Literature DB >> 34021279

QUAREP-LiMi: a community endeavor to advance quality assessment and reproducibility in light microscopy.

Ulrike Boehm1, Glyn Nelson2, Claire M Brown3, Steve Bagley4, Peter Bajcsy5, Johanna Bischof6, Aurelien Dauphin7, Ian M Dobbie8, John E Eriksson9, Orestis Faklaris10, Julia Fernandez-Rodriguez11, Alexia Ferrand12, Laurent Gelman13, Ali Gheisari14, Hella Hartmann14, Christian Kukat15, Alex Laude2, Miso Mitkovski16, Sebastian Munck17,18,19, Alison J North20, Tobias M Rasse21, Ute Resch-Genger22, Lucas C Schuetz23, Arne Seitz24, Caterina Strambio-De-Castillia25, Jason R Swedlow26, Roland Nitschke27,28.   

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Year:  2021        PMID: 34021279      PMCID: PMC9443067          DOI: 10.1038/s41592-021-01162-y

Source DB:  PubMed          Journal:  Nat Methods        ISSN: 1548-7091            Impact factor:   47.990


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  17 in total

1.  Identity Crisis - Rigor and Reproducibility in Human Cell Lines.

Authors:  Jaimee C Eckers; Adam D Swick; Randall J Kimple
Journal:  Radiat Res       Date:  2018-04-13       Impact factor: 2.841

2.  A resource for cell line authentication, annotation and quality control.

Authors:  Mamie Yu; Suresh K Selvaraj; May M Y Liang-Chu; Sahar Aghajani; Matthew Busse; Jean Yuan; Genee Lee; Franklin Peale; Christiaan Klijn; Richard Bourgon; Joshua S Kaminker; Richard M Neve
Journal:  Nature       Date:  2015-04-16       Impact factor: 49.962

3.  Reproducibility crisis: Blame it on the antibodies.

Authors:  Monya Baker
Journal:  Nature       Date:  2015-05-21       Impact factor: 49.962

4.  Reproducibility: changing the policies and culture of cell line authentication.

Authors:  Leonard P Freedman; Mark C Gibson; Stephen P Ethier; Howard R Soule; Richard M Neve; Yvonne A Reid
Journal:  Nat Methods       Date:  2015-06       Impact factor: 28.547

5.  To Read More Papers, or to Read Papers Better? A Crucial Point for the Reproducibility Crisis.

Authors:  Thiago F A França; José M Monserrat
Journal:  Bioessays       Date:  2018-11-28       Impact factor: 4.345

6.  Cell-line authentication demystified.

Authors:  Vivien Marx
Journal:  Nat Methods       Date:  2014-04-29       Impact factor: 28.547

7.  Reproducibility crisis in science or unrealistic expectations?

Authors:  Thiago Fa França; José Maria Monserrat
Journal:  EMBO Rep       Date:  2018-04-25       Impact factor: 8.807

8.  This AI researcher is trying to ward off a reproducibility crisis.

Authors:  Elizabeth Gibney
Journal:  Nature       Date:  2020-01       Impact factor: 49.962

9.  Antibody validation for protein expression on tissue slides: a protocol for immunohistochemistry.

Authors:  Tyler MacNeil; Ioannis A Vathiotis; Sandra Martinez-Morilla; Vesal Yaghoobi; Jon Zugazagoitia; Yuting Liu; David L Rimm
Journal:  Biotechniques       Date:  2020-08-27       Impact factor: 1.993

10.  A call for public archives for biological image data.

Authors:  Jan Ellenberg; Jason R Swedlow; Mary Barlow; Charles E Cook; Ugis Sarkans; Ardan Patwardhan; Alvis Brazma; Ewan Birney
Journal:  Nat Methods       Date:  2018-11       Impact factor: 28.547

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  10 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.  Open microscopy in the life sciences: quo vadis?

Authors:  Johannes Hohlbein; Benedict Diederich; Barbora Marsikova; Emmanuel G Reynaud; Séamus Holden; Wiebke Jahr; Robert Haase; Kirti Prakash
Journal:  Nat Methods       Date:  2022-09       Impact factor: 47.990

3.  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

4.  Quality control of image sensors using gaseous tritium light sources.

Authors:  David McFadden; Brad Amos; Rainer Heintzmann
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2022-02-14       Impact factor: 4.019

5.  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

6.  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

7.  Super-resolution microscopy: a brief history and new avenues.

Authors:  Kirti Prakash; Benedict Diederich; Rainer Heintzmann; Lothar Schermelleh
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2022-02-14       Impact factor: 4.226

Review 8.  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

9.  Microscopy-BIDS: An Extension to the Brain Imaging Data Structure for Microscopy Data.

Authors:  Marie-Hélène Bourget; Lee Kamentsky; Satrajit S Ghosh; Giacomo Mazzamuto; Alberto Lazari; Christopher J Markiewicz; Robert Oostenveld; Guiomar Niso; Yaroslav O Halchenko; Ilona Lipp; Sylvain Takerkart; Paule-Joanne Toussaint; Ali R Khan; Gustav Nilsonne; Filippo Maria Castelli; Julien Cohen-Adad
Journal:  Front Neurosci       Date:  2022-04-19       Impact factor: 5.152

10.  Standard metadata for 3D microscopy.

Authors:  Alexander J Ropelewski; Megan A Rizzo; Jason R Swedlow; Jan Huisken; Pavel Osten; Neda Khanjani; Kurt Weiss; Vesselina Bakalov; Michelle Engle; Lauren Gridley; Michelle Krzyzanowski; Tom Madden; Deborah Maiese; Meisha Mandal; Justin Waterfield; David Williams; Carol M Hamilton; Wayne Huggins
Journal:  Sci Data       Date:  2022-07-27       Impact factor: 8.501

  10 in total

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