Rxivist logo

Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 59,633 bioRxiv papers from 265,294 authors.

Benchmarking cryo-EM single particle analysis workflow

By Laura Y Kim, William J. Rice, Edward T Eng, Mykhailo Kopylov, Anchi Cheng, Ashleigh M. Raczkowski, Kelsey D Jordan, Daija Bobe, Clinton S Potter, Bridget Carragher

Posted 03 May 2018
bioRxiv DOI: 10.1101/311324 (published DOI: 10.3389/fmolb.2018.00050)

Cryo electron microscopy facilities running multiple instruments and serving users with varying skill levels need a robust and reliable method for benchmarking both the hardware and software components of their single particle analysis workflow. The workflow is complex, with many bottlenecks existing at the specimen preparation, data collection and image analysis steps; the samples and grid preparation can be of unpredictable quality, there are many different protocols for microscope and camera settings, and there is a myriad of software programs for analysis that can depend on dozens of settings chosen by the user. For this reason, we believe it is important to benchmark the entire workflow, using a standard sample and standard operating procedures, on a regular basis. This provides confidence that all aspects of the pipeline are capable of producing maps to high resolution. Here we describe benchmarking procedures using a test sample, rabbit muscle aldolase.

Download data

  • Downloaded 963 times
  • Download rankings, all-time:
    • Site-wide: 7,140 out of 59,633
    • In molecular biology: 206 out of 1,838
  • Year to date:
    • Site-wide: 6,484 out of 59,633
  • Since beginning of last month:
    • Site-wide: 12,525 out of 59,633

Altmetric data


Downloads over time

Distribution of downloads per paper, site-wide


Sign up for the Rxivist weekly newsletter! (Click here for more details.)


News