MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments

Pedro M Martins; Susanna Navarro; Alexandra Silva; Maria F Pinto; Zsuzsa Sárkány; Francisco Figueiredo; Pedro José Barbosa Pereira; Francisca Pinheiro; Zuzana Bednarikova; Michał Burdukiewicz; Oxana V Galzitskaya; Zuzana Gazova; Cláudio M Gomes; Annalisa Pastore; Louise C Serpell; Rostislav Skrabana; Vytautas Smirnovas; Mantas Ziaunys; Daniel E Otzen; Salvador Ventura; Sandra Macedo-Ribeiro

doi:10.3389/fnmol.2020.582488

MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments

Pedro M Martins, Susanna Navarro, Alexandra Silva, Maria F Pinto, Zsuzsa Sárkány, Francisco Figueiredo, Pedro José Barbosa Pereira, Francisca Pinheiro, Zuzana Bednarikova, Michał Burdukiewicz, Oxana V Galzitskaya, Zuzana Gazova, Cláudio M Gomes, Annalisa Pastore, Louise C Serpell, Rostislav Skrabana, Vytautas Smirnovas, Mantas Ziaunys, Daniel E Otzen, Salvador Ventura^*Sandra Macedo-Ribeiro^*

^*Corresponding author for this work

Interdisciplinary Nanoscience Center - INANO-MBG, iNANO-huset

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Review › Research › peer-review

18 Citations (Scopus)

Abstract

Reports on phase separation and amyloid formation for multiple proteins and aggregation-prone peptides are recurrently used to explore the molecular mechanisms associated with several human diseases. The information conveyed by these reports can be used directly in translational investigation, e.g., for the design of better drug screening strategies, or be compiled in databases for benchmarking novel aggregation-predicting algorithms. Given that minute protocol variations determine different outcomes of protein aggregation assays, there is a strong urge for standardized descriptions of the different types of aggregates and the detailed methods used in their production. In an attempt to address this need, we assembled the Minimum Information Required for Reproducible Aggregation Experiments (MIRRAGGE) guidelines, considering first-principles and the established literature on protein self-assembly and aggregation. This consensus information aims to cover the major and subtle determinants of experimental reproducibility while avoiding excessive technical details that are of limited practical interest for non-specialized users. The MIRRAGGE table (template available in Supplementary Information) is useful as a guide for the design of new studies and as a checklist during submission of experimental reports for publication. Full disclosure of relevant information also enables other researchers to reproduce results correctly and facilitates systematic data deposition into curated databases.

Original language	English
Article number	582488
Journal	Frontiers in Molecular Neuroscience
Volume	13
Number of pages	18
ISSN	1662-5099
DOIs	https://doi.org/10.3389/fnmol.2020.582488
Publication status	Published - 27 Nov 2020

Access to Document

10.3389/fnmol.2020.582488Licence: CC BY

Cite this

Martins, P. M., Navarro, S., Silva, A., Pinto, M. F., Sárkány, Z., Figueiredo, F., Pereira, P. J. B., Pinheiro, F., Bednarikova, Z., Burdukiewicz, M., Galzitskaya, O. V., Gazova, Z., Gomes, C. M., Pastore, A., Serpell, L. C., Skrabana, R., Smirnovas, V., Ziaunys, M., Otzen, D. E., ... Macedo-Ribeiro, S. (2020). MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments. Frontiers in Molecular Neuroscience, 13, Article 582488. https://doi.org/10.3389/fnmol.2020.582488

@article{3e8b74a7689447e1ac11fd7f7045cdc8,

title = "MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments",

abstract = "Reports on phase separation and amyloid formation for multiple proteins and aggregation-prone peptides are recurrently used to explore the molecular mechanisms associated with several human diseases. The information conveyed by these reports can be used directly in translational investigation, e.g., for the design of better drug screening strategies, or be compiled in databases for benchmarking novel aggregation-predicting algorithms. Given that minute protocol variations determine different outcomes of protein aggregation assays, there is a strong urge for standardized descriptions of the different types of aggregates and the detailed methods used in their production. In an attempt to address this need, we assembled the Minimum Information Required for Reproducible Aggregation Experiments (MIRRAGGE) guidelines, considering first-principles and the established literature on protein self-assembly and aggregation. This consensus information aims to cover the major and subtle determinants of experimental reproducibility while avoiding excessive technical details that are of limited practical interest for non-specialized users. The MIRRAGGE table (template available in Supplementary Information) is useful as a guide for the design of new studies and as a checklist during submission of experimental reports for publication. Full disclosure of relevant information also enables other researchers to reproduce results correctly and facilitates systematic data deposition into curated databases.",

author = "Martins, {Pedro M} and Susanna Navarro and Alexandra Silva and Pinto, {Maria F} and Zsuzsa S{\'a}rk{\'a}ny and Francisco Figueiredo and Pereira, {Pedro Jos{\'e} Barbosa} and Francisca Pinheiro and Zuzana Bednarikova and Micha{\l} Burdukiewicz and Galzitskaya, {Oxana V} and Zuzana Gazova and Gomes, {Cl{\'a}udio M} and Annalisa Pastore and Serpell, {Louise C} and Rostislav Skrabana and Vytautas Smirnovas and Mantas Ziaunys and Otzen, {Daniel E} and Salvador Ventura and Sandra Macedo-Ribeiro",

note = "Copyright {\textcopyright} 2020 Martins, Navarro, Silva, Pinto, S{\'a}rk{\'a}ny, Figueiredo, Pereira, Pinheiro, Bednarikova, Burdukiewicz, Galzitskaya, Gazova, Gomes, Pastore, Serpell, Skrabana, Smirnovas, Ziaunys, Otzen, Ventura and Macedo-Ribeiro.",

year = "2020",

month = nov,

day = "27",

doi = "10.3389/fnmol.2020.582488",

language = "English",

volume = "13",

journal = "Frontiers in Molecular Neuroscience",

issn = "1662-5099",

publisher = "Frontiers Media SA",

}

Martins, PM, Navarro, S, Silva, A, Pinto, MF, Sárkány, Z, Figueiredo, F, Pereira, PJB, Pinheiro, F, Bednarikova, Z, Burdukiewicz, M, Galzitskaya, OV, Gazova, Z, Gomes, CM, Pastore, A, Serpell, LC, Skrabana, R, Smirnovas, V, Ziaunys, M, Otzen, DE, Ventura, S & Macedo-Ribeiro, S 2020, 'MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments', Frontiers in Molecular Neuroscience, vol. 13, 582488. https://doi.org/10.3389/fnmol.2020.582488

TY - JOUR

T1 - MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments

AU - Martins, Pedro M

AU - Navarro, Susanna

AU - Silva, Alexandra

AU - Pinto, Maria F

AU - Sárkány, Zsuzsa

AU - Figueiredo, Francisco

AU - Pereira, Pedro José Barbosa

AU - Pinheiro, Francisca

AU - Bednarikova, Zuzana

AU - Burdukiewicz, Michał

AU - Galzitskaya, Oxana V

AU - Gazova, Zuzana

AU - Gomes, Cláudio M

AU - Pastore, Annalisa

AU - Serpell, Louise C

AU - Skrabana, Rostislav

AU - Smirnovas, Vytautas

AU - Ziaunys, Mantas

AU - Otzen, Daniel E

AU - Ventura, Salvador

AU - Macedo-Ribeiro, Sandra

N1 - Copyright © 2020 Martins, Navarro, Silva, Pinto, Sárkány, Figueiredo, Pereira, Pinheiro, Bednarikova, Burdukiewicz, Galzitskaya, Gazova, Gomes, Pastore, Serpell, Skrabana, Smirnovas, Ziaunys, Otzen, Ventura and Macedo-Ribeiro.

PY - 2020/11/27

Y1 - 2020/11/27

N2 - Reports on phase separation and amyloid formation for multiple proteins and aggregation-prone peptides are recurrently used to explore the molecular mechanisms associated with several human diseases. The information conveyed by these reports can be used directly in translational investigation, e.g., for the design of better drug screening strategies, or be compiled in databases for benchmarking novel aggregation-predicting algorithms. Given that minute protocol variations determine different outcomes of protein aggregation assays, there is a strong urge for standardized descriptions of the different types of aggregates and the detailed methods used in their production. In an attempt to address this need, we assembled the Minimum Information Required for Reproducible Aggregation Experiments (MIRRAGGE) guidelines, considering first-principles and the established literature on protein self-assembly and aggregation. This consensus information aims to cover the major and subtle determinants of experimental reproducibility while avoiding excessive technical details that are of limited practical interest for non-specialized users. The MIRRAGGE table (template available in Supplementary Information) is useful as a guide for the design of new studies and as a checklist during submission of experimental reports for publication. Full disclosure of relevant information also enables other researchers to reproduce results correctly and facilitates systematic data deposition into curated databases.

AB - Reports on phase separation and amyloid formation for multiple proteins and aggregation-prone peptides are recurrently used to explore the molecular mechanisms associated with several human diseases. The information conveyed by these reports can be used directly in translational investigation, e.g., for the design of better drug screening strategies, or be compiled in databases for benchmarking novel aggregation-predicting algorithms. Given that minute protocol variations determine different outcomes of protein aggregation assays, there is a strong urge for standardized descriptions of the different types of aggregates and the detailed methods used in their production. In an attempt to address this need, we assembled the Minimum Information Required for Reproducible Aggregation Experiments (MIRRAGGE) guidelines, considering first-principles and the established literature on protein self-assembly and aggregation. This consensus information aims to cover the major and subtle determinants of experimental reproducibility while avoiding excessive technical details that are of limited practical interest for non-specialized users. The MIRRAGGE table (template available in Supplementary Information) is useful as a guide for the design of new studies and as a checklist during submission of experimental reports for publication. Full disclosure of relevant information also enables other researchers to reproduce results correctly and facilitates systematic data deposition into curated databases.

U2 - 10.3389/fnmol.2020.582488

DO - 10.3389/fnmol.2020.582488

M3 - Review

C2 - 33328883

SN - 1662-5099

VL - 13

JO - Frontiers in Molecular Neuroscience

JF - Frontiers in Molecular Neuroscience

M1 - 582488

ER -

MIRRAGGE - Minimum Information Required for Reproducible AGGregation Experiments

Abstract

Access to Document

Fingerprint

Cite this