BEGIN:VCALENDAR VERSION:2.0 PRODID:icalendar-ruby CALSCALE:GREGORIAN BEGIN:VEVENT DTSTAMP:20260716T113807Z UID:be3c4437-899b-416b-8eee-549d005463ed DTSTART:20261008T090000Z DTEND:20261009T170000Z DESCRIPTION:# Overview\nBulk RNA sequencing (bulk RNA-seq) is a technique t hat measures the average gene expression across a population of cells or a tissue sample. It provides a global view of the transcriptome by pooling RNA from many cells\, which is then converted to cDNA\, sequenced\, and an alyzed to identify gene expression differences between samples under diffe rent conditions. Bulk RNA-seq is used for tasks like comparing gene expres sion in healthy versus diseased tissues\, identifying biomarkers\, and ana lyzing cellular pathways. \n\nThis 2-day course will present the theory a nd bioinformatics tools required to analyze RNA-seq gene expression data. The course will present the theory and bioinformatics tools required to an alyse RNA-seq gene expression data\, from the raw data until the biologica l interpretation. The following topics will be discussed:\n* Quality contr ol\n* Mapping to genomes &\; transcriptomes\n* Read counting\, gene &am p\; exons differential expression analysis\n* GO enrichment and pathway an alysis\n\n# Audience\nThis course is designed for PhD students\, postdocto ral and other researchers in the life sciences from both academia and indu stry who are familiar with "Next Generation Sequencing" and who wish to ac quire the necessary skills to analyse RNA-seq gene expression data.\n\n# L earning outcomes\nAt the end of the course\, the participants should be ab le to:\n* **Describe** advantages and pitfalls of RNA sequencing\n* **Desi gn** their own experiment\n* **Perform** the downstream analysis using com mand line software (QC\, mapping\, counting\, differential expression anal ysis\, pathway analysis\, etc)\n* Critically **assess** the quality of the ir results at each step of the downstream analysis\n\n# Prerequisites\n### ## Knowledge / competencies\nParticipants must have basic knowledge in **N ext-Generation Sequencing (NGS) techniques**.\n\nThis course is part of th e [Omics Data Analysis learning path](https://www.sib.swiss/training/learn ing-paths?path=omics-data-analysis). To get the most out of this course\, you should meet the learning outcomes of [First Steps with R in Life Scien ces](https://www.sib.swiss/training/course/FSWRR) and [UNIX fundamentals]( https://www.sib.swiss/training/course/2012_UNIXF). Upon completion of this course\, you may wish to attend the [Single-Cell Transcriptomics with R]( https://www.sib.swiss/training/course/ISCTR).\n\nIn case of doubt\, evalua te your **R skills** [here](https://docs.google.com/forms/d/e/1FAIpQLSdIye uabd_ZOWXgI1MWHapmaOMu20L9ESkLDZiWnpmkpujyOg/viewform?usp=sf_link) and you r **UNIX skills** [here](https://docs.google.com/forms/d/e/1FAIpQLSd2BEWeO KLbIRGBT_aDEGPce1FOaVYBbhBiaqcaHoBKNB27MQ/viewform?usp=sf_link).\n\n##### Technical\nYou will need access to a computer.\n\nYou should also have acc ess to a terminal on your computer: \n\n macOS / Linux: you can use the de fault terminal. If you are unfamiliar with scp\, you may want to install a graphical client for file transfer\, such as fileZilla \nWindows\, you sh ould install a terminal which lets you do ssh (for instance mobaXterm).\n\ n\n\n# Application\n\n\n\n\n\nThe registration fees for academics are **20 0 CHF** and **1000 CHF** for for-profit companies. While participants are registered on a first come\, first served basis\, exceptions may be made to ensure diversity and equity\, which may increase the time before your r egistration is confirmed.\n\nYou will be informed by email of your registr ation confirmation. Upon reception of the confirmation email\, participant s will be asked to confirm attendance by paying the fees within **5 workin g days**. \n\nApplications will close on **29/09/2026** or as soon as the places will be filled up. Cancellation after **29/09/2026** will not be re imbursed. Please note that participation in SIB courses is subject to our [general conditions](https://www.sib.swiss/training/terms-and-conditions). \n\n\n# Venue and Time\nThis course will take place at the University of B asel.\n\nThe course will start at 9:00 CET and end around 17:00 CET.\n\nPr ecise information will be provided to the registered participants in due t ime.\n\n# Additional information\nCoordination: Monique Zahn\, SIB Trainin g group.\n\nA **Certificate of Attendance** will be sent provided you were present at the course\, whereas a **Certificate of Achievement** recommen ding 0.5 ECTS credits will be sent provided you passed the exam.\n\nYou ar e welcome to register to the SIB courses mailing list to be informed of al l future courses and workshops\, as well as all important deadlines using the form [here](https://lists.sib.swiss/mailman/listinfo/courses).\n\nPlea se note that participation in SIB courses is subject to our [general condi tions](https://www.sib.swiss/training/terms-and-conditions).\n\nSIB abides by the [ELIXIR Code of Conduct](https://elixir-europe.org/events/code-of- conduct). Participants of SIB courses are also required to abide by the sa me code.\n\nFor more information\, please contact [training@sib.swiss](mai lto://training@sib.swiss). SUMMARY:Introduction to Bulk RNA-Seq: From Quality Control to Pathway Analy sis URL;VALUE=URI:https://www.sib.swiss/training/course/20261008_IRNAS END:VEVENT END:VCALENDAR