Announcing Upcoming Bioinformatics Workshops in Davis and at UCSF

mRNA-Seq, Single-Cell RNA-Seq,and Microbial Community Analysis!

Now in our 12th year of training researchers, the UC Davis Bioinformatics Core invites you to attend one or more of our 2019 workshops. The following workshops are suitable for beginners, and are also of interest to those with some data analysis experience.

For more information on these and other events, and to register, go to https://registration.genomecenter.ucdavis.edu/

March 11-14: RNA-Seq Workshop @ UCSF

August 19-23: RNA-Seq Workshop @ UC Davis

This popular workshop contains a rich collection of lectures and hands-on sessions, covering both theory and tools associated with command-line RNA-seq data analysis. Topics include experimental design, cost estimation, data generation, and analysis of RNA-Seq data generated on the Illumina sequencing platform, as well as post differential expression analyses, such as gene set enrichment analysis, Gene Ontology/Pathway analysis, and generation of relevant figures and tables.

Participants will explore software and protocols, create and modify workflows, and diagnose/treat problematic data utilizing high performance computing services. Exercises will be performed with provided datasets, using command-line interaction and with RStudio.  (This workshop does not cover single-cell RNA-Seq)

June 24-27: Single-Cell RNA-Seq Workshop @ UC Davis

July 1-3: Single-Cell RNA-Seq Workshop @ UCSF

This workshop will cover experimental design, data generation, and analysis of single-cell RNA sequencing data (primarily generated using the 10x platform) on the command line and within the R statistical programming language. Participants will explore software and protocols, create and modify workflows, and diagnose/treat problematic data utilizing high performance computing services. The primary packages used for analysis will be 10x software (for sequence reads to counts) and the R packages (e.g, Seurat) for downstream analysis.

September 3-6: Microbial Community Analysis @ UC Davis

This workshop covers amplicon-based microbial analysis and methodology using high throughput sequencing technologies.  Topics will include:

  • Differences between communty analysis with amplicons versus shotgun metagenomics and metatranscriptomics
  • Experimental design
  • Sequence data quality assurance and expectations
  • Processing of amplicon reads (using the python application dbcAmplicons)
  • Analysis of community structure (using R and vegan)
  • Lecture on metagenome assembly and metatranscriptome assembly and annotation
  • Post analysis and visualization (using R)

Exercises will be performed with provided datasets, using command-line interaction and with RStudio.

For more information and to register, go to https://registration.genomecenter.ucdavis.edu/.

If you would like to take a look at the documentation from previous workshops, see https://bioinformatics.ucdavis.edu/training/documentation/.

Questions? Contact us at training.bioinformatics@ucdavis.edu

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