Publications and communications of Dominique Baiwir

Veiga, R.* , De Vuyst, L.* , Poulet, C.* , Neumann, J., Bücken, L., Prezzemolo, T., Willemsen, M., Vanderschueren, S., Matthys, P., Chabaane, E., Fleron, M., Cobraiville, G., Baiwir, D., Mazzucchelli, G., Immunome Project Consortium for Autoinflammatory Disorders (ImmunAID), Fautrel, B., Wouters, C., de Seny, D.* , Humblet-Baron, S.* , & Liston, A.*. (2026). Adult patients with autoinflammation of unknown origin partially phenocopy the immune presentation of Still's disease. Nature Communications. doi:10.1038/s41467-026-70895-1

Puttemans, J.* , Brammerloo, Y.* , Blibek, K., Blavier, J., Ntombela, T., Van Molle, I., Joseph, J., Olivet, J., Saha, D., Degey, M., Hamaïdia, M., Jain, P., Geraldine, P., Zimmermann, P., Kim, D.-K., Baiwir, D., Njock, M.-S., Dequiedt, F., Salehi-Ashtiani, K., ... Maseko, S. B.*. (August 2025). Inhibitors of Tax1-PDZ Interactions Block HTLV-1 Viral Transmission by Changing EV Composition. Journal of Extracellular Vesicles, 14 (8), 70137. doi:10.1002/jev2.70137

Adam, P., Salée, C., Quesada Calvo, F., Lavergne, A., Merli, A.-M., Massot, C., Bletard, N., Somja, J., Baiwir, D., Mazzucchelli, G., COIMBRA MARQUES, C., Delvenne, P., Louis, E., & Meuwis, M.-A. (31 July 2025). S100A14 as a Potential Biomarker of the Colorectal Serrated Neoplasia Pathway. International Journal of Molecular Sciences, 26 (15), 7401. doi:10.3390/ijms26157401

Baiwir, D., Kune, C., Fleron, M., Eppe, G., & Mazzucchelli, G. (18 June 2025). Trap-Refocusing-Elute nano liquid chromatography: how to take advantage of both direct injection and trap-elute mode? [Poster presentation]. EuPA 2025, Saint-Malo, France.

Berkal, M. A., Burat, B., Fleron, M., Baiwir, D., Sophie Gohy, Eppe, G., & Mazzucchelli, G. (17 June 2025). Sweat Proteomics: A Noninvasive Approach for Biomarker Discovery with Optimized and Fully Automated Sample Preparation [Poster presentation]. European Proteomics Association (EuPA), Palais du Grand Large, Saint-Malo, France, France.

Kune, C., Gholizadeh, A., Tielens, S., Fleron, M., Baiwir, D., Vandormael, D., Nguyen, L., Eppe, G., Gilet, T., & Mazzucchelli, G. (17 June 2025). Boosting Proteomics at Single-Cell Level: Enhancing Peptide Recovery, Automation, Chromatographic Robustness and Performance [Paper presentation]. European Proteomics Association (EuPA) 2025, Saint Malo, France.

Kune, C., Tielens, S., Fleron, M., Baiwir, D., Berkal, M. A., Nguyen Laurent, Eppe, G., & Mazzucchelli, G. (17 June 2025). Smarter Libraries for Faster DIA: A Sequential Digestion Strategy to Enhance Proteome Coverage in DDA-based Spectral Libraries [Poster presentation]. European Proteomics Association (EuPA), Saint-Malo, France.

Kune, C., Tielens, S., Baiwir, D., Fleron, M., Vandormael, D., Eppe, G., Nguyen, L., & Mazzucchelli, G. (25 February 2025). SIGNIFICANT IMPACT OF CONSUMABLE MATERIAL AND BUFFER COMPOSITION FOR LOW-CELL NUMBER PROTEOMIC SAMPLE PREPARATION. Analytical Chemistry, 97 (7), 3836 - 3845. doi:10.1021/acs.analchem.4c03709

Hodeige, M., Kune, C., Bertrand, V., Fleron, M., Baiwir, D., Sounni, N. E., Eppe, G., Gatto, L., & Mazzucchelli, G. (24 January 2025). Linking spatial to functional proteomics on heterogeneous samples: The “pixel-by-pixel” shotgun proteomic approach [Poster presentation]. Molsys day, Liège, Belgium.

Pottier, C., Montero-Ruiz, L., Jehay, R., Wery, C., Baiwir, D., Mazzucchelli, G., Bekisz, S., Thissen, R., Josse, C., Rorive, A., Gofflot, S., Dahmani, A., Morisset, L., Collignon, J., Delvenne, P., Marangoni, E., Noël, A., Jerusalem, G., & Sounni, N. E. (2025). Targeting ferroptosis resistance resensitizes metastatic HR+HER2- breast cancer cells to palbociclib-hormone therapy. Cancer Communications. doi:10.1002/cac2.12646

Burat, B., Berkal, M. A., Kune, C., Fleron, M., Baiwir, D., Sophie Gohy, Eppe, G., & Mazzucchelli, G. (06 December 2024). Comprehensive Sweat Proteome Characterization and Identification of Cystic Fibrosis Biomarkers: Optimizing Sample Preparation for a new MS-Based Proteomic Approach [Paper presentation]. Belgian Proteomics Association Conference (BePAc 2024), Ghent, Belgium.

Hodeige, M., Kune, C., Fleron, M., Baiwir, D., Sounni, N. E., Eppe, G., Gatto, L., & Mazzucchelli, G. (05 December 2024). Linking spatial to functional proteomics on heterogeneous samples: The “pixel-by-pixel” shotgun proteomic approach [Paper presentation]. Belgian Proteomics Association Conference, Gent, Belgium.

Pierre, N., Huynh-Thu, V. A., Baiwir, D., Mazzucchelli, G., Fleron, M., Trzpiot, L., Eppe, G., De Pauw, E., Laharie, D., Satsangi, J., Bossuyt, P., Vuitton, L., Vieujean, S., Colombel, J.-F., Meuwis, M.-A., Louis, E., & GETAID and the SPARE-Biocycle research group. (2024). External validation of serum biomarkers predicting short-term and mid/long-term relapse in patients with Crohn's disease stopping infliximab. Gut, 2024-332648. doi:10.1136/gutjnl-2024-332648

Pierre, N., Huynh-Thu, V. A., Baiwir, D., VIEUJEAN, S., Bequet, E., Reenaers, C., Van Kemseke, C., Salée, C., Massot, C., Fleron, M., Mazzucchelli, G., Trzpiot, L., Eppe, G., De Pauw, E., Louis, E., & Meuwis, M.-A. (2024). Serum proteome signatures associated with ileal and colonic ulcers in Crohn's disease. Journal of Proteomics, 105199. doi:10.1016/j.jprot.2024.105199

Capin, J.* , Harrison, A.* , Raele, R. A., Yadav, S. K. N., Baiwir, D., Mazzucchelli, G., Quinton, L., Satchwell, T. J., Toye, A. M., Schaffitzel, C., Berger, I.* , & Aulicino, F.*. (2024). An engineered baculoviral protein and DNA co-delivery system for CRISPR-based mammalian genome editing. Nucleic Acids Research. doi:10.1093/nar/gkae142

Gobbi Amorim, F., Redureau, D., Crasset, T., Freuville, L., Baiwir, D., Mazzucchelli, G., Menzies, S. K., Casewell, N. R., & Quinton, L. (25 May 2023). Next-Generation Sequencing for Venomics: Application of Multi-Enzymatic Limited Digestion for Inventorying the Snake Venom Arsenal. Toxins, 15 (6), 357. doi:10.3390/toxins15060357

Martinet, L., Naômé, A., Rezende, L. C. D., Tellatin, D., Pignon, B., Docquier, J.-D., Sannio, F., Baiwir, D., Mazzucchelli, G., Frederich, M., & Rigali, S. (06 January 2023). Lunaemycins, New Cyclic Hexapeptide Antibiotics from the Cave Moonmilk-Dweller Streptomyces lunaelactis MM109T. International Journal of Molecular Sciences, 24 (2), 1114. doi:10.3390/ijms24021114

Schneiders, A., Baiwir, D., Scholl, G., Pirard, C., Charlier, C., Valsecchi, & Eppe, G. (2023). Analytical strategies to confirm the presence of emerging PFASs in blood samples without analytical standards [Paper presentation]. 43th International Symposium on Halogenated Persistent Organic Pollutants, Maastricht, Netherlands.

Burat, B., Reynaerts, A., Baiwir, D., Fleron, M., Gohy, S., Eppe, G., Leal, T.* , & Mazzucchelli, G.*. (31 July 2022). Sweat Proteomics in Cystic Fibrosis: Discovering Companion Biomarkers for Precision Medicine and Therapeutic Development. Cells, 11 (15), 2358. doi:10.3390/cells11152358

Martinet, L., Baiwir, D., Mazzucchelli, G., & Rigali, S. (26 May 2022). Structure of New Ferroverdins Recruiting Unconventional Ferrous Iron Chelating Agents. Biomolecules, 12 (6), 752. doi:10.3390/biom12060752

Lebeau, A.* , Bruyère, D.* , RONCARATI, P., Peixoto, P., Hervouet, E., COBRAIVILLE, G., Taminiau, B., Masson, M., Gallego, C., Mazzucchelli, G., Smargiasso, N., Fleron, M., Baiwir, D., Hendrick, E., Pilard, C., Lerho, T., Reynders, C., Ancion, M., GREIMERS, R., ... Herfs, M. (28 February 2022). HPV infection alters vaginal microbiome through down-regulating host mucosal innate peptides used by Lactobacilli as amino acid sources. Nature Communications, 13 (1), 1076. doi:10.1038/s41467-022-28724-8

DE SENY, D., Baiwir, D., BIANCHI, E., COBRAIVILLE, G., DEROYER, C., Poulet, C., MALAISE, O., PAULISSEN, G., KAISER, M.-J., Hauzer, J.-P., Mazzucchelli, G., DELVENNE, P., & MALAISE, M. (2022). New Proteins Contributing to Immune Cell Infiltration and Pannus Formation of Synovial Membrane from Arthritis Diseases. International Journal of Molecular Sciences, 23 (1), 434. doi:10.3390/ijms23010434

Burat, B.* , Reynaerts, A.* , Baiwir, D., Fleron, M., Eppe, G., Leal, T.* , & Mazzucchelli, G.*. (08 October 2021). Characterization of the Human Eccrine Sweat Proteome—A Focus on the Biological Variability of Individual Sweat Protein Profiles. International Journal of Molecular Sciences, 22 (19). doi:10.3390/ijms221910871

Serteyn, L., Lourme, O., Iannello, L., Baiwir, D., Mazzucchelli, G., Ongena, M., & Francis, F. (06 June 2021). Up-Regulated Salivary Proteins of Brown Marmorated Stink Bug Halyomorpha halys on Plant Growth-Promoting Rhizobacteria-Treated Plants. Journal of Chemical Ecology, 2021 (47), 747-754. doi:10.1007/s10886-021-01293-8

Leduc, C., Dupont, L., Joannes, L., Monseur, C., Baiwir, D., Mazzucchelli, G., Deroanne, C., Colige, A.* , & Bekhouche, M.*. (2021). In vivo N-Terminomics Highlights Novel Functions of ADAMTS2 and ADAMTS14 in Skin Collagen Matrix Building. Frontiers in Molecular Biosciences. doi:10.3389/fmolb.2021.643178

Pierre, N., Baiwir, D., Huynh-Thu, V. A., Mazzucchelli, G., Smargiasso, N., De Pauw, E., Bouhnik, Y., Laharie, D., Colombel, J.-F., Meuwis, M.-A., & Louis, E. (2021). Discovery of biomarker candidates associated with the risk of short-term and mid/long-term relapse after infliximab withdrawal in Crohn's patients: a proteomics-based study. Gut. doi:10.1136/gutjnl-2020-322100

Rapino, F.* , ZHOU, Z.* , RONCERO SANCHEZ, A. M.* , Joiret, M., Seca, C., El Hachem, N., Valenti, G., Latini, S., Shostak, K., Geris, L., Li, P., Huang, G., Mazzucchelli, G., Baiwir, D., Desmet, C., Chariot, A., Georges, M., & Close, P. (2021). Wobble tRNA modification and hydrophilic amino acid patterns dictate protein fate. Nature Communications, 12 (1), 2170. doi:10.1038/s41467-021-22254-5

Ciregia, F., Baiwir, D., COBRAIVILLE, G., DEWAEL, T., Mazzucchelli, G., Badot, V., Di Romana, S., Sidiras, P., Sokolova, T., Durez, P., Malaise, M., & de Seny, D. (2020). Glycosylation deficiency of lipopolysaccharide-binding protein and corticosteroid-binding globulin associated with activity and response to treatment for rheumatoid arthritis. Journal of Translational Medicine, 18 (1). doi:10.1186/s12967-019-02188-9

de Seny, D., Bianchi, E., Baiwir, D., COBRAIVILLE, G., Collin, C., Deliège, M., Kaiser, M.-J., Mazzucchelli, G., Hauzeur, J.-P., Delvenne, P., & Malaise, M. (2020). Proteins involved in the endoplasmic reticulum stress are modulated in synovitis of osteoarthritis, chronic pyrophosphate arthropathy and rheumatoid arthritis, and correlate with the histological inflammatory score. Scientific Reports, 10 (1). doi:10.1038/s41598-020-70803-7

Martinet, L., Naômé, A., Baiwir, D., De Pauw, E., Mazzucchelli, G., & Rigali, S. (2020). On the Risks of Phylogeny-Based Strain Prioritization for Drug Discovery: Streptomyces lunaelactis as a Case Study. Biomolecules, 10 (7). doi:10.3390/biom10071027

Dewez, F., Martin-Lorenzo, M., Herfs, M., Baiwir, D., Mazzucchelli, G., De Pauw, E., Heeren, R. M. A., & Balluff, B. (14 June 2019). Precise co-registration of mass spectrometry imaging, histology, and laser microdissection-based omics. Analytical and Bioanalytical Chemistry, 411, 5647-5653. doi:10.1007/s00216-019-01983-z

Baumans, F., Baiwir, D., Colombo, M., Allain, C., Tavernier, V., Leroy, B., Wattiez, R., De Pauw, E., Eppe, G., & Mazzucchelli, G. (April 2019). New methodology to monitor the oxidation of MET due to LC separation [Poster presentation]. 4th NVMS-BSMS Conference on Mass spectrometry, Kerkrade, Netherlands.

Arsova, B., Amini, S., Scheepers, M., Baiwir, D., Mazzucchelli, G., Carnol, M., Bosman, B., Motte, P., De Pauw, E., Watt, M., & Hanikenne, M. (2019). Resolution of the proteome, transcript and ionome dynamics upon Zn re-supply in Zn-deficient Arabidopsis. ORBi-University of Liège. https://orbi.uliege.be/handle/2268/256956. doi:10.1101/600569

Pierre, N., Salee, C., MASSOT, C., BLETARD, N., Mazzucchelli, G., Smargiasso, N., Morsa, D., Baiwir, D., De Pauw, E., REENAERS, C., VAN KEMSEKE, C., LOLY, J.-P., Delvenne, P., Meuwis, M.-A., & Louis, E. (2019). Proteomics highlights common and distinct pathophysiological processes associated with ileal and colonic ulcers in Crohn's disease. Journal of Crohn's and Colitis. doi:10.1093/ecco-jcc/jjz130

Baumans, F., Baiwir, D. (Other coll.), Allain, C. (Other coll.), Eppe, G. (Other coll.), Tavernier, V. (Other coll.), Leroy, B. (Other coll.), Colombo, M. (Other coll.), De Pauw, E. (Other coll.), Wattiez, R. (Other coll.), & Mazzucchelli, G. (Other coll.). (December 2018). KIT QUANTA - standardization kit for absolute protein quantitation: study of the digestion kinetic of the chimeric protein standard [Poster presentation]. Workshop and Symposium of the Belgian Proteomics Association (BePAc).

Merli, A.-M., MASSOT, C., BLETARD, N., QUESADA-CALVO, F., Baiwir, D., Mazzucchelli, G., Smargiasso, N., Servais, L., Oury, C., De Pauw-Gillet, M.-C., De Pauw, E., COIMBRA MARQUES, C., Colard, A., Vijverman, A., DELVENNE, P., MEUWIS, M.-A., & LOUIS, E. (February 2018). Potential diagnostic biomarkers of Ulcerative colitis-associated colorectal dysplasia [Paper presentation]. 13th congress of European Crohn's and Colitis Organisation, Vienne, Austria.

Pierre, N., REENAERS, C., VAN KEMSEKE, C., LOLY, J.-P., Mazzucchelli, G., Smargiasso, N., Baiwir, D., Morsa, D., De Pauw, E., MEUWIS, M.-A., & Louis, E. (2018). Proteomic analysis highlights divergences and convergences between ileal and colonic pathological processes involved in Crohn’s ulcers. Journal of Crohn's and Colitis. doi:10.1093/ecco-jcc/jjx180.184

Merli, A.-M., MASSOT, C., BLETARD, N., QUESADA-CALVO, F., Baiwir, D., Mazzucchelli, G., Smargiasso, N., Servais, L., Oury, C., De Pauw-Gillet, M.-C., De Pauw, E., COIMBRA MARQUES, C., Colard, A., Vijverman, A., DELVENNE, P., MEUWIS, M.-A., & LOUIS, E. (27 January 2018). Potential diagnostic biomarkers of Ulcerative Colitis-associated colorectal dysplasia [Poster presentation]. Belgian Association for Cancer Research Annual Meeting 2018, Liège, Belgium.

Amorim, F., Costa, R., Baiwir, D., De Pauw, E., Quinton, L., & Sampaio, S. (2018). Proteopeptidomic, Functional and Immunoreactivity Characterization of Bothrops moojeni Snake Venom: Influence of Snake Gender on Venom Composition. Toxins, 10(5) (177). doi:10.3390/toxins10050177

Costanza, B., Turtoi, A., Bellahcene, A., Hirano, T., Peulen, O., Blomme, A., Hennequiere, J., MUTIJIMA NZARAMBA, E., Boniver, J., Meuwis, M.-A., JOSSE, C., KOOPMANSCH, B., SEGERS, K., Yokobori, T., Fahmy, K., Thiry, M., COIMBRA MARQUES, C., Garbacki, N., Colige, A., ... Castronovo, V. (2018). Innovative methodology for the identification of soluble biomarkers in fresh tissues. Oncotarget, 9 (12), 10665-10680. doi:10.18632/oncotarget.24366

Longuespée, R., Alberts, D., Baiwir, D., Mazzucchelli, G., Smargiasso, N., & De Pauw, E. (2018). MALDI Imaging Combined with Laser Microdissection-Based Microproteomics for Protein Identification: Application to Intratumor Heterogeneity Studies. Methods in Molecular Biology, 1788, 297-312. doi:10.1007/7651_2017_114

Merli, A.-M., MASSOT, C., BLETARD, N., QUESADA-CALVO, F., Baiwir, D., Mazzucchelli, G., Smargiasso, N., Servais, L., Oury, C., De Pauw-Gillet, M.-C., De Pauw, E., COIMBRA MARQUES, C., Colard, A., Vijverman, A., DELVENNE, P., MEUWIS, M.-A., & LOUIS, E. (2018). Potential diagnostic biomarkers of Ulcerative colitis-associated colorectal dysplasia. Acta Gastro-Enterologica Belgica.

Arsova, B., Amini, S., Scheepers, M., Baiwir, D., Mazzucchelli, G., Carnol, M., Bosman, B., De Pauw, E., Watt, M., & Hanikenne, M. (August 2017). Elucidation of early Zinc sensing and signaling events in Arabidopsis, upon Zinc starvation and re-supply [Poster presentation]. International Plant Nutrition Colloquium.

QUESADA-CALVO, F., MASSOT, C., Bertrand, V., Longuespée, R., BLETARD, N., SOMJA, J., Mazzucchelli, G., Smargiasso, N., Baiwir, D., De Pauw-Gillet, M.-C., Delvenne, P., MALAISE, M., COIMBRA MARQUES, C., POLUS, M., De Pauw, E., MEUWIS, M.-A., & Louis, E. (24 March 2017). OLFM4, KNG1 and Sec24C identified by proteomics and immunohistochemistry as potential markers of early colorectal cancer stages. Clinical Proteomics, 24 (9). doi:10.1186/s12014-017-9143-3

Blomme, A., Fahmy, K., Peulen, O., Costanza, B., Fontaine, M., Struman, I., Baiwir, D., De Pauw, E., Thiry, M., Bellahcene, A., Castronovo, V.* , & Turtoi, A.*. (2016). Myoferlin is a novel exosomal protein and functional regulator of cancer-derived exosomes. Oncotarget. doi:10.18632/oncotarget.13276

Nokin, M.-J., Durieux, F., Peixoto, P., Chiavarina, B., Peulen, O., Blomme, A., Turtoi, A., Costanza, B., Smargiasso, N., Baiwir, D., Scheijen, J., Schalkwijk, C., Leenders, J., De Tullio, P., BIANCHI, E., Thiry, M., Uchida, K., Spiegel, D., Cochrane, J., ... Bellahcene, A. (2016). Methylglyoxal, a glycolysis side-product, induces Hsp90 glycation and YAP- mediated tumor growth and metastasis. eLife. doi:10.7554/eLife.19375

Alberts, D., Longuespée, R., Smargiasso, N., Mazzucchelli, G., Baiwir, D., DELVENNE, P., Pamelard, F., Picard de Meller, G., & De Pauw, E. (09 June 2016). MALDI-imaging guided microproteomics workflow for biomarker discovery of intra-tumor heterogeneity [Poster presentation]. 64th Conference on Mass Spectrometry and Allied Topics, San Antionio, Texas, United States.

Bekhouche, M., Leduc, C., Dupont, L., Janssen, L., Delolme, F., Vadon-Le Goff, S., Smargiasso, N., Baiwir, D., Mazzucchelli, G., Zanella-Cleon, I., Dubail, J., De Pauw, E., Nusgens, B., Hulmes, D., Moali, C., & Colige, A. (06 January 2016). Determination of the substrate repertoire of ADAMTS2, 3 and 14 significantly broadens their functions and identifies extracellular matrix organization and TGF-beta signaling as primary targets. FASEB Journal, 5, 1741-56. doi:10.1096/fj.15-279869

Baiwir, D., Mazzucchelli, G., Smargiasso, N., QUESADA CALVO, F., De Pauw, E., MALAISE, M., Louis, E., & MEUWIS, M.-A. (December 2015). Comparison of serum fractionation methods by data independent label-free proteomics. EuPA Open Proteomics, 9, 14-22. doi:10.1016/j.euprot.2015.07.009

Nokin, M.-J., Durieux, F., Peixoto, P., Chiavarina, B., Smargiasso, N., Baiwir, D., De Pauw, E., De Tullio, P., Thiry, M., Peulen, O., Turtoi, A., Castronovo, V., & Bellahcene, A. (27 January 2015). Accumulation of methylglyoxal, a glycolysis by-product modulates YAP1 transcription co-factor localization and activity in human breast cancer cells through HSP90 modification [Poster presentation]. GIGA-DAY: Current advances in medical genetics and genomics, Liège, Belgium.

Baiwir, D., Mazzucchelli, G., Smargiasso, N., & De Pauw, E. (06 October 2014). SRM Vs HR-MS quantitative proteomics: matrix effect and LOQ in serum [Poster presentation]. 13th Human Proteome Organization World Congress.

MEUWIS, M.-A., Baiwir, D., Mazzucchelli, G., Smargiasso, N., Quesada-Calvo, F., MALAISE, M., De Pauw, E., The GETAID, & LOUIS, E. (06 October 2014). Potential Proteomic Biomarkers Associated To Mucosal Healing In Crohn’s Disease [Poster presentation]. HUPO2014, Madrid, Spain.

Longuespée, R., Fléron, M., Pottier, C., QUESADA CALVO, F., Meuwis, M.-A., Baiwir, D., Smargiasso, N., Mazzucchelli, G., De Pauw-Gillet, M.-C., Delvenne, P., & De Pauw, E. (2014). Tissue Proteomics for the Next Decade? Towards a Molecular Dimension in Histology. OMICS: A Journal of Integrative Biology. doi:10.1089/omi.2014.0033

Smargiasso, N., Mazzucchelli, G., Baiwir, D., LOUIS, E., Quesada-Calvo, F., MEUWIS, M.-A., & De Pauw, E. (2014). Data dependent versus Data independent acquisition applied to samples with different protein dynamic range [Poster presentation]. 13th Human Proteome Organization World Congress.