Author details

Full Name

Kushal K Dey

Affiliation

ORCID

Career Start Year

2008

Papers

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
36993194	Mapping the dynamic genetic regulatory architecture of <i>HLA</i> genes at single-cell resolution.	medRxiv	2023
38014075	An encyclopedia of enhancer-gene regulatory interactions in the human genome.	bioRxiv	2023
37910662	Identifying Sex-Specific Serum Patterns of Alzheimer's Mice through Deep TMT Profiling and a Concentration-Dependent Concatenation Strategy.		2023
37872410	Scalable genetic screening for regulatory circuits using compressed Perturb-seq.	Nat Biotechnol	2023
36828890	Spatiotemporal regulation of cholangiocarcinoma growth and dissemination by peritumoral myofibroblasts in a Vcam1-dependent manner.		2023
36755099	Polygenic architecture of rare coding variation across 394,783 exomes.	Nature	2023
36747806	Compressed Perturb-seq: highly efficient screens for regulatory circuits using random composite perturbations.	bioRxiv	2023
36747789	Systematically characterizing the roles of E3-ligase family members in inflammatory responses with massively parallel Perturb-seq.	bioRxiv	2023
34905163	Proteomic Profiling of Cerebrospinal Fluid by 16-Plex TMT-Based Mass Spectrometry.	Methods in Molecular Biology	2022
36175791	Identifying disease-critical cell types and cellular processes by integrating single-cell RNA-sequencing and human genetics.	Nat Genet	2022
35873673	SNP-to-gene linking strategies reveal contributions of enhancer-related and candidate master-regulator genes to autoimmune disease.	Cell Genomics	2022
36138231	SAIGE-GENE+ improves the efficiency and accuracy of set-based rare variant association tests.	Nat Genet	2022
35668300	Combining SNP-to-gene linking strategies to identify disease genes and assess disease omnigenicity.	Nat Genet	2022
36257984	Publisher Correction: SAIGE-GENE+ improves the efficiency and accuracy of set-based rare variant association tests.	Nat Genet	2022
36050550	Polygenic enrichment distinguishes disease associations of individual cells in single-cell RNA-seq data.	Nat Genet	2022
35315655	Deep Single-Cell-Type Proteome Profiling of Mouse Brain by Nonsurgical AAV-Mediated Proximity Labeling.	Anal Chem	2022
34384464	Proteomic landscape of Alzheimer's Disease: novel insights into pathogenesis and biomarker discovery.	Mol Neurodegener	2021
33776580	Dispersal syndromes drive the formation of biogeographical regions, illustrated by the case of Wallace's Line.	Glob Ecol Biogeogr	2021
33828297	Genome-wide enhancer maps link risk variants to disease genes.	Nature	2021
33655247	A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2.	bioRxiv	2021
33915569	COVID-19 tissue atlases reveal SARS-CoV-2 pathology and cellular targets.	Nature	2021
33175545	Deep Profiling of Microgram-Scale Proteome by Tandem Mass Tag Mass Spectrometry.	Journal of Proteome Research	2021
32563701	Corrigendum to "Prevention of epithelial to mesenchymal transition in colorectal carcinoma by regulation of the E-cadherin-Î²-catenin-vinculin axis" [Cancer Lett. 452 (2019) 254-263].	Cancer Letters	2021
34670601	Correction to: Proteomic landscape of Alzheimer's Disease: novel insights into pathogenesis and biomarker discovery.	Mol Neurodegener	2021
34845454	Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics.	bioRxiv	2021
32943643	Evaluating the informativeness of deep learning annotations for human complex diseases.	Nat Commun	2020
32312741	Characterizing and inferring quantitative cell cycle phase in single-cell RNA-seq data analysis.	Genome Res	2020
31926610	Deep Multilayer Brain Proteomics Identifies Molecular Networks in Alzheimer's Disease Progression.	Neuron	2020
32094358	Genetic history from the Middle Neolithic to present on the Mediterranean island of Sardinia.	Nat Commun	2020
32437656	Deep Multilayer Brain Proteomics Identifies Molecular Networks in Alzheimer's Disease Progression.	Neuron	2020
32711556	Integrated analysis of ultra-deep proteomes in cortex, cerebrospinal fluid and serum reveals a mitochondrial signature in Alzheimer's disease.	Mol Neurodegener	2020
33257898	Improving the trans-ancestry portability of polygenic risk scores by prioritizing variants in predicted cell-type-specific regulatory elements.	Nat Genet	2020
33288751	Improving the informativeness of Mendelian disease-derived pathogenicity scores for common disease.	Nature Communications	2020
32894271	High-throughput and Deep-proteome Profiling by 16-plex Tandem Mass Tag Labeling Coupled with Two-dimensional Chromatography and Mass Spectrometry.	Journal of Visualized Experiments	2020
31201312	Regional influences on community structure across the tropical-temperate divide.	Nat Commun	2019
30192911	Inference and visualization of DNA damage patterns using a grade of membership model.	Bioinformatics	2019
31028823	Delineation of crosstalk between HSP27 and MMP-2/MMP-9: A synergistic therapeutic avenue for glioblastoma management.	Biochimica et Biophysica Acta - General Subjects	2019
31019427	Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer's disease.	Clin Proteomics	2019
29743594	Multi-nucleated cells use ROS to induce breast cancer chemo-resistance in vitro and in vivo.	Oncogene	2018
29883117	Isotope Labeling-Assisted Evaluation of Hydrophilic and Hydrophobic Liquid Chromatograph-Mass Spectrometry for Metabolomics Profiling.	Anal Chem	2018
30526486	A new sequence logo plot to highlight enrichment and depletion.	BMC Bioinformatics	2018
28025102	Somatostatin receptor targeted liposomes with Diacerein inhibit IL-6 for breast cancer therapy.	Cancer Letters	2017
28549067	Correction: Visualizing the structure of RNA-seq expression data using grade of membership models.	PLoS Genet	2017
28333934	Visualizing the structure of RNA-seq expression data using grade of membership models.	PLoS Genet	2017
27721046	Gold nanorod embedded reduction responsive block copolymer micelle-triggered drug delivery combined with photothermal ablation for targeted cancer therapy.	Biochimica et Biophysica Acta - General Subjects	2017
27767088	S100A7 has an oncogenic role in oral squamous cell carcinoma by activating p38/MAPK and RAB2A signaling pathway.	Cancer Gene Therapy	2016
26631035	Cooperative effect of BI-69A11 and celecoxib enhances radiosensitization by modulating DNA damage repair in colon carcinoma.	Tumor Biology	2016
26457067	Erratum to: Mechanistic attributes of S100A7 (psoriasin) in resistance of anoikis resulting tumor progression in squamous cell carcinoma of the oral cavity.	Cancer Cell International	2015
25585293	Microwave synthesis of ZnO@mSiOâ¿¿ for detailed antifungal mode of action study: understanding the insights into oxidative stress.	Journal of Colloid and Interface Science	2015
25686266	Copper nanoparticle (CuNP) nanochain arrays with a reduced toxicity response: a biophysical and biochemical outlook on Vigna radiata.	Journal of Agricultural and Food Chemistry	2015