Proteomics facility



Fernando Corrales

Head of service




The Functional Proteomics laboratory of the CNB provides resources to identify, characterise and quantify proteins, either purified or as complex mixtures from any biological system.

Unsupervised protein quantification by label free or isobaric labeling, targeted quantification, analysis of HLA peptide repertoires, posttranslational modification analysis and structural proteomics are some of the main routine workflows already set up in the lab. Moreover, there is a continuous update of our technological portfolio to maintain competitivity in a highly dynamic field such as proteomics. During the 2019-2020 term Data Independent MS Analysis, processing of challenging samples with high SDS concentrations and S-TRAP columns and functional interpretation of data were implemented. In the 2019-2020 period, we have performed 4138 proteomic analyses for 404 users, that included sample prep, nLC-MS/MS analysis and data processing with a preliminary functional interpretation.

In regard of COVID-19 pandemic, we have synthetized and purified more than 100 peptides for projects dedicated to study the immunogenic properties of SARS-CoV-2. Besides, we have consolidated a mass spectrometry-based platform for testing the quality of recombinant proteins produced for biotech, research or clinical applications (more than 70 products characterized to date).

The platform has been significantly upgraded in 2020 with a new lab and three new state-of-the art instruments, two Thermo Orbitrap Exploris 240 and one Orbitrap Eclipse Trybrid, equipped with FAIMS ion mobility modules, three nano HPLC, two Ultimate 3000, and one Vanquish Neo. We also have an Opentrons T2 and a an Accelerome (Thermo) platform for automatic sample preparation. Finally, the laboratory has licenses for data processing software: Mascot 2.8, Proteome Discoverer 3.1 and Peaks 11, in addition to other open-source resources.


  • Protein identification and characterization by, ESI-MS/MS and ESI ion trap mass spectrometry
  • Protein quantitation by label-free, metabolic and chemical stable isotopic labeling (SILAC, iTRAQ, TMT).
  • Targeted protein quantification by selected/multiple reaction monitoring (S/MRM-MS)
  • Identification and characterization of post-translational modifications
  • Peptide synthesis and membrane-bound peptide array design
  • Gluten analysis by ELISA, PCR and mass spectrometry


Proteomics figure1


Fees and others

2024 proteomica web 

Fernado J. Corrales Head of service
Alberto Paradela Technical manager
Lorena Carmona Postdoctoral Scientist
Sergio Ciordia Personnel
Patricia Gómez Personnel
Laura Guerrero PhD student
Manuel Lombardía Personnel
Miguel Marcilla Personnel
Rosana Navajas PhD Student
Fátima Santos Personnel
Antonio Ramos PhD Student

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