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David Mauricio Ramirez Sanchez

Profesor Asistente

Universidad de Concepción

Concepcion, Chile

Líneas de Investigación


Multi-target Drug Design, Medicinal Chemistry, Molecular Simulation, Computer-aided Drug Design, Pharmacology, Pharmacoinformatics, Systems pharmacology

Educación

  •  Licenciatura en Química, UNIVERSIDAD DISTRITAL FRANCISCO JOSE DE CALDAS. Colombia, 2009
  •  Doctorado en Ciencias Aplicadas, UNIVERSIDAD DE TALCA. Chile, 2017
  •  Farmacia, UNIVERSIDAD NACIONAL DE COLOMBIA. Colombia, 2012
  •  Químico Farmacéutico, UNIVERSIDAD NACIONAL DE COLOMBIA. Colombia, 2012
  •  Licenciado en Química, UNIVERSIDAD DISTRITAL FRANCISCO JOSE DE CALDAS. Colombia, 2009
  •  Inteligenica Artifical, Universidad Catolica de Murcia. España, 2023

Experiencia Académica

  •   Profesor asistente Part Time

    UNIVERSIDAD AUTONOMA DE CHILE

    Facultad de Ciencias de la Salud

    Talca, Chile

    2016 - 2017

  •   Asistente de investigación Part Time

    UNIVERSIDAD DE TALCA

    Facultad de Ingeniería

    Talca, Chile

    2015 - 2016

  •   Postdoctoral fellow Full Time

    WORCESTER POLYTECHNIC INSTITUTE

    Worcester, Estados Unidos

    2017 - 2018

  •   Postdoctorado Part Time

    UNIVERSIDAD DE TALCA

    Facultad de Ingenieria

    Talca, Chile

    2016 - 2017

  •   Profesor asistente Part Time

    UNIVERSIDAD AUTONOMA DE CHILE

    Facultad de Ciencias de la Salud

    Santiago, Chile

    2019 - A la fecha

  •   Profesor Asistente Full Time

    UNIVERSIDAD DE CONCEPCION

    Facultad de Ciencias Biológicas

    Concepción, Chile

    2021 - A la fecha

Experiencia Profesional

  •   Químico Farmacéutico de Producción Full Time

    Unidossis

    Bogotá, Colombia

    2012 - 2013

  •   Químico Farmacéutico Full Time

    Hospital Universitario Mayor MEDERI

    bogotá, Colombia

    2013 - 2013

  •   Asistente de investigación Part Time

    Universidad de Talca

    Talca, Chile

    2015 - 2016

  •   Postdoctoral fellow Full Time

    Worcester Polytechnic Institute

    Worcester, Estados Unidos

    2017 - 2018

Formación de Capital Humano


GRADUATE THESIS ADVISOR
• 2020 – current: José Carlos Márquez. PhD in Sciences, Universidad de Talca. Consensual local anesthetic binding site among atrial fibrillation relevant ion channels.
• 2023 – current: Jessica Valero. PhD in Chemistry, Universidad de Concepción.
• 2023 – current: Kevin Cobos. PhD in Molecular Physical Chemistry, Universidad Andrés Bello. Interacción entre Oligómeros de Beta-Amiloide y el Péptido KLVFF.
• 2023 – current: Paulina Valenzuela. Master in Biochemistry and Bioinformatics, Universidad de Concepción. Diseño de ligandos multitarget, una estrategia alternativa para tratar la enfermedad de Alzheimer
• 2023 – current: Laura Pacheco. Master in Biochemistry and Bioinformatics, Universidad de Concepción. Desarrollo de sulfonamidas como moduladores alostéricos positivos del receptor de glicina ?3: una alternativa terapéutica potencial para el tratamiento del dolor crónico.
• 2023 – current: Victoria Oviedo. Master in Neurobiology, Universidad de Concepción.
• 2023 – current: Alejandro Amaya. Master in Artificial Intelligence. Pontificia Universidad Javeriana. Identificación de ligándoselas multitarget como pontencial alternativa terapéutica para el tratamiento de la enfermedad de Alzheimer: Una aproximación desde Machine Learning
• 2023: Jazmina Bongain. Master. Universidad de Chile. Identification of key protein targets by which mesenchymal stem cell-derived secretome repair perinatal asphyxia damage: A bioinformatics approach.
• 2023: Javiera Armijo. Master in Neurosciences, Universidad Autónoma de Chile. Diseño de péptidos inhibidores de la formación y agregación de la placa de ?-amiloide (A?).
• 2023: Alexis Sepúlveda. Master in Neurosciences, Universidad Autónoma de Chile. Ejercicio físico como posible tratamiento preventivo no farmacológico de la enfermedad de Alzheimer basado en la interacción proteína-proteína de una red farmacológica.
• 2021. Lily Arrué. Master in Neurosciences, Universidad Autónoma de Chile. Targeting Alzheimer's disease through computational polypharmacology.

UNDERGRADUATE THESIS ADVISOR
• 2022 – current: Sebastian Fuentes. Faculty of Pharmacy. Universidad de Concepción. Diseño de péptidos inhibidores de la agregación del péptido ?-amiloide asistido por computadora.
• 2022 – current: Francisca Estuardo. Faculty of Pharmacy. Universidad de Concepción. Rol neuroprotector de cannabinoides presentes en un aceite cannábico enriquecido en CBD en modelos celulares de neurodegeneración.
• 2023: Claudia Martínez. Faculty of Pharmacy. Universidad Nacional de Colombia. Identificación de nuevos compuestos
con potencial actividad frente al canal TMC1 para tratar o prevenir la sordera mediante métodos quimioinfomáticos
• 2022: Brian Fell. Faculty of Chemistry. Universidad de Concepción. Diseño de moduladores alostéricos positivos para
el receptor nicotinico de acetilcolina ?7 humano mediante metodos de farmacoinformatica y machine learning.
• 2022: Victoria Oviedo. Department of Pharmacy. Universidad Autónoma de Chile.
• 2022: Alexandra Cigna. Department of Pharmacy. Universidad Autónoma de Chile. Diseño de compuestos con perfil
polifarmacológico para el tratamiento de la enfermedad de Alzheimer mediante el uso de farmacoinformática.
• 2022: Jordán Alegría. Department of Pharmacy. Universidad Autónoma de Chile. Study of polypharmacological profiles in key targets against Alzheimer disease.
• 2018: Laura Sánchez. Department of Chemistry, Universidad del Quindío. Study and identification of novel ROP18 modulators with potential therapeutic activity against Toxoplasma gondii.
• 2017: Carlos Peña. Bioinformatics Engineer School. Universidad de Talca. Thesis: Structural analysis of the blocker A1899 pathway to the binding site in TASK1 potassium channels.


Difusión y Transferencia


- 2023: Sociedad de Bioinformática Chilena. Vicepresidente


Premios y Distinciones

  •   Bachelor thesis Distinguished with meritorious mention

    UNIVERSIDAD DISTRITAL FRANCISCO JOSE DE CALDAS

    Colombia, 2009

    Bachelor thesis: "Experimental and theoretical exploration of synthesis’ routes to obtain analogous to natural rubber" Distinguished with meritorious mention

  •   Scholarship for Ph.D. studies

    UNIVERSIDAD DE TALCA

    Chile, 2013

    Scholarship for Ph.D. studies from 2013 to 2017

  •   Research internship grant

    UNIVERSIDAD DE TALCA

    Chile, 2016

    “Estadías de estudiantes de postgrado dirigidas a prospectar innovaciones en el area de alimentos saludables, en entidades de nivel internacional” Framed in the “Convenio de desempeño para el apoyo a la innovación en la educación superior”

  •   Top 2% most cited Scientist (position 332.071) in 2020

    UNIVERSIDAD AUTONOMA DE CHILE

    Estados Unidos, 2020

    Top 2% most cited Scientist (position 332.071) in 2020 according to Stanford University study published in Plos Biology.


 

Article (54)

Antibacterial and Antiviral Properties of Chenopodin-Derived Synthetic Peptides
Druggable cavities and allosteric modulators of the cell division cycle 7 (CDC7) kinase
Anti-Inflammatory Effect of Izalpinin Derived from <i>Chromolaena leivensis</i>: λ-Carrageenan-Induced Paw Edema and In Silico Model
Design of β-Keto Esters with Antibacterial Activity: Synthesis, In Vitro Evaluation, and Theoretical Assessment of Their Reactivity and Quorum-Sensing Inhibition Capacity
Iridoid esters from<i> Valeriana</i><i> pavonii</i> Poepp. & Endl. as GABAA modulators: Structural insights in their binding mode and structure-activity relationship
Network pharmacology and topological analysis on tibolone metabolites and their molecular mechanisms in traumatic brain injury
Trends and challenges in chemoinformatics research in Latin America
Common Structural Pattern for Flecainide Binding in Atrial-Selective K<sub>v</sub>1.5 and Na<sub>v</sub>1.5 Channels: A Computational Approach
Crystal structure, Hirshfeld surface analysis, and molecular dynamics simulations of two isostructural N-propargyl-4-(2-oxopyrrolidin-1-yl)-1,2,3,4-tetrahydroquinolines
Identification of HMGCR, PPGARG and prohibitin as potential druggable targets of dihydrotestosterone for treatment against traumatic brain injury using system pharmacology
Network pharmacology reveals multitarget mechanism of action of drugs to be repurposed for COVID-19
New Drug Design Avenues Targeting Alzheimer's Disease by Pharmacoinformatics-Aided Tools
Selective TASK-1 Inhibitor with a Defined Structure-Activity Relationship Reduces Cancer Cell Proliferation and Viability
Structural Insights into the Substrate Transport Mechanisms in GTR Transporters through Ensemble Docking
TDP-43 Modulation by Tau-Tubulin Kinase 1 Inhibitors: A New Avenue for Future Amyotrophic Lateral Sclerosis Therapy
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
5-(Indol-2-yl)pyrazolo[3,4-b]pyridines as a New Family of TASK-3 Channel Blockers: A Pharmacophore-Based Regioselective Synthesis
Antimicrobial properties of novel ionic liquids derived from imidazolium cation with phenolic functional groups
Application of ensemble pharmacophore-based virtual screening to the discovery of novel antimitotic tubulin inhibitors
From Kinase Inhibitors to Multitarget Ligands as Powerful Drug Leads for Alzheimer's Disease using Protein-Templated Synthesis
Host-Directed FDA-Approved Drugs with Antiviral Activity against SARS-CoV-2 Identified by Hierarchical In Silico/In Vitro Screening Methods
Identification of a critical binding site for local anaesthetics in the side pockets of K(v)1 channels
PSC-db: A Structured and Searchable 3D-Database for Plant Secondary Compounds
Screening for Interacting Proteins with Peptide Biomarker of Blood-Brain Barrier Alteration under Inflammatory Conditions
Screening for Interacting Proteins with Peptide Biomarker of Blood–Brain Barrier Alteration under Inflammatory Conditions
Targeting nuclear protein TDP-43 by cell division cycle kinase 7 inhibitors: A new therapeutic approach for amyotrophic lateral
Analysis of theZonula occludensToxin Found in the Genome of the Chilean Non-toxigenicVibrio parahaemolyticusStrain PMC53.7
COVID-19: Drug Targets and Potential Treatments
Elucidating the Structural Basis of the Intracellular pH Sensing Mechanism of TASK-2 K2P Channels
Identification of Mycobacterium tuberculosis CtpF as a target for designing new antituberculous compounds
Structural and functional computational analysis of nicotine analogs as potential neuroprotective compounds in Parkinson disease
Discovery of Novel TASK-3 Channel Blockers Using a Pharmacophore-Based Virtual Screening
Structure/Activity Analysis of TASK-3 Channel Antagonists Based on a 5,6,7,8 tetrahydropyrido[4,3-d]pyrimidine
TASK Channels Pharmacology: New Challenges in Drug Design
The interplay of the metallosensor CueR with two distinct CopZ chaperones defines copper homeostasis in Pseudomonas aeruginosa
The molecular basis for an allosteric inhibition of K+-flux gating in K-2P channels
Theoretical and Experimental Approaches Aimed at Drug Design Targeting Neurodegenerative Diseases
An important role for periplasmic storage in Pseudomonas aeruginosa copper homeostasis revealed by a combined experimental and computational modeling study
Computational Studies of Snake Venom Toxins
HCN Channels=> New Therapeutic Targets for Pain Treatment
Is It Reliable to Take the Molecular Docking Top Scoring Position as the Best Solution without Considering Available Structural Data?
Novel Alkylimidazolium Ionic Liquids as an Antibacterial Alternative to Pathogens of the Skin and Soft Tissue Infections
Exploring and understanding the functional role, and biochemical and structural characteristics of an acidic phospholipase A(2), ApITx-I, purified from Agkistrodon piscivorus leucostoma snake venom
Origin and evolution of transporter substrate specificity within the NPF family
Side Fenestrations Provide an "Anchor" for a Stable Binding of A1899 to the Pore of TASK-1 Potassium Channels
Structure-Based Discovery of Potential Two-Pore-Domain Potassium Channel Task-3 (K(2P)9.1) Modulators
CoaTx-II, a new dimeric Lys49 phospholipase A2 from Crotalus oreganus abyssus snake venom with bactericidal potential: Insights into its structure and biological roles
Computational methods applied to rational drug design
Functional mutagenesis screens reveal the 'cap structure' formation in disulfide-bridge free TASK channels
Is it reliable to use common molecular docking methods for comparing the binding affinities of enantiomer pairs for their protein target?
Novel N -allyl/propargyl tetrahydroquinolines: Synthesis via Three-component Cationic Imino Diels-Alder Reaction, Binding Prediction, and Evaluation as Cholinesterase Inhibitors
Kv1.5 blockers preferentially inhibit TASK-1 channels: TASK-1 as a target against atrial fibrillation and obstructive sleep apnea?
Computational Insights of the Interaction among Sea Anemones Neurotoxins and Kv1.3 Channel
Theoretical and Experimental Exploration of Organic Synthesis Routes to Obtain Natural Rubber Analogues

BookSection (2)

Let’s talk pharmacology!!!
Targeting Alzheimer’s Disease Through Pharmacoinformatics: New Challenges in Drug Design.

Proyecto (22)

Development of an infectious process-activated protide with therapeutic potential for control of fish farming diseases
Interdisciplinary generation of highly specific peptidic blockers of TASK-3 channel with antitumoral effect and targeting moiety for nanotherapeutics.
Ligand and structure-based polypharmacology of K+ channels from the nociceptive primary sensory neurons: an alternative in pain treatment
Multidisciplinary center for biotecnology and molecular biology for climate change adaptative in forest resources (cebioclif)
Open Chemoinformatics
Ori-tanpakushitsu: creación de modelos tridimensionales para la comprensión de las fuerzas intermoleculares involucradas en la acción farmacológica
Uso de un Escape Room como recurso docente en las asignaturas de Farmacología
Let's talk about pharmacology!!!
Towards systems pharmacology to design multi-target directed ligands as therapeutic alternatives for Alzheimer’s disease.
Development of novel therapeutic alternatives for alcohol-use disorders: a multidisciplinary approach.
Identificación de moduladores del canal iónico TMC1 como alternativa terapéutica para el tratamiento de la sordera.
Reposicionamiento de medicamentos para tratamiento de la pandemia por coronavirus (COVID-19)
Multi-target drug design against neurodegenerative diseases.
Scholarship Programme for Young Professors and Researchers from Latin American Universities
Structural insights into the substrate specificity and transport mechanisms in the Nitrate/Peptide Transporter (NPF) Family.
Ana&#769;lisis metabolo&#769;mico de los efectos neuroprotectores de la tibolona en un modelo astrocitico humano de lipotoxicidad con a&#769;cido palmi&#769;tico
Development of a novel protocol to predict what class of secondary metabolite is transported by a specific plant transporter
STRUCTURAL AND FUNCTIONAL UNDERSTANDING OF ION CHANNELS OF THE ALMT (ALUMINUM ACTIVATED MALATE TRANSPORTER) FAMILY
UNDERSTANDING THE STRUCTURAL MECHANISM OF SELECTIVE BLOCKERS OF PH-GATED K2P CHANNELS
Development and functional evaluation of synthetic molecules as TASK-3 potassium channel inhibitors for treatramnt of solid tumors
Identificación de reacciones controladoras de lipotoxicidad inducida por ácido palmítico en un modelo computacional multiómico astrocitario.
InSecTr – International Network to Study Secondary Metabolite Transport in Plants

Review (2)

Conotoxins as Tools to Understand the Physiological Function of Voltage-Gated Calcium (Ca-V) Channels
K-2P channels in plants and animals
68
David Ramirez

Profesor Asistente

Facultad de Ciencias Biológicas

Universidad de Concepción

Concepcion, Chile

12
Wendy Gonzalez

Director of the Center for Bioinformatics, Simulations and Modeling (CBSM)

Bioinformática

CENTRO DE BIOINFORMÁTICA Y SIMULACIÓN MOLECULAR (CBSM)/ UNIVERSIDAD DE TALCA

Talca, Chile

7
Julio Caballero

Full Professor

Departamento de Bioinformática

Universidad de Talca

Talca, Chile

5
Bárbara Arévalo

Investigador

Investigación

Centro de Estudios de Alimentos Procesados

Talca, Chile

5
Leandro Zuñiga

Profesor Asociado

Medicine

Universidad de Talca

Talca, Chile

5
Mauricio Bedoya

Profesor Auxiliar

CIEAM

Universidad Católica del Maule

Talca, Chile

5
Daniel Bustos

Auxiliar Professor

Vicerrectoría de Investigación y Postgrado

Universidad Católica del Maule

Talca, Chile

4
Melissa Alegría

Académico Asociado

Facultad de Ingeniería y Negocios

Universidad de Las Américas

Santiago, Chile

3
Ingo Dreyer

Professor Titular

Bioinformatica

Universidad de Talca

Talca, Chile

2
Erix Hernández

Full Professor/Departamento de Medicina Traslacional, Académico-Investigador

Departamento de Medicina Traslacional

Universidad Católica del Maule

Talca, Chile

2
Samuel Morales

Académico Conferenciante

Universidad de Talca

Talca, Chile

2
Miguel Reyes

Full Professor

Facultad de Ciencias Médicas

UNIVERSIDAD DE SANTIAGO DE CHILE, FACULTAD DE CIENCIAS MÉDICAS, ESCUELA DE MEDICINA

Santiago, Chile

2
Paula Santana

Profesora Asistente e Investigadora

Facultad de Ingeniería

Universidad Autónoma de Chile

Santiago, Chile

2
Francisco Sepúlveda

Research

Laboratorio Biología Molecular

CENTRO DE ESTUDIOS CIENTÍFICOS (CECS)

Valdivia, Chile

1
Leonardo Pavez

Profesor Asociado

Instituto de Ciencias Naturales

Universidad de Las Américas

Santiago, Chile

1
Carlos Blondel

Profesor Asistente

Instituto de Ciencias Biomédicas

Universidad Andrés Bello

Santiago, Chile

1
Roberto Bastías

Profesor

Facultad de Ciencias

Pontificia Universidad Católica de Valparaíso

Valparaíso, Chile

1
Diliana Pérez

Docente con grado de doctor

Universidad Autónoma de Chile

Santiago, Chile

1
Oscar Forero

Investigador

Instituto de Química de Recursos Naturales

Universidad de Talca

Talca, Chile

1
Gonzalo Riadi

Assistant Professor

Bioinformatics

Universidad de Talca

Talca, Chile

1
Braulio Valdebenito

.

.

.

TALCA, Chile

1
Ana Martinez

Research Professor

Centro Investigaciones Biológicas (CIB)

Consejo Superior de Investigaciones Científicas (CSIC)

Madrid, Chile

1
Gino Corsini

Director Instituto Ciencias Biomédicas

Instituto de Ciencias Biomédicas

Universidad Autónoma de Chile

Santiago, Chile

1
Ingrid Carvacho

Assistant Professor

Medicina Traslacional

Universidad Católica del Maule

Talca, Chile

1
Talia del Pozo

Académico Investigador

FAVA

Universidad de Las Américas

Santiago, Chile

1
MARIA CARMEN LOPEZ

Assistant professor

UNIVERSIDAD AUSTRAL DE CHILE

Valdivia, Chile

1
Gabriel Nuñez

Jefe de Carrera, Ingeniería Civil Informática

Ciencias Naturales y Tecnología

Universidad de Aysén

Coyhaique, Chile

1
Yeray Rodríguez

Investigador

Universidad de Talca

talca, Chile

1
Paola Ojeda

Profesor Adjunto

Ciencias Pre-clinicas

Universidad Católica del Maule

Talca, Chile

1
Janin Riedelsberger

Profesora Asistente

Departamento de Bioinformática

Universidad de Talca

Talca, Chile

1
Ricardo Castro

investigador

Instituto de ciencias químicas aplicadas

Universidad Autonomade Chile

Talca, Chile

1
Luis Guzman

Profesor Asistente

Departamento Bioquímica Clínica e Inmunohematología

UNIVERSIDAD DE TALCA

Talca, Chile

1
Nicolás Plaza

Profesor

Ciencias de la Salud

Universidad Autónoma de Chile

Santiago, Chile

1
Oscar Cerda

Associate Professor

Molecular and Cellular Biology

Universidad de Chile

Santiago, Chile

1
Angel Cayo

ACADÉMICO INVESTIGADOR

MEDICINA TRASLACIONAL

Universidad Católica del Maule

TALCA, Chile

1
Javier Echeverría

Profesor Asistente e Investigador

Departamento de Ciencias del Ambiente

UNIVERSIDAD DE SANTIAGO DE CHILE

Santiago de Chile, Chile