Publications

Ćwilichowska-Puślecka N, Makowiecka A, Kalinka M, Groborz K, Puślecki T, Drąg M, Simon K, Dąbrowska K, Pazgan-Simon M, Poręba M. Understanding the long-term interplay of SARS-CoV-2 immune and inflammatory responses with proteases in COVID-19 recovery: a longitudinal study Frontiers in Immunology 16, 1517933 (2025); doi: 10.3389/fimmu.2025.1517933.
Domagała J, Grzywa TM, Baranowska I, Justyniarska M, Tannir R, Graczyk-Jarzynka A, Kusowska A, Lecka M, Poreba M, Fidyt K, Marhelava K, Pilch Z, Picard LK, Wegierski , Jastrzebski K, Krawczyk M, Klopotowska M, Granica M, Urlaub D, Hajduk Sz, Neeser A, Moros S, Kozlowski P, Bobrowicz M, Miaczynska M, Ma L, Watzl C, Winiarska M. Ammonia Suppresses the Antitumor Activity of Natural Killer Cells and T Cells by Decreasing Mature Perforin, Cancer Research (2025); doi: 10.1158/0008-5472.CAN-24-0749
Groborz KM, Truong ME, Stowe I, Lee B, Jones RS, Plise E, Levy ES, Kou P, Lee WP, Zhang J, Nguyen J, Kalinka M, Drag M, Kayagaki N, Newton K, Poreba M, Dixit VM. Delivery of caspase inhibitors through GSDMD pores to inhibit pyroptosis. bioRxiv, 2025.02.11.637513 (2025); doi: 10.1101/2025.02.11.637513
Horbach N, Kalinka M, Ćwilichowska-Puślecka N, Al Mamun A, Mikołajczyk-Martinez A, Turk B, Snipas SJ, Kasperkiewicz P, Groborz KM, Poręba M. Visualization of calpain-1 activation during cell death and its role in GSDMD cleavage using chemical probes. Cell Chemical Biology 32 (4), 603–619.e7 (2025); doi: 10.1016/j.chembiol.2025.03.002
Balcerzak L, Trusz AM, Piekarska K, Strub DJ. Aquatic toxicity comparison between selected flavour and fragrance aldehydes, ketones, oximes, and oxime ethers. Ecohydrology & Hydrobiology 25, 100659 (2025); doi: 10.1016/j.ecohyd.2025.100659
Adamiec-Mroczek J, Kluz J, Chwałek S, Rabczyński M, Gostomska-Pampuch K, Lewandowski Ł, Misiuk-Hojło M, Ponikowska B, Chourasia G, Dumas I, Gamian A, Fiodorenko-Dumas Ż, Konopska B, Gola A, Konikowska K, Strub DJ, Bronowicka-Szydełko A, Madziarska K. Development of an enzyme-linked immunosorbent assay (ELISA) for determining neutrophil elastase (NE) – a potential useful marker of multi-organ damage in COVID-19 and PCS. Frontiers in Molecular Biosciences 12, 1542898 (2025); doi: 10.3389/fmolb.2025.1542898
Szczęsna-Górniak WP, Lamch Ł, Surowiak AK, Zboińska E, Szyk-Warszyńska L, Bartman MJ, Warszyński P, Wilk K. Novel antimicrobial-decorated polyelectrolytes as versatile building blocks for multifunctional hydrogel nano- and microparticles. ACS Omega 10(21), 22165–22183 (2025); doi: doi.org/10.1021/acsomega.5c02518
Oszer, A., Pawlik, B., Ćwilichowska-Puślecka, N., Marschollek, P., Richert-Przygonska M, Mielcarek-Siedziuk M, Crawford JC, Mazurek M, Koladiya A, Kałwak K, Styczynski J, Janczar Sz, Poręba M, Velasquez MP, Davis KL, Młynarski W. Single-cell profiling of CAR-T CD19 cell phenotypes and immune system dynamics in pediatric BCP-ALL. bioRxiv, 2025.03.27.645594 (2025)
Skrabalak, I.U., Rajtak, A., Skrzypczak, N., Ćwilichowska, N., Zając, A., Piet, M., Poręba M, Kotarski J, Okła K. HSF1 As A Novel Prognostic Factor And Therapeutic Target In Ovarian Cancer. International Journal of Gynecological Cancer 35 (2) (2025)
Surowiak, A.K., Poręba, M., Strub, D.J. Evaluation of cytotoxic effects of diverse essential oils on human keratinocytes (HaCaT). bioRxiv, 2025.04.16.649163 (2025)
Makhaik, S., Rut, W., Choudhary, S., Upadhyay, T., Hao, C., Westberg, M., Bobst C, Yoo E, Fejzo J, Lin MZ, Bogyo M, Thompson P, Drag M, Hardy JA. A robust fluorogenic substrate for chikungunya virus protease (nsP2) activity. Protein Science 34 (3), e70069 (2025)
Davis, G.J., Omole, A.O., Jung, Y., Rut, W., Holewinski, R., Suazo, K.F., Kim, H.R., Yang M, Andresson T, Drag M, Yoo E. Chemical tools to define and manipulate interferon-inducible Ubl protease USP18. Nature Communications 16 (1), 957 (2025)

Bereta, G.P., Bielecka, E., Marzec, K., Pijanowski, Ł., Biela, A., Wilk, P., Kamińska M, Nowak J, Wątor E, Grudnik P, Kowalczyk D, Kozieł J, Mydel P, Poręba M, Kantyka T. Glycosaminoglycans act as activators of peptidylarginine deiminase 4. bioRxiv, 2024.06.17.599283 (2024)
Bobrowicz, M., Kusowska, A., Krawczyk, M., Zhylko, A., Forcados, C; Slusarczyk A, Barankiewicz J, Domagala J, Kubacz M, Šmída M, Dostalova L, Marhelava K, Fidyt K, Pepek M, Baranowska I, Szumera-Cieckiewicz A, Inderberg EM, Wälchli S, Granica M, Graczyk-Jarzynka A, Majchrzak M, Poreba M, Gehlert CL, Peipp M, Firczuk M, Prochorec-Sobieszek M, Winiarska M. CD20 expression regulates CD37 levels in B-cell lymphoma – implications for immunotherapies OncoImmunology 13 (1), 2362454 (2024).
Mahoney, M.W., Helander, J., Kooner, A.S., Norman, M., Damalanka, V.C., De Bona P, Kasperkiewicz P, Rut W, Poreba M, Kashipathy MM, Battaile KP, Lovell S, O'Donoghue AJ, Craik ChS, Drag M, Janetka JW. Use of protease substrate specificity screening in the rational design of selective protease inhibitors with unnatural amino acids: Application to HGFA, matriptase, and hepsin Protein Science 33 (8), e5110 (2024).
Oszer, A., Kołodrubiec, J., Pawlik, B., Marschollek, P., Ćwilichowska, N., Jakubowska J, Bukowska-Straková K, Surman M, Trelińska J, Miarka-Walczyk K, Haze N, Liszka K, Mielcarek-Siedziuk M, Kałwak K, Poręba M, Pastorczak A, Janczar Sz, Młynarski W. CD19-CAR T-cell therapy with sorafenib in post-HSCT relapse of mixed phenotype acute leukaemia (MPAL) with phenotypic myeloid to lymphoid lineage switch – A case report. British Journal of Haematology 205 (3), 1215–1219 (2024)
Oszer, A., Pawlik, B., Crawford, J.C., Nevitt, C., Marschollek, P., Ćwilichowska, N., Mazurek M, Kalwak K, Janczar Sz, Thomas P, Poręba M, Velasquez P, Mlynarski W. Immunophenotypic CAR-T Cells Heterogeneity of Pre- and Post-Infusion of Tisagenlecleucel in Pediatric Patients with BCP-ALL Transplantation and Cellular Therapy, Official Publication of the American Society for Transplantation and Cellular Therapy (2024)
Sakthivel, D., Brown-Suedel, A.N., Lopez, K.E., Salgar, S., Coutinho, L.E., Keane F, Huang S, Mc Sherry K, Charendoff Ch, Dunne KP, Robichaux DJ, Vargas-Hernández A, Le BCh, Shin CS, Carisey AF, Poreba M, Flanagan JM, Bouchier-Hayes L. Caspase-2 is essential for proliferation and self-renewal of nucleophosmin-mutated acute myeloid leukemia Science Advances 10 (31), eadj3145 (2024).
Drąg, M. Degrees of Complexity in the Recognition of Substrates by Proteolytic Enzymes Complexity and Simplicity 7, 34 (2024)
Kasperkiewicz, P., Kołt, S., Janiszewski, T., Skowron, P.M., Krefft, D., Brodzik, R., ... Substrate specificity profiling of heat-sensitive serine protease from the fungus Onygena corvina Biochimie 226, 91–98 (2024)
Groborz, K., Rut, W., Sun, X., Hilgenfeld, R., Drąg, M. Profiling of coronaviral Mpro and enteroviral 3Cpro specificity provides a framework for the development of broad‐spectrum antiviral compounds Protein Science 33 (9), e5139 (2024)
Malek, N., Gładysz, R., Stelmach, N., Drąg, M. Targeting Microglial Immunoproteasome: A Novel Approach in Neuroinflammatory-Related Disorders ACS Chemical Neuroscience 15 (14), 2532–2544 (2024)
Rocho, F.R., Snipas, S.J., Shamim, A., Rut, W., Drąg, M., Montanari, C.A., ... Differential specificity of SARS‐CoV‐2 main protease variants on peptide versus protein‐based substrates The FEBS Journal 291 (1), 61–69 (2024)
Korpacki A, Szydełko AT, Strub DJ, Urbanek B, Kuzan AB, Bronowicka-Szydełko A. Prevention and methods of mitigating transmission of FIV, FeLV and SARS-CoV-2 from cats to humans. Medical Research Journal 9(3), 295–301 (2024); doi: 10.5603/mrj.100707
Koyama S, Joseph PV, Shields VDC, Heinbockel T, Adhikari P, Kaur R, Kumar R, Alizadeh R, Bhutani S, Calcinoni O, Mucignat-Caretta C, Chen J, Cooper KW, Das SR, Domínguez PR, Guàrdia MD, Klyuchnikova MA, Laktionova TK, Mori E, Namjoo Z, Nguyen H, Özdener MH, Parsa S, Özdener-Poyraz E, Strub DJ, Taghizadeh-Hesary F, Ueha R, Voznessenskaya VV. Possible roles of phytochemicals with bioactive properties in the prevention of and recovery from COVID-19. Frontiers in Nutrition 11, 1408248 (2024); doi: 10.3389/fnut.2024.1408248
Trovato E, Balcerzak L, Vidal C, Strub DJ, Fakhry HA, Dugo P, Mondello L. Gas chromatographic, sensory profile and biological properties evaluation of Egyptian Jasminum grandiflorum essential oil produced industrially by steam distillation. Journal of Essential Oil Research 36(4), 321–332 (2024); doi: 10.1080/10412905.2024.2368020

Groborz, K.M., Kalinka, M., Grzymska, J., Kołt, S., Snipas, S.J., Poręba, M. Selective chemical reagents to investigate the role of caspase 6 in apoptosis in acute leukemia T cells Chemical Science 14 (9), 2289–2302 (2023)
Janiszewski, T., Kołt, S., Ciastoń, I., Vizovisek, M., Poręba, M., Turk, B., Drąg, M., ... Investigation of osteoclast cathepsin K activity in osteoclastogenesis and bone loss using a set of chemical reagents Cell Chemical Biology 30 (2), 159–174.e8 (2023) — nr pracy: 11
Oszer, A., Pawlik, B., Marschollek, P., Ćwilichowska, N., Kołodrubiec, J., ... CD19 CAR-T-cell therapy in post-HSCT relapse of mixed phenotype acute leukemia (MPAL) with phenotypic lineage switch from myeloid to lymphoid clone Bone Marrow Transplantation 58 (Suppl 1), 218–218 (2023)
Poręba, M., Zmudzinski, M., Malon, O., Drąg, M. Imaging of proteases using activity-based probes Current Opinion in Chemical Biology 74, 102299 (2023)
Szlasa, W., Ślusarczyk, S., Nawrot-Hadzik, I., Abel, R., Zalesińska, A., ... Betulin and its derivatives reduce inflammation and COX-2 activity in macrophages Inflammation 46 (2), 573–583 (2023)
Yong Zou, P.V.B., Sabljić, I., Horbach, N., Dauphinee, A.N., Åsman, A., ... Thermoprotection by a cell membrane–localized metacaspase in a green alga The Plant Cell (2023).
Bacińska Z, Baberowska K, Surowiak AK, Balcerzak L, Strub DJ. Exploring the antimicrobial properties of 99 natural flavour and fragrance raw materials against pathogenic bacteria: a comparative study with antibiotics. Plants 12(21), 3777 (2023); doi: 10.3390/plants12213777
Strub DJ. In-vitro antimicrobial activity of essential oils of Tasmania. Journal of Essential Oil Research 35(5), 500–508 (2023); doi: 10.1080/10412905.2023.2252416
Balcerzak L, Surowiak AK, Groborz KM, Stróżak S, Piekarska K, Strub DJ. Comparative evaluation of mutagenic, genotoxic, cytotoxic, and antimicrobial effects of flavour and fragrance aldehydes, ketones, oximes, and oxime ethers. Toxicology 490, 153510 (2023); doi: 10.1016/j.tox.2023.153510
Surowiak AK, Balcerzak L, Strub DJ. 52nd International Symposium on Essential Oils (ISEO 2022). Aromaterapia 29(1), 30–41 (2023)

Bibo-Verdugo, B., Joglekar, I., Giridhar, M.N.K., Ramirez, M.L., Snipas, S.J., ... Resurrection of an ancient inflammatory locus reveals switch to caspase-1 specificity on a caspase-4 scaffold Journal of Biological Chemistry 298 (6) (2022) — nr pracy: 9
Ćwilichowska, N., Świderska, K.W., Dobrzyń, A., Drąg, M., Poręba, M. Diagnostic and therapeutic potential of protease inhibition Molecular Aspects of Medicine 88, 101144 (2022) — nr pracy: 25
Majchrzak, M., Poręba, M. The roles of cellular protease interactions in viral infections and programmed cell death: A lesson learned from the SARS-CoV-2 outbreak and COVID-19 pandemic Pharmacological Reports 74 (6), 1149–1165 (2022).
Poręba, M. Introduction to the special issue on “The Post-COVID Era: Advances and Challenges in Pharmacology” Pharmacological Reports 74 (6), 1118–1119 (2022)
Poręba, M., Kasperkiewicz-Wasilewska, P., Rut, W., Drąg, M. Nienaturalne aminokwasy jako strategia do otrzymywania substratów, inhibitorów i niskocząsteczkowych sond aktywności dla enzymów proteolitycznych Wiadomości Chemiczne 76 (5–6), 433–454 (2022)
Lv, Z., Cano, K.E., Jia, L., Drąg, M., Huang, T.T., Olsen, S.K. Targeting SARS-CoV-2 proteases for COVID-19 antiviral development Frontiers in Chemistry 9, 819165 (2022*)
Nayak, D., dos Santos Bury, P., Drąg, M., Nijkerk, A.N., El Oualid, F., Olsen, S.K. Characterization of the Ubiquitin and ISG15 Deconjugase Activity of SARS-CoV-1 and SARS-CoV-2 Papain-Like Protease In: Deubiquitinases: Methods and Protocols, pp. 171–188 (2023*)
Perlińska, A.P., Stasiulewicz, A., Nguyen, M.L., Świderska, K., Zmudzinski, M., ... Amino acid variants of SARS-CoV-2 papain-like protease have impact on drug binding PLOS Computational Biology 18 (11), e1010667 (2022*)
Strub DJ, Talma M, Strub M, Rut W, Żmudziński MA, Brud W, Neyts J, Vangeel L, Zhang L, Sun X, Lv Z, Nayak D, Olsen SK, Hilgenfeld R, Jochmans D, Drąg M. Evaluation of the anti-SARS-CoV-2 properties of essential oils and aromatic extracts. Scientific Reports 12, 14230 (2022); doi: 10.1038/s41598-022-18676-w
Balcerzak L, Surowiak AK, Adamowicz A, Kaleta M, Pieńkosz-Żagan A, Strub DJ. Evaluation of small combinatorial libraries of nitrogenous low-molecular-weight compounds for new fragrance development. Journal of Industrial and Engineering Chemistry 115, 339–344 (2022); doi: 10.1016/j.jiec.2022.08.017
Surowiak AK, Sowała M, Talma M, Groborz KM, Balcerzak L, Lochyński S, Strub DJ. Cytotoxicity, early safety screening, and antimicrobial potential of minor oxime constituents of essential oils and aromatic extracts. Scientific Reports 12, 5319 (2022); doi: 10.1038/s41598-022-09210-z

Groborz, K., Poręba, M. Visualization of proteolytic enzymes using mass cytometry: compatible chemical probes Wiadomości Chemiczne 75 (11–12), 1171–1191 (2021)
Groborz, K., Poręba, M. Wizualizacja enzymów proteolitycznych za pomocą sond chemicznych oraz cytometrii masowej Wiadomości Chemiczne (2021)
Razai, A.S., Snipas, S.J., Poręba, M., Fasci, D., Salvesen, G.S. Engineering caspase 7 as an affinity reagent to capture proteolytic products The FEBS Journal 288 (4), 1259–1270 (2021)
Maluch, I., Grzymska, J., Snipas, S.J., Salvesen, G.S., Drąg, M. Evaluation of the effects of phosphorylation of synthetic peptide substrates on their cleavage by caspase-3 and -7 Biochemical Journal 478 (12), 2233–2245 (2021)
Nawrot-Hadzik, I., Zmudzinski, M., Matkowski, A., Preissner, R., ... Reynoutria Rhizomes as a Natural Source of SARS-CoV-2 M<sup>pro</sup> Inhibitors – Molecular Docking and In Vitro Study Pharmaceuticals 14 (8), 742 (2021*)
Surowiak AK, Balcerzak L, Lochyński S, Strub DJ. Biological activity of selected natural and synthetic terpenoid lactones. Internaational Journal of Molecular Sciences 22(9), 5036 (2021); doi: 10.3390/ijms22095036

Lunde, N.N., Gregersen, I., Ueland, T., Shetelig, C., Holm, S., Kong, X.Y., ... Legumain is upregulated in acute cardiovascular events and associated with improved outcome – potentially related to anti-inflammatory effects on macrophages Atherosclerosis 296, 74–82 (2020)
Bibo-Verdugo, B., Snipas, S.J., Kołt, S., Poręba, M., Salvesen, G.S. Extended subsite profiling of the pyroptosis effector protein gasdermin D reveals a region recognized by inflammatory caspase-11 Journal of Biological Chemistry 295 (32), 11292–11302 (2020)
Groborz, K., Gonzalez Ramirez, M.L., Snipas, S.J., Salvesen, G.S., Drąg, M., Poręba, M. Exploring the prime site in caspases as a novel chemical strategy for understanding the mechanisms of cell death: A proof of concept study on necroptosis in cancer cells Cell Death & Differentiation 27 (2), 451–465 (2020)
Rut W, Groborz K, Zhang L, Modrzycka S, Poreba M, Hilgenfeld R, Drag M, Profiling of flaviviral NS2B-NS3 protease specificity provides a structural basis for the development of selective chemical tools that differentiate dengue from Zika and West Nile viruses Antiviral Research 175, 104731 (2020)
Poreba M, Protease-activated prodrugs: strategies, challenges and future directions The FEBS Journal 287 (10), 1936–1969 (2020)
Poręba, M., Groborz, K.M., Rut, W., Pore, M., Snipas, S.J., Vizovišek, M., Turk, B., ... Multiplexed probing of proteolytic enzymes using mass cytometry-compatible activity-based probes Journal of the American Chemical Society 142 (39), 16704–16715 (2020)
Surowiak AK, Lochyński S, Strub DJ. Unsubstituted oximes as potential therapeutic agents. Symmetry 12(4), 575 (2020); doi: 10.3390/sym12040575
Surowiak AK, Kannenberg-Leszczyńska D, Strub DJ, Lochyński S. Industrial potential of rosemary (Rosmarinus officinalis L.). Przemysł Chemiczny 99(2), 259–263 (2020); doi: 10.15199/62.2020.2.15

Poreba M, Groborz K, Navarro M, Snipas SJ, Drag M, Salvesen GS, Caspase selective reagents for diagnosing apoptotic mechanisms Cell Death and Differentiation 2019, 26, 229.
Cogo F, Poreba M, Rut W, Groborz K, Smyth P, Johnston MC, Williams R, Longley DB, Burden RE, Salvesen GS, Drag M, Scott Ch., Development of an advanced nanoformulation for the intracellular delivery of a caspase-3 selective activity-based probe Nanoscale 2019, 11, 742.
Strub, D.J., Szymanska, K., Hrydziuszko, Z., Bryjak, J., Jarzebski, A.B., Continuous flow kinetic resolution of a non-equimolar mixture of diastereoisomeric alcohol using a structured monolithic enzymatic microreactor Chem. Eng. 2019, 4, 587.
Hrydziuszko, Z., Strub, D., Labus, K., Bryjak, J., Burkholderia cepacia lipase immobilization for hydrolytic reactions and the kinetic resolution of the non-equimolar mixtures of isomeric alcoholsBioorg Chem 2019, accepted.
Kozioł, A., Jasnowski, M., Grela, E., Szczepanik, M., Gabryś, B., Dancewicz, K., Lochyński, S.,, Synthesis and Biological Activity of New 4-tert-Butylcyclohexanone Derivatives Biodiversity 2019, 16, 1.
Kozioł, A., Grela, E., Macegoniuk, K.M., Grabowiecka, A., Lochyński, S., Synthesis of nitrogen-containing monoterpenoids with antibacterial activity Prod. Res., 2019, 1.
Bak, A., Kozik V., Kozakiewicz D., Gajcy K., Strub D.J., Swietlicka A., Stepankova S., Imramovsky A., Polanski J, Smolinski A., Jampilek, J., Novel Benzene-based Carbamates for AChE/BChE Inhibition: Synthesis and Ligand/Structure-oriented SAR study J. Mol. Sci. 2019, 20, 1.
Poreba M, Rut W, Groborz K, Snipas SJ, Salvesen GS, Drag M, Potent and selective caspase-2 inhibitor prevents MDM-2 cleavage in reversine-treated colon cancer cells Cell Death and Differentiation 2019, 26, 2695.
Poreba M, Recent advances in the development of legumain-selective chemical probes and peptide prodrugs Biological Chemistry 2019, 1.
Groborz K, Kolt S, Kasperkiewicz P, Drag M, Internally Quenched Fluorogenic substrates with unnatural amino acids for cathepsin G investigation Biochimie 2019, 166, 103.
de Vries LE, Sanchez MI, Groborz K, Kuppens L, Poreba M, Lehmann C, Nevins N, Withers-Martinez C, Hirst DJ, Yuan F, Arastu-Kapur S, Horn M, Mares M, Bogyo M, Drag M, Deu E, Characterization of P. falciparum dipeptidyl aminopeptidase 3 specificity identifies differences in amino acid preferences between peptide-based substrates and covalent inhibitors FEBS Journal 2019, 286, 3998.
Groborz K, Gonzalez-Ramirez ML, Snipas SJ, Salvesen GS, Drag M, Poreba M, Exploring the prime site in caspases as a novel chemical strategy for understanding the mechanisms of cell death: a proof of concept study on necroptosis in cancer cells Cell Death and Differentiation 2019, 1.
Drąg-Zalesińska M, Rembiałkowska N, Borska S, Saczko J, Drąg M, Poręba M, Kulbacka J, A New Betulin Derivative Stimulates the Synthesis of Collagen in Human Fibroblasts Stronger than its Precursor In vivo 2019, 33, 1087.
Balcerzak, L., Gibka, J., Sikora, M., Kula, J., Strub, D.J., Minor constituents of essential oils and aromatic extracts. Oximes derived from natural flavor and fragrance raw materials - sensory evaluation, spectral and gas chromatographic characteristics Food Chemistry 2019, accepted.
Poreba M, Groborz K, Vizovisek M, Maruggi M, Turk D, Turk B, Powis G, Drag M, Salvesen GS, Fluorescent probes towards selective cathepsin B detection and visualization in cancer cells and patient samples Chemical Science 2019, 10, 8461.
Rut W, Nielsen NV, Czarna J, Poreba M, Kanse SM, Drag M, Fluorescent activity-based probe for the selective detection of Factor VII activating protease (FSAP) in human plasma Thrombosis Research 2019, 182, 124.
Babin BM, Kasperkiewicz P, Janiszewski T, Yoo E, Drag M, Bogyo M, Leveraging peptide substrate libraries to design inhibitors of bacterial Lon protease ACS Chemical Biology 2019, 1.
Anderson BM, Poole DP, Aurelio L, Ng GZ, Fleischmann M, Kasperkiewicz P, Morissette C, Drag M, van Driel IR, Schmidt BL, Vanner SJ, Bunnett NW, Edgington-Mitchell LE, Application of a chemical probe to detect neutrophil elastase activation during inflammatory bowel disease Scientific Reports 2019, 9, 13295.
Poreba M, Groborz K, Rut W, Pore M, Snipas SJ, Vizovisek M, Turk B, Drag M, Salvesen GS, The Activome: multiplexed probing of activity of proteolytic enzymes using mass cytometry-compatible activity-based probes (TOF-probes) bioRxiv 2019, 1.
Aaltonen N, Singha P, Jakupovic H, Wirth T, Samaranayake H, Pasonen-Seppanen S, Rilla K, Varjosalo M, Edgington-Mitchell L, Kasperkiewicz P, Drag M, Kalvala S, Moisio E, Savinainen JR, Laitinen JT, Tissue-ABPP enables high-resolution confocal fluorescence imaging of serine hydrolase activity in cryosections – Application to glioma brain unveils activity hotspots originating from tumor-associated neutrophils bioRxiv 2019, 1.
Maluch I, Czarna J, Drag M, Applications of unnatural amino acids in protease probesChemistry - An Asian Journal 2019, 14, 4103.
Lunde NN, Gregersen I, Ueland T, Shetelig C, Holm S, Kong XY, Michelsen AE, Otterdal K, Yndestad A, Broch K, Gullestad L, Nyman TA, Bendz B, Eritsland J, Hoffmann P, Skagen K, Gonçalves I, Nilsson J, Grenegard M, Poreba M, Drag M, Seljeflot I, Sporsheim B, Espevik T, Skjelland M, Johansen HT, Solberg R, Aukrust P, Björkbacka H, Andersen GO, Halvorsen B, Legumain is upregulated in acute cardiovascular events and associated with improved outcome - potentially related to anti-inflammatory effects on macrophages. Atherosclerosis 2019, 1.

Poreba M, Rut W, Vizovisek M, Groborz K, Kasperkiewicz P, Finlay D, Vuori K, Turk D, Turk B, Salvesen GS, Drag M, Selective imaging of cathepsin L in breast cancer by fluorescent activity-based probes Chemical Science 2018, 9, 2113.
Gonzalez-Ramirez ML*, Poreba M*, Snipas SJ, Groborz K, Drag M, Salvesen GS (* equal contribution), Extensive peptide and natural protein substrate screens reveal that mouse caspase-11 has much narrower substrate specificity than caspase-1 Journal of Biological Chemistry 2018, 293, 7058.
Stach N, Kalinska M, Zdzalik M, Kitel R, Karim A, Serwin K, Rut W, Larsen K, Jabaiah A, Firlej M, Wladyka B, Daugherty P, Stennicke H, Drag M, Potempa J, Dubin G, Unique Substrate Specificity of SplE Serine Protease from Staphylococcus aureus Structure 2018, 26, 572.
Poreba M, Kasperkiewicz P, Rut W, Drag M, Screening Combinatorial Peptide Libraries in Protease Inhibitor Drug Discovery Extracellular Targeting of Cell Signaling in Cancer: Strategies Directed at MET and RON Receptor Tyrosine Kinase Pathways, 1 2018, 1.
Rut W, Poreba M, Kasperkiewicz P, Snipas SJ, Drag M, Selective substrates and activity-based probes for imaging of the human constitutive 20S proteasome in cells and blood samples Journal of Medicinal Chemistry 2018, 61, 5222.
Barry R, John SW, Liccardi G, Tenev T, Jaco J, Chen Ch, Choi J, Kasperkiewicz P, Fernandes-Alnemri T, Alnemri E, Drag M, Chen Y, Meier P, SUMO-mediated regulation of NLRP3 modulates inflammasome activity Nature Communications 2018, 9, 3001.
Vizovisek M, Vidmar R, Drag M, Fonovic M, Salvesen GS, Turk B, Protease Specificity: Towards In Vivo Imaging Applications and Biomarker Discovery Trends in Biochemical Sciences 2018, 1, 1.
Sikorska E, Stachurski O, Neubauer D, Małuch I, Wyrzykowski D, Bauer M, Brzozowski K, Kamysz W, Short arginine-rich lipopeptides: from self-assembly to antimicrobial activity Biochimica et Biophysica Acta. Biomembranes 2018, 1860, 2242.
Świderska KW, Szlachcic A, Opaliński Ł, Zakrzewska M, Otlewski J, FGF2 Dual Warhead Conjugate with Monomethyl Auristatin E and ?-Amanitin Displays a Cytotoxic Effect towards Cancer Cells Overproducing FGF Receptor 1 International Journal of Molecular Sciences 2018, 19, 2098.
Kasperkiewicz P, Kołt S, Janiszewski T, Groborz K, Poręba M, Snipas SJ, Salvesen GS, Drąg M, Determination of extended substrate specificity of the MALT1 as a strategy for the design of potent substrates and activity-based probes Scientific Reports 2018, 8, 15998.
Kozioł, A., Frątczak, J., Grela, E., Szczepanik, M., Gabryś, B., Dancewicz, K., Lochyński, S.,, Synthesis and biological activity of new derivatives with the preserved carane system Prod. Res., 2018, 1.
Kozioł, A.,Macegoniuk, K.M., Grela, E., Grabowiecka, A., Biernat, M., Lochyński, S., Synthesis of terpenoid oxo derivatives with antiureolytic activity Biol. Rep., 2018, 1.
Sokoła-Wysoczańska, E., Wysoczański, T., Wagner, J., Czyż, K., Bodkowski, R., Lochyński, S., Patkowska-Sokoła, B.,, Polyunsaturated fatty acids and their potential therapeutic role in cardiovascular system disorders - a review. Nutrients, 2018, 10, 1561.
Malek N, Starowicz K., Joint problems arising from lack of repair mechanisms: can cannabinoids help? British Journal of Pharmacology 2018, 1.
Korostynski M, Malek N, Piechota M, Starowicz K., Cell-type-specific gene expression patterns in the knee cartilage in an osteoarthritis rat model Functional & Integrative Genomics 2018, 18, 79.
Mlost J, Kostrzewa M, Malek N, Starowicz K, Molecular Understanding of the Activation of CB1 and Blockade of TRPV1 Receptors: Implications for Novel Treatment Strategies in Osteoarthritis International Journal of Molecular Sciences 2018, 19, 342.

Strub, D.J., Garboś, A., Lochyński, S., Synthesis, lipase catalyzed kinetic resolution, and determination of the absolute configuration of enantiomers of the Morita-Baylis-Hillman adduct 3-hydroxy-2-methylenebutanenitrile ARKIVOC 2017, 313.
Teixeira PF, Kmiec B, Branca RM, Murcha MW, Byzia A, Ivanova A, Whelan J, Drag M, Lehtiö J, Glaser E., A multi-step peptidolytic cascade for amino acid recovery in chloroplasts. Nature Chemical Biology 2017, 13, 15.
Balogh B, Dahmen M, Stahl M, Poreba M, Gersch M, Drag M, Sieber SA , Insights into ClpXP proteolysis: heterooligomerization and partial deactivation enhance chaperone affinity and substrate turnover in Listeria monocytogenes Chemical Science 2017, 8, 1592.
Rut W, Zhang L, Kasperkiewicz P, Poreba M, Hilgenfeld R, Drag M, Extended substrate specificity and first potent irreversible inhibitor/activity-based probe design for Zika virus NS2B-NS3 protease Antiviral Research 2017, 139, 88.
Kasperkiewicz P, Poreba M, Groborz K, Drag M, Emerging challenges in the design of selective protease substrates, inhibitors and activity-based probes for indistinguishable proteases FEBS Journal 2017, 284, 1518.
Drag-Zalesinska M, Drag M, Poreba M, Borska S, Kulbacka J, Saczko J, Anticancer properties of ester derivatives of betulin in human metastatic melanoma cells (Me-45) Cancer Cell International 2017, 17, 7.
Poreba M, Szalek A, Rut W, Kasperkiewicz P, Rutkowska-Wlodarczyk I, Snipas SJ, Itoh Y, Turk D, Turk B, Overall CM, Kaczmarek L, Salvesen GS, Drag M, Highly sensitive and adaptable fluorescence-quenched pair discloses the substrate specificity profiles in diverse protease families Scientific Reports 2017, 7, 43135.
Poreba M, Salvesen GS, Return of the Ice Age: Caspases Safeguard against Inflammatory Cell Death Cell Chemical Biology 2017, 24, 550.
Lunde NN, Haugen MH, Bodin Larsen KB, Damgaard I, Pettersen SJ, Kasem R, Rut W, Drag M, Poreba M, Johansen HT, Solberg R, Glycosylation is important for legumain localization and processing to active forms but not for cystatin E/M inhibitory functions Biochimie 2017, 139, 27.
Kasperkiewicz P, Altman Y, D'Angelo M, Salvesen GS, Drag M, A toolbox of fluorescent probes for parallel imaging reveals uneven location of serine proteases in neutrophils Journal of the American Chemical Society 2017, 139, 10115.
Poreba M, Salvesen GS, Drag M, Synthesis of a HyCoSuL peptide substrate library to dissect protease substrate specificity Nature Protocols 2017, 12, 2189.
Małuch I, Levesque C, Kwiatkowska A, Couture F, Ly K, Desjardins R, Neugebauer W, Prahl A, Day R, Positional scanning identifies the molecular determinants of a high affinity multi-Leucine inhibitor for furin and PACE4 Journal of Medicinal Chemistry 2017, 60, 2732.
Swiderska KW, Szlachcic A, Czyrek A, Zakrzewska M, Otlewski J, Site-specific conjugation of fibroblast growth factor 2 (FGF2) based on incorporation of alkyne-reactive unnatural amino acid. Bioorganic & Medicinal Chemistry 2017, 25, 3685.
Krzyscik M; Zakrzewska M; Sorensen V; Sokolowska-Wedzina A; Lobocki M; Swiderska KW; Krowarsch D.; Wiedlocha A.; Otlewski J., Cytotoxic Conjugates of Fibroblast Growth Factor 2 (FGF2) with Monomethyl Auristatin E for Effective Killing of Cells Expressing FGF Receptors ACS Omega 2017, 2, 3792.
Kozioł, A., Mroczko, L., Niewiadomska, M., Lochyński, S., ?-Lactones with potential biological activity J. Natur. Sc.,2017, 32, 495.
Surowiak, A., Lochyński, S.,, Aktywność biologiczna oksymów. W:Na pograniczu chemii i biologii. Wydawnictwo Naukowe UAM, Poznań 2017, 37, 21.
Lopes DM*, Malek N*, Edye M, Jager SB, McMurray S, McMahon SB, Denk F (*equal contribution), Sex differences in peripheral not central immune responses to pain-inducing injury Scientific Reports 2017, 7, 16460.
Pajak A, Kostrzewa M, Malek N, Korostynski M, Starowicz K, “Expression of matrix metalloproteinases and components of the endocannabinoid system in the knee joint are associated with biphasic pain progression in a rat model of osteoarthritis Journal of Pain Research 2017, 1973.
Korostyński M, Malek N, Piechota M, Starowicz K, Blood Transcriptional Signatures for Disease Progression in a Rat Model of Osteoarthritis International Journal of Genomics 2017, 1746426.

Strub, D.J.; Salat, K.; Librowski, T.; Lochynski, S.; Gawel, M.; Podkowa, A., The anxiolytic-like activity of a novel N-cycloalkyl- N-benzoylpiperazine derivative. Rep. 2016, 68, 62.
Strub, D.J.; Kula, J.; Sikora, M.; Gibka, J.; Lochynski, S., Synthesis and olfactory evaluation of homologous series of (+)- and (-)-carvone oxime ethers Flavour Frag. J. 2016, 31, 81.
Gersch M, Stahl M, Poreba M, Dahmen M, Dziedzic A, Drag M, Sieber SA, Barrel-shaped ClpP proteases display attenuated cleavage specificity ACS Chemical Biology 2016, 11, 389.
Byzia, A.; Szeffler, A.; Kalinowski, L.; Drąg, M., Activity profiling of aminopeptidases in cell lysates using a fluorogenic substrate libraryBiochimie 2016, 122, 31.
Wysoczański, T., Sokoła-Wysoczańska, E., Pękala, J., Lochyński, S., Czyż K., Bodkowski, R., Herbinger, G., Patkowska-Sokoła, B., Librowski, T., Omega-3 Fatty Acids and their Role in Central Nervous System - A Review Med. Chem. 2016, 23, 816.
Modak, J. K.; Rut, W.; Wijeyewickrema, L. C.; Pike, R. N.; Drąg, M.; Roujeinkova, A., Structural basis for substrate specificity of Helicobacter pylori M17 aminopeptidase Biochimie 2016, 121, 60.
Rut, W.; Drąg, M., Human 20S proteasome activity towards fluorogenic peptides of various chain lengths Biol. Chem. 2016, 396, 921.
Drinkwater N, Sivaraman KK, Bamert RS, Rut W, Mohamed K, Vinh NB, Scammells PJ, Drag M, McGowan S, Structure and substrate fingerprint of aminopeptidase P from Plasmodium falciparum Biochemical Journal 2016, 473, 3189.
Poreba M, Solberg R, Rut W, Lunde NN, Kasperkiewicz P, Snipas SJ, Mihelic M, Turk D, Turk B, Salvesen GS, Drag M., Counter Selection Substrate Library Strategy for Developing Specific Protease Substrates and Probes Cell Chemical Biology 2016, 23, 1023.
Lentz CS, Ordonez AA, Kasperkiewicz P, La Greca F, O'Donoghue AJ, Schulze CJ, Powers JC, Craik CS, Drag M, Jain SK, Bogyo M, Design of Selective Substrates and Activity-Based Probes for Hydrolase Important for Pathogenesis 1 (HIP1) from Mycobacterium tuberculosis. ACS infectious diseases 2016, 2, 807.
Malek N, Starowicz K, Dual-Acting Compounds Targeting Endocannabinoid and Endovanilloid Systems—A Novel Treatment Option for Chronic Pain ManagementFrontiers in Pharmacology 2016, 7, 257.
Malek N, Kostrzewa M, Makuch W, Pajak A, Kucharczyk M, Piscitelli F, Przewlocka B, Di Marzo V, Starowicz K, The multiplicity of spinal AA-5-HT anti-nociceptive action in a rat model of neuropathic pain Pharmacological Research 2016, 111, 251.

Hachmann, J.; Edgington-Mitchell, L. E.; Poreba, M.; Sanman, L. E.; Drag, M.; Bogyo, M.; Salvesen, G. S., Probes to Monitor Activity of the Paracaspase MALT1 Biol. 2015, 22, 139.
Lechtenberg, B. C.; Kasperkiewicz, P.; Robinson, H.; Drag, M.; Riedl, S. J., The Elastase-PK101 structure: Mechanism of an ultrasensitive activity-based probe revealed ACS Chem. Biol. 2015, 10, 945.
Rut, W.; Kasperkiewicz, P.; Byzia, A.; Poreba, M.; Groborz, K.; Drag, M., Recent advances and concepts in substrate specificity determination of proteases using tailored libraries of fluorogenic substrates with unnatural amino acids Chem. 2015, 396, 329.
Arya, T.; Reddi, R.; Kishor, C.; Ganji, R.J.; Bhukya, S.; Gumpena, R.; McGowan, S.; Drag, M.; Addlagatta, A., Identification of the molecular basis of inhibitor selectivity between the human and Streptococcal Type I methionine aminopeptidases. Med. Chem. 2015, 58, 2350.
Hachmann J, Edgington-Mitchell LE, Poreba M, Sanman LE, Drag M, Bogyo M, Salvesen GS., Probes to monitor activity of the paracaspase MALT1 Chemistry & biology 2015, 22, 139.
Bekes, M.; Rut, W.; Kasperkiewicz, P. Mulder, M. P.; Ovaa, H.; Drag, M.; Lima, C. D.; Huang, T. T., SARS hCoV papain-like protease is a unique Lys48 linkage-specific di-distributive deubiquitinating enzyme. J. 2015, 468, 215.
Waclawczyk-Biedron, W., Frackowiak-Wojtasek, B., Strub, D., Rzechak, M., Wojtasek, H., Synthesis of the aggregation pheromone of the Colorado potato beetle from its degradation product Med. Chem. Lett. 2015, 17, 3560.
Drag-Zalesinska M, Wysocka T, Borska S, Drag M, Poreba M, Choromanska A, Kulbacka J, Saczko J., The new esters derivatives of betulin and betulinic acid in epidermoid squamous carcinoma treatment - In vitro studies. Biomedicine & Pharmacotherapy 2015, 72, 91.
Kasperkiewicz P, Poreba M, Snipas SJ, Lin SJ, Kirchhofer D, Salvesen GS, Drag M., Design of a Selective Substrate and Activity Based Probe for Human Neutrophil Serine Protease 4. PLoS One 2015, 10, 1.
Rajkovic, J.; Poreba, M.; Caglic, D.; Vidmar, R.; Wilk, A.; Borowik, A.; Salvesen, G. S.; Turk, V.; Drag, M.; Turk, B., Biochemical Characterization and Substrate Specificity of Autophagin-2 from the Parasite Trypanosoma cruzi Biol. Chem. 2015, 290, 28231.
Galiullina RA, Kasperkiewicz P, Chichkova NV, Szalek A, Serebryakova MV, Poreba M, Drag M, Vartapetian AB, Substrate Specificity and Possible Heterologous Targets of Phytaspase, a Plant Cell Death Protease. Journal of Biological Chemistry 2015, 290, 24806.
Poreba M, Szalek A, Kasperkiewicz P, Rut W, Salvesen GS, Drag M, Small Molecule Active Site Directed Tools for Studying Human Caspases Chemical Reviews 2015, 115, 12546.
Byzia A, Szeffler A, Kalinowski L, Drag M, Activity profiling of aminopeptidases in cell lysates using a fluorogenic substrate library. Biochimie 2015, 15, 00310.
van der Linden WA, Segal E, Child MA, Byzia A, Drąg M, Bogyo M., Design and Synthesis of Activity-Based Probes and Inhibitors for Bleomycin Hydrolase. Chem Biol 2015, 22, 995.
Kaczmarczyk, D., Strub, D., Polowy, A., Wilk, K.A., Lochyński, S., Selected Essential Oils in Cosmetic Emulsions: Process Oriented Stability Studies and Antimicrobial Activity Volatiles & Essent. Oils 2015, 2, 27.
Kaczmarczyk, D., Lochyński, S., Microorganisms present in products of biotransformation of tea. J. Cosmetol. 2015, 18, 241.
Kaczmarczyk D., Lochyński S., Kombucha broth as a natural source of organic acids Na pograniczu chemii i biologii, Wydawnictwo Naukowe UAM, Poznań 2015, 35, 13.
Stryjewska, A., Lochyński, S., Biosynthesis of two new derivatives with a fenchane unit, obtained by biotransformation with Aspergillus niger ATCC 10549 PhD Interdysciplinary Journal 2015, 1, 133.
Szmigiel, B.; Żymańczyk-Duda, E.; Lochyński, S., Procedura zabiegowa eksfoliacji z zastosowaniem hydroksykwasów. J. Cosmet. 2015, 18, 119.
Sochaj AM, Świderska KW, Otlewski J, Current methods for the synthesis of homogeneous antibody-drug conjugates Biotechnology Advances 2015, 33, 775.
Malek N, Popiolek-Barczyk K, Mika J, Przewlocka B, Starowicz K, Anandamide, acting via CB2 receptors, alleviates LPS-induced neuroinflammation in rat primary microglial cultures Neural Plasticity 2015, 130639.
Mika J, Jurga A, Starnowska J, Wasylewski M, Rojewska E, Makuch W, Malek N, Przewlocka B, Effects of chronic doxepin and amitriptyline administration in naive mice and in neuropathic pain mice model Neuroscience 2015, 294, 38.
Malek N, Mrugala M, Makuch W, Kolosowska N, Przewlocka B, Binkowski M, Czaja M, Morera E, Di Marzo V, Starowicz K, A multi-target approach for pain treatment - dual inhibition of fatty acid amide hydrolase and TRPV1 in a rat model of osteoarthritis Pain 2015, 156, 890.
Malek N, Pajak A, Kolosowska N, Kucharczyk M, Starowicz K, The importance of TRPV1-sensitisation factors for the development of neuropathic pain Molecular and cellular neurosciences 2015, 65, 1.

Poręba, M.; Mihelic, M.; Krai, P.; Rajkovic, J.; Krężel, A.; Pawełczak, M.; Klemba, M.; Turk, D.; Turk, B.; Latajka, R.; Drąg, M., Unnatural amino acids increase activity and specificity of synthetic substrates for human and malarial cathepsin C. Amino Acids 2014, 46, 931.
Kasperkiewicz, P.; Poreba, M.; Snipas, S. J.; Parker, H.; Winterbourn, C. C.; Salvesen, G. S.; Drag, M., Design of ultrasensitive probes for human neutrophil elastase through hybrid combinatorial substrate library profiling. Proc. Natl. Acad. Sci. U. S. A. 2014, 111, 2518.
Byzia, A; Haeggström, J.Z.; Salvesen, G.S.; Drąg, M., A remarkable activity of human leukotriene A4 hydrolase (LTA4H) toward unnatural amino acids. Amino Acids 2014, 46, 1313.
Poręba, M.; Szalek, A.; Kasperkiewicz, P.; Drąg, M., Positional Scanning Substrate Combinatorial Library (PS-SCL) Approach to Define Caspase Substrate Specificity. Methods Mol. Biol. 2014, 1133, 41.
Balcerzak L., Lipok J., Strub D.J., Lochyński S., Biotransformations of monoterpenes by photoautotrophic microorganisms J. Appl. Microb. 2014, 115, 1523.
Strub, D., Balcerzak, L., Niewiadomska, M., Kula, J., Sikora, M., Gibka, J., Lochyński, S., Stereochemistry of terpene derivatives. Part 8: Synthesis of terpenoids from (1S,4R)- and (1R,4S)-fenchone and their comparative odour characteristics. Tetrahedron-Asymmetr. 2014, 25, 1038.
Strub, D., Balcerzak, L., Lochyński, S., (+)-3-Carene: valuable starting material for synthesis of low-molecular compounds with olfactory properties Curr. Org. Chem. 2014, 18, 446.
Pękala, J., Strub, D.J., Kozioł, A., Lochyński, S., Variability of biological activities of limonoids derived from plant sources. Mini-Rev. Org. Chem. 2014, 11, 269.
Malek N, Kucharczyk M, Starowicz K, Alterations in the anandamide metabolism in the development of neuropathic pain BioMed Research International 2014, 686908
Pustelny, K.; Zdzalik, M.; Stach, N.; Stec-Niemczyk, J.; Cichon, P.; Czarna, A.; Popowicz, G.; Mak, P.; Drag, M.; Salvesen, G. S.; Wladyka, B.; Potempa, J.; Dubin, A.; Dubin, G., Staphylococcal SplB serine protease utilizes a novel molecular mechanism of activation. J. Biol. Chem. 2014, 298, 15544.
Gras, S.; Byzia, A.; Gilbert, F.B.; McGowan, S.; Drąg, M.; Silvestre, A.; Niepceron, A.; Lecaille, F.; Lalmanach, G.; Fabien Brossier, F., Aminopeptidase N1 (Et-ApN1), a M1 metalloprotease of the apicomplexan parasite Eimeria tenella participates in parasite development Eukaryotic Cell 2014, 13, 884.
Kozioł, A., Stryjewska, A., Librowski, T., Sałat, K., Gaweł, M., Moniczewski, A., Lochyński, S., An Overview of the Pharmacological Properties and Potential Applications of Natural Monoterpenes Mini-Rev. Med. Chem. 2014, 14, 1156.
Poreba, M.; Kasperkiewicz, P.; Snipas, S. J.; Fasci, D.; Salvesen, G. S.; Drąg, M., Unnatural amino acids increase sensitivity and provide for the design of highly selective caspase substrates Cell Death & Differentiation 2014, 21, 1482.
Mistry, S.N.; Drinkwater, N.; Ruggeri, C.; Kannan Sivaraman, K.; Loganathan, S.; Fletcher, S.; Drag, M.; Paiardini, A.; Avery, V.M.; Scammells, P.J.; McGowan, S., A Two-pronged Attack: Dual Inhibition of Plasmodium falciparum M1 and M17 Metalloaminopeptidases by a Novel Series of Hydroxamic acid-based Inhibitors. J. Med. Chem. 2014, 57, 9168.
Szmigiel, B., Żymańczyk-Duda, E., Lochyński, S., Hydroxyacids - structure, activity and application in cosmetology and dermatology. Pol. J. Cosmetol. 2014, 17, 127.

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