Proteomics Unit

Introduction

Description

The IJC proteomic unit develop and apply advanced proteomic analysis that are used for different aspects of clinical and health sciences such as biomarker discovery, drug target identification and food technology.

The Proteomics unit of the Josep Carreras Leukemia Research Institute offers mass spectrometry services to the academic and the private sector.The proteomics unit belongs to the scientific and technical services (SCT) of our institution. The principal activity of the Scientific and Technical Services (SCT) is to support academic research despite the private for-profit organizations are also increasingly interested in accessing our services. Our unit is part of the Carlos III Health Institute (ISCIII) and the Proteomics Network platform (ProteoRed).

One of the main activities of the unit is to promote the incorporation of proteomics as a necessary tool for the development of clinical and basic projects in our institution.

One of the great challenges of biomedical research and precision medicine is the description of the mechanisms underlying pathological processes and, based on this, to define measurable biomarkers in a standardized way and new therapeutic targets, generally of a protein nature.

Proteomics Unit Human Team:

Our proteomic facility has a well-established experience in Proteomics and Peptidomics field, providing complementary content and insight for our strategic collaborators to develop more effective, time and cost-efficient healthcare solutions.

Our main work:

To offer innovative and high quality proteomic and peptidomic services in the following disciplines: descriptive proteomics, quantitative proteomics/identification of biomarkers, protein characterization and identification of post-translational modifications as well as the identification of biomolecular interactions.  In general, they allow the best therapeutic and human health solution. We aim to deliver innovative proteomic and peptidomic services that allow the best therapeutic and human health solution.

How do we support you?

  • To be a scientific and technological support unit, to high level research projects in the Proteomics field according to international standard procedures.

  • Scientific advice to the researcher, from the planning and experimental design of the project to the execution, processing of samples, interpretation of results and support in the presentation and writing of results for publication.

  • Dissemination and training of researchers on the methodology and applications of the techniques offered.

  • To contribute to the promotion of innovation in health technologies and the transfer of the knowledge generated to the NHS. Supporting genetic, epigenetic and pharmacogenetic diagnosis.

Technical equipment

BRUKER Equipment:

  • UltraFlex MALDI-TOF/TOF mass spectrometer

THERMO-FISHER Equipment:

  • Velos Orbitrap mass spectrometer

  • Fusion Lumos Orbitrap mass spectrometer

  • Orbitrap Elite mass spectrometer (recently acquired together with the IRB Institution).

  • Orbitrap Eclipse Mass Spectrometer

  • Chromatography System EvoSep One and  NanoAcquity de Waters.

  • Advion Triversa Nanomate

Proteomica benchwork

Services & Applications

Proteomic analysis is a very powerful approach to address relevant challenges in clinical and health research.

Biomarker Discovery from a wide-range of samples, that can improve precision medicine at different levels:  a) Diagnostic in early stages, b) Prognostic to predict disease progression and guiding treatment selection.

  • Developing drugs in the post-genomic era faces new challenges to enable faster regulatory approval and development of precision medicine.  IJC proteomic unit applies proteomic analytical standard procedures to get a broad biological context of targets and drug mechanisms based on analysis of total protein expression and post-translational modifications (e.g. phosphorylation).

  • Natural bioactive peptide discovery and validation. We combine artificial intelligence (AI) and peptidomics to discover bioactive peptides with excellent health benefits.

Our unit targets, predicts and unlocks novel Bioactive Peptides from natural sources. These deliver highly specific, efficient and life-changing health benefits.

 LC-MS/MS Proteomics Analyses

  • Protein identification from a single band

  • Protein identification and quantification of complex samples:

    • iTRAQ-based proteomics analysis

    • TMT-based proteomics analysis

    • SILAC-based proteomics analysis

    • Label-free quantification

    • Parallel-reaction monitoring (PRM)

  •  Protein-protein interaction networks: 

    • Co-immunoprecipitation (co-IP)

    • Protein interaction analysis with crosslinking

    • Pull-down assays

  •  Protein post-translational modification analysis:

    • Phosphorylation (phosphopeptide-enrichment & phosphorylation site identification)

    • Acetylation (acetyl-lysine antibody enrichment)

    • Methylation

    • ADP-ribosylation

 

* For other PTMs analyses, please consult the Proteomics Unit.

  • Natural bioactive peptide discovery and validation.

    •  Identification of bioactive peptides in protein hydrolysates

    • Extraction, separation, and identification of bioactive peptides in protein hydrolysates.

Bioinformatic Services for proteomics:

  • Functional annotation and enrichment analysis

  • Clustering analysis

  • Network analysis

  • Statistical analysis

  • Analysis of post-translational modifications

Biomarker identification and validation in different kinds of samples:

  • Cells

  • Fluids (saliva, serum, plasma, urine, interstitial fluids, etc.)

  • Tissues (muscle, brain, lung, kidney, heart, retina, etc.)

  • Feces

  • Exosomes

  • Secretome

  • Matrisome

Service request workflow and related sheets

Brief description or a scheme explaining the current workflow for service request

Related PDF sheets to the facility: service request sheet, sample delivery sheet…

Informatic Resources

  • The raw data analyses are performed with the MaxQuant, PEAKS and Proteome Discoverer software packages.

  • The statistical analyses are performed with R and Perseus softwares.

  • The systems biology analyses are performed with the help of R and Cytoscape.

Proteomics benchwork

Contact

Proteomic Unit at Josep Carreras Research Institute

IJC Building, Campus ICO-Germans Trias i Pujol

Ctra de Can Ruti, Camí de les Escoles s/n

08916 Barcelona, Spain

email: cdelatorre@carrerasresearch.org

http://www.carrerasresearch.org/

Telephone and call hours(+34) 93 557 28 00 (ex. Mon-Fri 08.30-17.30).

NamePosition
Carolina De La TorreCarolina de la TorreCore Facility Leader
Joan Josep BechJoan Josep BechPostdoctoral Investigator
Bernat CucurullBernat CucurullTechnician

Documents and prices

For detailed information about our fees, please fill out the IJC Proteomics Unit Service Request Form (before sending any samples) and send it to:

proteomicsunit@carrerasresearch.org.

Services

LC-MSMS proteomics Analyses

1. Protein identification from a single band


2. Protein identification and quantification of complex samples

- iTRAQ-based Proteomics Analysis
- TMT Based Proteomics Analysis
- SILAC-based Proteomics Analysis
- Label-free Quantification
- Parallel Reaction Monitoring (PRM)
- SRM & MRM 

3. Protein Post-translational Modification Analysis:
 
- iTRAQ-based Proteomics Analysis
- TMT Based Proteomics Analysis
- SILAC-based Proteomics Analysis
- Label-free Quantification
- Parallel Reaction Monitoring (PRM)
- SRM & MRM

4. Protein-Protein Interaction Networks: 
 
- Co-immunoprecipitation (co-IP)
- Crosslinking Protein Interaction Analysis
- Pull-Down Assay

5. Protein Post-translational Modification Analysis:
 
- Phosphorylation (phosphoenrichment & phosphorylation site identification)
- Acetylation (Acetyl-Lysine antibody enrichment)
- Methylation
- ADP-ribosylation
 

Bioinformatics Service for proteomics

1.     Functional annotation and enrichment analysis

2.     Clustering analysis

3.     Network analysis

4.     Statistical analysis

5.     Proteomic analysis of Post-translational Modifications

Proteomics Applications

Biomarkers identification and validation in different kinds of samples:

1. Cells.

2. Fluids (saliva, serum, plasma, urine, interstitial fluids, etc.)

3. Tissues (muscle, brain, lung, kidney, heart, retina, etc.)

4. Fecal.

5. Exosomes.

6. Secretome.

7. Matrisome.