Nick Banovich
@nebanovich.bsky.social
Associate Professor at TGen.org. Interested in genmoics, single cell and spatial transcriptomics, lung disease, and oftentimes fishing. banovichlab.org
Great new work led by Aaron Kwok from @davisjmcc.bsky.social’s group. A tool to “denoise” contaminating transcripts from image based spatial data.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Denoising image-based spatial transcriptomics data with DenoIST
Image-based spatial transcriptomics (IST) technologies provide unprecedented resolution of gene expression in tissue sections, but suffer from contamination of cells' gene expression profiles due to i...
www.biorxiv.org
November 15, 2025 at 1:31 PM
Great new work led by Aaron Kwok from @davisjmcc.bsky.social’s group. A tool to “denoise” contaminating transcripts from image based spatial data.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
Reposted by Nick Banovich
🚀 We’re thrilled to announce our new partnership with SOPHiAGENETICS! Together, we’re redefining what’s possible in #sequencing—delivering richer insights, faster results, and greater accessibility for labs everywhere. 🔗 Learn more: https://bit.ly/4nNmOks
#Genomics #Genetics
#Genomics #Genetics
SOPHiA GENETICS and Element Biosciences Unite Sequencing Power and AI Analytics to Accelerate Global Research In Precision Medicine
SOPHiA GENETICS and Element announce a partnership to unite sequencing and AI analytics to streamline genomic workflows and accelerate research in precision medicine
bit.ly
November 11, 2025 at 4:11 PM
🚀 We’re thrilled to announce our new partnership with SOPHiAGENETICS! Together, we’re redefining what’s possible in #sequencing—delivering richer insights, faster results, and greater accessibility for labs everywhere. 🔗 Learn more: https://bit.ly/4nNmOks
#Genomics #Genetics
#Genomics #Genetics
Reposted by Nick Banovich
8 high level positions at NIH posted including 6 institute director positions (NIMH, NIGMS, NICHD, NIDCR, NHGRI, NLM).
Only open for 2 weeks (applications due November 21).
Application materials include a) CV b) vision statement c) a photocopy of doctoral degree.
hr.nih.gov/careers/open...
Only open for 2 weeks (applications due November 21).
Application materials include a) CV b) vision statement c) a photocopy of doctoral degree.
hr.nih.gov/careers/open...
hr.nih.gov
November 7, 2025 at 10:20 PM
8 high level positions at NIH posted including 6 institute director positions (NIMH, NIGMS, NICHD, NIDCR, NHGRI, NLM).
Only open for 2 weeks (applications due November 21).
Application materials include a) CV b) vision statement c) a photocopy of doctoral degree.
hr.nih.gov/careers/open...
Only open for 2 weeks (applications due November 21).
Application materials include a) CV b) vision statement c) a photocopy of doctoral degree.
hr.nih.gov/careers/open...
Reposted by Nick Banovich
Excited to be attending my first SITC Annual Meeting! On Friday, Brandon Fischer from @nebanovich.bsky.social will present a poster on some of our work on Chlorotoxin CAR T cells. Check it out! #SITC25
November 6, 2025 at 5:16 PM
Excited to be attending my first SITC Annual Meeting! On Friday, Brandon Fischer from @nebanovich.bsky.social will present a poster on some of our work on Chlorotoxin CAR T cells. Check it out! #SITC25
Reposted by Nick Banovich
reminder that my (wonderful, diverse, interdisciplinary) department at the University of Oregon is seeking applications for an Associate/Full Professor of Data Science -- deadline 10/31 and only cover letter/CV needed to apply
academicjobsonline.org/ajo/jobs/30328
academicjobsonline.org/ajo/jobs/30328
University of Oregon, Department of Data Science
Job #AJO30328, 535565 Associate or Full Professor of Data Science, Department of Data Science, University of Oregon, Eugene, Oregon, US
academicjobsonline.org
October 22, 2025 at 6:55 PM
reminder that my (wonderful, diverse, interdisciplinary) department at the University of Oregon is seeking applications for an Associate/Full Professor of Data Science -- deadline 10/31 and only cover letter/CV needed to apply
academicjobsonline.org/ajo/jobs/30328
academicjobsonline.org/ajo/jobs/30328
Reposted by Nick Banovich
Thank you! I am so honored and had such a wonderful time at #ASHG. What an amazing and inspiring society!
Congratulations @audreyhendricks.com for being honored with the 2025 @geneticssociety.bsky.social Education Award for her transformative work in genetics education. Hendricks accepted the award and shared her insights during a featured presentation at the ASHG Annual Meeting.
October 20, 2025 at 10:57 PM
Thank you! I am so honored and had such a wonderful time at #ASHG. What an amazing and inspiring society!
Bulk of the lab are presenting posters today!
October 17, 2025 at 2:31 PM
Bulk of the lab are presenting posters today!
Reposted by Nick Banovich
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!
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!
October 15, 2025 at 12:52 PM
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!
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.
October 14, 2025 at 10:05 PM
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.
Great new work from the Barthel lab!
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
October 13, 2025 at 7:06 PM
Great new work from the Barthel lab!
Reposted by Nick Banovich
Happy to share that this work together with @opentargets.org is now out at Nature Communications.
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...
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
October 2, 2025 at 1:05 PM
Happy to share that this work together with @opentargets.org is now out at Nature Communications.
Reposted by Nick Banovich
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 👇
1/
The E2G Portal! e2g.stanford.edu
This collates our predictions of enhancer-gene regulatory interactions across >1,600 cell types and tissues.
Uses cases 👇
1/
September 18, 2025 at 4:14 PM
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 👇
1/
The E2G Portal! e2g.stanford.edu
This collates our predictions of enhancer-gene regulatory interactions across >1,600 cell types and tissues.
Uses cases 👇
1/
Reposted by Nick Banovich
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
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)
September 6, 2025 at 7:15 PM
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
Reposted by Nick Banovich
"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."
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
September 2, 2025 at 6:38 PM
"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."
Reposted by Nick Banovich
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
August 30, 2025 at 12:49 AM
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...
Reposted by Nick Banovich
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 🧵👇
elifesciences.org/reviewed-pre...
We look forward to revising the paper to incorporate reviewer recommendations and other updates 🧵👇
August 29, 2025 at 4:36 PM
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 🧵👇
elifesciences.org/reviewed-pre...
We look forward to revising the paper to incorporate reviewer recommendations and other updates 🧵👇
Reposted by Nick Banovich
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.
August 18, 2025 at 2:22 AM
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.
Reposted by Nick Banovich
🚨 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-...
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-...
August 18, 2025 at 3:42 AM
🚨 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-...
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-...
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
#nocrumbs
August 12, 2025 at 1:18 AM
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
#nocrumbs
Reposted by Nick Banovich
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
August 8, 2025 at 6:06 PM
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...
Reposted by Nick Banovich
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.
*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.
This is literally some of the craziest shit I have ever read.
And that's saying a lot.
www.whitehouse.gov/presidential...
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
August 7, 2025 at 10:55 PM
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.
*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.
Reposted by Nick Banovich
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.
"a significant proportion of the results of federally funded scientific research projects cannot be reproduced by external researchers. "
a flat out lie.
a flat out lie.
August 8, 2025 at 3:37 AM
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.
Great summary
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.
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
August 8, 2025 at 2:55 AM
Great summary