Clostri

# Clostridioides difficile visualization

Visualization of the average spectra Matrix-Assisted Laser Desorption Ionization-Time Of Flight Mass Spectrometry (MALDI-TOF MS) of the Hypervirulent strains (PR 027, PR 176 and PR 181) versus non-Hypervirulent strains of Clostridioides difficile complex using MALDIquant [1], MALDIrppa [2] and plotly [3] R packages is available [3] R packages is available here.

For information concerning this visualization : A. godmer alexandre.godmer@aphp.fr

This work was performed for article (Article in submission) :

Contribution of MALDI-TOF mass spectrometry and Machine Learning including Deep Learning techniques for the detection of virulence factors of Clostridioides difficile strains

Alexandre Godmer^1,2#, Quentin Giai Gianetto^3,4#, Killian Le Neindre⁵, Valentine Latapy², Mathilda Bastide², Muriel Ehmig⁵, Valérie Lalande², Nicolas Veziris^1,2,8, Alexandra Aubry^1,7, Frédéric Barbut ^5,6</sup>^#, Catherine Eckert^1,2#

^# These authors contributed equally to the work

Corresponding author: Catherine Eckert - catherine.eckert@aphp.fr

¹ INSERM, U1135, Centre d’Immunologie et des Maladies Infectieuses, Sorbonne Université, Cimi-Paris, Paris, France

² AP-HP (Assistance Publique Hôpitaux de Paris), Département de Bactériologie, Groupe Hospitalier Universitaire, Sorbonne Université, Hôpital, Saint-Antoine, Paris, France

³ Institut Pasteur, Université Paris Cité, Bioinformatics and Biostatistics HUB, Paris, France

⁴ Institut Pasteur, Université Paris Cité, Proteomics Platform, Mass Spectrometry for Biology Unit, UAR CNRS 2024, Paris, France

⁵ AP-HP (Assistance Publique Hôpitaux de Paris), National Reference Laboratory for Clostridioides difficile, Paris, France

⁶ INSERM 1139, Université Paris Cité, Paris, France

⁷ AP-HP (Assistance Publique Hôpitaux de Paris), Hôpital Pitié Salpêtrière, Centre National de Référence des Mycobactéries et de la Résistance des Mycobactéries aux Antituberculeux, Paris, France

References

[1] Gibb S, Strimmer K. MALDIquant: a versatile R package for the analysis of mass spectrometry data. Bioinformatics. 2012 Sep 1;28(17):2270-1. doi : https://doi.org/10.1093/bioinformatics/bts447 . Epub 2012 Jul 12. PMID: 22796955.

[2] Javier Palarea-Albaladejo, Kevin Mclean, Frank Wright, David G E Smith, MALDIrppa: quality control and robust analysis for mass spectrometry data, Bioinformatics, Volume 34, Issue 3, 01 February 2018, Pages 522 - 523, doi : https://doi.org/10.1093/bioinformatics/btx628

[3] Sievert C (2020). Interactive Web-Based Data Visualization with R, plotly, and shiny. Chapman and Hall/CRC.# MABSc