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eBIC
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eBIC user guide

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Instruments by Science Group

Macromolecular
Crystallography
Soft Condensed
Matter
Imaging and
Microscopy
Biological
Cryo-Imaging
Magnetic
Materials
Structures and
Surfaces
Crystallography
Spectroscopy

Contact

eBIC admin enquiries

Tel: +44 (0) 1235 56 7480 
Email: ebicadmin@diamond.ac.uk
Office hours: 08.30-16.30(UK) Mon-Fri

Science enquiries

Peijun Zhang
Tel: +44 (0) 1235 77 8878
Email: peijun.zhang@diamond.ac.uk

Daniel Clare
Tel: +44 (0) 1235 56 7501
Email: daniel.clare@diamond.ac.uk

Yuriy Chaban
Tel: +44 (0) 1235 77 8207
Email: yuriy.chaban@diamond.ac.uk

Christos Savva
Tel: +44 (0) 1235 77 8976
Email: christos.savva@diamond.ac.uk

Training enquiries

Tel: +44 (0) 1235 77 8976
Email: christos.savva@diamond.ac.uk

Science Group Leader (interim)

Daniel Clare

Email: daniel.clare@diamond.ac.uk
Tel: +44 (0) 1235 56 7501

Funded by a grant from

Wellcome Trust

MRC

BBSRC

eBIC

Status: Operational

Accelerating Voltages: 3-30, 200 & 300 kV

Cryo-EM: Cryo Electron Microscopy Cryo-ET: Cryo Electron Tomography Imaging Electron Microscope Electron Crystallography FIBSEM: Cryo Focused Ion Beam Scanning Electron Microscopy Microscopy Remote Access
  1. Instruments
  2. Biological Cryo-Imaging
  3. eBIC
  4. eBIC user guide
  5. Remote sessions

Remote sessions

The user should read and familiarise themselves with the appropriate guide relevant to their data collection session. 
Follow this link to read eBIC's 
User guide instructions.


At present, remote sessions are available for:

  • Single particle analysis using EPU
     
  • Tomography using TOMO5

​​​Essential user actions - prior to remote use of eBIC microscopes

  • submit sample ERA in UAS at least one week before the user's eBIC session
     
  • in advance of the session, the user needs to send their eBIC local contact:
    grid details, loading instructions and data collection parameters
     
  • users need to be aware:
    - users need to inform their local contact asap if gold grids are being used
    - for VPP collection, please discuss ahead of your session with your local contact

Local contact expectations

  • after sample loading the local contact will complete:
    basic microscope alignments, K3 tuning and K3 gain reference collection
     
  • the local contact will email users when the microscope is aligned and the image filter tuned, to inform the user that they can start their EPU session set up
     
  • K3 gain reference will be copied to the processing folder in the user's visit folder

User expectations and advice

  • AFIS (aberration-free image shift) data collection is recommended by eBIC. The so called 'fast acquisition' significantly increases the speed of data collection and can achieve up to 40% reduction in the illumated area allowing more shots per hole. AFIS is available on all Krios microscopes

    For EPU
     
    • fast-acquisition is recommended for most standard SPA setup as it uses AFIS allowing multiple shots per hole and per stage movement leading to higher data collection rates

    • our recommended setup with K3 cameras is super-resolution with 2-fold binning as this generates fastest data collection rates. To offset potential aliasing, it is recommended to collect one mag higher than required. (e.g., If targeting 81k (1.06 Å/px), use 105k (0.83 Å/px) instead

  • users must let their local contact know if they use choose to use super-resolution with binning in their data acquisition pre-set
     
  • users need to inform their local contact once ready to start/or have started the data collection, so the local contact can trigger data transfer off the K3 PC and commence the on-the-fly processing pipeline
     
  • users are welcome to collect multiple data sets during a session, but eBIC ask users to inform their local contact within normal working hours (9am-5pm UK time). Multi data collection sessions will require data transfer and the processing pipeline to be started or stopped

User support outside normal working hours

For problems outside the hours of 09:00 to 17:00 (UK time) during the week when the beamline is on, and on weekends between 07:00 to 19.00, users must call Diamond Experimental Hall Coordinators (EHCs) on +44 (0) 1235 77 8787 and inform them of the following:

  • they are a user running a remote session on a Krios electron microscope
     
  • provide the Experimental Hall Coordinator with their local contact's name

The Diamond Experimental Hall Coordinator will make best efforts to get in touch with eBIC staff, who will attempt to address the problem.

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Diamond Light Source

Diamond Light Source is the UK's national synchrotron science facility, located at the Harwell Science and Innovation Campus in Oxfordshire.

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