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- European Bioinformatics Institute (EBI)30
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- DNA & RNA (dna-rna)10
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- Genomics
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Event type
- Workshops and courses30
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Venue
- European Bioinformatics Institute, Hinxton11
- , 7
- LANGEBIO, Cinvestav, Libramiento Norte Carretera Leon Km 9.62
- Faculty of Sciences, University of Porto, Rua do Campo Alegre 1021/10551
- University of Costa Rica (UCR), Ciudad universitaria Rodrigo Facio Brenes1
- Università di Pavia, via Ferrata 11
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Target audience
- This course is aimed at advanced PhD students and post-doctoral researchers who are applying or planning to apply high throughput sequencing technologies in cancer research and wish to familiarise themselves with bioinformatics tools and data analysis methodologies specific to cancer data. Familiarity with the technology and biological use cases of high throughput sequencing is required, as is some experience with R/Bioconductor (basic understanding of the R syntax and ability to manipulate R objects) and the Unix/Linux operating system.3
- Este curso introductorio está destinado principalmente a becaries doctorales de iniciación, que buscan dar sus primeros pasos en el uso de R para análisis de datos genómicos. El curso está dirigido únicamente a académicos de países de América Latina, excluyendo a Chile y Uruguay por restricciones de financiamiento. Prerrequisitos No es necesario tener conocimiento previo o experiencia en línea de comandos. Se valorarán los conocimientos de biología molecular. Dado que la modalidad de cursada será virtual (sincrónica/ asincrónica) cada uno debe contar con acceso a PC y conexión a internet estable. No se requiere la instalación de programas, ya que se proveerá acceso a herramientas virtuales (ejemplo: RStudio virtual). Tenga en cuenta que este curso se impartirá en español, aunque los formadores dominan el inglés y pueden ofrecer apoyo lingüístico cuando sea posible. Se dará prioridad en la inscripción a estudiantes de doctorado de iniciación. Alentamos la postulación de todes les becaries de grupos subrepresentados a este taller. Se dará prioridad de asistencia a aquellos que aún no hayan asistido a un evento de CABANA.1
- The course is suitable for graduate students and young researchers with a background in biology who are keen to become proficient bioinformaticians within the fields of genomics and/or transcriptomics. We will start with the basics, so students with no prior programming knowledge are welcome. We have a number of Linux computers that you can use, and you can bring your own laptops*. Please note this course will be taught in English, however the trainers are fluent in either Spanish or Portuguese, and can offer language support where feasible. A number of travel fellowships are available for this course - early-stage researchers and researchers from underrepresented groups are especially encouraged to apply for CABANA travel fellowships. You can apply for travel fellowships via the course application form. *If you bring your own laptop (any operating system is fine), you must have installed the following programs: R (at least version 3.5), the latest Rstudio and Bioconductor. To download R please visit: https://www.r-project.org/ To download RStudio please visit: https://www.rstudio.com/products/rstudio/download/ Bioconductor must be downloaded and installed via R, instructions on how to do this can be found here: https://www.bioconductor.org/install/1
- The primary target audience is researchers working in FAANG projects, including AQUA-FAANG, GENE-SWitCH and BovReg. Familiarity with running bioinformatic analysis of sequencing data in a Unix environment is essential for those attending this training.1
- This course is aimed at PhD students and post-doctoral researchers who are applying or planning to apply high throughput sequencing technologies in cancer research and wish to familiarise themselves with bioinformatics tools and data analysis methodologies specific to cancer data. Familiarity with the technology and biological use cases of high throughput sequencing (HTS) is required, as is some experience with R/Bioconductor (basic understanding of the R syntax and ability to manipulate R objects) and the Unix/Linux operating system.1
- This course is aimed at PhD students and post-doctoral researchers who are using high-throughput sequencing technologies and bioinformatics methods in their research. The content is most applicable for those working with eukaryotic genomes, human genetics and in rare disease research. Participants will require a basic knowledge of the Unix command line, the Ubuntu 16 operating system and the R statistical packages. We recommend these free tutorials: Basic introduction to the Unix environment: www.ee.surrey.ac.uk/Teaching/Unix Introduction and exercises for Linux: https://training.linuxfoundation.org/free-linux-training Basic R concept tutorials: www.r-tutor.com/r-introduction Please note: participants without basic knowledge of these resources will have difficulty in completing the practical sessions.1
- This course is aimed at PhD students and postdoctoral researchers needing to learn about methods and approaches for manipulating and analysing livestock genomic data. It will help those wanting to start basic identification of genetic variation, annotating function to genomic data, and using public data to interpret new findings. Participants will require a basic knowledge of the Unix command line, the Ubuntu 18 operating system and the R statistical packages. We recommend these free tutorials: Basic introduction to the Unix environment: www.ee.surrey.ac.uk/Teaching/Unix Introduction and exercises for Linux: https://training.linuxfoundation.org/free-linux-training Basic R concept tutorials: www.r-tutor.com/r-introduction Regardless of your current knowledge we encourage successful participants to use these, and other materials, to prepare for attending the course and future work in this area. 1
- This course is aimed at researchers at any career stage within the University of Pavia and Institute of Molecular Genetics who are working with and/or generating their own genomic and biomolecular datasets. No knowledge of programming is required, but an undergraduate level knowledge of Biology / molecular biology would be beneficial.1
- This course is aimed at researchers at graduate level upwards within Latin America who are working with and/or generating their own crop genomic data or who are working on genotyping technologies, including data analysis software development. Prerequisites: Basic computational or previous bioinformatics experience is required for this workshop, such as basic commands in R. Undergraduate-level knowledge of plant biology would be an advantage. Please note this course will be taught in English. There will be assistants fluent in Spanish who can offer language support where feasible.1
- This course is aimed at researchers from postgraduate level upwards interested in using R to analyse genomics data for crop biodiversity studies. Please note this course will be taught in English, however the trainers are fluent in Spanish, and can offer language support where feasible. A number of travel fellowships are available for this course - early-stage researchers and researchers from underrepresented groups are especially encouraged to apply for CABANA travel fellowships. You can apply for travel fellowships via the course application form. Prerequisites An undergraduate level degree in plant biology or a related discipline would be an advantage. You will need to know basic commands in R in order to get the most from this course, though a review of basic concepts and commands in R will be covered on the first day. You can find a good introduction to R here: http://www.r-tutor.com/r-introduction You will also need to bring a laptop with R installed and working knowledge of how to navigate your working directory effectively using R commands. To download R please visit: https://www.r-project.org/ To download RStudio please visit: https://www.rstudio.com/products/rstudio/download/1
- This course is aimed at wet-lab researchers at any career stage within Latin America undertaking pathogen population genetics and surveillance, interested in applying next generation sequencing to virus identification. Those working in plant protection organizations and/or academia are welcome to apply, and priority will be given to those who have not yet attended a CABANA workshop. Please note this course will be taught in English, however the trainers are fluent in Spanish, and can offer language support where feasible. A number of travel fellowships are available for this course - early-stage researchers and researchers from underrepresented groups are especially encouraged to apply for CABANA travel fellowships. You can apply for travel fellowships via the course application form. Priority will be given to those who have not previously been awarded a CABANA fellowship. Knowledge in R and NGS technologies is required. Therefore, these free resources should be studied beforehand: Basic R concept tutorials: www.r-tutor.com/r-introduction https://r4ds.had.co.nz/tidy-data.html Learning outcomes1
- This course is intended for PhD students of Portuguese and international institutions (with a particular focus on students of the CIBIO-InBIO’s BIODIV, SUSFOR Doctoral Programs and University of Porto), but more experienced researchers that are initiating projects in the field of environmental metagenomics can also participate. Prerequisite knowledge No previous bioinformatics experience is required, but an undergraduate level understanding of biology would be an advantage.1
- This workshop is aimed at PhD students within the PhD programme "Genetics, Molecular and Cellular Biology" (University of Pavia) and the PhD programmme "Biomolecular Sciences and Biotechnology" (IUSS, University School for Advanced Studies Pavia. No knowledge of programming is required, but an undergraduate level knowledge of biology or molecular biology would be useful.1
- Wet-lab researchers and bioinformaticians1
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Instructor
- Alexey Larionov6
- Francesco Iorio5
- Tobias Rausch5
- Ajay Mishra4
- Mathieu Bourgey4
- Erin Haskell3
- Moritz Gerstung3
- Sam Holt3
- Astrid Gall2
- Baron Koylass2
- Benjamin Moore2
- Birgit Meldal2
- Carla Valeria Filippi2
- David Armstrong2
- Diana Lopez2
- Manuel Humberto Reyes-Valdes2
- Octavio Martinez de la Vega2
- Robert Eveleigh2
- Silvie Fexova2
- Wendi Bacon2
- Adnan Malik1
- Alan Archibald1
- Aleena Mushtaq1
- Alex Mitchell1
- Ana Cvejic1
- Aurélie Ernst1
- Benilton Carvalho1
- Bilal El Houdaigui1
- Bruno Contreras-Moreira1
- Cath Brooksbank1
- Cei Abreu Goodger1
- Charles Solomon1
- Chiara Batini1
- Daniel Macqueen1
- Daniel Poppleton1
- Dave Edwards1
- David Urbina1
- Deborah Harrus1
- Emily Perry1
- Faye Rodgers1
- Francesc Muyas Remolar1
- Francisco Lobo1
- Gareth Gillard1
- Garth Ilsley1
- Ilias Lavidas1
- Isidro Cortes Ciriano1
- Isidro Cortes-Ciriano1
- Jan Kreuze1
- Jane Loveland1
- Jorge Batista da Rocha1
- Juan Pablo Nani1
- Kalpana Paneerselvam1
- Keeva Cochrane1
- Kostas Billis1
- Lars Grønvold1
- Louisse Mirabueno1
- Malcolm Perry1
- Manuel More1
- Marco Cristancho1
- Matthew Young1
- Mauricio Montero1
- Nancy George1
- Natalia Barboza1
- Natalia Pin Viso1
- Pamela Victoria Villalba1
- Peter Causey-Freeman1
- Piraveen Gopalasingam1
- Pooran Dewari1
- Rafael Penha Filho1
- Ricardo Alcalá Briseño1
- Ricardo Chinchilla1
- Rossana Zaru1
- Sean Laidlaw1
- Segundo Fuentes1
- Simone Zaccaria1
- Thawfeek Varusai1
- Thibaut Hourlier1
- Thomas Juettemann1
- Tom Hancocks1
- Ugis Sarkans1
- Veronica Busa1
- Walter Barrantes1
- Wendy Acuna1
- Wojtek Bazant1
- Yuanhua Huang1
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