD-with-mP-and-nP e2

serialEM-note04-Multiple Record Setup Dialog e2


  • Titan Themis 200kV S/TEM

200 kV Titan Themis Alignment_2022_v2


  • Tecnai Spirit 120kV TEM

120 KV Tecnai Spirit TWIN TEM_2022(Updated)

Negative Stain Procedure


  • Helios Nanolab 660 FIB-SEM

FEI Helios NanoLab 660 Dualbeam FIB-SEM

TEM Lamella Sample Preparation

2D Image Stack Using Auto Slice & View


  • WITec Raman microscope

WITec Raman Microscope alpha300R


  • Leica STED

Leica SP8 STED SOP e3

Guide to STED Sample Preparation


  • FEI Vitrobot

SOP_Vitrobot e4


  • Fischione NanoClean

Fischione NanoCleam M1070 Procedure


  • Leica EM ACE600 coater

Leica EM ACE600 Coater Procedure




Other resources:



 Structural Biology

FIB-SEM/TEM reference operation videos:

  • Basic SEM Operation by Michigan Center for Materials Characterization
  • FIB TEM Lamella Prep Tutorial by Nicholas Rudawski
  • TEM holder insertion and extraction by Nicholas Rudawski