Skip to main content
bioRxiv
  • Home
  • About
  • Submit
  • ALERTS / RSS
Advanced Search
New Results

System Environmental Metrics Collector for EM facilities

Lambertus Michael Alink, View ORCID ProfileEdward T. Eng, Robert Gheorghita, View ORCID ProfileWilliam Rice, View ORCID ProfileAnchi Cheng, View ORCID ProfileBridget Carragher, View ORCID ProfileClinton S. Potter
doi: https://doi.org/10.1101/2021.11.04.467268
Lambertus Michael Alink
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
Edward T. Eng
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Edward T. Eng
Robert Gheorghita
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
William Rice
2Cryo-Electron Microscopy Laboratory, New York University, 550 First Avenue, New York, NY 10016, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for William Rice
Anchi Cheng
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Anchi Cheng
Bridget Carragher
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Bridget Carragher
Clinton S. Potter
1National Resource for Molecular Microscopy, Simons Electron Microscopy Center, New York Structural Biology Center, 89 Convent Ave, New York, NY, 10027, USA
  • Find this author on Google Scholar
  • Find this author on PubMed
  • Search for this author on this site
  • ORCID record for Clinton S. Potter
  • For correspondence: cpotter@nysbc.org
  • Abstract
  • Full Text
  • Info/History
  • Metrics
  • Data/Code
  • Preview PDF
Loading

Abstract

Recent developments in cryo-electron microscopy (cryoEM) have led to the routine determination of structures at near atomic resolution and greatly increased the number of biomedical researchers wanting access to high-end cryoEM instrumentation. The high costs and long wait times for gaining access encourages facilities to maximize instrument uptime for data collection. To support these goals, we developed a System Environmental Metrics Collector for facilities (SEMCf) that serves as a laboratory performance and management tool. SEMCf consists of an architecture of automated and robust sensors that track, organize and report key facility metrics. The individual sensors are connected to Raspberry Pi (RPi) single board computers installed in close proximity to the input metrics being measured. The system is controlled by a central server that may be installed on a RPi or existing microscope support PC. Tracking the system and the environment provides feedback of imminent issues, suggestions for interventions that are needed to optimize data production, and indications as to when preventative maintenance should be scheduled. The sensor components are relatively inexpensive and widely commercially available, and the open-source design and software enables straightforward implementation, customization, and optimization by any facility that would benefit from real time environmental monitoring and reporting.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Competing interests: The author(s) declare none.

  • https://github.com/nysbc

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
Back to top
PreviousNext
Posted November 04, 2021.
Download PDF
Data/Code
Email

Thank you for your interest in spreading the word about bioRxiv.

NOTE: Your email address is requested solely to identify you as the sender of this article.

Enter multiple addresses on separate lines or separate them with commas.
System Environmental Metrics Collector for EM facilities
(Your Name) has forwarded a page to you from bioRxiv
(Your Name) thought you would like to see this page from the bioRxiv website.
CAPTCHA
This question is for testing whether or not you are a human visitor and to prevent automated spam submissions.
Share
System Environmental Metrics Collector for EM facilities
Lambertus Michael Alink, Edward T. Eng, Robert Gheorghita, William Rice, Anchi Cheng, Bridget Carragher, Clinton S. Potter
bioRxiv 2021.11.04.467268; doi: https://doi.org/10.1101/2021.11.04.467268
Reddit logo Twitter logo Facebook logo LinkedIn logo Mendeley logo
Citation Tools
System Environmental Metrics Collector for EM facilities
Lambertus Michael Alink, Edward T. Eng, Robert Gheorghita, William Rice, Anchi Cheng, Bridget Carragher, Clinton S. Potter
bioRxiv 2021.11.04.467268; doi: https://doi.org/10.1101/2021.11.04.467268

Citation Manager Formats

  • BibTeX
  • Bookends
  • EasyBib
  • EndNote (tagged)
  • EndNote 8 (xml)
  • Medlars
  • Mendeley
  • Papers
  • RefWorks Tagged
  • Ref Manager
  • RIS
  • Zotero
  • Tweet Widget
  • Facebook Like
  • Google Plus One

Subject Area

  • Biophysics
Subject Areas
All Articles
  • Animal Behavior and Cognition (4228)
  • Biochemistry (9107)
  • Bioengineering (6751)
  • Bioinformatics (23944)
  • Biophysics (12089)
  • Cancer Biology (9495)
  • Cell Biology (13741)
  • Clinical Trials (138)
  • Developmental Biology (7616)
  • Ecology (11661)
  • Epidemiology (2066)
  • Evolutionary Biology (15479)
  • Genetics (10618)
  • Genomics (14296)
  • Immunology (9463)
  • Microbiology (22792)
  • Molecular Biology (9078)
  • Neuroscience (48890)
  • Paleontology (355)
  • Pathology (1479)
  • Pharmacology and Toxicology (2565)
  • Physiology (3823)
  • Plant Biology (8308)
  • Scientific Communication and Education (1467)
  • Synthetic Biology (2290)
  • Systems Biology (6172)
  • Zoology (1297)