🚨 Application deadline extension! 🚨 Did you miss your chance to apply for #EMBLATAC? You're in luck, because now you have time until next Monday, 22 January, to do so! Apply here: https://s.embl.org/ata24-01
The aim of this course is to enable you to:
🔹Perform complete flow for single cell ATAC-seq experiments
🔹Process and quality control of single cell ATAC-seq data
🔹Visualise the data and call differences between samples
🔹Analyse and interpret the data using existing tools
@cyrilpedia sadly this is an absolute classic when new technologies emerge, then it turns out they're not as good as each other, and then someone tries to benchmark & rank them! #scatacseq
"NB cells signal to the BM microenvironment, rewiring via macrophage migration inhibitory factor and #midkine signaling specifically #monocytes ..."
#Neuroblastoma paper by Fetahu et al., the latest publication from the Taschner-Mandl lab in Vienna.
Going through this right now - very alike our own work - and talking to a few team members on Wednesday while they visit our center.
#macrophages #scATACseq #scRNAseq #OpenAccess #cancer #immunology
Data available on EGA, behind a DAC.
Thanks to Dr. Yang Bai, @10xGenomics and @illumina for organizing a fun & informative #singlecell symposium @rpi yesterday, including talks by 3 excellent #WomenInSTEM: SUNY's Melinda Larsen, RPI's Elizabeth Blaber, and our own Taylor Bertucci.
#scRNAseq #scATACseq
@RPIcbis
Anyone know a good review paper / learning resource for building gene regulatory networks #GRN from #scATACseq #ATACseq and/or #scRNAseq data?
Thanks!
CellOracle builds context-specific #GeneRegulatoryNetworks from combined #scRNAseq #scATACseq data.
Tweetorial from @morris_lab@twitter.com here:
https://twitter.com/morris_lab/status/1623354686630764552?t=EnoMEjFSG-dnY5J_i-NMAg&s=19
A new multiomics study from Satija Rahul's lab identified a unique population of CD8+ T cells after COVID-19 vaccination. These cells are the SARS-CoV-2 antigen specific and capable of rapid clonal expansion. The relative frequency and differentiation of these cells can predict clinical outcomes for COVID-19 patients. #covid #multiomics #scRNAseq #scATACseq #CITEseq #ASAPseq #TCR
https://www.biorxiv.org/content/10.1101/2023.01.24.525203v1
scFates: a python package for pseudotime analysis from single cell data #scRNAseq #scATACseq #bioinformatics #python
https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btac746/6832042
SComatic: a new #singlecell tool to detect somatic mutation from #scRNAseq #scATACseq data. #bioinformatics #python @biorxivpreprint https://www.biorxiv.org/content/10.1101/2022.11.22.517567v1
scFates: a python package for pseudotime analysis from single cell data #scRNAseq #scATACseq #bioinformatics #python
https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btac746/6832042
