1: Shao W, Pedrioli PGA, Wolski W, Scurtescu C, Schmid E, Vizcaíno JA,
Courcelles M, Schuster H, Kowalewski D, Marino F, Arlehamn CSL, Vaughan K,
Peters B, Sette A, Ottenhoff THM, Meijgaarden KE, Nieuwenhuizen N, Kaufmann SHE,
Schlapbach R, Castle JC, Nesvizhskii AI, Nielsen M, Deutsch EW, Campbell DS,
Moritz RL, Zubarev RA, Ytterberg AJ, Purcell AW, Marcilla M, Paradela A, Wang Q,
Costello CE, Ternette N, van Veelen PA, van Els CACM, Heck AJR, de Souza GA,
Sollid LM, Admon A, Stevanovic S, Rammensee HG, Thibault P, Perreault C,
Bassani-Sternberg M, Aebersold R, Caron E. The SysteMHC Atlas project. Nucleic
Acids Res. 2018 Jan 4;46(D1):D1237-D1247. doi: 10.1093/nar/gkx664. PMID:
28985418; PMCID: PMC5753376.

2: Mommen GP, Marino F, Meiring HD, Poelen MC, van Gaans-van den Brink JA,
Mohammed S, Heck AJ, van Els CA. Sampling From the Proteome to the Human
Leukocyte Antigen-DR (HLA-DR) Ligandome Proceeds Via High Specificity. Mol Cell
Proteomics. 2016 Apr;15(4):1412-23. doi: 10.1074/mcp.M115.055780. Epub 2016 Jan
13. PMID: 26764012; PMCID: PMC4824864.

3: Lill JR, van Veelen PA, Tenzer S, Admon A, Caron E, Elias JE, Heck AJR,
Marcilla M, Marino F, Müller M, Peters B, Purcell A, Sette A, Sturm T, Ternette
N, Vizcaíno JA, Bassani-Sternberg M. Minimal Information About an Immuno-
Peptidomics Experiment (MIAIPE). Proteomics. 2018 Jun;18(12):e1800110. doi:
10.1002/pmic.201800110. PMID: 29791771; PMCID: PMC6033177.

4: Marino F, Chong C, Michaux J, Bassani-Sternberg M. High-Throughput, Fast, and
Sensitive Immunopeptidomics Sample Processing for Mass Spectrometry. Methods Mol
Biol. 2019;1913:67-79. doi: 10.1007/978-1-4939-8979-9_5. PMID: 30666599.

5: Marino F, Bern M, Mommen GPM, Leney AC, van Gaans-van den Brink JAM, Bonvin
AMJJ, Becker C, van Els CACM, Heck AJR. Extended O-GlcNAc on HLA Class-I-Bound
Peptides. J Am Chem Soc. 2015 Sep 2;137(34):10922-10925. doi:
10.1021/jacs.5b06586. Epub 2015 Aug 19. PMID: 26280087; PMCID: PMC4603548.

6: Marino F, Mommen GP, Jeko A, Meiring HD, van Gaans-van den Brink JA,
Scheltema RA, van Els CA, Heck AJ. Arginine (Di)methylated Human Leukocyte
Antigen Class I Peptides Are Favorably Presented by HLA-B*07. J Proteome Res.
2017 Jan 6;16(1):34-44. doi: 10.1021/acs.jproteome.6b00528. Epub 2016 Aug 25.
PMID: 27503676.

7: Binai NA, Marino F, Soendergaard P, Bache N, Mohammed S, Heck AJ. Rapid
analyses of proteomes and interactomes using an integrated solid-phase
extraction-liquid chromatography-MS/MS system. J Proteome Res. 2015 Feb
6;14(2):977-85. doi: 10.1021/pr501011z. Epub 2014 Dec 8. PMID: 25485597.

8: Hennrich ML, Marino F, Groenewold V, Kops GJ, Mohammed S, Heck AJ. Universal
quantitative kinase assay based on diagonal SCX chromatography and stable
isotope dimethyl labeling provides high-definition kinase consensus motifs for
PKA and human Mps1. J Proteome Res. 2013 May 3;12(5):2214-24. doi:
10.1021/pr400074f. Epub 2013 Apr 3. PMID: 23510141.

9: Marino F, Cristobal A, Binai NA, Bache N, Heck AJ, Mohammed S.
Characterization and usage of the EASY-spray technology as part of an online 2D
SCX-RP ultra-high pressure system. Analyst. 2014 Dec 21;139(24):6520-8. doi:
10.1039/c4an01568a. PMID: 25346955.

10: Fort KL, Dyachenko A, Potel CM, Corradini E, Marino F, Barendregt A, Makarov
AA, Scheltema RA, Heck AJ. Implementation of Ultraviolet Photodissociation on a
Benchtop Q Exactive Mass Spectrometer and Its Application to Phosphoproteomics.
Anal Chem. 2016 Feb 16;88(4):2303-10. doi: 10.1021/acs.analchem.5b04162. Epub
2016 Jan 29. PMID: 26760441.

11: Liepe J, Marino F, Sidney J, Jeko A, Bunting DE, Sette A, Kloetzel PM,
Stumpf MP, Heck AJ, Mishto M. A large fraction of HLA class I ligands are
proteasome-generated spliced peptides. Science. 2016 Oct 21;354(6310):354-358.
doi: 10.1126/science.aaf4384. Epub 2016 Oct 20. PMID: 27846572.

12: Alpízar A, Marino F, Ramos-Fernández A, Lombardía M, Jeko A, Pazos F,
Paradela A, Santiago C, Heck AJ, Marcilla M. A Molecular Basis for the
Presentation of Phosphorylated Peptides by HLA-B Antigens. Mol Cell Proteomics.
2017 Feb;16(2):181-193. doi: 10.1074/mcp.M116.063800. Epub 2016 Dec 5. PMID:
27920218; PMCID: PMC5294207.

13: Kooijman S, Brummelman J, van Els CACM, Marino F, Heck AJR, Mommen GPM, Metz
B, Kersten GFA, Pennings JLA, Meiring HD. Novel identified aluminum hydroxide-
induced pathways prove monocyte activation and pro-inflammatory preparedness. J
Proteomics. 2018 Mar 20;175:144-155. doi: 10.1016/j.jprot.2017.12.021. Epub 2018
Jan 6. PMID: 29317357.

14: Marino F, Semilietof A, Michaux J, Pak HS, Coukos G, Müller M, Bassani-
Sternberg M. Biogenesis of HLA Ligand Presentation in Immune Cells Upon
Activation Reveals Changes in Peptide Length Preference. Front Immunol. 2020 Aug
28;11:1981. doi: 10.3389/fimmu.2020.01981. PMID: 32983136; PMCID: PMC7485268.

15: Cristobal A, Marino F, Post H, van den Toorn HW, Mohammed S, Heck AJ. Toward
an Optimized Workflow for Middle-Down Proteomics. Anal Chem. 2017 Mar
21;89(6):3318-3325. doi: 10.1021/acs.analchem.6b03756. Epub 2017 Mar 10. PMID:
28233997; PMCID: PMC5362747.

16: Kooijman S, Brummelman J, van Els CACM, Marino F, Heck AJR, van Riet E, Metz
B, Kersten GFA, Pennings JLA, Meiring HD. Vaccine antigens modulate the innate
response of monocytes to Al(OH)3. PLoS One. 2018 May 29;13(5):e0197885. doi:
10.1371/journal.pone.0197885. PMID: 29813132; PMCID: PMC5973561.

17: van de Waterbeemd M, Lössl P, Gautier V, Marino F, Yamashita M, Conti E,
Scholten A, Heck AJ. Simultaneous assessment of kinetic, site-specific, and
structural aspects of enzymatic protein phosphorylation. Angew Chem Int Ed Engl.
2014 Sep 1;53(36):9660-4. doi: 10.1002/anie.201404637. Epub 2014 Jul 9. PMID:
25044833.

18: Chong C, Marino F, Pak H, Racle J, Daniel RT, Müller M, Gfeller D, Coukos G,
Bassani-Sternberg M. High-throughput and Sensitive Immunopeptidomics Platform
Reveals Profound Interferonγ-Mediated Remodeling of the Human Leukocyte Antigen
(HLA) Ligandome. Mol Cell Proteomics. 2018 Mar;17(3):533-548. doi:
10.1074/mcp.TIR117.000383. Epub 2017 Dec 14. PMID: 29242379; PMCID: PMC5836376.

19: Graciotti M, Marino F, Pak H, Baumgaertner P, Thierry AC, Chiffelle J, Perez
MAS, Zoete V, Harari A, Bassani-Sternberg M, Kandalaft LE. Deciphering the
Mechanisms of Improved Immunogenicity of Hypochlorous Acid-Treated Antigens in
Anti-Cancer Dendritic Cell-Based Vaccines. Vaccines (Basel). 2020 Jun
2;8(2):271. doi: 10.3390/vaccines8020271. PMID: 32498431; PMCID: PMC7349990.

20: Marino F. Gaining Insight Into Posttranslationally Modified HIV Antigens and
Their Underlying Characteristics. Proteomics. 2018 Jun;18(12):e1800041. doi:
10.1002/pmic.201800041. Epub 2018 Apr 14. PMID: 29513933.

21: Turiák L, Ozohanics O, Marino F, Drahos L, Vékey K. Digestion protocol for
small protein amounts for nano-HPLC-MS(MS) analysis. J Proteomics. 2011 Jun
10;74(7):942-7. doi: 10.1016/j.jprot.2011.01.007. Epub 2011 Jan 21. PMID:
21256993.

22: Kessler, A. L., Fort, K. L., Resemann, H. C., Krüger, P., Wang, C., Koch, H., Hauschild, J.-P., Marino, F. & Heck, A. J. R. Increased EThcD Efficiency on the Hybrid Orbitrap Excedion Pro Mass Analyzer Extends the Depth in Identification and Sequence Coverage of HLA Class I Immunopeptidomes. Sept 2025, In: Molecular and Cellular Proteomics. 24, 9, 101049.

23: Schmidlin, T., Behiry, E., Thomas, H., Dolton, G., Marino, F., Hasan, S., von Essen, M., Gathungu, R. M., Steigenberger, B. A., Selvadurai, H., Dukes, J., Brennan, P. E., Spiller, O. B., Silk, J. D., Sewell, A. K. & Ternette, N., MR1-ligand cross-linking identifies vitamin B6 metabolites as TCR-reactive antigens. 18 Aug 2025, In: Cell Reports Methods. 5, 8, 11 p., 101120.

Fabio Marino is also co-inventor in more than 10 patents of novel potential targets for immunotherapy applications.