WORKSHOP: RNASeq: reads to differential genes and pathways
This record includes training materials associated with the Australian BioCommons workshop 'RNASeq: reads to differential genes and pathways'. This workshop took place over two, 3 hour sessions on 11 and 12 October 2023.Event descriptionRNA sequencing (RNAseq) is a popular and powerful technique...
Keywords: bioinformatics, transcriptomics, RNA-seq, RNAseq
WORKSHOP: RNASeq: reads to differential genes and pathways
https://zenodo.org/records/10045628
https://dresa.org.au/materials/workshop-rnaseq-reads-to-differential-genes-and-pathways
This record includes training materials associated with the Australian BioCommons workshop 'RNASeq: reads to differential genes and pathways'. This workshop took place over two, 3 hour sessions on 11 and 12 October 2023.Event descriptionRNA sequencing (RNAseq) is a popular and powerful technique used to understand the activity of genes. Using differential gene profiling methods, we can use RNAseq data to gain valuable insights into gene activity and identify variability in gene expression between samples to understand the molecular pathways underpinning many different traits. In this hands-on workshop, you will learn RNAseq fundamentals as you process, analyse, and interpret the results from a real RNAseq experiment on the command-line. In session one, you will convert raw sequence reads to analysis-ready count data with the nf-core/rnaseq workflow. In session two, you'll work interactively in RStudio to identify differentially expressed genes,perform functional enrichment analysis, and visualise and interpret your results using popular and best practice R packages. This workshop was delivered as a part of the Australian BioCommons Bring Your Own Data Platforms Project and will provide you with an opportunity to explore services and infrastructure built specifically for life scientists working at the command line. By the end of the workshop, you will be familiar with Pawsey's Nimbus cloud platform and be able to process your own RNAseq datasets and perform differential expression analysis on the command-line. Materials are shared under a Creative Commons Attribution 4.0 International agreement unless otherwise specified and were current at the time of the event.Lead trainers: Dr Georgina Samaha (Sydney Informatics Hub), Dr Nandan Deshpande (Sydney Informatics Hub)Facilitators: Ching-Yu Lu and Jessica Chung.Infrastructure provision: Audrey Stott (Pawsey Supercomputing Research Centre), Alex Ip (AARNet)Host: Melissa Burke, Australian BioCommons Training materialsFiles and materials included in this record:Event metadata (PDF): Information about the event including, description, event URL, learning objectives, prerequisites, technical requirements etc.Index of training materials (PDF): List and description of all materials associated with this event including the name, format, location and a brief description of each file.Materials shared elsewhere:This workshop follows the tutorial 'Introduction to RNAseq workshop: reads to differential gene expression' developed by the Sydney Informatics Hub.https://sydney-informatics-hub.github.io/rnaseq-workshop-2023/Additional supporting materials are available via GitHubRstudio rnaseq container: https://github.com/Sydney-Informatics-Hub/Rstudio-rnaseq-contained/tree/mainRNAseq differential expression R notebook: https://github.com/Sydney-Informatics-Hub/rna-differential-expression-Rnotebook
Melissa Burke (melissa@biocommons.org.au)
Samaha, Georgina (orcid: 0000-0003-0419-1476)
Deshpande, Nandan (orcid: 0000-0002-0324-8728)
Lu, Ching-Yu
Chung, Jessica (orcid: 0000-0002-0627-0955)
Stott, Audrey
Ip, Alex (orcid: 0000-0001-8937-8904)
bioinformatics, transcriptomics, RNA-seq, RNAseq
ARDC FAIR Data 101 self-guided
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the...
Keywords: training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
ARDC FAIR Data 101 self-guided
https://zenodo.org/records/5094034
https://dresa.org.au/materials/ardc-fair-data-101-self-guided-2d794a84-f0ff-4e11-a39c-fa8ea481e097
FAIR Data 101 v3.0 is a self-guided course covering the FAIR Data principles
The FAIR Data 101 virtual course was designed and delivered by the ARDC Skilled Workforce Program twice in 2020 and has now been reworked as a self-guided course.
The course structure was based on 'FAIR Data in the Scholarly Communications Lifecycle', run by Natasha Simons at the FORCE11 Scholarly Communications Institute. These training materials are hosted on GitHub.
contact@ardc.edu.au
Stokes, Liz (orcid: 0000-0002-2973-5647)
Liffers, Matthias (orcid: 0000-0002-3639-2080)
Burton, Nichola (orcid: 0000-0003-4470-4846)
Martinez, Paula A. (orcid: 0000-0002-8990-1985)
Simons, Natasha (orcid: 0000-0003-0635-1998)
Russell, Keith (orcid: 0000-0001-5390-2719)
McCafferty, Siobhann (orcid: 0000-0002-2491-0995)
Ferrers, Richard (orcid: 0000-0002-2923-9889)
McEachern, Steve (orcid: 0000-0001-7848-4912)
Barlow, Melanie (orcid: 0000-0002-3956-5784)
Brady, Catherine (orcid: 0000-0002-7919-7592)
Brownlee, Rowan (orcid: 0000-0002-1955-1262)
Honeyman, Tom (orcid: 0000-0001-9448-4023)
Quiroga, Maria del Mar (orcid: 0000-0002-8943-2808)
training material, FAIR data, video, webinar, activities, quiz, FAIR, research data management
