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Virtual Cell literature dump

ekernf01.github.io · published 1 January 2026

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https://www.ericandwendyschmidtcenter.org/ml-competitions/obesity-ml-competition
ericandwendyschmidtcenter.org
https://static1.squarespace.com/static/64dfd0497abb8c2c0438a25b/t/6669a2a8be689f71803838a7/1718198952506/UnravelBio_ExecSummary.pdf
static1.squarespace.com
https://www.unravel.bio/portfolio
unravel.bio
https://arcinstitute.org/news/virtual-cell-challenge-2025-wrap-up
arcinstitute.org
https://xqiu625.github.io/ai4bio-concepts/single-cell-analysis/perturbation-prediction_modeling.html
xqiu625.github.io
https://wildtypehuman.substack.com/
wildtypehuman.substack.com
https://arxiv.org/abs/2501.19178
arxiv.org
https://www.cell.com/cell/fulltext/S0092-8674(19
cell.com
https://pmc.ncbi.nlm.nih.gov/articles/PMC3273493/
pmc.ncbi.nlm.nih.gov
https://pmc.ncbi.nlm.nih.gov/articles/PMC2789972/
pmc.ncbi.nlm.nih.gov
https://www.linkedin.com/pulse/scale-structure-first-virtual-cell-therence-bois-sdg2e/?trackingId=3ysbtNdCBw5cnjdsqEBHCA%3D%3D
linkedin.com
https://claudiachu99.substack.com/p/virtual-cell-challenge-shenanigans
claudiachu99.substack.com
https://substack.com/home/post/p-180941498
substack.com
https://giovannipalla.substack.com/p/c1166b0d-088b-4f8a-a12e-92d7195b2d31
giovannipalla.substack.com
https://erictopol.substack.com/p/the-holy-grail-of-biology
erictopol.substack.com
https://www.noetik.blog/p/how-do-you-use-a-virtual-cell-to
noetik.blog
https://www.cell.com/cell/fulltext/S0092-8674(24
cell.com
https://academic.oup.com/mbe/article/35/3/525/4609417?login=false
academic.oup.com
https://www.biorxiv.org/content/10.1101/2025.02.19.639127v1
biorxiv.org
https://www.biorxiv.org/content/10.1101/2025.06.03.657653v1.abstract
biorxiv.org
https://pmc.ncbi.nlm.nih.gov/articles/PMC5726792/
pmc.ncbi.nlm.nih.gov
https://arxiv.org/abs/2511.16954?utm_source=substack&utm_medium=email
arxiv.org
https://www.linkedin.com/feed/update/urn:li:activity:7323701828318109696/
linkedin.com
https://www.biorxiv.org/content/10.1101/2025.04.27.650853v1.full
biorxiv.org
https://www.biorxiv.org/content/10.1101/2025.01.29.635607v2.full
biorxiv.org
https://www.nature.com/articles/s41587-025-02777-8
nature.com
Mean squared error for estimates of differential expression Read at the source ↗
ekernf01.github.io
We predict that the transcript abundance from the gene we are knocking down will (checks notes) decrease Read at the source ↗
ekernf01.github.io
https://arxiv.org/pdf/2506.22641
arxiv.org
https://www.biorxiv.org/content/10.1101/2025.10.20.683304v1
biorxiv.org
https://www.linkedin.com/posts/annecarpenter1_id-like-to-take-this-opportunity-to-rebrand-activity-7349829435568611328--ZG7/
linkedin.com
https://biohub.org/blog/scldm-ai-cellular-diversity/
biohub.org
https://openreview.net/forum?id=HGJQvwGtfJ
openreview.net
https://arxiv.org/abs/2508.02276
arxiv.org
https://rna.recount.bio/
rna.recount.bio
https://synthesizebio.substack.com/p/generative-genomics-predicting-future
synthesizebio.substack.com
https://www.biorxiv.org/content/10.1101/2025.09.08.674753v1
biorxiv.org
https://www.biorxiv.org/content/10.1101/2023.07.28.551039v2.full
biorxiv.org
https://en.wikipedia.org/wiki/Coefficient_of_determination
en.wikipedia.org
https://blog.google/technology/ai/google-gemma-ai-cancer-therapy-discovery/
blog.google
https://www.biorxiv.org/content/10.1101/2025.04.14.648850v3
biorxiv.org
https://www.nature.com/articles/s41592-025-02909-7
nature.com
https://ekernf01.github.io/perturbation-methods
ekernf01.github.io
https://www.biorxiv.org/content/10.1101/2023.03.28.534644v2
biorxiv.org
https://www.biorxiv.org/content/10.1101/2025.04.11.648220v1
biorxiv.org
https://github.com/welch-lab/PerturbNet
github.com