Sheffield Bioinformatics Core

The Sheffield Bioinformatics Core Facility aims to develop and advance the training and application of bioinformatics and computational biology to biological research, biomedical research and public health in Sheffield

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• Introduction to RNA-seq

  11 April 2019

  Sheffield, United Kingdom

  Introduction to RNA-seq http://sbc.shef.ac.uk/training/rna-seq-introduction-2019-04-11 https://tess.elixir-europe.org/events/introduction-to-rna-seq-03705bbf-08b1-4e5d-b3ff-d48069b094b4 High-throughput RNA-sequencing is now the standard technique for quantifying transcript abundance in a biological sample of interest. In this course we will describe the processes that take place once you submit a library for RNA sequencing, and what data you should expect to receive from the Bioinformatics Core. We will describe the steps involved to go from sequencing library to a list of genes that show statistically significant differences between your biological conditions of interest. Practical sessions will use the user-friendly Galaxy interface (https://usegalaxy.org/) to demonstrate tasks such as alignment, quality control and assessing differential expression. We will also showcase some web sites you can use for enrichment and pathways analysis. 2019-04-11 08:30:00 UTC 2019-04-11 16:00:00 UTC The Diamond, Workroom 1, Sheffield, United Kingdom The Diamond, Workroom 1 Sheffield United Kingdom S3 7RD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to identifying and characterising somatic variants

  10 May 2019

  Sheffield, United Kingdom

  Introduction to identifying and characterising somatic variants http://sbc.shef.ac.uk/training/somatic-variants-introduction-2019-05-10 https://tess.elixir-europe.org/events/introduction-to-identifying-and-characterising-somatic-variants This course covers state-of-the-art and best-practice tools for the analysis of genomes. We describe, and give hands-on experience of, the entire analysis workflow from raw data generated by a sequencing machine to deriving variant calls (e.g. Single Nucleotide Variants) that are ready for downstream analysis, interpretation and prioritisation. We will describe the steps involved to go from sequencing library to a prioritised, clinically-relevant list of DNA variants. Practical sessions will use the user-friendly Galaxy interface (https://usegalaxy.org/) to demonstrate tasks such as alignment, quality control, variant-calling and annotation. 2019-05-10 08:30:00 UTC 2019-05-10 16:00:00 UTC Pam Liversidge Design Studio 1 - D06, Sheffield, United Kingdom Pam Liversidge Design Studio 1 - D06 Sheffield United Kingdom S1 3JD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to RNA-seq analysis in R

  24 June 2019

  Sheffield, United Kingdom

  Introduction to RNA-seq analysis in R http://sbc.shef.ac.uk/training/rna-seq-in-r-2019-06-24 https://tess.elixir-europe.org/events/introduction-to-rna-seq-analysis-in-r-4ff2ae93-b96a-4dc0-8f92-957042a88c1d In this workshop, you will be learning how to analyse RNA-seq count data, using R. This will include reading the data into R, quality control and performing differential expression analysis and gene set testing, with a focus on the edgeR analysis workflow. You will learn how to generate common plots for analysis and visualisation of gene expression data, such as boxplots and heatmaps. You will also be learning how alignment and counting of raw RNA-seq data can be performed in R. This workshop is aimed at biologists interested in learning how to perform differential expression analysis of RNA-seq data when reference genomes are available.. 2019-06-24 08:30:00 UTC 2019-06-24 16:00:00 UTC The Diamond, Workroom 1, Sheffield, United Kingdom The Diamond, Workroom 1 Sheffield United Kingdom S3 7RD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to R

  7 February 2019

  Sheffield, United Kingdom

  Introduction to R http://sbc.shef.ac.uk/training/r-introduction-2019-02-07 https://tess.elixir-europe.org/events/introduction-to-r-1a71189d-660b-4509-b4b3-c3298dcefd0e R is a highly-regarded, free, software environment for statistical analysis, with many useful features that promote and facilitate reproducible research. In this course, we give an introduction to the R environment and explain how it can be used to import, manipulate and analyse tabular data. After the course you should feel confident to start exploring your own dataset using the materials and references provided. 2019-02-07 09:30:00 UTC 2019-02-07 17:00:00 UTC The Diamond - Workroom 2, Sheffield, United Kingdom The Diamond - Workroom 2 Sheffield United Kingdom S1 3JD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to identifying and characterising variants from NGS data

  30 - 31 May 2019

  Sheffield, United Kingdom

  Introduction to identifying and characterising variants from NGS data http://sbc.shef.ac.uk/training/variants-introduction-2019-05-30 https://tess.elixir-europe.org/events/introduction-to-identifying-and-characterising-variants-from-ngs-data-bfeba574-0bba-47f5-9de9-fdabc6d50ce4 This course covers state-of-the-art and best-practice tools for the analysis of genomes. We describe, and give hands-on experience of, the entire analysis workflow from raw data generated by a sequencing machine to deriving variant calls (e.g. Single Nucleotide Variants) that are ready for downstream analysis, interpretation and prioritisation. We will describe the steps involved to go from sequencing library to a prioritised, clinically-relevant list of DNA variants. Practical sessions will use the user-friendly Galaxy interface (https://usegalaxy.org/) to demonstrate tasks such as alignment, quality control, variant-calling and annotation. 2019-05-30 08:30:00 UTC 2019-05-31 16:00:00 UTC The Diamond, Workroom 1, Sheffield, United Kingdom The Diamond, Workroom 1 Sheffield United Kingdom S3 7RD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to Statistical Analysis

  No date given

  Sheffield, United Kingdom

  Introduction to Statistical Analysis http://sbc.shef.ac.uk/training/stats-introduction-2018-06-21 https://tess.elixir-europe.org/events/introduction-to-statistical-analysis This course provides a refresher on the foundations of statistical analysis. Practicals are conducted using the ‘Shiny’ package; which provides an accessible interface to the R statistical language. Note that this is not a course for learning about the R statistical language itself. If you wish to learn more about R, please see other courses at the Sheffield Bioinformatics Core. Pam Liversidge Design Studio 1 - D06, Sheffield, United Kingdom Pam Liversidge Design Studio 1 - D06 Sheffield United Kingdom [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []

• Introduction to Unix for Bioinformatics

  No date given

  Sheffield, United Kingdom

  Introduction to Unix for Bioinformatics http://sbc.shef.ac.uk/training/command-line-2018-05-21 https://tess.elixir-europe.org/events/introduction-to-unix-for-bioinformatics This course offers an introduction to working with Linux. We will describe the Linux environment so that participants can start to utilize command-line tools and feel comfortable using a text-based way of interacting with a computer. We will take a problem-solving approach, drawing on types of tasks commonly encountered by Linux users when processing text files Pam Liversidge Design Studio 2 - E06, Sheffield, United Kingdom Pam Liversidge Design Studio 2 - E06 Sheffield United Kingdom S1 3JD [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []