Kushal K Dey
@kanishkadeyAssistant Member/Professor, Computational and Systems Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
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Excited to share our latest preprint, as part of ENCODE4, on a consensus variant-to-function (cV2F) score for functionally prioritizing variants for complex disease - led by Tabassum Fabiha and co-mentored with Alkes Price. biorxiv.org/content/10.110…
In a study supported by #HTAN & #NCICSBC, @divyakoyy, @KarunaMDPhD, & @quaidmorris @MSKCancerCenter developed Metient (an open-source #ComputationalTool) to advance the understanding of cancer type-specific #metastatic spread @biorxivpreprint biorxiv.org/content/10.110….
ExWAS of depressive symptoms in ~300k individuals from the UK Biobank. Li et al. Mol Psych 2024 nature.com/articles/s4138…
Thrilled to share our paper now out @Nature delineating #plasticity during #CRC #metastasis, a fantastic collaboration led by @andrewrmoorman @elliebenitez11, and @f_cambuli from the @KarunaGaneshLab and @dana_per lab! nature.com/articles/s4158… rdcu.be/dYAVK. A 🧵
Some cool results -- over the last couple of years we have been (quietly) building the largest catalog of human (and mouse) cis-regulatory DNA. We can now precisely annotate the cell-selectivity patterns of nearly 4.5 elements from thousands of experiments.
1/🧵Excited to re-introduce Memento in (cell.com/cell/fulltext/…), a scalable method for differential analysis of scRNA-seq data. It provides first-in-class performance in statistical power and calibration for comparing differences in mean, variability, and gene correlation.👇
What causes variable expressivity in rare diseases such as telomere biology disorders? @michaelpoeschla & co find polygenic variation contributes: bit.ly/48hUX5Z ...🧵 from Michael coming...
Hi all, I am currently on the academic job market. I am a postdoctoral researcher in Dr. Christina Leslie's lab at the Computational and Systems Biology Program at Memorial Sloan Kettering Cancer Center. My research focuses on deciphering causal and dynamic gene regulation…
📢 Join us! Developmental and stem cell biologists, checkout our tenure-track faculty position at Sloan Kettering. Apply by October 18. #DevBio #StemCell #hiringnow mskcc.org/research/ski/p…
🧵 Thrilled to share our latest in @Nature! We’ve mapped fetal blood development in Down syndrome (DS) using single-cell multi-omics, studying why children with DS face a 150-fold higher leukemia risk and blood abnormalities at birth. nature.com/articles/s4158…
My lab read this paper biorxiv.org/content/10.110… for journal club, and had some thoughts on the strong claims made about the number of signals of selection found. 1/
Finally, the authors rely heavily on LDscore regression throughout the paper to rule our concerns about confounding (including in their PGS analysis). But LDscore results were shown to be very misleading in previous analyses of polygenic selection elifesciences.org/articles/39725 25/
The authors also test for signals of selection using polygenic score (PGS). These tests are incredibly sensitive to stratification in the GWAS effect sizes used to construct the PGS. elifesciences.org/articles/39725 elifesciences.org/articles/39702 21/
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