Manisha Barse

[2025-10-10] OOP in R: Understanding S3 and S4 systems YouTube video by Leonardo Collado Torres

Hi! Check out my #RStats session on #R ’s object systems at @libdrstats.bsky.social - classes, objects, methods, & how all this drives our #bioinformatics workflows.
Niche? Yes. But fascinating!⚙️🔧🧠✨

🎥 youtu.be/EEqIJaDIb1I
🛝 speakerdeck.com/manishabarse...

@lieberinstitute.bsky.social #OOP #S3 #S4

Transcriptomic Analysis of the Human Habenula in Schizophrenia | American Journal of Psychiatry Objective: The objective of this study was to define the molecular neuroanatomy of the human habenula (Hb) and identify transcriptomic differences between brains of individuals with schizophrenia and ...

Proud to announce our paper ‘Transcriptomic Analysis of the Human Habenula in Schizophrenia’ from @lieberinstitute.bsky.social is the cover article for the November issue of the American Journal of Psychiatry! 🧠 #HabenulaLIBD #snRNAseq #Habenula doi.org/10.1176/appi...

Cell-type deconvolution methods for spatial transcriptomics - Nature Reviews Genetics Cell-type deconvolution methods are often needed to analyse spatial transcriptomic data to recover cell-type distributions. In this Review, the authors describe the process of cell-type deconvolution,...

This paper reviews the latest computational approaches for cell-type deconvolution in spatial transcriptomics, comparing tools and data integration.

🔗 doi.org/10.1038/s415...

Thanks 🙌
@lgaspardboulinc.bsky.social, Luca Gortana, @thomas-walter.bsky.social, Emmanuel Barillot & Florence Cavalli

[2025-08-13] Journal club: Cell-type deconvolution methods for spatial transcriptomics YouTube video by Leonardo Collado Torres

Hi everyone! Check my journal club talk on the latest review paper: Cell-type deconvolution methods for spatial transcriptomics 🧬

🎥 www.youtube.com/watch?v=xDjF...
🛝 speakerdeck.com/manishabarse

@lieberinstitute.bsky.social #Bioinformatics #SpatialTranscriptomics #Cell-TypeDeconvolution

[2025-05-30] Reshaping data, Joining tables YouTube video by Leonardo Collado Torres

Hi everyone! Check my beginner-friendly #RStats talk at @lieberinstitute.bsky.social on reshaping, joining, binding, & set ops- all #tidyverse way! Shared simple demo to handle data better!

🎥 youtu.be/5L133h_1SNo
🛝 speakerdeck.com/manishabarse...

@libdrstats.bsky.social #DataWrangling #DataScience

Accurate sample deconvolution of pooled snRNA-seq using sex-dependent gene expression patterns Single-nucleus RNA sequencing (snRNA-seq) technology offers unprecedented resolution for studying cell type-specific gene expression patterns. However, snRNA-seq poses high costs and technical limitat...

Here’s the DOI for the paper discussed in this journal club session: doi.org/10.1101/2024...

[2025-05-02] pseudobulk analysis with pseudoBulkDGE() YouTube video by Leonardo Collado Torres

Presented at @lieberinstitute.bsky.social #RStats club on pseudobulk analysis using pseudoBulkDGE()📊 A handy wrapper for DE analysis following OSCA guidelines-shared a demo & walked through the method!✨
🎥 youtu.be/0OkWBLyLrfg
🛝 speakerdeck.com/manishabarse...

@libdrstats.bsky.social #Bioinformatics

[2025-04-23] Journal club on "[...] deconvolution of pooled snRNA-seq using sex-dependent gene expr" YouTube video by Leonardo Collado Torres

Hi! Check my journal club talk: smart ML method to deconvolute pooled snRNA-seq using sex-specific expression🧬

Thanks @daylab.bsky.social & @rphillips3.bsky.social for this approach🙌

🎥 youtu.be/zpeCFwYfV3o
🛝 speakerdeck.com/manishabarse

#snRNAseq #ML #Bioinformatics @lieberinstitute.bsky.social

Hi Bluesky! 👋 I'm new here and excited to share that I recently gave my first presentation for the #RStats club! I talked about the metrics summary CSV files generated by SpaceRanger for #Visium spatial transcriptomics. Looking forward to connecting and learning together! 🌟