eprintid: 10127541
rev_number: 14
eprint_status: archive
userid: 608
dir: disk0/10/12/75/41
datestamp: 2021-05-11 12:50:24
lastmod: 2021-09-26 22:34:29
status_changed: 2021-05-11 12:50:24
type: article
metadata_visibility: show
creators_name: Russell, CT
creators_name: Shaw, M
title: mmSIM: an open toolbox for accessible structured illumination microscopy
ispublished: pub
divisions: UCL
divisions: B04
divisions: C05
divisions: F48
keywords: FOSS, control software, fluorescence microscopy, micro-manager, structured illumination microscopy
note: This version is the author accepted manuscript. For information on re-use, please refer to the publisher’s terms and conditions.
abstract: Since the first practical super-resolution structured illumination fluorescence microscopes (SIM) were demonstrated more than two decades ago, the method has become increasingly popular for a wide range of bioimaging applications. The high cost and relative inflexibility of commercial systems, coupled with the conceptual simplicity of the approach and the desire to exploit and customize existing hardware, have led to the development of a large number of home-built systems. Several detailed hardware designs are available in the scientific literature, complemented by open-source software tools for SIM image validation and reconstruction. However, there remains a lack of simple open-source software to control these systems and manage the synchronization between hardware components, which is critical for effective SIM imaging. This article describes a new suite of software tools based on the popular Micro-Manager package, which enable the keen microscopist to develop and run a SIM system. We use the software to control two custom-built, high-speed, spatial light modulator-based SIM systems, evaluating their performance by imaging a range of fluorescent samples. By simplifying the process of SIM hardware development, we aim to support wider adoption of the technique. This article is part of the Theo Murphy meeting issue 'Super-resolution structured illumination microscopy (part 1)'.
date: 2021-06-14
date_type: published
official_url: http://dx.doi.org/10.1098/rsta.2020.0353
oa_status: green
full_text_type: other
language: eng
primo: open
primo_central: open_green
verified: verified_manual
elements_id: 1863749
doi: 10.1098/rsta.2020.0353
lyricists_name: Shaw, Michael
lyricists_id: MSHAW07
actors_name: Shaw, Michael
actors_id: MSHAW07
actors_role: owner
full_text_status: public
publication: Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences
volume: 379
number: 2199
article_number: 20200353
event_location: England
citation:        Russell, CT;    Shaw, M;      (2021)    mmSIM: an open toolbox for accessible structured illumination microscopy.                   Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences , 379  (2199)    , Article 20200353.  10.1098/rsta.2020.0353 <https://doi.org/10.1098/rsta.2020.0353>.       Green open access   
 
document_url: https://discovery.ucl.ac.uk/id/eprint/10127541/1/2021.01.18.427184v1.full.pdf