Blog

How to train your modified peptide MS/MS spectrum predictor?

17/02/2022 - Journal Club

How to train your modified peptide MS/MS spectrum predictor?

by Zoltan and Mostafa

This month’s PROTrEIN journal club covers an article presenting a tool – pDeep2 – capable of predicting MS/MS spectra of modified peptides.1 pDeep2 is built using a machine learning technique that makes it possible to generate prediction even when there are only a few datasets available for training the model. But… What is this machine learning […]

Ion mobility meets Deep Learning.

31/01/2022 - Journal Club

Ion mobility meets Deep Learning.

by Pinar and Prajwal

Proteomics can be simply defined as the large-scale analysis of proteins – all the meaningful genome products – in a given sample [1,2]. Mass spectrometry (MS)-based proteomics is one of the most powerful approaches for identifying proteins from biological samples. Over years, there were many proteomics workflows generated by scientists in this field. The development […]

Proteins form functional networks, and so do people – the first PROTrEIN summer school

16/12/2021 - News

Proteins form functional networks, and so do people – the first PROTrEIN summer school

by Marc Pauper and Mostafa Kalhor

The first PROTrEIN annual meeting and summer school took place between the 10th and 23rd of September 2021. Here our ESRs Marc and Mostafa share their thoughts and memories about it.

How to choose a proper combination of search engines to maximize Peptide and Protein Identification?

14/12/2021 - Journal Club

How to choose a proper combination of search engines to maximize Peptide and Protein Identification?

by Zahra and Arslan

In this Journal Club, our ESRs Zahra and Arslan present the article «Optimization of Search Engines and Postprocessing Approaches to Maximize Peptide and Protein Identification for High-Resolution Mass Data» by C. Tu et al. from Sep 2015

How can proteomics data become more reproducible?

14/10/2021 - Journal Club

How can proteomics data become more reproducible?

by Louise and Shamil

In this Journal Club, our ESRs Louise and Shamil present the article «Strategies to enable large-scale proteomics for reproducible research» by R. Poulos et al. from July 2020

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