chatomics! From Salmon to DESeq2: RNAseq Data Analysis https://www.youtube.com/watch?v=RWpY7EqHOUw #RNAseq
chatomics! From Salmon to DESeq2: RNAseq Data Analysis https://www.youtube.com/watch?v=RWpY7EqHOUw #RNAseq
In this course, you will learn how to use Galaxy: https://usegalaxy.eu/ to analyse your data.
You are available June 30 - July 4 and can join us on site in Freiburg/Germany?
Then sign up HERE: https://forms.gle/HWRH3pduxgHuzwr67. But be quick. There are only a few spots left.
#galaxy #usegalaxy #freecourse #OER #ngs #rnaseq #metagenomics #dataanalysis #freiburg (2/2)
Ozerova et al. analysed the transcriptomes of two Drosophila species during metamorphosis, finding that transcriptional diversity rises and falls across pupal stages, and insect-specific genes peak at the mid-pupal stage.
doi.org/10.1093/gbe/evaf100
To test whether alternative splicing contributes to adaptation, Rodríguez-Ramírez & Peichel analyzed gill RNA-seq data from marine and freshwater sticklebacks, and identified differentially spliced genes enriched in regions under divergent selection.
doi.org/10.1093/gbe/evaf105
In this course, you will learn how to use Galaxy: https://usegalaxy.eu/ to analyse your data.
You are available June 30 - July 4 and can join us on site in Freiburg/Germany?
Then sign up HERE: https://forms.gle/HWRH3pduxgHuzwr67. But be quick. There are only a few spots left.
#galaxy #usegalaxy #freecourse #OER #ngs #rnaseq #metagenomics #dataanalysis #freiburg (2/2)
Pipeline release! nf-core/rnaseq v3.19.0 - nf-core/rnaseq v3.19.0 - Tungsten Turtle!
Please see the changelog: https://github.com/nf-core/rnaseq/releases/tag/3.19.0
You can still apply: Postdoc job opportunity! We're looking for early career researcher in evolutionary genomics to study the relation between intra-specific gene expression variability, polymorphism, and macro-evolutionary rates. We have all of the data in 3 fishes and amphioxus, just waiting for your expertise and enthusiasm!
https://tinyurl.com/3aewk286
#EvoDevo #MolecularEvolution #bioinformatics #PopulationGenomics #RNAseq #PostDoc
Using broadSeq to analyze RNA-seq data https://bioconductor.org/packages/release/bioc/vignettes/broadSeq/inst/doc/broadSeq.html "The broadSeq package simplifies the process of including many Bioconductor packages for RNA-seq data and evaluating their performance." #rnaseq
Postdoc job opportunity! We're looking for early career researcher in evolutionary genomics to study the relation between intra-specific gene expression variability, polymorphism, and macro-evolutionary rates. We have all of the data in 3 fishes and amphioxus, just waiting for your expertise and enthusiasm!
https://tinyurl.com/3aewk286
#EvoDevo #MolecularEvolution #bioinformatics #PopulationGenomics #RNAseq #PostDoc
Nice RNAseq atlas of small but important crustacean Daphnia pulex, and study of "selection operating on genes expressed in different tissues" https://www.biorxiv.org/content/10.1101/2025.05.01.651673v1 #EvoDevo #MolecularEvolution #RNAseq #Daphnia #Crustacean
Next @deNBI #training course by @galaxyfreiburg: From Data to Discovery: #Metagenomics, #RNAseq - #NGS #Bioinformatics with @galaxyproject (Freiburg, June 30 – July 4, 2025). Registration deadline: May 11. Read more: https://www.denbi.de/training-courses-2025/1883-from-data-to-discovery-metagenomics-rna-seq-ngs-bioinformatics-with-galaxy
Expression quantitative trait locus (eQTL) mapping studies are limited by the need to study a large number of individuals. This study develops a method to scale up #eQTL studies by performing single-nucleus #RNAseq of #Arabidopsis pollen @PLOSBiology https://plos.io/4jPZOzD
Heng Li's bliog: Short RNA-seq read alignment with minimap2 https://lh3.github.io/2025/04/18/short-rna-seq-read-alignment-with-minimap2
"TL;DR: the new preset splice:sr in minimap2 can align short RNA-seq reads. It is similar to STAR in resource usage, approaches STAR in junction accuracy, and is overall better at SNP calling."
Pipeline release! nf-core/rnavar v1.1.0 - nf-core/rnavar 1.1.0 - Mighty Milano!
Please see the changelog: https://github.com/nf-core/rnavar/releases/tag/1.1.0
asking for a friend: do you know any database/framework to visualize RNAseq data ? (just like https://github.com/broadinstitute/gnomad-browser for WGS)
Pipeline release! nf-core/scrnaseq v4.0.0 - 4.0.0!
Please see the changelog: https://github.com/nf-core/scrnaseq/releases/tag/4.0.0
Pipeline release! nf-core/denovotranscript v1.2.0 - nf-core/denovotranscript v1.2.0!
Please see the changelog: https://github.com/nf-core/denovotranscript/releases/tag/1.2.0
Bioconductor Course, Kenya 2025
We’re thrilled to announce our first in-person Bioconductor course in Kenya, happening March 24–28, 2025, at the ILRI Campus in Nairobi!
This free, week-long course is for bioinformatics beginners, covering R, Bioconductor, and RNA-seq workflows, and aims to grow the Bioconductor community in Africa.
Apply now: https://buff.ly/40CJL02
Learn more: https://training.bioconductor.org/workshops/2025-03-Nairobi/index.html
We obtained #RNAseq from tooth germs over the embryonic and postnatal period where the major events of morphogenesis occur, from bud, to cap, to bell stage until differentiation and enamel/dentin secretion, and obtained clusters of coexpressed genes per stage.