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<br>
<img src="/media/Logo-02.jpg" alt="Logo" style="width:90%;max-width:500px" class="center">
<a href="/index">About us</a>
<a href="2_research">What we do</a>
<a class="active" >Publications</a>
<a href="/4_members">Meet the team</a>
<a href="/5.1_resources">Resources</a>
<a href="/5_join_us">Join us</a>
<a href="/8_labmood">Lab Mood</a>
<a href="/6.1_Gallery">Gallery</a>
<a href="/7_contact">Contact</a>
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<div id="particles-js"></div>
<div class="header">
<h1>Publications</h1>
<p>Pharmacoinformatics & Systems Pharmacology</p>
<script src="https://cdn.jsdelivr.net/npm/[email protected]/particles.min.js"></script>
</div>
<div class="card">
<h2>2024</h2>
<p><b>Ramírez, D</b>; Rojas, R.; Fierro, H.; Nova, D.; Renard, G.; Ampuero, E.; Fuentealba, J.; Martínez, A.; Gil, C.; Reyes-Parada, M. Phase IIa randomized placebo-controlled clinical trial to evaluate the efficacy of bromhexine in combination with standard therapy in the early treatment of COVID-19 in primary care patients. DOI: 10.31219/osf.io/tha6k.<a href="https://osf.io/preprints/osf/tha6k">OSF Preprints</a>.</p>
<p>De-la-Torre, P.; Martínez-García, C.; Gratias, P.; Mun, M.; Santana, P.; Akyuz, N.; González, W.; Indzhykulian, A.; <b>Ramírez, D</b>. Identification of Druggable Binding Sites and Small Molecules as Modulators of TMC1. DOI: 10.1101/2024.03.05.583611. <a href="https://www.biorxiv.org/content/10.1101/2024.03.05.583611v1">bioRxiv</a>.</p>
<p>Valero-Rojas, J.; Ramírez-Sánchez, C.; Pacheco-Paternina, L.; Valenzuela-Hormazabal, P.; Saldivar-González, F.; Santana, P.; González, J.; Gutiérrez-Bunster, T.; Valdés-Jiménez, A.; <b>Ramírez, D</b>; AlzyFinder: A Machine-Learning-Driven Platform for Ligand-Based Virtual Screening and Network Pharmacology. J. Chem. Inf. Model. DOI: 10.1021/acs.jcim.4c01481. <a href=media/papers/2024-8-AlzyFinder-JCIM.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a>.</p>
<p>Andrini, O.; Soussia, I.; Tardy, P.; Walker, SD.; Peña-Varas, C.; <b>Ramírez, D.</b>; Gendrel, M.; Mercier, M.; El Mouridi, S.; Leclercq-Blondel, A.; González, W.; Schafer, WR.; Jospin, M.; Boulin, T. Constitutive sodium permeability in a C. elegans two-pore domain potassium channel. PNAS 121:43, e2400650121. DOI: 10.1073/pnas.2400650121. <a href=media/papers/2024-7-PNAS-K2P-c-elegans.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a>.</p>
<p><b>Ramírez, D.</b>; Pelez, R.; Lagos, C.; Medina-Franco, J. Editorial: Pharmacoinformatics: new developments and challenges in drug design. Frontiers in Pharmacology, 15:1462070 DOI: 10.3389/fphar.2024.1462070. <a href=media/papers/2024-6-Fronti-Pharmacology-Editporial-Pharmacoinformatics.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a>.</p>
<p>Monroy-Cárdenas, M.; Almarza, C.; Valenzuela-Hormazábal, P.; <b>Ramírez, D.</b>; Urra, F.; Martínez-Cifuentes, M.; Araya-Maturana, R. Identification of Antioxidant Methyl Derivatives of Ortho-Carbonyl Hydroquinones That Reduce Caco-2 Cell Energetic Metabolism and Alpha-Glucosidase Activity. International Journal of Molecular Sciences, 25(15), 8334; DOI: 10.3390/ijms25158334. <a href=media/papers/2024-5-IJMS-Hydroquinones.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Castillo, F.; <b>Ramírez, D.</b> Ramos , M.; Martinez-Arribas, B.; Domingo-Contreras, E.; Mackenzie, T.; Peña-Varas, C.; Lindemann, S.; Montero, F.; Annang, F.; Vicente, F.; Genilloud, O.; González-Pacanowska, D.; Fernandez-Godino, R. Repurposing the Open Global Health Library for the discovery of novel Mpro destabilizers with scope as broad-spectrum antivirals. Frontiers in Pharmacology. 15, 1390705. DOI: 10.3389/fphar.2024.1390705 <a href=media/papers/2024-4-Frontiers-Pharmacogology-SARS-CoV2-MPro-Merck.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Angarita-Rodríguez, A.; Matiz-González, M.; Pinzón, A.; Aristizabal, A.; <b>Ramírez, D.</b>; Barreto, G.; González, J. Enzymatic Metabolic Switches of Astrocyte Response to Lipotoxicity as Potential Therapeutic Targets for Nervous System Diseases. Pharmaceuticals. 17, 648. DOI: 10.3390/ph17050648 <a href=media/papers/2024-3-Pharmaceuticasl-MDPI-metabolic-switches.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Rojas-Prats, E.; Martinez-Gonzalez, L.; Gil, C.; <b>Ramírez, D.</b>; Martinez, A. Druggable cavities and allosteric modulators of the cell division cycle 7 (CDC7) kinase. Journal of Enzyme Inhibition and Medicinal Chemistry. 39, 1, 2301767. DOI: 10.1080/14756366.2024.2301767 <a href=media/papers/2024-2-Druggable-cavities-CDC7.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Feijoo-Coronel, M.; Mendes, N.; <b>Ramírez, D.</b>; Peña-Varas, C.; de los Monteros-Silva, N.; Proaño-Bolaños, C.; de Oliveira, C.; Fernandes, D.; da Silva, J.; da Silva, J.; Pereira, M.; Rodrigues, M.; Teixeira, M.; Granjeiro, P.; Patel, K.; Vaiyapuri, S.; Almeida, J. Antibacterial and Antiviral Properties of Chenopodin-Derived Synthetic Peptides. Antibiotics. 13, 78. 39, 1, 2301767. DOI: 10.3390/antibiotics13010078 <a href=media/papers/2024-1-antibiotics-peptide.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2023</h2>
<p>Martínez-Cifuentes, M.; Soto-Tapia, E.; Linares-Pipón, C.; Bradshaw, B.; Valenzuela-Hormazabal, P.; <b>Ramírez, D.</b>; Muñoz-Torres, P.; Parra, C. Design of β-Keto Esters with Antibacterial Activity: Synthesis, In Vitro Evaluation, and Theoretical Assessment of Their Reactivity and Quorum-Sensing Inhibition Capacity. Pharmaceuticals. 16, 1339. DOI: 10.3390/ ph16101339 <a href=media/papers/2023-6-pharmaceuticals-16-01339.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Vesga-Jiménez, D.; Martín-Jiménez,Grismaldo, A.; Aristizábal-Pachón, A.; Pinzón, A.; Barreto, G.; <b>Ramírez, D.</b>; González, J. Tibolone Pre-Treatment Ameliorates the Dysregulation of Protein Translation and Transport Generated by Palmitic Acid-Induced Lipotoxicity in Human Astrocytes: A Label-Free MS-Based Proteomics and Network Analysis. International Journal of Molecular Sciences. 23(12), 6454. DOI: 10.3390/ijms23126454 <a href=media/papers/2023-5-IJMS-Lipotoxicidy-tibolone.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Barreto, G.; Gonzalez, J.; <b>Ramírez, D.</b>. Network pharmacology and topological analysis on tibolone metabolites and their molecular mechanisms in traumatic brain injury. 165, 115089 DOI: 10.1016/j.biopha.2023.115089 <a href=media/papers/2023-4-Biomedicine-Pharmacotherapy-Network-Tibolone.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Miranda-Salasa, J.; Peña-Varasb, C.; Valenzuela, I.; Olmedod, D.; Zamorae, W.; Chávez-Fumagallig, M.; Azevedoh, D.; Oliveira R.; Maltarolloh, V.; <b>Ramírez, D.</b>; and Medina-Franco, L. Trends and challenges in chemoinformatics research in Latin America. Artificial Intelligence in the Life Sciences, 3,100077. DOI: 10.1016/j.ailsci.2023.100077 <a href=media/papers/2023-3-Chemoinforatics-LATAM.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Giraldo, S.; Bedoya, M.; Peña-Varas, C.; Santana, P.; Bazzocchi, I.; Jiménez, I.; Marder, M.; Vergel, N.; Guerrero, M.; and <b>Ramírez, D.</b>. Iridoid esters from Valeriana pavonii Poepp. & Endl. as GABAA modulators: Structural insights in their binding mode and structure-activity relationship. Journal of Pharmacy & Pharmacognosy Research, 11 (3), 367-380. DOI: 10.56499/jppres22.1570_11.3.367 <a href=media/papers/2023-2-jppres-Valeriana.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Mancipe, J.; Vargas-Pinto, P.; Rodríguez, O.; Borrego-Muñoz, P.; Castellanos, I.; <b>Ramírez, D.</b>; Piñeros, L.; Mejía, M.; and Pombo, L. Anti-Inflammatory Effect of Izalpinin Derived from Chromolaena leivensis: λ-Carrageenan-Induced Paw Edema and In Silico Model. Molecules. 28,3722. DOI: 10.3390/molecules28093722 <a href=media/papers/2023-1-molecules-Anti-Inflamaatory-effect.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2022</h2>
<p>Arévalo, B.; Bedoya, M.; Kiper, A.; Vergara, F.; <b>Ramírez, D.</b>; Mazola, Y.; Bustos, D.; Zuńiga, R.; Cikutovic, R.; Cayo, A.; Rinné, S.; Ramirez-Apan, T.; Sepuĺveda, F.; Cerda, O.; López-Collazo, E.; Decher, N.; Zuńiga, .; Gutierrez, M.; and González, W. Selective TASK‐1 Inhibitor with a Defined Structure−Activity Relationship Reduces Cancer Cell Proliferation and Viability. Journal of Medicinal Chemistry. 65 (22), 15014-15027
DOI: 10.1021/acs.jmedchem.1c00378 <a href=media/papers/2022-10-JMC-TASK1-blokers.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Arrué. L.; Cigna-Méndez, A.; Barbosa, T.; Borrego-Muñoz, P.; Struve-Villalobos, S.; Oviedo, V.; Martínez-García, C.; Sepúlveda-Lara, A.; Millán, N.; Márquez, E.; Muñoz, J.; Santana, P.; Peña-Varas, C.; Barreto, G.; González, J.; and <b>Ramírez, D.</b> New Drug Design Avenues Targeting Alzheimer’s Disease by Pharmacoinformatics-Aided Tools. Pharmaceutics. 14:1814. DOI: 10.3390/pharmaceutics14091914<a href=media/papers/2022-9-pharmaceutics-AD-review.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>; Jara, E.; Jara, N.; Camacho, F.; Cabanillas, A.; Salas, A.; Ormazabal, V.; Rojas, R.; and Sepúlveda, J. Drug repositioning as an alternative for the treatment of COVID-19 and future pandemics. Actualidad en Farmacología y Terapéutica. 20:2<a href=media/papers/2022-8-COVID-SocFarEspana.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Alegría-Arcos, M.; Barbosa, T.; Sepúlveda, F.; Combariza, G.; González, J.; Gil, C.; Martínez, A.; and <b>Ramírez, D.</b> Network pharmacology reveals multitarget mechanism of action of drugs to be repurposed for COVID-19. Frontiers in Pharmacology. 13:952192. DOI: 10.3389/fphar.2022.952192<a href=media/papers/2022-7-frontiers-phar-COVID-REDES.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Mazola, Y.; Márquez-Montesinos, E.; <b>Ramírez, D.</b>; Zúñiga, L.; Decher, N.; Ravens, U.; Yarov-Yarovoy, V.; and González, W. Common Structural Pattern for Flecainide Binding in Atrial-Selective Kv1.5 and Nav1.5 Channels: A Computational Approach. Pharmaceutics. 14, 1356. DOI: 10.3390/pharmaceutics14071356<a href=media/papers/2022-6-Flecainide-receptophore.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Vesga‐Jiménez, D.; Martín‐Jiménez, C.;Grismaldo A.; Aristizábal‐Pachón, A.; Pinzón, A.; Barreto, G.; <b>Ramírez, D.</b>; and González, J. Tibolone Pre‐Treatment Ameliorates the Dysregulation of Protein Translation and Transport Generated by Palmitic Acid‐Induced Lipotoxicity in Human Astrocytes: A Label‐Free MS‐Based Proteomics and Network Analysis. International International Journal of Molecular Sciences. 23, 6454. DOIR: 10.3390/ijms23126454<a href=media/papers/2022-5-IJMS-Tibolone.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>McGovern, J.; González, J.; <b>Ramírez, D.</b>; and Barreto, G. Identification of HMGCR, PPGARG and prohibitin as potential druggable targets of dihydrotestosterone for treatment against traumatic brain injury using system pharmacology. International Immunopharmacology. 108, 108721 <a href=media/papers/2022-4-InterImmunopharma-tibolone.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p> Nozal, V.; Martínez-González, L.; Gomez-Almeria, M.; Gonzalo-Consuegra, C.; Santana, A.; Chaikuad, A.; Pérez-Cuevas, E.; Knapp, S.; Lietha, D.; <b>Ramírez, D.</b>; Petralla, S; Monti, B.; Gil, C.; Martín-Requero, A.; Palomo, V.; Lago, E.; and Martinez, A. TDP-43 Modulation by Tau-Tubulin Kinase 1 Inhibitors: A New Avenue for Future Amyotrophic Lateral Sclerosis Therapy. Journal Medicial Cehmistry. 65, 2, 1585–1607 <a href=media/papers/2022-2-JMC-TDP43-TTBK1.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Peña-Varas, C.; Kanstrup, C.; Vergara-Jaque, A.; González-Avendaño, M.; Crocoll, C.; Mirza, O.; Dreyer, I; Nour-Eldin, H.; and <b>Ramírez, D.</b>. Structural Insights into the Substrate Transport Mechanisms in GTR Transporters through Ensemble Docking. International Journal of Molecular Sciences. <a href=media/papers/2022-3-IJMS-GTRs-massive-docking.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Güiza, F.; Rodríguez-Núñez, Y.; <b>Ramírez, D.</b>; Romero, A,; Henao, J.; Toro, R.; Delgado, J.; and Díaz, G. Crystal structure, Hirshfeld surface analysis, and molecular dynamics simulations of two isostructural N-propargyl-4-(2-oxopyrrolidin-1-yl)- 1,2,3,4-tetrahydroquinolines. Journal of Molecular Structure, 1254, 132280115. DOI: 10.1016/j.molstruc.2021.132280 <a href=media/papers/2022-1-crystal-THQ.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2021</h2>
<p>Guzmán, L., Parra-Cid, C., Guerrero-Muñoz, E., Peña-Varas, C., Polo-Cuadrado, E., Duarte, Y., Castro, R., Nerio, L., Araya-Maturana, R., Assefa, T., Echeverría, j., <b>Ramírez, D.</b>, and Forero-Doria, O. Antimicrobial properties of novel ionic liquids derived from imidazolium cation with phenolic functional groups. Bioorganic Chemistry, 115, 105289. DOI: 10.1016/j.bioorg.2021.105289 <a href=media/papers/2021-9-ILs-BioorganicChemistry.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Gallego-Yerga, L., Ochoa, R., Lans, I., Peña-Varas, C., Alegría-Arcos, M., Cossio, P., <b>Ramírez, D.</b>, and Peláez, R. Application of ensemble Pharmacophore-Based Virtual Screening to the discovery of novel antimitotic tubulin inhibitors. Computational and Structural Biotechnology Journal, 19, 4360–4372. DOI: 10.1016/j.csbj.2021.07.039 <a href=media/papers/2021-8-Pharmacofore-Tubulin-CSBJ.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Nozal, V., García-Rubia, A., Cuevas, E., Pérez, C., Tosat-Bitrián, C., Bartolomé, F., Carro, E., <b>Ramírez, D.</b>, Palomo, V., and Martínez, A. From kinase inhibitors to multitarget ligands as powerful drug leads for Alzheimer’s disease using protein-templated synthesis. Angewandte Chemie International Edition, 60, 2-13. DOI: 10.1002/anie.202106295. <a href=media/papers/2021-7-anie-BACE1.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>, Mejia-gutierrez, M., Insuasty, B., Rinné, S., Kiper, A.K., Platzk, M., Müller, T., Decher, N., Quiroga, J., De-la-torre, P., and González, W. 5-(Indol-2-yl)pyrazolo[3,4-b]pyridines as a New Family of TASK-3 Channel Blockers: A Pharmacophore-Based Regioselective Synthesis. Molecules, 26, 3897. DOI: 10.3390/molecules26133897. <a href=media/papers/2021-6-Molecules-MM3b-TASK3-blocker.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Vargas-Sanchez, K., Losada-Barragán, M., Mogilevskaya, M., Novoa-Herrán, S., Medina, Y., Buendía-Atencio, C., Lorett-Velásquez, V., Martínez-Bernal, J., Gonzalez-Reyes, R., <b>Ramírez, D.</b>, and Petry, K. Screening for Interacting Proteins with Peptide Biomarker of Blood–Brain Barrier Alteration under Inflammatory Conditions. International Journal of Molecular Sciences, 22, 4725. DOI: 10.3390/ijms22094725. <a href=media/papers/2021-4-IJMS-peptide-inflamation.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Kiper, A., Bedoya, M., Stalke, S., Marzian, S., <b>Ramírez, D.</b>, Cruz, A., Peraza, D., Vera‐Zambrano, A., Márquez-Montesinos, J., Arévalo, B., Rinné, S., González, T., Valenzuela, C., González, W., and Decher, N. Identification of a critical binding site for local anesthetics in the side pockets of Kv1 channels. British Journal of Pharmacology, DOI: 10.1111/bph.15480. <a href=media/papers/2021-5-BJP-Kv-Bupi.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Ginex, T., Garaigorta, U., <b>Ramírez, D.</b>, Castro, V., Nozal, V., Maestro, I., García-Cárceles, J., Campillo, N., Martinez, A., Gastaminza, P., and Gil, C. Host-Directed FDA-Approved Drugs with Antiviral Activity against SARS-CoV-2 Identified by Hierarchical In Silico/In Vitro Screening Methods. Pharmaceuticals, 14, 332. DOI: 10.3390/ph14040332.<a href=media/papers/2021-3-pharmaceuticals_COVID19.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Valdés-Jiménez, A.; Peña-Varas, C.; Borrego-Muñoz, P.; Arrue, L.; Alegría-Arcos, M.; Nour-Eldin, H.; Dreyer, I.; Nuñez-Vivanco, G.; and <b>Ramírez, D.</b> PSC-db: A Structured and Searchable 3D-Database for Plant Secondary Compounds. Molecules 26(4), 1124. DOI: 10.3390/molecules26041124. <a href=media/papers/2021-2-molecules_PSCdb.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Rojas-Prats, E., Martinez-Gonzalez, L., Gonzalo-Consuegra, C., Liachko, N., Perez, C., <b>Ramírez, D.</b>, Kraemer, B., Martin-Requero, A., Perez, D., Gil, C., Lago, E., & Martinez, A. Targeting nuclear protein TDP-43 by cell division cycle kinase 7 inhibitors: A new therapeutic approach for amyotrophic lateral sclerosis. European Journal of Medicinal Chemistry, 210, 112968. DOI: 10.1016/j.ejmech.2020.112968. <a href=media/papers/2020-6_EJMC-CDC7-ELA.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2020</h2>
<p>Pérez-Reytor, D., Pavón, A., Lopez-Joven, C., Ramírez-Araya, S., Peña-Varas, C., Plaza, N., Alegría-Arcos, M., Corsini, G., Jaña, V., Pavez, L., Pozo, T., Bastías, R., Blondel, C., <b>Ramírez, D.</b>, & García, K. Analysis of the Zonula occludens Toxin Found in the Genome of the Chilean Non-toxigenic Vibrio parahaemolyticus Strain PMC53.7. Frontiers in Cellular and Infection Microbiolgy, 10, 482. DOI: 10.3389/fcimb.2020.00482. <a href=media/papers/2020-5_Frontiers_Zot.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Gil, C., Ginex, T., Maestro, I., Nozal, V., Barrado-Gil, L., Cuesta-Geijo, M., Urquiza, J., <b>Ramírez, D.</b>, Alonso, C., Campillo, N., & Martinez, A. COVID-19: Drug Targets and Potential Treatments. Journal of Medicinal Chemistry, DOI: 10.1021/acs.jmedchem.0c00606. <a href=media/papers/2020-4_COVID-jmc.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Becerra, G., Rojas-Rodríguez, F., <b>Ramírez, D.</b>, Loaiza, A., Tobar-Tosse, F., Mejía, D., & González, J. Structural and functional computational analysis of nicotine analogs as T potential neuroprotective compounds in Parkinson disease. Computational Biology and Chemistry, 86, 107266. <a href=media/papers/2020-2_CompBiolChem.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Bustos, D., Bedoya, M., <b>Ramírez, D.</b>, Concha, G., Zúñiga, L., Decher, N., Hernández‐Rodríguez, E., Sepúlveda, F., Martínez, L., & González, W. Elucidating the Structural Basis of the Intracellular pH Sensing Mechanism of TASK‐2 K2P Channels. International Journal of Molecular Sciences, 21, 532. <a href=media/papers/2020-1_IJMC-TASK2.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Santos, P.; Lopez-Vallejo, F.; <b>Ramírez, D.</b>; Caballero, J.; Espinosa, D. M.; Hernández-Pando, R.; & Soto, Y. Identification of Mycobacterium tuberculosis CtpF as a target for designing new antituberculous compounds. Bioorganic & Medicinal Chemistry, 28, 115256. <a href=media/papers/2019-7-Bio-CtpF.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2019</h2>
<p>Morales-Navarro, S.; Prent-Peñaloza, L.; Rodríguez Núñez, Y.; Sánchez-Aros, L.; Forero-Doria, O.; González, W.; ... & <b>Ramírez, D.</b>. Theoretical and Experimental Approaches Aimed at Drug Design Targeting Neurodegenerative Diseases. Processes, 7(12), 940. <a href=media/papers/2019-6-GreenChem-NDDs-processes.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>; Concha, G.; Arévalo, B.; Prent-peñaloza, L.; Zúñiga, L.; Kiper, A. K.; Rinné, S.; Reyer-Parada, M.; Decher, N.; González, W.; Caballero, J. Discovery of Novel TASK-3 Channel Blockers Using a Pharmacophore-Based Virtual Screening. International Journal of Molecular Sciences. 2019, 20(6), 4014 <a href=media/papers/2019-IJMS-DR16.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Bedoya, M.; Rinné, S.; Kiper, A.; Decher, N.; González, W.; <b>Ramírez, D.</b> TASK Channels Pharmacology: New Challenges in Drug Design. Journal of Medicinal Chemistry, 62(22), 10044-10058. <a href=media/papers/2019-JMC-TASK-review.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>; Bedoya, M.; Kiper, A. K.; Rinné, S.; Morales-Navarro, S.; Hernández-Rodríguez, E. W.; Sepúlveda, F. V; Decher, N.; González, W. Structure / Activity Analysis of TASK-3 tetrahydropyrido [4,3-d] pyrimidine. International Journal of Molecular Sciences. 20(9), 2252. <a href=media/papers/2019-IJMS-PK-THPP.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Rinné, S., Kiper, A., Vowinkel, K., <b>Ramírez, D.</b>, Schewe, M., Bedoya, M., Aser, D., Gensler, I., Netter, M., Stansfeld, P., Baukrowitz, T., Gonzalez, W., and Decher, N. The molecular basis for an allosteric inhibition of K<sup>+</sup>-flux gating in K<sub>2P</sub> channels. eLife 8:e39476. <a href=media/papers/2019-eLife-Bupi-TASK1.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Novoa-Aponte, L., Ramírez, D., and Argüello, J. The interplay of the metallosensor CueR with two distinct CopZ chaperones defines copper homeostasis in Pseudomonas aeruginosa. Journal of Biological Chemistry, 294(13), 4934-4945.
<a href=media/papers/2019-JBC-CueR-CopZs.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2018</h2>
<p>Forero-Doria, O., Castro, R., Guitierrez, M., González-Valenzuela, D., Santos, L., <b>Ramírez, D.</b>, & Guzman, L. Synthesis of ionic liquids as a new antibacterial alternative to pathogens of the skin and soft tissues. Molecules, 23, 2354. <a href=media/papers/2018-Molecules_ILs.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>, Zuñiga, R., Concha, G., & Zuñiga, L. HCN channels: New therapeutic targets for pain treatment. Molecules, 23, 2094. <a href=media/papers/2018-Molecules-HCN_review.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Parmar, J., Quintana, J., <b>Ramírez, D.</b>, Laubenbacher, R., Argüello, & Mendes, P. An important role for periplasmic storage in Pseudomonas aeruginosa copper homeostasis revealed by a combined experimental and computational modeling study. Molecular microbiology, 00, 1-13. <a href=media/papers/2018_Arguello_Julia.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>, Caballero, J. Is it reliable to take the molecular docking top first scoring position as the best solution without considering available structural data? Molecules, 23, 1038. <a href=media/papers/2018-Molecules-docking.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2017</h2>
<p><b>Ramírez, D.</b>, González, W., Fissore, R., & Carvacho, I. Conotoxins as Tools to Understand the Physiological Function of Voltage-Gated Calcium (Ca<sub>V</sub>) Channels. Marine drugs, 15, 313. <a href=media/papers/2017-Conotoxines.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Ojeda, P. G., <b>Ramírez, D.</b>, Alzate-morales, J., Caballero, J., Kaas, Q., & González, W. Computational Studies of Snake Venom Toxins. Toxins, 10(8), 1–24. <a href=media/papers/2017_snake-toxins.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>, Arévalo, B., Martínez, G., Rinné, S., Sepúlveda, F., Decher, N. & González, W. Side fenestration provide and ‘anchor’ for stable binding of A1899 to the pore of TASK-1 potassium channel. Molecular Pharmaceutics, 14(7):2197–2208. <a href=media/papers/2017_A1899.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Jørgensen, M., Xu, D., Crocoll, C., <b>Ramírez, D.</b>, Motawia, M., Olsen, C., Nour-Eldin, H., & Halkier, B. Origin and evolution of a transporter substrate specificity. eLife, 6:e19466. <a href=media/papers/2017_eLife_NPFs.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Resende, L., Ramos, R., Collaço, R., Simioni, L., <b>Ramírez, D.</b>, Gonzalez, W., Soares, A., Calderon, L., Marangoni, S., and Da Silva, D. Exploring and understanding the functional role, and biochemical and structural characteristics of an acidic phospholipase A2, AplTx-I, purified from Agkistrodon piscivorus leucostoma snake venom. Toxicon, 127:22-36. <a href=media/papers/2017-Toxicon.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2016</h2>
<p>Almeida, J., Lancellotti, M., Soares, A., Calderon, L., <b>Ramírez, D.</b>, González, W., Marangoni, S., and Da Silva, S. CoaTx-II, a new dimeric Lys49 phospholipase A2 from Crotalus oreganus abyssus snake venom with bactericidal potential: Insights into its structure and biological roles. Toxicon, 120:147-158. <a href=media/papers/2016_Toxicon_CoaTxII.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Rodríguez Y., Gutiérrez M., <b>Ramírez, D.</b>, Alzate-Morales J., Bernalc C., Güizac F., Romero A. Novel N-allyl/propargyl tetrahydroquinolines: Synthesis via three-component cationic imino Diels- Alder reaction, binding prediction and evaluation as cholinesterase inhibitors. Chemical Biology & Drug Design, 88(4), 498-510. <a href=media/papers/2016-ChemBiolDrugDesign_Cholinesterase_inhibitor.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b>, Caballero J. Is it reliable the use of common molecular docking methods to compare the binding affinities of pair of enantiomers to their protein target? International Journal of Molecular Sciences, 17, 4. <a href=media/papers/2016_ijms_Docking.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p><b>Ramírez, D.</b> Computational methods applied to rational drug design. The Open Medical Chemistry Journal, 10:35-48. <a href=media/papers/2016_Computatuonal_methods_drugDesign_TOMCJ.pdf.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>Goldstein1 M., Rinné S., Kiper A., <b>Ramírez, D.</b>, Netter M., Bustos D., Ortiz-Bonnin D., González W., Decher N. Functional mutagenesis screens reveal the ‘cap structure’ formation in disulfide-bridge free TASK channels. Scientific Reports, 6, 19492. <a href=media/papers/2016_Scientic_Rep_Cap_strucure.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2015</h2>
<p>Kiper A., Rinné S., rolfes C., <b>Ramírez, D.</b>, Seebohm G., Netter M., González W., Decher N. Kv1.5 blockers preferentially inhibit TASK-1 channels: TASK-1 as a target against atrial fribrillation and obstructive sleep apnea? Pflügers Archiv – European Journal of Physiology, 467:1081-1090. <a href=media/papers/2015_Kv1.5_blockers.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
<p>González W., Valdebenito B., Caballero J., Riadi G., Riedelsberger J., Martínez G., <b>Ramírez, D.</b>, Zuñiga L., Sepúlveda F., Dreyer I., Janta M., Becker D. K<sub>2P</sub> channels in plants and animals. Pflügers Archiv – European Journal of Physiology, 467:1091-1104. <a href=media/papers/2015_k2p_plant_animals.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
</div>
<div class="card">
<h2>2014</h2>
<p>Sabogal-Arango A., Barreto G., <b>Ramírez, D.</b>, González-Mendoza J., Barreto V., Morales L. & González J. Computational insights of the interaction among Sea anemones Neurotonxins and Kv<sub>1.3</sub> Channels. Bioinformatics and Biology insights, 8:73-81. <a href=media/papers/2014_Computational-Insights-of-the-Interaction-among-Sea-Anemones-Neurotoxi.pdf download><i class='far fa-file-pdf' style='font-size:20px;color:#294e71'></i></a></p>
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