Gannarapu MR, Indukuri D, Holberg C, Ratia K, Ramos OL, Cardoza S, Velma GR, Musku SR, Qi Z, Slilaty S, Li Z, Rong L, Thatcher GRJ, Xiong R. Discovery of the SARS-CoV-2 Papain-Like Protease Inhibitor MR1-114: From Structure-Based Design to In VivoAntiviral Efficacy. J Med Chem. 2026 Apr 9;69(7):8433-8450. PMID: 41886743.
Khin M, Saldana AC, Rangel-Grimaldo M, Raja HA, Abegg D, Ekiert J, Liu C, Misra S, Ratia K, Adibekian A, Gao Y, Kulp SK, Coss CC, Oberlies NH, Burdette JE. Natural Product Target Identification of Wheldone, a Fungal Metabolite, as a KIF11 Inhibitor in Ovarian Cancer Using the DiffPOP (Differential Protein Precipitation) Method. Mol Cell Proteomics. 2026 May;25(5):101558. PMID: 41881190.
Valencia-Olvera AC, Marottoli FM, Ratia K, Thatcher GR, Tai LM. Proof-of-concept study: APOE4 brain endothelial cells as a phenotypic compound screen. Alzheimers Res Ther. 2026 Feb 2;18(1):54. PMID: 41622232.
2025
Ratia K, Jin S, Abad-Zapatero C, Shetye GS, Demissie R, Qader M, Beautrait A, Nikolic DS, Wolf NM, Rubin EJ, Krandor O, Serbina N, Li G, Pauli GF, Klein LL, Cho S, Franzblau SG, Fotouhi N, Kaneko T, Lee H. Unique Interactions of Novel Rufomycin “Click Chemistry” Analogs with MtbClpC1 and Implications. J Med Chem. 2025 Dec 25;68(24):26298-26310. PMID: 41384615.
Wang Z, Zhang P, Ratia KM, Daher A, Zhao Z, Carlier PR, Jiang Y, Rong L. Development of a comparative high-throughput screening platform for identifying glioblastoma subtype specific inhibitors. Cell Insight. 2025 Sep 29;4(6):100284. PMID: 41321709.
Sacramento CQ, Bott R, Huang Q, Eaton B, Postnikova E, Sabir AJ, Argade MD, Ratia K, Anantpadma M, Carlier PR, Ly H, Liang Y, Rong L. Recombinant Pichinde reporter virus as a safe and suitable surrogate for high-throughput antiviral screening against highly pathogenic arenaviruses. Antiviral Res. 2025 Apr;236:106117. doi: 10.1016/j.antiviral.2025.106117. Epub 2025 Feb 17. PMID: 39970958.
2024
Velma GR, Shen Z, Holberg C, Fu J, Soleymani F, Cooper L, Ramos OL, Indukuri D, Musku SR, Rychetsky P, Slilaty S, Li Z, Ratia K, Rong L, Schenten D, Xiong R, J Thatcher GR. Non-Covalent Inhibitors of SARS-CoV-2 Papain-Like Protease (PLpro): In Vitro and In Vivo Antiviral Activity. J Med Chem. 2024 Aug 22;67(16):13681-13702. doi: 10.1021/ acs.jmedchem. 4c00378. Epub 2024 Aug 5. PMID: 39102360.
Li Y, Shen Z, Ratia K, Zhao J, Huang F, Dubrovyskyii O, Indukuri D, Fu J, Lozano Ramos O, Thatcher GRJ, Xiong R. Structure-Guided Design and Synthesis of Pyridinone-Based Selective Bromodomain and Extra-Terminal Domain (BET)-First Bromodomain (BD1) Inhibitors. J Med Chem. 2024 Feb 22;67(4):2712-2731. doi: 10.1021/acs.jmedchem.3c01837. Epub 2024 Jan 31. PMID: 38295759.
Gordon-Blake J, Ratia K, Weidig V, Velma GR, Ackerman-Berrier M, Penton C, Musku SR, Alves ETM, Driver T, Tai L, Thatcher GRJ. Nicotinamide Phosphoribosyltransferase Positive Allosteric Modulators Attenuate Neuronal Oxidative Stress. ACS Med Chem Lett. 2024 Jan 24;15(2):205-214. doi: 10.1021/acsmedchemlett.3c00391. PMID: 38352833; PMCID: PMC10860701.
2023
Shen Z, Ratia K, Krider I, Ackerman-Berrier M, Penton C, Musku SR, Gordon- Blake JM, Laham MS, Christie N, Ma N, Fu J, Xiong R, Courey JM, Velma GR, Thatcher GRJ. Synthesis, Optimization, and Structure-Activity Relationships of Nicotinamide Phosphoribosyltransferase (NAMPT) Positive Allosteric Modulators (N-PAMs). J Med Chem. 2023 Dec 28;66(24):16704-16727. doi: 10.1021/acs.jmedchem.3c01406. Epub 2023 Dec 14. PMID: 38096366; PMCID: PMC10758216.
Ratia KM, Shen Z, Gordon-Blake J, Lee H, Laham MS, Krider IS, Christie N, Ackerman-Berrier M, Penton C, Knowles NG, Musku SR, Fu J, Velma GR, Xiong R, Thatcher GRJ. Mechanism of Allosteric Modulation of Nicotinamide Phosphoribosyltransferase to Elevate Cellular NAD. Biochemistry. 2023 Feb 21;62(4):923-933. doi: 10.1021/acs.biochem.2c00655. Epub 2023 Feb 6. PMID: 36746631; PMCID: PMC10935581.
2022
Shen Z, Ratia K, Cooper L, Kong D, Lee H, Kwon Y, Li Y, Alqarni S, Huang F,Dubrovskyi O, Rong L, Thatcher GRJ, Xiong R. Design of SARS-CoV-2 PLpro Inhibitors for COVID-19 Antiviral Therapy Leveraging Binding Cooperativity. J Med Chem. 2022 Feb 24;65(4):2940-2955. doi: 10.1021/acs.jmedchem.1c01307. Epub 2021 Oct 19. PMID: 34665619; PMCID: PMC8547495.
Principe DR, Xiong R, Li Y, Pham TND, Kamath SD, Dubrovskyi O, Ratia K, Huang F, Zhao J, Shen Z, Thummuri D, Daohong Z, Underwood PW, Trevino J, Munshi HG, Thatcher GRJ, Rana A. XP-524 is a dual-BET/EP300 inhibitor that represses oncogenic KRAS and potentiates immune checkpoint inhibition in pancreatic cancer. Proc Natl Acad Sci U S A. 2022 Jan 25;119(4): e2116764119. doi: 10.1073/pnas.2116764119. PMID: 35064087; PMCID: PMC8795568.
Salvi A, Young AN, Huntsman AC, Pergande MR, Korkmaz MA, Rathnayake RA, Mize BK, Kinghorn AD, Zhang X, Ratia K, Schirle M, Thomas JR, Brittain SM, Shelton C, Aldrich LN, Cologna SM, Fuchs JR, Burdette JE. PHY34 inhibits autophagy through V-ATPase V0A2 subunit inhibition and CAS/CSE1L nuclear cargo trafficking in high grade serous ovarian cancer. Cell Death Dis. 2022 Jan 10;13(1):45. doi: 10.1038/s41419-021-04495-w. PMID: 35013112; PMCID: PMC8748433.
Shen Z, Ratia K, Cooper L, Kong D, Lee H, Kwon Y, Li Y, Alqarni S, Huang F,Dubrovskyi O, Rong L, Thatcher GR, Xiong R. Potent, Novel SARS-CoV-2 PLpro Inhibitors Block Viral Replication in Monkey and Human Cell Cultures. J Med Chem. 2022 Feb 24;65(4):2940-2955. doi: 10.1021/acs.jmedchem.1c01307. PMID: 33594371; PMCID: PMC7885923.
2021
Ben Aissa M, Lewandowski CT, Ratia KM, Lee SH, Layden BT, LaDu MJ, Thatcher GRJ. Discovery of Nonlipogenic ABCA1 Inducing Compounds with Potential in Alzheimer’s Disease and Type 2 Diabetes. ACS Pharmacol Transl Sci. 2021 Jan 5;4(1):143-154. doi: 10.1021/ acsptsci.0c00149. PMID: 33615168; PMCID :PMC7887740.
2020
Li Y, Zhao J, Gutgesell LM, Shen Z, Ratia K, Dye K, Dubrovskyi O, Zhao H,Huang F, Tonetti DA, Thatcher GRJ, Xiong R. Novel Pyrrolopyridone Bromodomainand Extra-Terminal Motif (BET) Inhibitors Effective in Endocrine-Resistant ER+ Breast Cancer with Acquired Resistance to Fulvestrant and Palbociclib. J Med Chem. 2020 Jul 9;63(13):7186-7210. doi: 10.1021/ acs.jmedchem. 0c00456. Epub 2020 Jun 15. PMID: 32453591; PMCID: PMC8258866.
Lazzara PR, Jain AD, Maldonado AC, Richardson B, Skowron KJ, David BP, Siddiqui Z, Ratia KM, Moore TW. Synthesis and Evaluation of NoncovalentNaphthalene-Based KEAP1-NRF2 Inhibitors. ACS Med Chem Lett. 2020 Feb19;11(4):521-527. doi: 10.1021/ acsmedchemlett. 9b00631. PMID: 32292559; PMCID:PMC7153276.
Lazzara PR, David BP, Ankireddy A, Richardson BG, Dye K, Ratia KM, Reddy SP, Moore TW. Isoquinoline Kelch-like ECH-Associated Protein 1-Nuclear Factor(Erythroid-Derived 2)-like 2 (KEAP1-NRF2) Inhibitors with High Metabolic Stability. J Med Chem. 2020 Jun 25;63(12):6547-6560. doi:10.1021/a cs.jmedchem.9b01074. Epub 2019 Nov 14. PMID: 31682434; PMCID:PMC7315935.
2019
Durst MA, Ratia K, Lavie A. Identifying small molecule probes of ENTPD5through high throughput screening. PLoS One. 2019 Jun 26;14(6):e0210305. doi:10.1371/ journal.pone. 0210305. PMID: 31242188; PMCID: PMC6594577.
2018
Pérez Morales TG, Ratia K, Wang DS, Gogos A, Bloem L, Driver TG, Federle MJ. A novel chemical inducer of Streptococcus quorum sensing acts by inhibiting the pheromone-degrading endopeptidase PepO. J Biol Chem. 2018 Jan 19;293(3):931-940. doi: 10.1074/ jbc.M117.810994. Epub 2017 Dec 4.
Hevener KE, Pesavento R, Ren J, Lee H, Ratia K, Johnson ME. Hit-to-Lead: Hit Validation and Assessment. Methods Enzymol. 2018;610:265-309. doi:10.1016/ bs.mie.2018.09.022. Epub 2018 Oct 25. PMID: 30390802.
2017
Bhattacharjee A, Sinha A, Ratia K, Yin L, Delgado-Rivera L, Petukhov PA,Thatcher GRJ, Wardrop DJ. 2-Arylidene Hydrazinecarbodithioates as Potent, Selective Inhibitors of Cystathionine γ-Lyase (CSE). ACS Med Chem Lett. 2017 Nov21;8(12):1241-1245. doi: 10.1021/ acsmedchemlett. 7b00313. PMID: 29259741; PMCID:PMC5733271.
Yao Y, Kong C, Yin L, Jain AD, Ratia K, Thatcher GR, Moore TW, Driver TG, Miller LW. Time-Gated Detection of Cystathionine γ-Lyase Activity and Inhibition with a Selective, Luminogenic Hydrogen Sulfide Sensor. Chemistry. 2017 Jan 18;23(4):752-756. doi: 10.1002/chem.201604786. Epub 2016 Nov 25. PMID: 27734530; PMCID: PMC5250566.
2016
Park SK, Ratia K, Ba M, Valencik M, Liebman SW. Inhibition of Aβ42 oligomerization in yeast by a PICALM ortholog and certain FDA approved drugs. Microb Cell. 2016 Jan 20;3(2):53-64. doi:10.15698/mic2016.02.476. PMID: 28357335; PMCID: PMC5349104.
2015
Aggarwal C, Jimenez JC, Lee H, Chlipala GE, Ratia K, Federle MJ. Identification of Quorum-Sensing Inhibitors Disrupting Signaling between Rgg and Short Hydrophobic Peptides in Streptococci. mBio. 2015 May 12;6(3):e00393-15.doi: 10.1128/mBio.00393-15. PMID: 25968646; PMCID: PMC4436074.
2014
Ratia K, Kilianski A, Baez-Santos YM, Baker SC, Mesecar A. Structural Basis for the Ubiquitin-Linkage Specificity and deISGylating activity of SARS-CoVpapain-like protease. PLoS Pathog. 2014 May 22;10(5):e1004113. doi:10.1371/journal.ppat.1004113. PMID: 24854014; PMCID: PMC4031219.
Elshabrawy HA, Fan J, Haddad CS, Ratia K, Broder CC, Caffrey M, Prabhakar BS. Identification of a broad-spectrum antiviral small molecule against severe acute respiratory syndrome coronavirus and Ebola, Hendra, and Nipah viruses by using a novel high-throughput screening assay. J Virol. 2014 Apr;88(8):4353-65. doi: 10.1128/JVI.03050-13. Epub 2014 Feb 5. PMID: 24501399; PMCID: PMC3993759.
Ratia K, Light SH, Antanasijevic A, Anderson WF, Caffrey M, Lavie A. Discovery of selective inhibitors of the Clostridium difficile dehydroquinate dehydratase. PLoS One. 2014 Feb 21;9(2):e89356.doi: 10.1371/journal.pone.0089356. PMID: 24586713; PMCID: PMC3931744.
Ratia K, Mehboob S, Lee H. Ligand screening using enzymatic assays. Methods Mol Biol. 2014;1140: 291-304. doi: 10.1007/978-1-4939-0354-2_21. PMID: 24590725
Wang J, Cheng H, Ratia K, Varhegyi E, Hendrickson WG, Li J, Rong L. A comparative high-throughput screening protocol to identify entry inhibitors of enveloped viruses. J Biomol Screen. 2014 Jan;19(1):100-7. doi:10.1177/1087057113494405. Epub 2013 Jul 2. PMID: 23821643; PMCID: PMC4679145.