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start [2021/02/26 16:25]
pmoreno [Courses] |
start [2024/04/08 21:46] (current)
pmoreno [People] |
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| ====== Our Group ====== | ====== Our Group ====== |
| Our [[https://www.youtube.com/watch?v=v1cTNhiZ2_c | bioinformatics]] research group is located at the [[https://www.univalle.edu.co|Universidad del Valle]], Cali, Colombia. We are fascinated by microbiological and human genome questions and their complexity, and seek to contribute to their analysis and solution. We belong to the Computer Science Department ([[http://eisc.univalle.edu.co/|EISC]]) of our university, therefore our approaches are mainly informatics and computer oriented. \\ \\ Our main topics [[https://www.youtube.com/watch?v=0mqz94bRma8&t=30s|omics]][[https://www.youtube.com/watch?v=_AQMTJwLoqI|analyses]], gene finding and [[https://www.youtube.com/watch?v=gg7WjuFs8F4|protein structure prediction]], where we apply [[https://www.apd.es/tecnicas-de-la-inteligencia-artificial-cuales-son-y-para-que-se-utilizan/|artificial intelligence methods]], based on machine learning, [[https://www.youtube.com/watch?v=9RN2Wr8xvro|neural networks]] as well as data mining techniques, [[https://www.youtube.com/watch?v=ovJcsL7vyrk&t=84s|chaos theory approaches]], statistical analysis, and FPGA technology. We also work on [[https://www.youtube.com/watch?v=BC9sxqAEs2s|metagenomics]] to analyze Colombian Andean environments and human health problems, such as breast cancer. Generally, our results include software and hardware tools which allow other users to apply our approaches to their specific context. \\ \\ Our group is interdisciplinary, made up of professors, graduate and undergraduate students from different disciplines, especially from computer science, biology, and health sciences. That's why we feel capable to face complex problems using both: biological state-of-the-art knowledge and advanced computational methodologies. | Our [[https://www.youtube.com/watch?v=v1cTNhiZ2_c | bioinformatics]] research group is located at the [[https://www.univalle.edu.co|Universidad del Valle]], Cali, Colombia. We are fascinated by microbiological and human genome questions and their complexity, and seek to contribute to their analysis and solution. We belong to the Computer Science Department ([[http://eisc.univalle.edu.co/|EISC]]) of our university, therefore our approaches are mainly informatics and computer oriented. \\ \\ Our main topics [[https://www.youtube.com/watch?v=0mqz94bRma8&t=30s|omics]][[https://www.youtube.com/watch?v=_AQMTJwLoqI|analyses]], gene finding and [[https://www.youtube.com/watch?v=gg7WjuFs8F4|protein structure prediction]], where we apply [[https://www.apd.es/tecnicas-de-la-inteligencia-artificial-cuales-son-y-para-que-se-utilizan/|artificial intelligence methods]], based on machine learning, [[https://www.youtube.com/watch?v=9RN2Wr8xvro|neural networks]] as well as data mining techniques, [[https://www.youtube.com/watch?v=ovJcsL7vyrk&t=84s|chaos theory approache (fractal and multifractal analysis)]], statistical analysis, and FPGA technology. We also work on [[https://www.youtube.com/watch?v=BC9sxqAEs2s|metagenomics]] to analyze Colombian Andean environments and human health problems, such as breast cancer. Generally, our results include software and hardware tools which allow other users to apply our approaches to their specific context. \\ \\ Our group is interdisciplinary, made up of professors, graduate and undergraduate students from different disciplines, especially from computer science, biology, and health sciences. That's why we feel capable to face complex problems using both: biological state-of-the-art knowledge and advanced computational methodologies. |
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| More information about our group at:\\ [[https://scienti.minciencias.gov.co/gruplac/jsp/visualiza/visualizagr.jsp?nro=00000000000759| GrupLac]], MinCiencias, Colombia. | More information about our group at:\\ [[https://scienti.minciencias.gov.co/gruplac/jsp/visualiza/visualizagr.jsp?nro=00000000000759| GrupLac]], MinCiencias, Colombia. |
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| |{{ :dscn6962.jpg?200 |}}\\ Omics team|{{:eisc-table.png?200|}}\\ EISC teachers and students|{{ :visita_ashwin.png?200|}}\\ Ashwin´s visit to BIMAC|{{ :soibio_2020.png?200 |}}\\ RIABIO meet| | ====== People ====== |
| | |[[people:people|Leaders]]| [[people:people|PhD]]| [[people:people|Master]]| [[people:people|Undergraduate]]|[[people:people|We wait for you here!]]|Lab´s pictures]] |
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| | |{{:visita_ashwin.png?200|}}\\ MFA and human genome project-2007||{{:proyecto_gebix.png?200|}}\\ GeBiX project-2012||{{:dscn6962.jpg?200|}}\\ Breast cancer and Omics I project-2015||{{:fpga.gif?200|}}\\ Human genome FPGA project-2018||{{:nature.png?200|}}\\ Cenicaña project-2018|{{:nueva_docente_velez.jpg?200|}}\\ Human gene regulation project-2018||{{:eisc-table.png?200|}}\\ EISC teachers and students-2019||{{:met_3d.png?200|}}\\ In silico antimalarial molecules project-2020||{{:protein_folding_2_.jpeg?200|}}\\ Protein folding project-2021||{{:reunion_proj_enfs_raras.jpeg?200|}}\\ Rare diseases project-2022||{{:riabio2023.jpeg?400|}}\\ RIABIO network project-2023|{{:xxxx |}}\\ Breast cancer and Omics II project-2023||{{:xxxx |}}\\ ALAN project-2023|| |
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| ====== People ====== | |
| |[[people:people|Leaders]] | [[people:people|PhD]]| [[people:people|Master]]| [[people:people|Undergraduate]]|[[people:people|We wait for you here!]]| | |
| ====== Research Fields ====== | ====== Research Fields ====== |
| Our group works in several research fields as listed below. Our overall goals in all fields are: improve computational analysis and prediction in our specific research fields; contribute to bioinformatics education at undergraduate, master and PhD level; and support with a strong informatics approach, bioinformatics and computational biology research. | Our group works in several research fields as listed below. Our overall goals in all fields are: improve computational analysis and prediction in our specific research fields; contribute to bioinformatics education at undergraduate, master and PhD level; and support with a strong informatics approach, bioinformatics and computational biology research. |
| <hidden> | <hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} **UTILIZACIÓN DE UNA ESTRATEGIA MULTIDISCIPLINARIA PARA LA IDENTIFICACIÓN DE NUEVOS COMPUESTOS HETEROCÍCLICOS SINTÉTICOS CON ACTIVIDAD ANTIMALÁRICA (2021 - Approved)></hidden> | <hidden {{:green-expand.gif?nolink,14x14|more}} **Análisis Ómico, Multifractal y Ancestría En Medicina Personalizada y de Precisión con Impacto en el Cáncer de Mama></hidden> |
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| | <hidden {{:green-expand.gif?nolink,14x14|more}} **Implementación y evaluación de un modelo predictivo de asociación genómica para Enfermedades Raras basado en configuraciones de repeticiones ADN y variantes estructurales></hidden> |
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| | <hidden {{:green-expand.gif?nolink,14x14|more}} **UTILIZACIÓN DE UNA ESTRATEGIA MULTIDISCIPLINARIA PARA LA IDENTIFICACIÓN DE NUEVOS COMPUESTOS HETEROCÍCLICOS SINTÉTICOS CON ACTIVIDAD ANTIMALÁRICA (2021 - 2024)></hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} **Análisis de imágenes de pacientes con ca. mamario mediante IA**. Vélez PE., Spetale F., Tapia E., Moreno PA. (2021 - Sent to the RIABIO network)></hidden> | <hidden {{:green-expand.gif?nolink,14x14|more}} **Análisis de imágenes de pacientes con ca. mamario mediante IA**. Vélez PE., Spetale F., Tapia E., Moreno PA. (2021 - Sent to the RIABIO network)></hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Platform in omics sciences and breast cancer health states (Phase II) and modeling with artificial intelligence techniques.** Universidad del Cauca, Universidad del Valle; Bioinformatics and Biocomputation,(2021-Submitted)> | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Platform in omics sciences and breast cancer health states (Phase II) and modeling with artificial intelligence techniques.** Universidad del Cauca, Universidad del Valle; Bioinformatics and Biocomputation,(2021-2024)> |
| Original title: "PLATAFORMA EN CIENCIAS ÓMICAS DEL CÁNCER MAMARIO, SUR-OCCIDENTE (FASE II) Y MODELAMIENTO CON TÉCNICAS DE INTELIGENCIA ARTIFICIAL ". \\ Convocatoria 890 - MinCiencias. Universidad del Valle. | Original title: "PLATAFORMA EN CIENCIAS ÓMICAS DEL CÁNCER MAMARIO, SUR-OCCIDENTE (FASE II) Y MODELAMIENTO CON TÉCNICAS DE INTELIGENCIA ARTIFICIAL ". \\ Convocatoria 890 - MinCiencias. Universidad del Valle. |
| </hidden> | </hidden> |
| ====== Courses ====== | ====== Courses ====== |
| <hidden> | <hidden> |
| | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Herramientas computacionales de bases de datos biológicas ** > {{ :750107m_herramientas_de_bases_de_datos_biolo_gicas.xxx?200|}} |
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| | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Introduction to Bioinformatics ** > |
| | Original title: "Introducción a la bioinformática". |
| | </hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Bioinformatics I ** > | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Bioinformatics I ** > |
| Bioinformatics is a multidisciplinary field where Biology and Computer Science interact. It seeks to solve complex biological problems using informatics and computation tools. It also includes collection, organization, storage and retrieval of biological information from databases. Bioinformatics analysis and modeling has impact on disease detection and treatment, and on genetic improvement of agrarian products, with positive effects on conditions and quality of human life.\\ | Bioinformatics is a multidisciplinary field where Biology and Computer Science interact. It seeks to solve complex biological problems using informatics and computation tools. It also includes collection, organization, storage and retrieval of biological information from databases. Bioinformatics analysis and modeling has impact on disease detection and treatment, and on genetic improvement of agrarian products, with positive effects on conditions and quality of human life.\\ |
| para la descripción, análisis y modelación de información biológica, que puede resultar en un mejor | para la descripción, análisis y modelación de información biológica, que puede resultar en un mejor |
| entendimiento de muchos procesos biológicos.</hidden> </hidden> | entendimiento de muchos procesos biológicos.</hidden> </hidden> |
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| | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Multifractal scaling in Bioinformatics ** > |
| | Biological Sequence Modeling is a most important task in bioinformatics, which applies to DNA, RNA and aminoacid sequences. It is used in many of the typical problems of computational biology, like structure analysis and prediction, profile constructing of related sequence sets (families). The most successful models used by us are of fractal behavior, because they are able to describe the scalar properties in biological processes: mutations which may conduce to chaotic consequences are generally random driven, making statistic approaches most adequate. |
| | The proposed course therefore emphasizes the use of chaotics models, including fractals, multi fractal, wavelets, Markov Chains, Hidden Markov Models, and their generalization: models based on context free grammars. The course introduces the general concepts required to understand these models, describes the essential algorithms for their application and illustrates with practical examples their use in biological sequence analysis. |
| | <hidden see __Spanish version__ > **Modelos estocásticos en bioinformática.** |
| | La modelación de secuencias biológicas es una tarea importante de la bioinformática, la cual aplica a secuencias de ADN, ARN y de aminiácidos. Se usa en muchos problemas típicos de la biología computacional, como lo son el análisis y la predicción de estructuras, la construcción de perfiles para conjuntos de secuencias relacionadas (familias) o análisis clasificatorio. Los modelos más exitosos son de tipo fractal y multirracial, ya que son capaces de describir la naturaleza escalar inherente en procesos biológicos: mutaciones que puede conducir a consecuencias autoorganizadas, se deben generalmente a la aleatoriedad, lo que hace los enfoque caótico tan adecuados. |
| | </hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Restricted Molecular Dynamics ** > | <hidden {{:green-expand.gif?nolink,14x14|more}} ** Restricted Molecular Dynamics ** > |
| aprendizaje de máquina (por ejemplo BioMall), donde el estudiante, basándose en datos biológicos, no | aprendizaje de máquina (por ejemplo BioMall), donde el estudiante, basándose en datos biológicos, no |
| sólo aplica las técnicas, sino que está motivado a sacar conclusiones de tipo informático y biológico. | sólo aplica las técnicas, sino que está motivado a sacar conclusiones de tipo informático y biológico. |
| </hidden> </hidden> | </hidden></hidden> |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Multifractal scaling in Bioinformatics ** > | |
| Biological Sequence Modeling is a most important task in bioinformatics, which applies to DNA, RNA and aminoacid sequences. It is used in many of the typical problems of computational biology, like structure analysis and prediction, profile constructing of related sequence sets (families). The most successful models used by us are of fractal behavior, because they are able to describe the scalar properties in biological processes: mutations which may conduce to chaotic consequences are generally random driven, making statistic approaches most adequate. | |
| The proposed course therefore emphasizes the use of chaotics models, including fractals, multi fractal, wavelets, Markov Chains, Hidden Markov Models, and their generalization: models based on context free grammars. The course introduces the general concepts required to understand these models, describes the essential algorithms for their application and illustrates with practical examples their use in biological sequence analysis. | |
| <hidden see __Spanish version__ > **Modelos estocásticos en bioinformática.** | |
| La modelación de secuencias biológicas es una tarea importante de la bioinformática, la cual aplica a secuencias de ADN, ARN y de aminiácidos. Se usa en muchos problemas típicos de la biología computacional, como lo son el análisis y la predicción de estructuras, la construcción de perfiles para conjuntos de secuencias relacionadas (familias) o análisis clasificatorio. Los modelos más exitosos son de tipo fractal y multirracial, ya que son capaces de describir la naturaleza escalar inherente en procesos biológicos: mutaciones que puede conducir a consecuencias autoorganizadas, se deben generalmente a la aleatoriedad, lo que hace los enfoque caótico tan adecuados. | |
| </hidden> | |
| </hidden> | |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Introduction to Bioinformatics ** > | |
| Original title: "Introducción a la bioinformática". | |
| </hidden> | |
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| <hidden {{:green-expand.gif?nolink,14x14|more}} ** Herramientas computacionales de bases de datos biológicas ** > {{ :750107m_herramientas_de_bases_de_datos_biolo_gicas.png?200 |}} | |
| </hidden> | |
| </hidden> | </hidden> |
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| ====== Seedbed ====== | |
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| |[[Qué_es?|What are they?]] | [[http://semillero.univalle.edu.co/2-uncategorised/18-inscripcion|How to take part?]]| | |
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| *[[https://en.wikipedia.org/wiki/Multifractal_system | Multifractal System]]\\ | *[[https://en.wikipedia.org/wiki/Multifractal_system | Multifractal System]]\\ |
| *[[https://www.youtube.com/watch?v=bz3ZksC92_0 | Análisis multifractal de genomas]]\\ | *[[https://www.youtube.com/watch?v=bz3ZksC92_0 | Análisis multifractal de genomas]]\\ |
| *[[https://pharmaceuticalintelligence.com/tag/multifractal-bioinformatics/| Multifractal Bioinformatics]]<hidden {{:green-expand.gif?nolink,14x14|more}} Note >The original article does not talk about "... evolutionary trends of complex genomes". The author</hidden> | *[[http://eiscapp.univalle.edu.co/omicas/ | Proyecto "ómicas" en Cáncer mamario]]\\ |
| *[[https://www.youtube.com/watch?v=MpEZmPh6H74 | Julio profe, matemática y bioinformática]]\\ | |
| *[[http://eiscapp.univalle.edu.co/omicas/ | Proyecto "ómicas" en Cáncer mamario]]\\ | |
| *[[ http://eisc.univalle.edu.co/index.php/grupos-investigacion/bioinformatica | Bioinformatics group at EISC]]\\ | *[[ http://eisc.univalle.edu.co/index.php/grupos-investigacion/bioinformatica | Bioinformatics group at EISC]]\\ |
| *[[https://cisgebi.org/cisgebi/introduccion/ | CISGEBI]]\\ | *[[http://eisc.univalle.edu.co | Programas acadèmicos de posgrados - EISC]]\\ |
| *[[http://www.sc2b2.org | Sociedad Colombiana de Bioinformática y Biología Computacional]]\\ | *[[https://cisgebi.com/cisgebi/introduccion/ | CISGEBI]]\\ |
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| ====== Contact ====== | ====== Contact ====== |
