Literature DB >> 34099930

Best practices and tools for reporting reproducible fluorescence microscopy methods.

Paula Montero Llopis1, Rebecca A Senft2, Tim J Ross-Elliott3, Ryan Stephansky3, Daniel P Keeley4, Preman Koshar4, Guillermo Marqués5, Ya-Sheng Gao6, Benjamin R Carlson6, Thomas Pengo7, Mark A Sanders5, Lisa A Cameron6, Michelle S Itano4.   

Abstract

Although fluorescence microscopy is ubiquitous in biomedical research, microscopy methods reporting is inconsistent and perhaps undervalued. We emphasize the importance of appropriate microscopy methods reporting and seek to educate researchers about how microscopy metadata impact data interpretation. We provide comprehensive guidelines and resources to enable accurate reporting for the most common fluorescence light microscopy modalities. We aim to improve microscopy reporting, thus improving the quality, rigor and reproducibility of image-based science.
© 2021. Springer Nature America, Inc.

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Year:  2021        PMID: 34099930     DOI: 10.1038/s41592-021-01156-w

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   28.547


  41 in total

1.  Measuring and interpreting point spread functions to determine confocal microscope resolution and ensure quality control.

Authors:  Richard W Cole; Tushare Jinadasa; Claire M Brown
Journal:  Nat Protoc       Date:  2011-11-10       Impact factor: 13.491

2.  International test results for objective lens quality, resolution, spectral accuracy and spectral separation for confocal laser scanning microscopes.

Authors:  Richard W Cole; Marc Thibault; Carol J Bayles; Brady Eason; Anne-Marie Girard; Tushare Jinadasa; Cynthia Opansky; Katherine Schulz; Claire M Brown
Journal:  Microsc Microanal       Date:  2013-10-08       Impact factor: 4.127

3.  Quality assurance testing for modern optical imaging systems.

Authors:  Robert F Stack; Carol J Bayles; Anne-Marie Girard; Karen Martin; Cynthia Opansky; Katherine Schulz; Richard W Cole
Journal:  Microsc Microanal       Date:  2011-04-11       Impact factor: 4.127

4.  Fluorescence microscope light source stability.

Authors:  Firas Mubaid; Daniel Kaufman; Tse-Luen Wee; Dong-Son Nguyen-Huu; David Young; Maria Anghelopoulou; Claire M Brown
Journal:  Histochem Cell Biol       Date:  2019-02-14       Impact factor: 4.304

5.  Practical considerations of objective lenses for application in cell biology.

Authors:  Stephen T Ross; John R Allen; Michael W Davidson
Journal:  Methods Cell Biol       Date:  2014       Impact factor: 1.441

6.  Accuracy and precision in quantitative fluorescence microscopy.

Authors:  Jennifer C Waters
Journal:  J Cell Biol       Date:  2009-06-29       Impact factor: 10.539

Review 7.  Seeing is believing? A beginners' guide to practical pitfalls in image acquisition.

Authors:  Alison J North
Journal:  J Cell Biol       Date:  2006-01-02       Impact factor: 10.539

8.  A beginner's guide to rigor and reproducibility in fluorescence imaging experiments.

Authors:  Jen-Yi Lee; Maiko Kitaoka
Journal:  Mol Biol Cell       Date:  2018-07-01       Impact factor: 4.138

Review 9.  Designing a rigorous microscopy experiment: Validating methods and avoiding bias.

Authors:  Anna Payne-Tobin Jost; Jennifer C Waters
Journal:  J Cell Biol       Date:  2019-03-20       Impact factor: 10.539

10.  A comparative study on the use of microscopy in pharmacology and cell biology research.

Authors:  Agatha M Reigoto; Sarah A Andrade; Marianna C R R Seixas; Manoel L Costa; Claudia Mermelstein
Journal:  PLoS One       Date:  2021-01-22       Impact factor: 3.240

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  11 in total

Review 1.  Recent advances in the standardization of fluorescence microscopy for quantitative image analysis.

Authors:  Akira Sasaki
Journal:  Biophys Rev       Date:  2021-11-16

2.  Quality assessment in light microscopy for routine use through simple tools and robust metrics.

Authors:  Orestis Faklaris; Leslie Bancel-Vallée; Aurélien Dauphin; Baptiste Monterroso; Perrine Frère; David Geny; Tudor Manoliu; Sylvain de Rossi; Fabrice P Cordelières; Damien Schapman; Roland Nitschke; Julien Cau; Thomas Guilbert
Journal:  J Cell Biol       Date:  2022-09-29       Impact factor: 8.077

Review 3.  Multi-Modal Optical Imaging and Combined Phototherapy of Nasopharyngeal Carcinoma Based on a Nanoplatform.

Authors:  Yanping Lin; Ting Qiu; Yintao Lan; Zhaoyong Li; Xin Wang; Mengyu Zhou; Qiuyu Li; Yao Li; Junsheng Liang; Jian Zhang
Journal:  Int J Nanomedicine       Date:  2022-05-26

4.  MethodsJ2: a software tool to capture metadata and generate comprehensive microscopy methods text.

Authors:  Joel Ryan; Thomas Pengo; Alex Rigano; Paula Montero Llopis; Michelle S Itano; Lisa A Cameron; Guillermo Marqués; Caterina Strambio-De-Castillia; Mark A Sanders; Claire M Brown
Journal:  Nat Methods       Date:  2021-12       Impact factor: 47.990

5.  Towards community-driven metadata standards for light microscopy: tiered specifications extending the OME model.

Authors:  Mathias Hammer; Maximiliaan Huisman; Alessandro Rigano; Ulrike Boehm; James J Chambers; Nathalie Gaudreault; Alison J North; Jaime A Pimentel; Damir Sudar; Peter Bajcsy; Claire M Brown; Alexander D Corbett; Orestis Faklaris; Judith Lacoste; Alex Laude; Glyn Nelson; Roland Nitschke; Farzin Farzam; Carlas S Smith; David Grunwald; Caterina Strambio-De-Castillia
Journal:  Nat Methods       Date:  2021-12       Impact factor: 47.990

6.  Quantification of ruffle area and dynamics in live or fixed lung adenocarcinoma cells.

Authors:  Gabriel Kreider-Letterman; Mariana Cooke; Silvia M Goicoechea; Marcelo G Kazanietz; Rafael Garcia-Mata
Journal:  STAR Protoc       Date:  2022-06-04

Review 7.  Trends in selected fields of reference material production.

Authors:  Sebastian Recknagel; Harald Bresch; Heinrich Kipphardt; Matthias Koch; Martin Rosner; Ute Resch-Genger
Journal:  Anal Bioanal Chem       Date:  2022-03-22       Impact factor: 4.478

8.  Strain-Level Variation and Diverse Host Bacterial Responses in Episymbiotic Saccharibacteria.

Authors:  Jie Nie; Daniel R Utter; Kristopher A Kerns; Eleanor I Lamont; Erik L Hendrickson; Jett Liu; Tingxi Wu; Xuesong He; Jeffrey McLean; Batbileg Bor
Journal:  mSystems       Date:  2022-03-28       Impact factor: 7.324

9.  Reconstitution of Phase-Separated Signaling Clusters and Actin Polymerization on Supported Lipid Bilayers.

Authors:  Xiaohang Cheng; Maria F Ullo; Lindsay B Case
Journal:  Front Cell Dev Biol       Date:  2022-07-22

10.  Application of Fluorescence In Situ Hybridization Assisted by Fluorescence Microscope in Detection of Her2 Gene in Breast Cancer Patients.

Authors:  Fang Lu; Tingting Zhou; Yan Liu; Liying Song; Bin Zhang; Yuyan Li
Journal:  Contrast Media Mol Imaging       Date:  2022-08-11       Impact factor: 3.009

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