Precision Medicine Bioinformatics: From raw genome and transcriptome data to clinical interpretation (PMBI01)"
https://www.prinformatics.com/course/precision-medicine-bioinformatics-from- raw-genome-and-transcriptome-data-to-clinical-interpretation-pmbi01/ Instructors, Dr. Malachi Griffith and Dr. Obi Griffith from Washington University This course will run from 16th - 20th July 2018 in Edinburgh. Course Overview: Precision medicine refers to the use of prevention and treatment strategies that are tailored to the unique features of each individual and their disease. Analysis of high throughput genome and transcriptome data is major component of new large-scale precision medicine efforts. This analysis involves the identification of specific genome or transcriptome features that predispose an individual to disease, predict response to specific therapy, or influence diagnosis and prognosis. During this course (PMBI01), students will perform an end-to-end precision medicine analysis of real human genome (WGS and Exome) and transcriptome (RNA-seq) data. Students will start with raw sequence data for a hypothetical patient, learn to use the tools needed to analyze this data on the cloud, and interpret results in a clinical context. The goal of the analysis will be to identify personalized therapeutic options for this patient as well as identifying any prognostic or diagnostic implications in the data. 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, (4) visualize and interpret whole genome, exome and RNA-seq results, (5) leverage the identification of passenger variants for immunotherapy (e.g. personalized cancer vaccines) and disease monitoring 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 cancer genomics and bioinformatics. However, many of the skills and concepts covered will be applicable to other human diseases and even those studying non-human organisms. 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 medical 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 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. Full course schedule at https://www.prinformatics.com/course/precision-medicine-bioinformatics-from- raw-genome-and-transcriptome-data-to-clinical-interpretation-pmbi01/ Email [email protected] with any questions. Other up-coming courses include 1. January 29t – February 2nd 2018 INTRODUCTION TO BAYESIAN HIERARCHICAL MODELLING (IBHM02) SCENE, Scotland, Dr. Andrew Parnell http://www.prstatistics.com/course/introduction-to-bayesian-hierarchical- modelling-using-r-ibhm02/ 2. January 29th – February 2nd 2018 PHYLOGENETIC DATA ANALYSIS USING R (PHYL02) SCENE, Scotland, Dr. Emmanuel Paradis https://www.prstatistics.com/course/introduction-to-phylogenetic-analysis- with-r-phyg-phyl02/ ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ 3. February 19th – 23rd 2018 MOVEMENT ECOLOGY (MOVE01) Margam Discovery Centre, Wales, Dr Luca Borger, Dr Ronny Wilson, Dr Jonathan Potts https://www.prstatistics.com/course/movement-ecology-move01/ 4. February 19th – 23rd 2018 GEOMETRIC MORPHOMETRICS USING R (GMMR01) Margam Discovery Centre, Wales, Prof. Dean Adams, Prof. Michael Collyer, Dr. Antigoni Kaliontzopoulou http://www.prstatistics.com/course/geometric-morphometrics-using-r-gmmr01/ ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ 5. March 5th - 9th 2018 SPATIAL PRIORITIZATION USING MARXAN (MRXN01) Margam Discovery Centre, Wales, Jennifer McGowan https://www.prstatistics.com/course/introduction-to-marxan-mrxn01/ 6. March 12th - 16th 2018 ECOLOGICAL NICHE MODELLING USING R (ENMR02) Glasgow, Scotland, Dr. Neftali Sillero http://www.prstatistics.com/course/ecological-niche-modelling-using-r- enmr02/ 7. March 19th – 23rd 2018 BEHAVIOURAL DATA ANALYSIS USING MAXIMUM LIKLIHOOD IN R (BDML01) Glasgow, Scotland, Dr William Hoppitt http://www.psstatistics.com/course/behavioural-data-analysis-using-maximum- likelihood-bdml01/ ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ 8. April 9th – 13th 2018 NETWORK ANAYLSIS FOR ECOLOGISTS USING R (NTWA02 Glasgow, Scotland, Dr. Marco Scotti https://www.prstatistics.com/course/network-analysis-ecologists-ntwa02/ 9. April 16th – 20th 2018 INTRODUCTION TO STATISTICAL MODELLING FOR PSYCHOLOGISTS USING R (IPSY01) Glasgow, Scotland, Dr. Dale Barr, Dr Luc Bussierre http://www.psstatistics.com/course/introduction-to-statistics-using-r-for- psychologists-ipsy01/ 10. April 23rd – 27th 2018 MULTIVARIATE ANALYSIS OF ECOLOGICAL COMMUNITIES USING THE VEGAN PACKAGE (VGNR01) Glasgow, Scotland, Dr. Peter Solymos, Dr. Guillaume Blanchet https://www.prstatistics.com/course/multivariate-analysis-of-ecological- communities-in-r-with-the-vegan-package-vgnr01/ 11. April 30th – 4th May 2018 QUANTITATIVE GEOGRAPHIC ECOLOGY: MODELING GENOMES, NICHES, AND COMMUNITIES (QGER01) Glasgow, Scotland, Dr. Dan Warren, Dr. Matt Fitzpatrick https://www.prstatistics.com/course/quantitative-geographic-ecology-using-r- modelling-genomes-niches-and-communities-qger01/ ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ May 7th – 11th 2018 ADVANCES IN MULTIVARIATE ANALYSIS OF SPATIAL ECOLOGICAL DATA USING R (MVSP02) CANADA (QUEBEC), Prof. Pierre Legendre, Dr. Guillaume Blanchet https://www.prstatistics.com/course/advances-in-spatial-analysis-of- multivariate-ecological-data-theory-and-practice-mvsp03/ 12. May 14th - 18th 2018 INTRODUCTION TO MIXED (HIERARCHICAL) MODELS FOR BIOLOGISTS (IMBR01) CANADA (QUEBEC), Prof Subhash Lele https://www.prstatistics.com/course/introduction-to-mixed-hierarchical- models-for-biologists-using-r-imbr01/ 13. May 21st - 25th 2018 INTRODUCTION TO PYTHON FOR BIOLOGISTS (IPYB05) SCENE, Scotland, Dr. Martin Jones http://www.prinformatics.com/course/introduction-to-python-for-biologists- ipyb05/ 14. May 21st - 25th 2018 INTRODUCTION TO REMOTE SENISNG AND GIS FOR ECOLOGICAL APPLICATIONS (IRMS01) Glasgow, Scotland, Prof. Duccio Rocchini, Dr. Luca Delucchi https://www.prinformatics.com/course/introduction-to-remote-sensing-and-gis- for-ecological-applications-irms01/ 15. May 28th – 31st 2018 STABLE ISOTOPE MIXING MODELS USING SIAR, SIBER AND MIXSIAR (SIMM04) CANADA (QUEBEC) Dr. Andrew Parnell, Dr. Andrew Jackson https://www.prstatistics.com/course/stable-isotope-mixing-models-using-r- simm04/ 16. May 28th – June 1st 2018 ADVANCED PYTHON FOR BIOLOGISTS (APYB02) SCENE, Scotland, Dr. Martin Jones https://www.prinformatics.com/course/advanced-python-biologists-apyb02/ ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ 17. June 12th -0 15th 2018 SPECIES DISTRIBUTION MODELLING (DBMR01) Myuna Bay sport and recreation, Australia, TBC COMING SOON www.PRstatistics.com 18. November 6th – 10th 2017 LANDSCAPE GENETIC DATA ANALYSIS USING R (LNDG03) Myuna Bay sport and recreation, Australia, TBC COMING SOON www.PRstatistics.com 19. June 18th – 22nd 2018 STRUCTURAL EQUATION MODELLING FOR ECOLOGISTS AND EVOLUTIONARY BIOLOGISTS USING R (SEMR02) Myuna Bay sport and recreation, Australia, TBC COMING SOON www.PRstatistics.com ---------------------------------------------------------------------------- ---------------------------------------------------------------------------- ------------------ 20. 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/ 21. July 8th – 12th 2018 MODEL BASE MULTIVARIATE ANALYSIS OF ABUNDANCE DATA USING R (MBMV02) Glasgow, Scotland, Prof David Warton https://www.prstatistics.com/course/model-base-multivariate-analysis-of- abundance-data-using-r-mbmv02/ 22. July 16th – 20th 2018 PRECISION MEDICINE BIOINFORMATICS: FROM RAW GENOME AND TRANSCRIPTOME DATA TO CLINICAL INTERPRETATION (PMBI01) Glasgow, Scotland, Dr Malachi Griffith, Dr. Obi Griffith https://www.prinformatics.com/course/precision-medicine-bioinformatics-from- raw-genome-and-transcriptome-data-to-clinical-interpretation-pmbi01/ 23. July 23rd – 27th 2018 EUKARYOTIC METABARCODING (EUKB01) Glasgow, Scotland, Dr. Owen Wangensteen http://www.prinformatics.com/course/eukaryotic-metabarcoding-eukb01/ -- Oliver Hooker PhD. PR statistics 2017 publications - Ecosystem size predicts eco-morphological variability in post-glacial diversification. Ecology and Evolution. In press. The physiological costs of prey switching reinforce foraging specialization. Journal of animal ecology. prstatistics.com facebook.com/prstatistics/ twitter.com/PRstatistics groups.google.com/d/forum/pr-statistics-post-course-forum prstatistics.com/organiser/oliver-hooker/ 6 Hope Park Crescent Edinburgh EH8 9NA +44 (0) 7966500340
