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Arjun Bhattacharya

@arjunbhattac.bsky.social

Assistant Professor, Epidemiology at MD Anderson. Molecular epi and statistical genomics to understand cancer and human development https://bhattacharya-lab.com/

24 Posts342 Follower406 Folgt
Arjun Bhattacharya@arjunbhattac.bsky.social · 4mo ago

Another preprint from our group @mdanderson.bsky.social led by talented postdoc @seantbres.bsky.social! Joint with @jonhuang.bsky.social, exploring the intersection of environmental toxins, maternal/fetal health, and placental txomics. Tweet thread below!

Sean Bresnahan@seantbres.bsky.social · 4mo ago

🧬Another new preprint with @jonhuang.bsky.social @uhmanoa.bsky.social & @arjunbhattac.bsky.social @mdanderson.bsky.social ! We used variation in how PFAS cross the placenta to dissect the transcriptional architecture of effects on birthweight & gestational age🧵 www.biorxiv.org/content/10.6...

Transplacental transfer efficiency reveals dose-dependent network architectures linking PFAS exposure to birth outcomes. Per- and polyfluoroalkyl substances (PFAS) exhibit varied transplacental transfer efficiencies (TPTE), quantified as the ratio of fetal cord blood to maternal blood concentrations. PFOS shows low TPTE with limited fetal exposure, while PFBS demonstrates high TPTE with substantial transfer to the fetus. PFAS concentrations were measured in maternal blood and fetal cord blood alongside placental transcriptomics, gestational age at delivery, and birth weight. Placental transcripts mediating PFAS effects on birth weight were characterized by four network properties: mediator count (number of significant mediating transcripts), co-expression strength (|kME|, representing correlation with module eigengene and shown as network connectivity), network centrality (hub positioning within the network), and compartmentalization (spatial clustering of maternal versus fetal mediators). Birth weight exhibited coordinated TPTE-dependent responses across these network metrics, with high-TPTE compounds engaging more numerous, strongly co-expressed mediators occupying central network positions with distinct maternal-fetal compartmentalization. In contrast, gestational age showed minimal coordinated network reorganization in response to TPTE variation, indicating distinct molecular architectures underlying PFAS effects on these different outcomes.
Harold Pimentel@hjp.bsky.social · 10mo ago

Super excited to get this out. This collab started a few years ago and is the first paper from it. Here, with experimental and computational approaches we: 1. establish that cell villages can be just as accurate (one might argue more accurate!) than arrayed-based designs bsky.app/profile/bior...

bioRxiv Genetics@biorxiv-genetic.bsky.social · 10mo ago

Cell villages and Dirichlet modeling map human cell fitness genetics https://www.biorxiv.org/content/10.1101/2025.09.26.678880v1

Wolfgang Huber@wkhuber.bsky.social · 11mo ago

When testing a computational data analysis method: simulated data are good for checking whether the method is doing what you think it should be doing, real data for checking whether what you think it should be doing is any good.

Arjun Bhattacharya@arjunbhattac.bsky.social · 12mo ago

Very proud of @ytchang11.bsky.social for her first publication from her doctoral research! She conducted very meticulous genomic analyses that uncovered novel isoform-specific mechanistic hypotheses underlying genetic loci associated with multiple cancers. www.nature.com/articles/s41...

Isoform-level analyses of 6 cancers uncover extensive genetic risk mechanisms undetected at the gene-level - British Journal of Cancer

British Journal of Cancer - Isoform-level analyses of 6 cancers uncover extensive genetic risk mechanisms undetected at the gene-level

nature.com

Michael Love@mikelove.bsky.social · 12mo ago

Excited to share this preprint from first author Jon Rosen, a postdoctoral fellow in the @klmohlke.bsky.social lab and my lab. We examine eQTL study sample size and how this affects signal discovery and rates of colocalization with GWAS. www.biorxiv.org/content/10.1...

Higher eQTL power reveals signals that boost GWAS colocalization

Expression quantitative trait locus (eQTL) studies in human cohorts typically detect at least one regulatory signal per gene, and have been proposed as a way to explain mechanisms of genetic liability...

biorxiv.org

David A Knowles@davidaknowles.bsky.social · last yr.

New work from the lab trying to wrap our heads around the massive complexity of the human transcriptome revealed by long-read RNA-seq! Fun collab with Gloria Sheynkman. www.biorxiv.org/content/10.1...

Perplexity as a Metric for Isoform Diversity in the Human Transcriptome

Long-read sequencing (LRS) has revealed a far greater diversity of RNA isoforms than earlier technologies, increasing the critical need to determine which, and how many, isoforms per gene are biologic...

biorxiv.org

Arjun Bhattacharya@arjunbhattac.bsky.social · last yr.

Excited to share new work investigating transcriptional diversity in the placenta from our group led by talented postdoc @seantbres.bsky.social! Thread below describing the salient results. Welcoming any feedback and comments.

Sean Bresnahan@seantbres.bsky.social · last yr.

🧬🚨PREPRINT🚨- The first placental isoform reference from long-read seq & supporting data! We demonstrate how tissue-specific assembly improves transcript quantification with short-read data from multi-ancestry birth studies & reveals placenta-mediated effects of gestational diabetes on birth weight🫄

Sean Bresnahan@seantbres.bsky.social · last yr.

Much more important things going on in the world, but wanted to share this new work on parent-of-origin effects & “non-canonical” genomic imprinting in developmental plasticity of honey bees, out now in Genome Biology 🧪🧬🔄 link.springer.com/article/10.1...

Intragenomic conflict associated with extreme phenotypic plasticity in queen-worker caste determination in honey bees (Apis mellifera) - Genome Biology

Background Caste determination of honey bees (Apis mellifera) exemplifies developmental plasticity, where differences in larval diet result in identical genotypes yielding either long-lived, reproduct...

link.springer.com

Arjun Bhattacharya@arjunbhattac.bsky.social · last yr.

Drop by and say hi to @mdanderson.bsky.social Postdoctoral Data Scientist @seantbres.bsky.social if you’re at Biology of Genomes. He’ll be presenting some new work from our group that he’s championed. You’ll have an interesting science and/or science policy discussion!

Sean Bresnahan@seantbres.bsky.social · last yr.

In NY for Biology of Genomes @cshlnews.bsky.social this week. During a layover on the way here, I tried to write a bit to communicate some of the work our group is doing, and why federal research funding for basic science matters substack.com/home/post/p-...

Yoav Gilad@ygilad.bsky.social · 2y ago

Friends and colleagues, I’ve written a book on effective functional genomics study design, which will be available on Amazon in a couple of weeks. Sharing the TOC to spark interest. I hope students and those planning genomics experiments will find it useful! I’ll share updates soon

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Jess Ewald@ewaldlab.org · 2y ago

🎉 I'm starting my own lab at EMBL-EBI (Cambridge, UK; June 2025) 🎉 We will focus on identifying and characterizing chemical hazards to humans and ecosystems using computational biology methods. I am beginning the search for two postdocs now - stay tuned for more details! ewaldlab.org

Ewald Lab

@ EMBL-EBI. We identify and characterize chemical hazards to both humans and ecosystems with cell profiling data, machine learning, and integrative data analysis.

ewaldlab.org

Arjun Bhattacharya@arjunbhattac.bsky.social · 3y ago

Our isoTWAS work with the Pasaniuc and Gandal labs is out at Nature Genetics! Great team effort, especially from Daniel Vo and Connor Jops. Appreciate the helpful and thoughtful comments from reviewers that improved our work! www.nature.com/articles/s41...

Isoform-level transcriptome-wide association uncovers genetic risk mechanisms for neuropsychiatric d...

A multivariate framework for isoform-resolution transcriptome-wide association studies enables modeling of a greater number of genes, with the benefit of identifying isoform-specific associations with...

nature.com