
Vinicius Ramos Henriques Maracaja Coutinho
Associate Professor
Univesidad de Chile
Santiago, Chile
(i) computational systems biology; (ii) RNA bioinformatics; (iii) comparative genomics; (iv) epitranscriptomics of diseases; (v) single-cell transcriptomics; and (vi) development of computational tools/databases
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Bioinformatics, UNIVERSIDADE DE SAO PAULO. Brasil, 2013
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Biological Sciences, UNIVERSIDADE FEDERAL DA PARAIBA. Brasil, 2006
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Assistant Professor Full Time
UNIVERSIDAD MAYOR
Facultad de Ciencias
Santiago, Chile
2013 - 2017
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Assistant Professor Full Time
UNIVERSIDAD DE CHILE
Facultad de Ciencias Químicas y Farmacéuticas
Santiago, Chile
2018 - 2022
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Associate Professor Full Time
UNIVERSIDAD DE CHILE
Facultad de Ciencias Químicas y Farmacéuticas
Santiago, Chile
2022 - At present
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Visiting Professor Other
FUNDACAO OSWALDO CRUZ
Instituto Gonçalo Moniz
Salvador, Brasil
2023 - 2023
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Visiting Researcher Other
UNIVERSITY OF CAMBRIDGE
Gurdon Institute
Cambridge, Reino Unido
2018 - 2018
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Visiting Researcher Other
Institut de Recherche pour le Développement - IRD
Montpellier, Francia
2022 - 2022
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Visiting Researcher Other
UNIVERSIDADE FEDERAL DE PARAIBA
Joao Pessoa, Brasil
2014 - 2015
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Fundador Other
Beagle Bioinformatics
Santaigo, Chile
2013 - At present
- Founder and Director of the Graduate Program on Bioinformatics and Computational Biology from the Facultad de Ciencias Químicas y Farmacéuticas de la Universidad de Chile, launched in 2019.
- He coordinado y participado como profesor de cátedra de diversos cursos referentes a Estadística, Programación, Genómica y Bioinformática para distintas carreras de pregrado en la Universidad de Chile y Universidad Mayor.
- He coordinado y participado como profesor de cátedra de diversos cursos referentes a Estadística, Programación, Genómica y Bioinformática para distintos programas de doctorado en la Universidad de Chile, Universidad Mayor y Universidad de La Frontera.
Mentoring
PhD: 8 graduated students since 2019, 11 in progress.
MSc: 7 graduated students since 2015, 1 in progress.
Undergrad: 6 graduated students since 2013, 0 in progress.
PhD Students
01. Victor Montenegro Marcelino, “Evolução de enzimas modificadoras de RNA em Archaea”. PhD Program in Bioinformatics, Universidade Federal do Rio Grande do Norte (Brazil). 2021-Present.
02. Rauni Borges Marques, “Comunicação célula-célula no câncer de pâncreas a nível de células únicas modulada por ceRNAs associados ao tratamento quimioterápico”. PhD Program in Bioinformatics, Universidade de São Paulo (Brazil). 2021-Present.
03. Juan Pablo Silva Rodriguez, “Efectos del estrés crónico y el sexo biológico sobre la modificación epitranscriptomica m6A y la destinación de transcritos a la neuropila en hipocampo dorsal de ratas”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2022-Present.
04. Sebastián Ignacio Urquiza Zurich, “Papel de la modificación epitranscriptómica N6-metiladenosina (m6A) en la hipertrofia del cardiomiocito inducida por norepinefrina”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2021-Present.
05. Allan Javier Peñaloza Otarola, “Identificación de triplex DNA-DNA.RNA modulados por tapRNAs en la fibrogénesis”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2021-Present.
06. César Alejandro Navarrete Mesias, “Rol de la helicasa de RNA DDX3X como sensor inmunológico del RNA de longitud completa del virus de la inmunodeficiencia humana de tipo 1 (HIV-1) durante la infección de microglías humanas”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2020-Present.
07. Richard Ponce Cusi, “Redes de coexpresión génica de muestra única como herramienta para la estimación de sobrevida en cáncer de mama”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2020-Present.
08. Wladimir Antonio Corrales Ibáñez, “Efectos transcriptómicos y epitranscriptómicos del tipo m6A inducidos por el estrés crónico por restricción de movimiento sobre vías neuroplásticas en el hipocampo dorsal de ratas hembra y macho”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2020-Present.
09. Danica Jiménez Gallegos, “LncRNAs de competencia endógena cardíacos en circulación en insuficiencia cardíaca inducen la transición epitelio-mesenquimal en células de cáncer de colon DLD-1”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2020-Present.
10. Francisco Javier Sigcho Garrido, “La expresión diferencial de RNAs no codificantes largos (lncRNAs) en células IPSC trisómicas afecta el proceso de diferenciación hacia cardiomiocitos”. PhD Program in Biochemistry, Universidad de Chile (Chile). 2020-Present.
11. Marcell Horacio Leonario Rodriguez, “Mapeo de la composición del microbioma intestinal chileno: Caracterización del microbioma de referencia para estudios de determinación de disbiosis intestinal a nivel nacional”. PhD Program in Cellular and Molecular Biology, Universidad de La Frontera (Chile). 2019-Present.
12. Camilo Felipe Marcelo Rebolledo Padilla, “RNAs circulares asociados al perfil de expresión de microRNAs desregulados en insuficiencia cardíaca”. PhD Program in Cellular and Molecular Biology, Universidad de La Frontera (Chile). 2018-2024, Concluded.
13. Thais de Almeida Ratis Ramos, “Caracterização computacional de RNAs não codificantes longos a nível unicelular associados com o desenvolvimento do tecido cardíaco e com doenças cardiovasculares”. PhD Program in Biochemistry, Universidade Federal do Rio Grande do Norte (Brazil). 2018-2022, Concluded.
14. Jesús Eduardo Martínez Hernández, “Determination of changes in the regulation of gene expression caused by pathogen-host interaction using the Leishmania-macrophage model”. PhD Program in Integrative Genomics, Universidad Mayor (Chile). 2017-2022, Concluded.
15. Wileidy Andrea Gomez, “Mitophagy as a link between Down Syndrome and Alzheimer's disease”. PhD Program in Integrative Genomics, Universidad Mayor (Chile). 2017-2022, Concluded.
16. Mónica Kurte, “MSCs immunoplasticity is commanded by a single LPS stimulus with time-variable exposure leading to opposite therapeutic outcome, involvement of SOCS3 expression in the TLR4-dependant MSCs phenotype conversion”. PhD Program in Biomedicine, Universidad de Los Andes (Chile). 2015-2021, Concluded.
17. Raúl Arias Carrasco, “Non-coding RNAs in archaeal species living at different temperatures”. Program in Integrative Genomics, Universidad Mayor (Chile). 2014-2018, Concluded.
18. Victor Aliaga Tobar, “Insights of non-coding RNAs in the archaea Sulfolobus genus”. PhD Program in Integrative Genomics, Universidad Mayor (Chile). 2014-2018, Concluded.
19. Cristopher Segovia, “Non-coding RNAs in the bacterial fish pathogen Piscirickettsia salmonis under limited iron conditions”. PhD Program in Integrative Genomics, Universidad Mayor (Chile). 2014-2018, Concluded. 2014-2018, Concluded.
Master Students
01. Carolina Curiqueo, “ARNs largos no codificantes como marcadores específicos de diferentes tipos celulares presentes en tejido vesicular humano”. MSc Program in Biochemistry, Universidad de Chile (Chile). 2023-Present.
02. Sonia Tamara Vidal Vilches, “Comparación del perfil transcripcional de genes codificantes de proteínas en humano y diferentes modelos animales de insuficiencia cardíaca con fracción de eyección preservada”. MSc Program in Genetics, Universidad de Chile (Chile). 2021-2024, Concluded.
03. Adolfo Alexis Rojas Hidalgo, “Redes de interacción molecular como herramienta para mejorar el cálculo de puntajes de riesgo poligénico y su aplicación en cáncer de mama”. MSc Program in Biochemistry, Universidad de Chile (Chile). 2019-2022, Concluded.
04. Juan Pablo Silva Rodrigues, “Caracterización de los efectos del estrés crónico y el sexo sobre el perfil de RNA circulares en el hipocampo ventral de ratas”. MSc Program in Biochemistry, Universidad de Chile (Chile). 2019-2020, Concluded.
05. Allan Javier Peñaloza Otarola, “Caracterización de los Competing Endogenous RNAs en la hipertensión arterial primaria”. MSc Program in Genetics, Universidad de Chile (Chile). 2018-2020, Concluded.
06. Thais de Almeida Ratis Ramos, “Desenvolvimento e uso do CORAZÓN: Ferrametna para normalização e agrupamento de dados de expressão gênica”. MSc Program in Bioinformatics, Universidade Federal do Rio Grande do Norte (Brazil). 2016-2018, Concluded.
07. Felipe Guimarães Torres, “Leishmania braziliensis: reanotação e estruturação das informações em modelos de dados relacionais”. MSc Program in Applied Computing, Universidade Estadual de Feira de Santana (Brazil). 2013-2015, Concluded.
Undergrad Students
01. Maria Bárbara Borges de Santana, “Caracterização do transcriptoma de novos lncRNAs em cardiomiócitos de ratos neonatos sob estímulo hipertrófico via Nanopore direct RNA-seq”. BSc in Biotechnology, Universidade Federal da Paraíba (Brazil). 2023-2024, Concluded.
02. Laura Shimohara Bradaschia, “Descoberta e expressão diferencial de RNAs longos não codificantes a partir de sequenciamento Nanopore de hipocampo de rato (Rattus norvegicus) sob ativação neuronal por picrotoxina”. BSc in Biotechnology, Universidade Federal da Paraíba (Brazil). 2022-2023, Concluded.
03. Nilbson Rafael Oliveira Galindo, “Predição de sítios de ligação de proteínas ao RNA com aprendizagem de máquina”. BSc in Computing Engineering, Universidade Federal da Paraíba (Brazil). 2021-2022, Concluded.
04. Wladimir Antonio Corrales Ibáñez, “Dimorfismo sexual en el efecto de glucocorticoides sobre el patrón de expresión de microRNAs en el hipocampo de roedores”. BSc in Biochemistry, Universidad de Chile (Chile). 2015-2019, Concluded.
05. Sebastián Bolívar, “Panorama de los transcriptomas de Cannabis sativa por medio de métodos bioinformáticos”. BSc in Biology, Universidad Distrital Francisco José de Caldas (Colombia). 2013-2017, Concluded.
06. Guillermo A. Nourdin Galindo, “Análisis de genómica comparativa entre cepas aisladas de Piscirickettsia salmonis”. BSc Program in Bioinformatics Engineering, Universidad de Talca (Chile). 2012-2016, Concluded.
07. Javier Villacresses, “Deep sequencing reveals the complete genome and evidence for transcriptional activity of the first virus-like sequences identified in Aristotelia chilensis (Maqui Berry)”. BSc in Biotechnology, Universidad Mayos (Chile). 2011-2015, Concluded.
- 2014-2015: Founder of the DIB Talks - Disruptive Ideas in Biotech (www.dibtalks.com), a series of talks that aims to disseminate and popularize disjunctive technologies associated with the Biosciences.
- 2014-2016: Founder of a digital platform for collective financing of scientific projects "Dodo Scientific Crowdfunding" (www.dodofunding.com).
- Participation as an exhibitor or organizer in different scientific events, scientific entrepreneurship or scientific dissemination throughout the country.
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Parallella University Program - PUP
Adapteva
Estados Unidos, 2014
Selected to be part of the Parallela University Program, from Adapteva. The goal of the project is to apply computational biology algorithms in the low cost super computer Parallella.
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2nd Austral BIO Challenge
UNIVERSIDAD AUSTRAL DE CHILE
Chile, 2014
One of the winners of the 2nd Austral BioChallenge, from Austral Incuba / Universidad Austral de Chile.
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GBR GapSummit Biotech Leader of Tomorrow
Global Biotech Revolution
Reino Unido, 2014
Selected one of the Leaders of Tomorrow of Biotechnology, due to my work trying to solve the gaps we current have in funding biotech projects.
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3rd Place Poster Award. ISCB Latin America Conference
ISCB Latin America Conference
Argentina, 2016
3rd Place Poster Award. International Society for Computational Biology Latin America Conference, Buenos Aires, Argentina.
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1st Place Poster Award. Copec-UC “Big Data” Conference
FUNDACION COPEC UNIVERSIDAD CATOLICA
Chile, 2015
2015 – 1st Place Poster Award. Copec-UC “Big Data” Conference, Santiago, Chile.
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Start-Up Chile Recognition Program
CORPORACION DE FOMENTO DE LA PRODUCCION
Chile, 2014
Start-Up Chile Recognition Program, Start-Up Chile, Santiago, Chile.
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Fundacity Entrepreneur of the Week
Fundacity
Chile, 2013
Fundacity Entrepreneur of the Week.
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Honorable Mention: Databases & Data Integration, Text Mining and Information Extraction
Associação Brasileira de Bioinformática e Biologia Computacional
Brasil, 2012
Honorable Mention: Databases & Data Integration, Text Mining and Information Extraction. X-Meeting 2012, Associação Brasileira de Bioinformática e Biologia Computacional – AB3C, Campinas, Brazil.
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Prêmio Elo Cidadão
Universidade Federal de Paraíba
Chile, 2007
Premiación por el trabajo de extensión universitaria asociada a la difusión de la Bioinformática e inserción digital de la comunidad.
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Prêmio Elo Cidadão
Universidade Federal de Paraíba
Chile, 2005
Premiación por el trabajo de extensión universitaria asociada a la difusión de la Bioinformática e inserción digital de la comunidad.
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2nd Best Place Poster Award. X-Meeting 2005
Associação Brasileira de Bioinformática e Biologia Computacional
Chile, 2005
2nd Best Place Poster Award. X-Meeting 2005, Associação Brasileira de Bioinformática e Biologia Computacional – AB3C, Caxambu, Brazil.
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2nd Place Poster Award. XXII Workshop do Programa Interunidades de Pós-Graduação em Bioinformática
Universidade de São Paulo
Brasil, 2023
2nd Place Poster Award, XXII Workshop do Programa Interunidades de Pós-Graduação em Bioinformática – Universidade de São Paulo, São Paulo, Brazil.
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Honorable Mention, X-Meeting 2023, Brazilian Association for Bioinformatics and Computational Biology
Brazilian Association for Bioinformatics and Computational Biology
Chile, 2023
Honorable Mention, X-Meeting 2023, Brazilian Association for Bioinformatics and Computational Biology, Curitiba, Brazil.
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Best Poster Award, SIBI 2019
UNIVERSIDAD DE LA FRONTERA
Chile, 2019
Best Poster Award, SIBI 2019 – III International Symposium on Integrative Bioinformatics, Pucón, Chile.
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Excellent Poster Presentation Award, LEISHMANIASIS
Royal Society of Chemistry
Portugal, 2018
Excellent Poster Presentation Award, LEISHMANIASIS 2018, Costa da Caparica, Portugal.
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Travel Grant Award
European Molecular Biology Laboratory & European Molecular Biology Organization
Alemania, 2017
Travel Grant Award, European Molecular Biology Laboratory & European Molecular Biology Organization, Heidelberg, Germany.
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3rd Place Poster Award.
ISCB Latin America Conference
Argentina, 2016
3rd Place Poster Award. ISCB Latin America Conference, Buenos Aires, Argentina
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Fellowship Award
Universidade Estadual Paulista
Brasil, 2006
Fellowship Award - Course: Nucleic Acids Manipulation - PCR, RT-PCR and qPCR, Universidade Estadual Paulista, Botucatu, Brazil.
Transcriptomics at the single cell level and human diseases: opportunities and challenges in data processing and analysis |
Predicting RNA Families in Nucleotide Sequences Using StructRNAfinder |
Avaliação de Desempenho em Bioinformática: Estudo de caso de sistemas computacionais para a investigação de microRNAs |
Advanced Center for Chronic Diseases - ACCDiS |
Epitranscriptomic regulation of competing endogenous RNA networks in cardiac fibroblasts associated with heart failure with preserved ejection fraction |
RCAN1 trisomy and the control of PINK1 levels in the survival of human Down's syndrome induced pluripotent stem cells (iPSC) and iPSC-derived cardiomyocytes |
Establecimiento de una línea base de las características genómicas, toxicológicas y ciclos temporales de la marea roja y de las microalgas tóxicas presentes en la costa de la Región de los Ríos para el anticipo de políticas públicas |
Instalación y desarrollo del área de investigación y docencia en Bioinformática=> Estudio RNAs no codificantes posicionalmente conservados y su rol en las enfermedades cardiacas a través de la integración de datos multiómicos |
BIOINFORMATICS APPROACHES AND ITS APPLICATION ON THE IDENTIFICATION, EVOLUTION AND FUNCTIONAL ASSIGNATION OF NON-CODING RNAS |
Dodo Biotech Crowdfunding |
Dodo Scientific Crowdfunding - SSAF/CORFO |
Generating a reference dataset for non-redundant sequences and for orthologous groups of non-coding RNAs in 50 thousand species |
Generating a reference dataset for non-redundant sequences and for orthologous groups of non-coding RNAs in 50 thousand species |
A Reciprocal Approach to Promoting Study Abroad in STEM: Montclair State University |
A Reciprocal Approach to Promoting Study Abroad in STEM=> Montclair State University, USA and Universidad Mayor, Chile |
Computational approaches in RNomics: a data integration study |
Computational approaches in RNomics=> a data integration study |
Dodo Biotech Crowdfunding |
Centro FONDAP de Estudios Avanzados de Enfermedades Crónicas / ACCDiS Advanced Center for Chronic Diseases |
Development of cloud solutions for bioinformatics |
Systems biology of long non-coding RNAs |
Systems Biology of long non-coding RNAs |
Beagle Bioinformatics |
Beagle Bioinformatics |
NimbusGene=> integrating bioinformatics tools on the cloud |
In silico characterization and expression analysis of intronic transcripts in human and mouse |
Bioinformatics approaches and its application on the identification, evolution and functional assignation of non-coding RNAs |
Dodo Scientific Crowdfunding - Start-Up Chile |

Vinicius Ramos Henriques
Associate Professor
Advanced Center for Chronic Diseases - ACCDiS
Univesidad de Chile
Santiago, Chile

SERGIO LAVANDERO
Director
Advanced Center for Chronic Diseases (ACCDiS)
UNIVERSIDAD DE CHILE, FAC CIENCIAS QUÍMICAS Y FARMACÉUTICAS
Santiago, Chile

Nicolás Saavedra
Profesor Asociado
Departamento de Ciencias Básicas
Universidad de La Frontera
Temuco, Chile

Carolina Sanchez
Assistant Professor, Faculty of Science; Principal Investigator of Advanced Genomics Laboratory; Head of DNA Sequencing Core of the Center for Genomics and Bioinformatics
Center for Genomics and Bioinformatics
Universidad Mayor
Santiago, Chile

CESAR SAEZ
Associate professor
Chemical and Bioprocess Engineering
PONTIFICIA UNIVERSIDAD CATOLICA DE CHILE
SANTIAGO, Chile

Mario Chiong
Profesor
Departamento de Bioquímica y Biología Molecular
Universidad de Chile
Santiago, Chile

Pablo Castro
JEFE DIVISION
DIVISION ENFERMEDADES CARDIOVASCULARES
Pontificia Universidad Católica de Chile
SANTIAGO, Chile

Andrew Quest
Full Professor
Biologia Celular y Molecular
FACULTAD DE MEDICINA, UNIVERSIDAD DE CHILE
Santiago, Chile

Héctor Levipan
Profesor Asociado
Ciencias y Geografía
Universidad de Playa Ancha de Ciencias de la Educación
VALPARAISO, Chile

Jaime Figueroa
Profesor Titular
Bioquimica y Microbiologia
UNIVERSIDAD AUSTRAL DE CHILE
Valdivia, Chile

Hugo Verdejo
Profesor Asociado
División de Enferemedades Cardiovasculares
Pontificia Universidad Católica de Chile
Santiago, Chile

Jorge Toledo
Investigador
Centro de Investigacion Clinica Avanzada CICA
Universidad de Chile, Hospital Clinico Universidad de Chile
Santiago, Chile

Jose Matamala
Assistant Professor of Neurology
Department of Neurological Science
University of Chile
Santiago, Chile

ALEJANDRO CORVALAN
Principal Investigator
Hematology and Oncology
Pontificia Universidad Catolica de Chile
Santiago, Chile

Alvaro Elorza
FULL PROFESSOR
INSTITUTE OF BIOMEDICAL SCIENCES
UNIVERSIDAD ANDRES BELLO
Santiago, Chile

Luis Federico Batiz
Full Professor
Center for Biomedical Research and Innovation (CIIB)
Universidad de Los Andes
Santiago, Chile

Steffany Cárdenas
Asistente de investigación
Recursos Ambientales
Universidad de Tarapacá
Arica, Chile

Karina Pino
Group Leader/Associate Professor
Centro de Investigación Biomédica
Universidad de los Andes
Santiago, Chile

Maria Ocaranza
Full Professor
Cardiovascular Diseases Division
Pontificia Universidad Catolica de Chile
Santiago, Chile

Roberto Elizondo
Profesor Asistente
Departamento de Biología Celular
Universidad de Concepción
CONCEPCION, Chile

Angela Court
Asistente de Investigación
Medicina Nanoregenerativa
Universidad de Los Andes
Santiago, Chile

Víctor Polanco
Vicerrector de Investigación, Creación Artística y Doctorado
Vicerrectoría de Investigación, Creación Artística y Doctorado
Universidad Finis Terrae
Santiago, Chile

Pamela Seron
Profesora Titular
Ciencias de la Rehabilitación
UNIVERSIDAD DE LA FRONTERA
TEMUCO, Chile