Merve Dede

Publications

• Anthracosis: An unusual cause of vocal fold paralysis.
• RNA2DNAlign: nucleotide resolution allele asymmetries through quantitative assessment of RNA and DNA paired sequencing data.
• Hierarchical organization of the human cell from a cancer coessentiality network
• RNA2DNAlign: nucleotide resolution allele asymmetries through quantitative assessment of RNA and DNA paired sequencing data
• A network of human functional gene interactions from knockout fitness screens in cancer cells
• Biases and Blind-Spots in Genome-Wide CRISPR Knockout Screens
• Multiplex enCas12a screens show functional buffering by paralogs is systematically absent from genome-wide CRISPR/Cas9 knockout screens
• Multiplex enCas12a screens detect functional buffering among paralogs otherwise masked in monogenic Cas9 knockout screens.
• Discovery of novel tumor suppressors from CRISPR screens reveals lipid-sensitive subtype of AML
• Recovering false negatives in CRISPR fitness screens with JLOE
• Genome-wide CRISPR screens using isogenic cells reveal vulnerabilities conferred by loss of tumor suppressors
• Systematic Analysis of Actively Transcribed Core Matrisome Genes Across Tissues and Cell Phenotypes
• Discovery of putative tumor suppressors from CRISPR screens reveals rewired lipid metabolism in acute myeloid leukemia cells
• Characterizing cancer metabolism from bulk and single-cell RNA-seq data using METAFlux
• Characterizing metabolism from bulk and single-cell RNA-seq data using METAFlux
• Anthracosis: An unusual cause of vocal fold paralysis
• Safety, efficacy and determinants of response of allogeneic CD19-specific CAR-NK cells in CD19+ B cell tumors: a phase 1/2 trial
• Forecasting acute kidney injury and resource utilization in ICU patients using longitudinal, multimodal models
• BATF is a major driver of NK cell epigenetic reprogramming and dysfunction in AML
• Forecasting Acute Kidney Injury and Resource Utilization in Icu Patients Using Longitudinal, Multimodal Models
• Safety, efficacy and determinants of response of allogeneic CD19-specific CAR-NK cells in CD19+ B cell tumors: a phase 1/2 trial
• Interleukin-21 engineering enhances NK cell activity against glioblastoma via CEBPD
• Elucidating immune-related gene transcriptional programs via factorization of large-scale RNA-profiles
• Metabolic Reprogramming by Mutant GNAS Creates an Actionable Dependency in Intraductal Papillary Mucinous Neoplasms of the Pancreas
• Forecasting Acute Kidney Injury and Resource Utilization in ICU patients using longitudinal, multimodal models
• A statistical approach for systematic identification of transition cells from scRNA-seq data
• Metabolic reprogramming by mutant GNAS creates an actionable dependency in intraductal papillary mucinous neoplasms of the pancreas
• Elucidating immune-related gene transcriptional programs via factorization of large-scale RNA-profiles
• 333 Agent-based modeling of tumor microenvironment dynamics in adoptive cell therapy
• Agent-based modeling of cellular dynamics in adoptive cell therapy