Introduction to bioinformatics for DNA and RNA sequence analysis (IBDR01) https://www.prinformatics.com/course/introduction-to-bioinformatics-for-dna- and-rna-sequence-analysis-ibdr01/
This course will be delivered by Malachi and Obi Griffith in Glasgow City centre from 29th October - 2nd November 2018. Course Overview: Analysis of high throughput genome and transcriptome data is major component of many research projects ranging from large-scale precision medicine efforts to focused investigations in model systems. This analysis involves the identification of specific genome or transcriptome features that predispose individuals to disease, predict response to therapies, influence diagnosis/prognosis, or provide mechanistic insights into disease models. During this course (PMBI01), students will perform an example end- to-end bioinformatics analysis of genome (WGS and Exome) and transcriptome (RNA-seq) data. Students will start with raw sequence data for a hypothetical case, learn to install and use the tools needed to analyze this data on the cloud, and visualize and interpret results. After completing the course, students should be in a position to (1) understand raw sequence data formats, (2) perform bioinformatics analyses on the cloud, (3) run complete analysis pipelines for alignment, variant calling, annotation, and RNA-seq (transcriptome analysis approaches will be a major component of the workshop), (4) visualize and interpret whole genome, exome and RNA-seq results, (5) leverage the identification of passenger variants for immunotherapy applications, and (6) begin to place these results in a clinical context by use of variant knowledgebases. The data, tools, and analysis will be most directly relevant to human genomics and bioinformatics research. However, many of the skills and concepts covered will be applicable to other human diseases and model organisms. Furthermore, many analysis concepts covered during the workshop will be broadly applicable to other “big data” research problems. All course materials (including copies of presentations, practical exercises, data files, and example scripts prepared by the instructing team) will be provided electronically to participants. Intended Audience This workshop is primarily aimed at researchers and technical workers with a background in biology who want to learn fundamental bioinformatics skills for genomics with a particular emphasis on biomedical research applications. The course is essentially a crash course in bioinformatics for next generation sequence data analysis. It would also be useful for students with a computational background who seek an introduction to genomics technology and analysis approaches. In general, it is suitable for anyone working with genome or transcriptome (RNA-seq) data in the context of disease research. Attendees are encouraged to bring their own data or project outlines for discussion. Some time during the course will be dedicated to consultation with a team of instructors from the McDonnell Genome Institute. Email oliverhoo...@prinformatics.com Check out our sister sites, www.PRstatistics.com (Ecology and Life Sciences) www.PRinformatics.com (Bioinformatics and data science) www.PSstatsistics.com (Behaviour and cognition) 1. May 7th – 11th 2018 ADVANCES IN MULTIVARIATE ANALYSIS OF SPATIAL ECOLOGICAL DATA USING R (MVSP02) Canada (QUEBEC), Prof. Pierre Legendre, Dr. Guillaume Blanchet www.prstatistics.com/course/advances-in-spatial-analysis-of-multivariate- ecological-data-theory-and-practice-mvsp03/ 2. May 14th - 18th 2018 INTRODUCTION TO MIXED (HIERARCHICAL) MODELS FOR BIOLOGISTS (IMBR01) Canada (QUEBEC), Prof. Subhash Lele www.prstatistics.com/course/introduction-to-mixed-hierarchical-models-for- biologists-using-r-imbr01/ 3. May 21st - 25th 2018 INTRODUCTION TO PYTHON FOR BIOLOGISTS (IPYB05) Glasgow, Scotland, Dr. Martin Jones http://www.prinformatics.com/course/introduction-to-python-for-biologists- ipyb05/ 4. May 21st - 25th 2018 INTRODUCTION TO REMOTE SENISNG AND GIS FOR ECOLOGICAL APPLICATIONS (IRMS01) Glasgow, Scotland, Prof. Duccio Rocchini, Dr. Luca Delucchi www.prinformatics.com/course/introduction-to-remote-sensing-and-gis-for- ecological-applications-irms01/ 5. May 28th – 31st 2018 STABLE ISOTOPE MIXING MODELS USING SIAR, SIBER AND MIXSIAR (SIMM04) Canada (QUEBEC) Dr. Andrew Parnell, Dr. Andrew Jackson www.prstatistics.com/course/stable-isotope-mixing-models-using-r-simm04/ 6. May 28th – June 1st 2018 ADVANCED PYTHON FOR BIOLOGISTS (APYB02) Glasgow, Scotland, Dr. Martin Jones www.prinformatics.com/course/advanced-python-biologists-apyb02/ 7. June 12th - 15th 2018 SPECIES DISTRIBUTION MODELLING (DBMR01) Myuna Bay sport and recreation, Australia, Prof. Jane Elith, Dr. Gurutzeta Guillera www.prstatistics.com/course/species-distribution-models-using-r-sdmr01/ 8. June 25th – 29th 2018 SPECIES DISTRIBUTION/OCCUPANCY MODELLING USING R (OCCU01) Glasgow, Scotland, Dr. Darryl McKenzie (PROTEUS) www.prstatistics.com/course/species-distributionoccupancy-modelling-using-r- occu01/ 9. July 2nd - 5th 2018 SOCIAL NETWORK ANALYSIS FOR BEHAVIOURAL SCIENTISTS USING R (SNAR01) Glasgow, Scotland, Prof. James Curley http://www.psstatistics.com/course/social-network-analysis-for-behavioral- scientists-snar01/ 10. July 8th – 12th 2018 MODEL BASE MULTIVARIATE ANALYSIS OF ABUNDANCE DATA USING R (MBMV02) Glasgow, Scotland, Prof. David Warton www.prstatistics.com/course/model-base-multivariate-analysis-of-abundance- data-using-r-mbmv02/ 11. July 23rd – 27th 2018 EUKARYOTIC METABARCODING (EUKB01) Glasgow, Scotland, Dr. Owen Wangensteen http://www.prinformatics.com/course/eukaryotic-metabarcoding-eukb01/ 12. October 1st – 5th Introduction to Linux workflows for biologists (IBUL03) Glasgow, Scotland, Dr. Martin Jones https://www.prinformatics.com/course/introduction-to-linux-workflows-for- biologists-ibul03/ 13. October 8th – 12th 2018 INTRODUCTION TO SPATIAL ANALYSIS OF ECOLOGICAL DATA USING R (ISAE01) Glasgow, Scotland, Prof. Subhash Lele https://www.prstatistics.com/course/introduction-to-spatial-analysis-of- ecological-data-using-r-isae01/ 14. October 8th – 12th 2018 INDIVIDUAL BASED MODELS USING NETLOGO AND R Glasgow, Scotland, Dr. Andrew Jackson Link to follow 15. October 15th – 19th 2018 APPLIED BAYESIAN MODELLING FOR ECOLOGISTS AND EPIDEMIOLOGISTS (ABME Glasgow, Scotland, Dr. Matt Denwood, Emma Howard http://www.prstatistics.com/course/applied-bayesian-modelling-ecologists- epidemiologists-abme04/ 16. October 15th – 19th 2018 ANALYSING TIME TO EVENT DATA (SURVIVAL ANALYSIS) Glasgow, Scotland, Dr. Wil Hoppitt Link to follow 17. October 29th – November 2nd 2018 INTRODCUTION TO R AND STATISTICS FOR BIOLOGISTS (IRFB02) Glasgow, Scotland, Dr. Olivier Gauthier Link to follow – see previous https://www.prstatistics.com/course/introduction-to-statistics-and-r-for- biologists-irfb/ 18. October 29th – November 2nd 2018 PRECISION MEDICINE BIOINFORMATICS: FROM RAW GENOME AND TRANSCRIPTOME DATA TO CLINICAL INTERPRETATION (PMBI01) Glasgow, Scotland, Dr Malachi Griffith, Dr. Obi Griffith www.prinformatics.com/course/precision-medicine-bioinformatics-from-raw- genome-and-transcriptome-data-to-clinical-interpretation-pmbi01/ 19. November 5th – 8th 2018 PHYLOGENETIC COMPARATIVE METHODS FOR STUDYING DIVERSIFICATION AND PHENOTYPIC EVOLUTION (PCME01) Glasgow, Scotland, Dr. Antigoni Kaliontzopoulou https://www.prstatistics.com/course/phylogenetic-comparative-methods-for- studying-diversification-and-phenotypic-evolution-pcme01/ 20. November 19th – 23rd 2018 STRUCTUAL EQUATION MODELLING FOR ECOLOGISTS AND EVOLUTIONARY BIOLOGISTS (SEMR02) Glasgow, Scotland, Dr. Jonathan Lefcheck Link to follow – see previous https://www.prstatistics.com/course/structural-equation-modelling-for- ecologists-and-evolutionary-biologists-semr01/ 21. November 26th – 30th 2018 FUNCTIONAL ECOLOGY FROM ORGANISM TO ECOSYSTEM: THEORY AND COMPUTATION (FEER Glasgow, Scotland, Dr. Francesco de Bello, Dr. Lars Götzenberger, Dr. Carlos Carmona http://www.prstatistics.com/course/functional-ecology-from-organism-to- ecosystem-theory-and-computation-feer01/ 22. February 2018 TBC MOVEMENT ECOLOGY (MOVE02) Venue TBC, Dr. Luca Borger, Prof. Ronny Wilson, Dr Jonathan Potts Link to follow – see previous www.prstatistics.com/course/movement-ecology-move01/ 23. February 2018 TBC AQUATIC ACOUSTIC TELEMETRY DATA ANALYSIS AND SURVEY DESIGN Glasgow, Scotland, VEMCO staff and affiliates Link to follow Oliver Hooker PhD. PR informatics 2018 publications - Phenotypic and resource use partitioning amongst sympatric lacustrine brown trout, Salmo trutta. Biological Journal of the Linnean Society. DOI 10.1093/biolinnean/bly032 6 Hope Park Crescent Edinburgh EH8 9NA +44 (0) 7966500340
