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DESCRIPTION:**NOTE: This has been moved to an online mode (previously in-pe
 rson in Bern)** \n\n\n# Overview\n\nSingle-cell RNA sequencing (scRNAseq) 
 allows researchers to study gene expression at the single cell level. For 
 example\, scRNAseq can help to identify expression patterns that differ be
 tween conditions within a cell-type. To generate and analyze scRNAseq data
 \, several methods are available\, all with their strengths and weaknesses
  depending on the researchers’ needs.\n\nThis 3-day course will cover th
 e main technologies as well as the main aspects to consider while designin
 g a scRNAseq experiment. In addition\, it will cover the theoretical backg
 round of analysis methods with hands-on practical data analysis sessions a
 pplied to droplet-based methods.\n\n# Audience\nThis course is designed fo
 r PhD students\, postdoctoral and other researchers in the life sciences f
 rom both academia and industry who are familiar with next-generation seque
 ncing (NGS) and want to acquire the necessary skills to analyse scRNA-seq 
 gene expression data.\n\n# Learning outcomes\n\nAt the end of the course\,
  the participants are expected to:\n\n* Distinguish advantages and pitfall
 s of scRNA-seq\, including its applications in experimental design.\n* Des
 ign their own scRNA-seq experiment\, by using common technologies like 10X
  Genomics.\n* Apply quality control (QC) measures and utilize analysis too
 ls to preprocess scRNA-seq data.\n* Apply normalization\, scaling\, dimens
 ionality reduction\, and integration and clustering on single-cell transcr
 iptomics data techniques using R.\n* Differentiate between cell annotation
  techniques to identify and characterize cell populations.\n* Use differen
 tial gene expression analysis methods on single-cell transcriptomics data 
 to gain biological insights.\n* Select enrichment analysis methods appropr
 iate to the biological question and data.\n* Develop a single-cell transcr
 iptomics data analysis workflow from raw count matrix to differential gene
  expression with peer support and light guidance.\n  \n\n# Prerequisites\n
 ##### Knowledge / competencies\n\nYou should meet the learning outcomes of
  [Introduction to bulk RNA-Seq: From Quality Control to Pathway Analysis](
 https://www.sib.swiss/training/course/20250925_IRNAS)\, [NGS - Quality con
 trol\, Alignment\, Visualisation](https://www.sib.swiss/training/course/20
 241120_NGSQC)\, [First Steps with R in Life Sciences](https://www.sib.swis
 s/training/course/20251013_FSWR) and [UNIX Fundamentals](https://edu.sib.s
 wiss/pluginfile.php/2878/mod_resource/content/4/couselab-html/content.html
 ).\n\nIn summary\, participants must have basic knowledge in **Next-Genera
 tion Sequencing (NGS) techniques**\, **R** ([evaluate your R skills here](
 https://docs.google.com/forms/d/e/1FAIpQLSdIyeuabd_ZOWXgI1MWHapmaOMu20L9ES
 kLDZiWnpmkpujyOg/viewform?usp=sf_link)) and **UNIX** ([test your skills he
 re](https://docs.google.com/forms/d/e/1FAIpQLSd2BEWeOKLbIRGBT_aDEGPce1FOaV
 YBbhBiaqcaHoBKNB27MQ/viewform?usp=sf_link)).\n\n\n##### Technical\nAttende
 es should have a Wi-Fi enabled computer. **An online R and RStudio environ
 ment will be provided.** However\, in case you wish to perform the practic
 al exercises on your own computer\, please install an [R version &gt\; 4.4
 ](https://www.r-project.org/) and the [latest RStudio version](https://www
 .rstudio.com/products/rstudio/download/#download) (the free version is per
 fectly fine) before the course.\n\n\n\n# Schedule\nThe course schedule wil
 l be communicated in due time\; that for past occurences is found on [GitH
 ub](https://sib-swiss.github.io/single-cell-training/course_schedule.html)
 .\n\n\n\n# Application\n\n\n\n\nThe registration fees for academics are **
 300 CHF** and **1500 CHF** for for-profit companies. While participants ar
 e registered on a first come\, first served basis\, exceptions may be made
  to ensure diversity and equity\, which may increase the time before your 
 registration is confirmed.\n\nApplications will close once the places will
  be filled. Deadline for registration and free-of-charge cancellation is s
 et to **09/06/2026**. Cancellation after this date will not be reimbursed.
  Please note that participation in SIB courses is subject to our [general 
 conditions](https://www.sib.swiss/training/terms-and-conditions).\n\nYou w
 ill be informed by email of your registration confirmation. Upon reception
  of the confirmation email\, participants will be asked to confirm attenda
 nce by paying the fees within 5 days.\n\n# Venue and Time\n\nThis course w
 ill be streamed online.\n\nPrecise information will be provided to the par
 ticipants in due time.\n\n\n#  Additional information\nCoordination: Geert
  van Geest\, SIB Training group.\n\nWe will recommend 0.75 ECTS credits fo
 r this course (given a passed exam at the end of the course).\n\nYou are w
 elcome to register to the SIB courses mailing list to be informed of all f
 uture courses and workshops\, as well as all important deadlines using the
  form [here](https://lists.sib.swiss/mailman/listinfo/courses).\n\nPlease 
 note that participation in SIB courses is subject to our [general conditio
 ns](https://www.sib.swiss/training/terms-and-conditions).\n\nSIB abides by
  the [ELIXIR Code of Conduct](https://elixir-europe.org/events/code-of-con
 duct). Participants of SIB courses are also required to abide by the same 
 code.\n\nFor more information\, please contact [training@sib.swiss](mailto
 ://training@sib.swiss).
SUMMARY:Single-Cell Transcriptomics with R
URL;VALUE=URI:https://www.sib.swiss/training/course/20260318_ISCTR
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