Nathan Salomonis
@nathansalomonis.bsky.social
📤 67
đź“Ą 45
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Computational biology and splicing regulation
New in STM, check out our integrative bulk & single-cell long-read analysis to discover and test new therapies in leukemia. We developed OncoSplice, to define new splicing defined subtypes and predict regulators. PRMT5 inhibition partially rescued mis-splicing & inhibited leukemic growth. More soon!
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Splicing regulatory dynamics for precision analysis and treatment of heterogeneous leukemias
Broad dysregulated splicing in AML partially phenocopies splicing factor mutations, is prognostic, and can be pharmacologically reversed.
https://www.science.org/doi/10.1126/scitranslmed.adr1471
8 months ago
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Nathan Salomonis
Kaia Mattioli
9 months ago
our work on the molecular differences between transcription factor isoforms is out now in Molecular Cell! key point: 2/3rds of TF isos differ in properties like DNA binding & transcriptional activity many are "negative regulators" & misexpressed in cancer
www.sciencedirect.com/science/arti...
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Nathan Salomonis
Albert Vilella, PhD.
about 1 year ago
This means that the work stemming out of the use of this models can be used without licensing issues, including for commercial use.
add a skeleton here at some point
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Nathan Salomonis
Prasath Lab CCHMC
about 1 year ago
New algorithm for spatial transcriptome analysis that predicts the crosstalk of cell types co-localized in tissue niches. Also studies the downstream effects of cell-cell interactions by inferring covarying gene programs.
doi.org/10.1038/s414...
#spatial
#transcriptomics
#scrnaseq
#NMF
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NiCo identifies extrinsic drivers of cell state modulation by niche covariation analysis - Nature Communications
A key question in single-cell biology is how cells communicate and exchange information with neighboring cells in tissues. Here, the authors introduce NiCo to predict the downstream effect of cell-cel...
https://doi.org/10.1038/s41467-024-54973-w
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Nathan Salomonis
Bart Deplancke
about 1 year ago
Major milestone: Tabula Sapiens 2.0 maps tissue composition & TF expression in 175 cell types, identifying 745 ubiquitous & 890 cell type-specific TFs (many still uncharacterized ->
#Codebook
) w/ roles in tissue homeostasis, stress response & metabolism.
#SingleCell
www.biorxiv.org/content/10.1...
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Tabula Sapiens reveals transcription factor expression, senescence effects, and sex-specific features in cell types from 28 human organs and tissues
The Tabula Sapiens is a reference human cell atlas containing single cell transcriptomic data from more than two dozen organs and tissues. Here we report Tabula Sapiens 2.0 which includes data from ni...
https://www.biorxiv.org/content/10.1101/2024.12.03.626516v1
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Nathan Salomonis
Leander
about 1 year ago
Super excited to share our Human Neural Organoid Atlas, now out in Nature! Led by
@zhisonghe.bsky.social
@josch1.bsky.social
, and myself, this resource was created from 36 scRNA-seq datasets—totalling over 1.7 million cells! 🔬✨

www.nature.com/articles/s41...

 Find out how it can serve you ⏬
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An integrated transcriptomic cell atlas of human neural organoids - Nature
A human neural organoid cell atlas integrating 36 single-cell transcriptomic datasets shows cell types and states and estimates transcriptomic similarity between primary and organoid counterparts, sho...
https://www.nature.com/articles/s41586-024-08172-8
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