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nebanovich.bsky.social
Nick Banovich
@nebanovich.bsky.social
1.4K followers 1.2K following 170 posts
Associate Professor at TGen.org. Interested in genmoics, single cell and spatial transcriptomics, lung disease, and oftentimes fishing. banovichlab.org
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Reposted by Nick Banovich
roshnipatel.bsky.social
Roshni Patel @roshnipatel.bsky.social · 1d
I'm recruiting a postdoc for my group (based in beautiful Eugene, OR). Please get in touch if you're interested, esp if you'd like to chat at #ASHG25!
roshnipatel.bsky.social
Roshni Patel @roshnipatel.bsky.social · Aug 6
We'll primarily work at the intersection of statistical and population genetics, and we also have active projects related to the ethical and social implications of human genetics (ELSI). Please get in touch if that's a combination that sounds interesting to you!
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · 1d
After a short *3 hour* flight delay excited to be in the air on the way to Boston for #ASHG25. Looking forward to sharing the lab's work.
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · 3d
Great new work from the Barthel lab!
florisbarthel.bsky.social
Floris Barthel @florisbarthel.bsky.social · Jul 14
Thrilled to share our preprint led by the lab's incredible first PhD student, @sharvarimankame.bsky.social! 🎉 We've explored the longitudinal consequences of temozolomide (TMZ) treatment & host co-culture in #Glioblastoma using cell-free DNA (cfDNA) sequencing. A deep dive into therapeutic impact..
Cell-Free DNA Reveals the Longitudinal Effects of Temozolomide Treatment and Host Co-Culture in Glioblastoma Models
Glioblastoma (GBM) is a highly aggressive brain tumor with limited options for longitudinal monitoring. We evaluated the potential of cell-free DNA (cfDNA) as a real-time biomarker of tumor burden und...
doi.org
Reposted by Nick Banovich
kauralasoo.bsky.social
Kaur Alasoo @kauralasoo.bsky.social · 14d
Happy to share that this work together with @opentargets.org is now out at Nature Communications.
opentargets.org
Open Targets @opentargets.org · 14d
Out now in Nature Comms: the largest trans-eQTL meta-analysis in a single cell type!

An Open Targets team led by Krista Freimann and @kauralasoo.bsky.social analysed 3,734 lymphoblastoid cell line samples across nine cohorts, identifying four robust loci

www.nature.com/articles/s41...
Trans-eQTL mapping prioritises USP18 as a negative regulator of interferon response at a lupus risk locus - Nature Communications | Open Targets
Out now in Nature Comms: the largest trans-eQTL meta-analysis in a single cell type! An Open Targets team led by Krista Freimann and Kaur Alasoo analysed 3,734 lymphoblastoid cell line samples across...
www.linkedin.com
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Reposted by Nick Banovich
jengreitz.bsky.social
Jesse Engreitz @jengreitz.bsky.social · 28d
Excited for a major milestone in our efforts to map enhancers and interpret variants in the human genome:

The E2G Portal! e2g.stanford.edu

This collates our predictions of enhancer-gene regulatory interactions across >1,600 cell types and tissues.

Uses cases 👇

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Reposted by Nick Banovich
pedalheadphx.bsky.social
Jonathan Keats, PhD 🇨🇦 @pedalheadphx.bsky.social · Sep 6
Interesting @nebanovich.bsky.social @florisbarthel.bsky.social glad we just installed an @elembio.bsky.social Aviti24 @tgenresearch.bsky.social. @aphillippy.bsky.social is this with standard cloudbreak chemistry or the high accuracy ultraQ chemistry
aphillippy.bsky.social
Adam Phillippy @aphillippy.bsky.social · Sep 5
Definitely hard to measure, but here is our best attempt from a new benchmarking paper to be preprinted in the next few weeks. Element appears to be the current king of homopolymers. Illumina does worse than HiFi beyond 20 bp. (This is all measured on human DNA)
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Reposted by Nick Banovich
needhibhalla.bsky.social
Needhi Bhalla 💅🏽 @needhibhalla.bsky.social · Sep 2
"We’re currently at about 54% of last year’s total [of funded R01s]...Another way to look at this is that we’re missing 1,809 new R01s."
drugmonkey.bsky.social
Drug Monkey @drugmonkey.bsky.social · Sep 2
One month to go for NIH grants in the FY2025 cycle drugmonkey.wordpress.com/2025/09/02/o...
One month to go for NIH grants in the FY2025 cycle
As of today*, the NIH has funded 2,479 new (Type 1) R01 projects for Fiscal Year 2025. This FY expires at the end of the month, so we have four more weeks to go. For reference, NIH funded 4,612 new…
drugmonkey.wordpress.com
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Reposted by Nick Banovich
bronwynalucas.bsky.social
Bronwyn Lucas @bronwynalucas.bsky.social · Aug 30
First pre-print from the Lucas Lab led by Matthew Giammar and @joshdcryoem.bsky.social online today! We develop a new, extensible Python implementation of 2DTM and apply it to build pixel size optimization, constrained search and characterize molecular motions in situ www.biorxiv.org/content/10.1...
Leopard-EM: An extensible 2DTM package to accelerate in situ structural biology
The ability to generate high-resolution views of cells with cryogenic electron microscopy (cryo-EM) can reveal the molecular mechanisms of biological processes in their native cellular context. The re...
www.biorxiv.org
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Reposted by Nick Banovich
jef.works
Dr. Jean Fan @jef.works · Aug 29
Our paper identifying evidence of off-target probe binding in the 10x Genomics Xenium Breast Gene Panel is now available as a reviewed preprint at #eLife

elifesciences.org/reviewed-pre...

We look forward to revising the paper to incorporate reviewer recommendations and other updates 🧵👇
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 27
Congrats @smacklab.bsky.social
Reposted by Nick Banovich
lewislab.bsky.social
Jeff Lewis @lewislab.bsky.social · Aug 18
Gotcha. I just did the math for NIGMS, and they're still short ~200 R01 equivalents compared to last year, with only 7 MYF'd. MYF funding for other mechs could contribute to fewer grants, but it still doesn't seem like the math works out. Maybe more will show up Reporter to reduce the shortfall.
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Reposted by Nick Banovich
mscience.bsky.social
Millennium Science @mscience.bsky.social · Aug 18
🚨 New @10xgenomics.bsky.social eBook out now!

Hear from Dr @saskiafreytag.bsky.social, @wehi-research.bsky.social on how spatial biology is helping identify therapeutic cancer targets.

Plus, insights from other leading researchers worldwide.

📖 Download here: pages.10xgenomics.com/web-2025-08-...
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 15
Congrats Roshni!
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 13
Congrats Maria! So well deserved.
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 13
Jeremy, really appreciate all your analysis. I'd also sent this question as a message but it may have dumped into your requests. For non competitive renewals, what happens if we don't get a NOA before the end of the FY? I have a few awards like this that I'm getting nervous about.
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 13
#candidATE
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 12
So proud of @saahimall.bsky.social for crushing her comps today. She's a force in the lab and seeing her present her plan for the next few years was awesome.

#nocrumbs
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Reposted by Nick Banovich
hattaca.bsky.social
Hattie Chung @hattaca.bsky.social · Aug 8
Our lab at Yale @yalemedicine.bsky.social seeks #postdocs with in vivo expertise to pioneer research at the intersection of tissue remodeling & aging. Work with us to uncover immunological & vascular drivers of ovarian aging, applying single-cell, spatial omics, and ML! jobrxiv.org/job/yale-uni...
Postdoctoral Fellow, Hattie Chung Lab (Yale School of Medicine)
Post a job in 3min, or find thousands of job offers like this one at jobRxiv!
jobrxiv.org
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Reposted by Nick Banovich
kgandersen.bsky.social
Kristian G. Andersen @kgandersen.bsky.social · Aug 7
Just to give the TL;DR on this one:

*The* main purpose of the EO is to move funding priorities and decisions away from experts and career professionals over to political appointees. With the ultimate power held by Vought / OMB.
kgandersen.bsky.social
Kristian G. Andersen @kgandersen.bsky.social · Aug 7
This is literally some of the craziest shit I have ever read.

And that's saying a lot.

www.whitehouse.gov/presidential...
Improving Oversight of Federal Grantmaking
By the authority vested in me as President by the Constitution and the laws of the United States of America, and to improve the process of Federal
www.whitehouse.gov
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 8
Great news Jay
Reposted by Nick Banovich
lewislab.bsky.social
Jeff Lewis @lewislab.bsky.social · Aug 8
In my small corner of biology, I’m constantly reassured by how frequently we confirm main findings. And then when differences do show up, they very rarely end up being fraud, but instead tell us something important about differences in experimental design.
drugmonkey.bsky.social
Drug Monkey @drugmonkey.bsky.social · Aug 7
"a significant proportion of the results of federally funded scientific research projects cannot be reproduced by external researchers. "

a flat out lie.
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 8
Great summary
carlbergstrom.com
Carl T. Bergstrom @carlbergstrom.com · Aug 8
1. Federal funding for research promotes tech, biomedical, and scientific discovery in the US, and provides training for the sci/tech workforce that has brought immeasurable wealth to the US over the past 75 years.

Today's executive order includes a provision that will obliterate both functions.
Improving Oversight of Federal Grantmaking
By the authority vested in me as President by the Constitution and the laws of the United States of America, and to improve the process of Federal
www.whitehouse.gov
Reposted by Nick Banovich
robp.bsky.social
Rob Patro @robp.bsky.social · Aug 7
One critical lesson here for future republics. institutions, foundations or agencies of national importance should be placed clearly outside the controls, oversight, or influence of the executive, or anyone appointed by the executive!
jeremymberg.bsky.social
Jeremy Berg @jeremymberg.bsky.social · Aug 7
Well, this is a huge Executive Order power grab...

www.whitehouse.gov/presidential...

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Improving Oversight of Federal Grantmaking
By the authority vested in me as President by the Constitution and the laws of the United States of America, and to improve the process of Federal
www.whitehouse.gov
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nebanovich.bsky.social
Nick Banovich @nebanovich.bsky.social · Aug 7
I don't even recognize him from this view.
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Reposted by Nick Banovich
jeremymberg.bsky.social
Jeremy Berg @jeremymberg.bsky.social · Aug 7
Well, this is a huge Executive Order power grab...

www.whitehouse.gov/presidential...

1/3
Improving Oversight of Federal Grantmaking
By the authority vested in me as President by the Constitution and the laws of the United States of America, and to improve the process of Federal
www.whitehouse.gov
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