WG 1 – Objectives
Comparison of fluorescence intensities between images requires measurements of the illumination power and stability of the excitation light source. WG1 aims at establishing a recommended protocol for measuring the stability of a light source during both short- and long-term image acquisition sessions using calibrated external power sensors. This initial aim will be extended later to measure the absolute flux of light through the illumination path and irradiance of the sample. The initial protocol will be designed around lasers on confocal microscopy platforms (raster scanning and spinning disks). It will be later modified towards other microscopy techniques (widefield, TIRF, light-sheet, super-resolution).
WG 1 – Co-Chairs
Email:
laurent.gelman@fmi.ch
Laurent Gelman
WG 1 – Latest News
Last meeting: 1st March 2023, 5:00 pm
To gain access to the full meeting minutes, you have to be a registered member of QUAREP-LiMi. Use the “Become a Member” form or write an e-mail to the WG chair.
The WG1 released its first protocol “Illumination Power and Illumination Stability“. The protocol is featured on
Beside step-by-step instructions, the protocol provides:
- A link to a public database with measurements made by members of our group and to which you can contribute by uploading your own measurements.
- A link to a GitHub repository with scripts to automatize the measurements with some scopes and power meters
- A link to tutorial videos which are available on the QUAREP-LiMi YouTube Channel
- Automation
- Aims: The QUAREP-LiMi power and stability assessment protocol requires long and repetitive measurements for each light source as other parameters are tested. The aim of this subgroup is to provide feasible means for carrying out these processes, taking advantage of the automation capabilities of modern microscopes.
- Co-leads: Mišo Mitkovski, Nasser Darwish
- On-going tasks:
- Published scripts and instructions for Nikon and Zeiss microscopes in the QUAREP-LiMi Github repository.
- Cloud storage location (can be accessed as a member) → here
- Environment
- Glossary
- Power Meter
Memberlist WG 1
Last name First Name Town Organisation Affiliation Lab Affiliation Country Time Zone
Acton
Sydney
Mobile
University of South Alabama
Univ.
US
UTC-6
Avilov
Sergiy
Freiburg
MPI Freiburg
MPG
DE
UTC+2
Bagley
Steve
Manchester
Univ. Manch.
Univ.
GB
UTC+1
Bammann
Rodrigo
Uckfield
Scientifica
Industry
GB
UTC+1
Banerjee
Priyam
New York
Rockefeller University
Univ.
US
UTC-5
Barachati
Fábio
Berlin
PicoQuant GmbH
Industry
DE
UTC+1
Barna
Laszlo
Bloomington
Indiana University Bloomington
Gov.
HU
UTC+1
Bennett
Sarah
Coventry
University of Warwick
Univ.
GB
UTC+1
Bergles
Eric
San Jose
Pavilion Integration Corporation
Industry
US
UTC-8
Birngruber
Konstantin
Munich
Toptica
Industry
DE
UTC+2
Boczonadi
Veronika
Newcastle
Newcastle University
Univ.
GB
UTC+-0
Boehm
Ulrike
Oberkochen
Zeiss
Industry
DE
UTC-4
Bosch
Manel
Barcelona
Univ. Barcelona CCITUB
Univ.
ES
UTC+2
Boxall
Sally
Leeds
University Of Leeds
Univ.
GB
UTC+1
Brideau
Craig
Calgary
Univ. of Calgary
Univ.
CA
UTC-7
Brunt
Peter
Fairport
AVR Optics
Industry
US
UTC-5
Carvalho
Mariana
Braga
INL – International Iberian Nanotechnology Laboratory
EU-Org
PT
UTC+-0
Casse
Alhassan
Vitry-sur-Seine
SANOFI
Industry
FR
UTC+2
Chacko
Jenu
Madison
University of Wisconsin Madison
Univ.
US
UTC-6
Chatterjee
Nabanita
Gothenburg
University of Gothenburg
Univ.
SE
UTC+1
Cialowicz
Katarzyna
New York
Icahn School of Medicine at Mt sinai
Univ.
US
UTC-5
Colarusso
Pina
Calgary
University of Calgary
Univ.
CA
UTC-7
Cole
Louise
Sydney
Univ. Technology
Univ.
AU
UTC+11
Cole
Richard
Albany
New York State Dept of Health, Wadsworth Center
Gov.
US
UTC-7
Darwish
Nasser
Klosterneuburg
Institute of Science and Technology Austria
Gov.
AT
UTC+1
Dervish
Suat
Westmead
Westmead Institute for Medical Research
Gov.
AU
UTC+10
Dietzel
Ralf
Rodgau
Omicron
Industry
DE
UTC+2
Diez-Guerra
F. Javier
Madrid
CBMSO (CSIC-UAM)
Univ.
ES
UTC+2
Drent
Peter
Amsterdam
ONI
Industry
NL
UTC+1
Drolet
Kathy
Worcester
UMass Chan Medical School
Univ.
US
UTC-4
Duwé
Sam
Diepenbeek
Universiteit Hasselt
Univ.
BE
UTC+1
Egron
Audrey
Pessac
Argolight
Industry
FR
UTC+1
Eismann
Frank
Jena
Carl Zeiss Microscopy GmbH
Industry
DE
UTC+2
Eseola
Alice
Norwich
The Sainsbury Laboratory
Univ.
GB
UTC+1
Esner
Milan
Brno
Ceitec Masaryk University
Univ.
CZ
UTC+1
Faklaris
Orestis
Montpellier
RTmfm
Univ.
FR
UTC+2
Fallisch
Arne
Freiburg
University of Freiburg, Life Imaging Center
Univ.
DE
UTC+1
Felscher
Andreas
Luebeck
Coherent
Industry
DE
UTC+2
Ferdous
Zannatul
Sapporo
Hokkaido University
Univ.
JP
UTC+9
Forbes
Ashli
Vancouver
The University of British Columbia
Univ.
CA
UTC-8
Fu
Yangting
Beijing
National Institute of Metrology
Gov.
CN
UTC+8
Fuhrhop
Carlos
Valdivia
universidad Austral de Chile
Univ.
CL
UTC+4
Gaudreault
Nathalie
Seattle
BINA
Private lab
US
UTC-7
Gelman
Laurent
Basel
FMI
Private lab
CH
UTC+2
Gonnert
Manfred
Bergkirchen
Thorlabs GmbH
Industry
DE
UTC+2
Goodhand
Isabel
Andover
CoolLED
Industry
GB
UTC+-0
Gramann
Alex
Andover
CoolLED Ltd.
Industry
GB
UTC+-0
Greenwood
Harrison
London
The Francis Crick Institute
Univ.
GB
UTC+-0
Grunwald
David
Worcester
Univ. of Massachusetts
Univ.
US
UTC-4
Gu
Tingting
Norman
University of Oklahoma
Univ.
US
UTC-6
Guaimas
Francisco
San Martin
CONICET-UNSAM
Gov.
AR
UTC-3
Gudavicius
Dominykas
Vilnius
Light Conversion
Industry
LT
UTC+2
Gunkel
Manuel
Heidelberg
EMBL
EU-Org
DE
UTC+2
Hartley
Matthew
Cambridge
EMBL-EBI
EU-Org
GB
UTC+1
Hatto
Mao
Praha 5
Nikon
Industry
CZ
UTC+2
Herzog
Dylan
London
Microscopy Innovation Centre, King’s College London
Univ.
GB
UTC+-0
Hibbs
Ben
Silvan
Klein Australia Pty Ltd
Industry
AU
UTC+10
Hoffmann
Birgit
Jena
UKJ
Univ.
DE
UTC+2
Iremonger
James
Edinburgh
University of Edinburgh
Univ.
GB
UTC+-0
Jaffe
Claudia
Beaverton
Lumencor
Industry
US
UTC-7
Kasper
Robert
Hamburg
Evident Europe GmbH
Industry
DE
UTC-1
Key
Jillian
Ottawa
University of Ottawa
Univ.
CA
UTC-4
Kirchenbüchler
David
Chicago
Northwestern
Univ.
US
UTC-6
Kirchner
Marcel
Cologne
MPI
MPG
DE
UTC+2
Koksoy
Ayse Aslihan
Houston
MD Anderson CC
Univ.
US
UTC-6
Krens
Gabriel
Klosterneuburg
Institute of Science and Technology Austria
Gov.
AT
UTC+1
Laktiushkin
Viktor
Sochi
Sirius
Univ.
RU
UTC+3
Landua
Kalika
Houston
Nikon Instruments
Industry
US
UTC-5
Laude
Alex
Newcastle
Newcastle University
Univ.
GB
UTC+1
Leavesley
Silas
Mobile
Univ. South Alabama
Univ.
US
UTC-5
Leburn
Christopher
Edinburgh
Chromacity
Univ.
GB
UTC-1
LeDue
Jeffrey
Vancouver
Univ. British Columbia
Univ.
CA
UTC-7
Lee
Woei Ming Steve
Canberra
John Curtin School of Medical Research, The Australian National University
Univ.
AU
UTC+10
Lees
Robert
Didcot
Science and Technology Facilities Council
Gov.
GB
UTC+-0
Levitt
James
London
Nikon Imaging Centre, King’s College London, UK
Univ.
GB
UTC+-0
Li
Xiaoming
Shanghaitech
Shanghaitech University
Univ.
CN
UTC+8
Lopes
Alexandre
Oeiras
IGC
Private lab
PT
UTC+-0
Lorentz
Pascal
Basel
Department of Biomedicine University of Basel
Univ.
CH
UTC+2
Luccardini
Camilla
Lyon
CIQLE Centre d’Imagerie Quantitative Lyon Est
Univ.
FR
UTC+1
Manning
Lane
Fairport
AVR Optics
Industry
US
UTC-5
Mathur
Aastha
Heidelberg
Euro BioImaging
EU-Org
DE
UTC+2
Micu
Ileana
Belfast
Queen’s University Belfast
Univ.
GB
UTC+1
Mitkovski
Mišo
Göttingen
GerBi-GMB WG 1, MPI-NAT
MPG
DE
UTC+2
Monterroso
Baptiste
Nice
Univ. Nice
Univ.
FR
UTC+2
Moore
Josh
Dundee
Univ. of Dundee
Univ.
GB
UTC+1
Munck
Sebastian
Leuven
Univ. Leuven
Univ.
BE
UTC+2
Narvaez
William
Lastenia Toral
NGSI
Private lab
EC
UTC-5
Nechyporuk-Zloy
Volodymyr
London
Imperial College of Science, Technology and Medicine
Univ.
GB
UTC+-0
Nelson
Michael
Madison
Univ. of Wisconsin
Univ.
US
UTC-8
Nitschke
Roland
Freiburg
GerBi-GMB WG 1
Univ.
DE
UTC+2
Oord
Kees
Amsterdam
Nikon
Industry
NL
UTC+1
Orlova
Natalia
Seattle
Allen Institute
Private lab
US
UTC-7
Ossato
Giulia
Mannheim
Leica
Industry
DE
UTC+1
Peterka
Darcy
New York
Columbia University
Univ.
US
UTC+5
Petrov
Eugene
Berlin
Bundesanstalt für Materialforschung und -prüfung
Gov.
DE
UTC+1
Powell
Rhonda
Clemson
Clemson University
Univ.
US
UTC-5
Resch-Genger
Ute
Berlin
BAM
Gov.
DE
UTC+2
Ronkainen
Veli-Pekka
Oulu
Univ. of Oulu
Univ.
FI
UTC+2
Saint-Hilaire
Cadisha
Paris
Curie Institute
Univ.
FR
UTC+1
Schmidt
Alfonso
Kelburn Parade
Malaghan Institute of Medical Reserach
Private lab
NZ
UTC+12
Schreiner
Ryan
New York
Weill Cornell Medicine
Univ.
US
UTC-4
Schroth-Diez
Britta
Dresden
GerBi-GMB WG 1
MPG
DE
UTC+2
Schwartz
Stanley
Austin
Nikon
Industry
US
UTC-5
Segal
Gabriela
Melbourne
The University of Melbourne
Univ.
AU
UTC+10
Shemesh
Michal
Delft
TUD
Univ.
NL
UTC+1
Simm
Alan
Liverpool
Liverpool John Moores University
Univ.
GB
UTC+-0
Srinivasan
Sathya
Beaverton
ONPRC
Univ.
US
UTC-8
Tapia
Pablo
Bethesda
National Institutes of Health (NIH)
Gov.
US
UTC-4
Tassis
Kostas
Leiden
Leiden University
Univ.
NL
UTC+1
Tcatchoff
Lionel
South Chailey
INSS Ltd
Industry
GB
UTC+1
Tewinkel
Martin
Hamburg
Evident Europe GmbH
Industry
DE
UTC+2
Thuenauer
Roland
Hamburg
Heinrich Pette Institute
Leibniz
DE
UTC+2
Türschmann
Pierre
Erlangen
Interherence GmbH
Industry
DE
UTC+1
van Oostende-Triplet
Chloë
Ottawa
University of Ottawa
Univ.
CA
UTC-5
Wee
Erika
Cold Spring Harbor
Cold Spring Harbor Laboratory
Univ.
US
UTC-5
Weiss
Kurt
Madison
University of Wisconsin-Madison
Univ.
US
UTC-6
Wilde
Geraint
Belfast
Oxford Inst. Andor
Industry
GB
UTC+1
Zuschratter
Werner
Magdeburg
GerBi-GMB WG 1
Leibniz
DE
UTC+2
26th meeting, 1st of March 2023
Meeting date
Meeting summary
25th meeting, 2nd of February 2023
Meeting date
Meeting summary
Summary of last meeting by Nathalie.
Feed-back from subgroups:- Glossary subgroup only worked on camera part, not the illumination part.
- CAD files for power meter sensor holders have been loaded on the GitHub.
23rd meeting, 2nd of November 2022
Meeting date
Meeting summary
22nd meeting, 7th of September 2022
Meeting date
Meeting summary
21st meeting, 3rd of August 2022
Meeting date
Meeting summary
News from the subgroups: Glossary: a first document with a mission statement is to be found in the new folder WG1-MetaDataModel. This is in coordination with WG7, as it has been also done in WG2. The subgroup will try to have as many companies on board as possible. Automation: no meeting since last time. Power meter: see below paragraph on “Appendix 1b”.
Appendix 1b: Measuring Broadband Light Sources. We rephrased the introductory sentence and the first paragraph on Lasers. We then discussed the relevant operations for a broadband illumination. We identified at least three important parameters that may influence the absolute power measurement: the spectrum of the light source, the specifications of the excitation filter set and of the dichroic, and the responsivity of the power meter sensor. However, to make the measurement easier and robust, we agreed on a convention: the wavelength to be set on the power meter should be in the middle of the bandpass of the excitation filter. Note that if the measurement is done within the linear range of the responsivity curve of the power meter, using the center of the bandpass is a way of averaging responsivity values. The specific spectrum of the light source within the excitation bandpass should not have any significant influence on a biological experiment, and is not getting further consideration here.
20th meeting, 6th of July 2022
Meeting date
Meeting summary
- Extension of the automation section (Led by Miso mitkovski@em.mpg.de and Nasser ndarwish@ist.ac.at): new members joined (Chloe and Rodrigo) and the group is now testing and integrating the automation script (for both acquisition and analysis) with data management using AirTable.
- Extension of Power Meter Q&A (Led by Manfred mgonnert@thorlabs.com ): a new appendix (1b) has been created on how to measure power of broadband light sources. Please review on Protocol.io here
- Metadata/Definition specific to WG1 (Led by Britta schroth@mpi-cbg.de & David david.grunwald@umassmed.edu): still working on the WG2 camera glossary (the plan is to get as many companies involved as possible).
19th meeting, 1st of June 2022
Meeting date
Meeting summary
- Extension of the automation subgroup had a meeting. The recording can be found here. A new tutorial video on how to install and use the automation macro while using Nikon NIS element and the Thorlab power meter software has been created. You can find it here.
- The power meter Q&A is being extended to include information about LED light source. Please contact Manfred mgonnert@thorlabs.com if you would like to contribute.
18th meeting, 4th of Mai 2022
Meeting date
Meeting summary
- Extend the protocol to other microscopy modalities (wide-field microscope – LED, Arc-Lamps, lasers)
- Extend the protocol to different laser types (i.e. multiphoton)
- Extend the protocol to other laser-based modalities : (TIRF, SIM, light sheet)
- Extension of the automation section (led by Miso mitkovski@em.mpg.de & Nasser ndarwish@ist.ac.at). Next Monday (05/09) 17:00 CET, the automation subgroup will meet. Kees will present his latest macros. https://zoom.us/j/97497511867; Meeting ID: 974 9751 1867; Passcode: 445833
- Extension of Power Meter Q&A (Led by Manfred mgonnert@thorlabs.com)
- Metadata/Definition specific to WG1 (Led by Britta schroth@mpi-cbg.de & David david.grunwald@umassmed.edu)