Avi Srivastava

We found a surprisingly large technical artifact hiding in a widely-used scRNA-seq technology. In all Flex v1 datasets we’ve analyzed, we see hundreds of DE genes between probe set barcodes. More on why this matters and what to do about it below: biorxiv.org/content/10.648… (1/n)

If you use 10x Flex for single-cell profiling, check out our new paper that might have implications for your experimental design and analysis. We introduce probe set barcode as a major source of technical variation in probe-based single-cell data.

Not sure if this is AI but a pretty cool idea to reiterate papers in the form a podcast. I have heard only a few and it is pretty good, bonus use of commute time! podcasts.apple.com/us/podcast/pap…

@gracexyzheng @perturbai_tx Congratulations Grace!

Excited to introduce @perturbai_tx , a company I co-founded to rethink drug discovery. Biology is complex, and disease unfolds across genes, cell types and tissues. We are powering AI with the causal logic of human genetics. perturb.ai

How specific are therapeutic monoclonal antibodies, really? In our new paper, @Yile_Dai led a collaboration with Adimab to profile 174 FDA-approved and clinical-stage mAbs against 6,172 human extracellular proteins. What we found surprised us.🧵 sciencedirect.com/science/articl…

BenchDrop-seq: a microfluidics-free platform for benchtop single-cell long-read RNA sequencing | bioRxiv biorxiv.org/content/10.648…

Just finished “The Catalyst”. A fascinating journey into ribozymes and the catalytic power of RNA. Highly recommended for anyone interested in RNA biology. amazon.com/Catalyst-Quest…

scDEcrypter: Uncertainty-aware differential expression analysis for viral infection in scRNA-seq biorxiv.org/content/10.648… #biorxiv_genomic

@gamzeandgursoy @Cambridge_Uni Congratulations Gamze and best wishes on your new adventure.

Dear friends, after many wonderful years in the U.S., it’s time for a new adventure. My lab and I are moving to the Department of Applied Mathematics and Theoretical Physics at the @Cambridge_Uni starting April 2026. If you’re in the UK, come say hi. If you’re not, come visit 🙂

BenchDrop-seq: a microfluidics-free platform for benchtop single-cell long-read RNA sequencing biorxiv.org/content/10.648… #biorxiv_genomic

Interested in analysing single-cell transcriptomics data and need help getting started? Come to our (first) 'Quantitative Single-cell Biology Workshop' @KCDH_IITB! Application: saketlab.in/qscb-workshop/ Thanks to @k3yavi for co-leading and IoE @iitbombay for funding!

Dashboard + data for visualising and keeping track multi-day (weekly) trends of Covid-19 cases and deaths in India: india-covid19-viz.web.app Data Source: MoHFW's dashboard (which provides only single-day trends).

Given some recent publications regarding #RNA #Splicing prediction using #DeepLearning we decided to assess some of those claims with surprising findings that have to do more with the target function you chose… biociphers.wordpress.com/2025/04/09/tis…

I think about this almost every day

@nomad421 @scarecrow00007 Congratulations Jamshed ....!

Congratulations to @scarecrow00007 on defending his dissertation "Parallel and External-Memory Algorithms for Large-Scale Genomic Sequence-Graph and -Index Construction" which describes, among other things, Cuttlefish 1,2 and (preprint imminent) 3!

@nomad421 What new features/use cases you are excited about that others should know?

Yo; so Rust just kinda did this thing: github.com/rust-lang/rust…! Congratulations to the team, I'm really looking forward to using the 2024 edition :)!

Wet-lab innovations will lead the AI revolution in biology abhishaike.com/p/wet-lab-inno… i feel like i keep repeating this argument to people so i decided to just write it out 1.9k words, 9 minutes reading time, very short!

For those with high arches, who may have difficulty finding comfortable running shoes, Dr. John Vasudevan says to get shoes that are cushioned and considered neutral, offering little support offsetting pronation, the natural inward turning of the foot. spr.ly/6013iBML5

It’s finally out! 🥳 Today @cellcellpress we report non-mineral fossils of ancient chromosomes in skin from a woolly mammoth that died in Siberia, 52,000 years ago. 🦣💨 Don’t miss our thread below! 🧵👇🏽

Today Illumina is acquiring @FluentBio to accelerate the adoption of single-cell analysis and help customers with the broadest range of project sizes. Learn more: bit.ly/3XYQdPk