Kinnary Shah

Congrats!!

great post!!

Spatio-molecular gene expression reflects dorsal anterior cingulate cortex structure and function in the human brain In the human brain, the dorsal anterior cingulate cortex (dACC) plays key roles in various components of cognitive control, and is particularly relevant for reward processing and conflict monitoring. ...

using a wide variety of techniques to analyze sequencing data, including non-negative matrix factorization. raw & processed data are available 🧠 check it out here!! www.biorxiv.org/content/10.1...

so excited to share that our preprint characterizing the dorsal anterior cingulate cortex in post-mortem human brain from @lieberinstitute.bsky.social is out! we integrated matched SRT and snRNA-seq data to investigate agranularity and von Economo neurons

thanks, Lukas!

thank you!!

my work with @stephaniehicks.bsky.social and @boyiguo.bsky.social has been published in Biostatistics! tldr: the mean-variance bias exists in SRT data & impacts SVG detection. we propose #spoon, available on @bioconductor.bsky.social, to address this! pmc.ncbi.nlm.nih.gov/articles/PMC... 🤩

Kinnary Shah is a fourth-year PhD candidate and co-president of the Biostats Student Org. Learn more about Kinnary and two of her ongoing research projects, one with the @lieberinstitute.bsky.social, and one with @stephaniehicks.bsky.social, on our website:
publichealth.jhu.edu/departments/...

Spot plots from spatial transcriptomics data highlighting enrichment (black dot in the yellow) of a molecular signature in the dorsal anterior cingulate (left) versus the dorsolateral prefrontal cortex (right) of human brain tissue

despite the rough start, I *think*🤞 I'm on my way, and I am excited and honored for the opportunity to present work led by @kinnaryshah.bsky.social identifying molecular rationale behind evolutionary specializations in the cingulate versus the prefrontal cortex of human 🧠

i had the great opportunity to present some of our work integrating dACC SRT and snRNA-seq data from neurotypical donors at #STATGEN2025 today! keep your eyes peeled for this project - coming out soon 🧠🧬

I haven't worked with imaging data and don't know its properties as well! Definitely open to other opinions/thoughts on this 3/3

Measuring gene expression is inherently noisy, so in lower expressed genes, there is more variability in variance values. I would guess that it does not exist in imaging-based SRT data because those steps do not happen and images are taken for specific genes. This answer is with the caveat that 2/3

Thank you @clarencemah.bsky.social! The mean-var relationship exists in SRT data from barcode-based technologies since the mean-var relationship exists because the sample preparation and library preparation steps seem to have more trouble with reliably quantifying lowly expressed genes 1/3

thank you @stephaniehicks.bsky.social and @boyiguo.bsky.social for your amazing mentorship on this project! so excited that this is finally out