Deepak Srivastava

Neural Crest-Derived Endocardial Cells Required for Heart Valve Development

The paper identifies a rare population of neural crest-derived endocardial cells essential for heart valve development in mice and humans, showing their role in valve morphogenesis through Pthlh signaling.

Genome-wide CRISPRi screen identifies basigin loss as protective in cardiac hypoxia

The paper uses a CRISPRi screen to identify basigin loss as protective in cardiac hypoxia by enhancing ATP maintenance and survival.

Soluble DLK1 secreted by telomere-shortening-induced senescent microglia impairs oligodendrocyte functions and alters neuronal activity

This study identifies soluble DLK1 from senescent microglia as a factor impairing oligodendrocyte function and altering neuronal activity in aging.

MitoScribe single-cell molecular recorder logs graded signaling dynamics into mitochondrial DNA

MitoScribe records graded molecular signals into mitochondrial DNA, enabling high-resolution tracking of cellular states during differentiation.

A cardiac microphysiological system for screening lipid nanoparticle/mRNA complexes predicts in vivo efficacy for heart transfection

The paper develops a cardiac microphysiological system to screen lipid nanoparticle/mRNA complexes and identifies a formulation with improved transfection efficiency and reduced off-target liver uptake.

The maternal X chromosome impairs cognition and accelerates brain aging through epigenetic modulation in female mice

Sex Differences in Human Brain Structure at Birth

The paper examines sex differences in brain structure at birth in newborns, finding larger brain volumes in males and specific regional differences in gray and white matter volumes between sexes.

Human spinal interneurons repair the injured spinal cord through synaptic integration

This study shows that human cervical V2a interneurons transplanted into injured spinal cords form functional synaptic connections with host tissue, improving diaphragm activity.

Single Cell Multimodal Analyses Reveal Epigenomic and Transcriptomic Basis for Birth Defects in Maternal Diabetes

The paper uses single-cell multimodal analyses to show how maternal diabetes alters epigenomic and transcriptomic states in cardiac and craniofacial progenitors, leading to developmental defects.

A Mesp1-dependent developmental breakpoint in transcriptional and epigenomic specification of early cardiac precursors

The paper identifies a Mesp1-dependent developmental breakpoint in cardiac precursor cell specification using single-cell transcriptomics and chromatin accessibility analysis in mouse embryos.

Chromatin Remodeling Drives Immune-Fibroblast Crosstalk in Heart Failure Pathogenesis

The paper identifies BRD4-dependent immune-fibroblast crosstalk via IL1B in heart failure, showing IL1B inhibition reduces fibroblast activation and improves cardiac function.

CSDE1 is a Post-Transcriptional Regulator of the LDL Receptor

A genome-wide CRISPR screen identifies CSDE1 as a key regulator of hepatic LDLR mRNA decay in vivo, making it a promising target for heart disease.

Single Cell Epigenetics Reveal Cell-Cell Communication Networks in Normal and Abnormal Cardiac Morphogenesis

The paper uses single-cell epigenomics and machine learning to model cell-cell communication networks in cardiac development and identify dysregulation in TBX1 deletion.

An oligogenic inheritance test detects risk genes and their interactions in congenital heart defects and developmental comorbidities

The paper introduces a method to detect gene combinations contributing to congenital heart defects and their comorbidities by analyzing exome sequencing data from families.

A Transcriptional Switch Governing Fibroblast Plasticity Underlies Reversibility of Chronic Heart Disease

The paper identifies a reversible transcriptional switch in cardiac fibroblasts that governs fibroblast plasticity and contributes to chronic heart disease, with MEOX1 as a key regulator.

Integration of Protein Interactome Networks with Congenital Heart Disease Variants Reveals Candidate Disease Genes

BRD4 Interacts with GATA4 to Govern Mitochondrial Homeostasis in Adult Cardiomyocytes

This study identifies a BRD4-GATA4 interaction that regulates mitochondrial homeostasis in adult cardiomyocytes by modulating gene expression related to energy production.

Dynamic chromatin targeting of BRD4 stimulates cardiac fibroblast activation

This study shows BRD4 promotes cardiac fibrosis by dynamically targeting chromatin and activating gene expression in fibroblasts, revealing a signaling pathway involved in heart failure.

Early post-zygotic mutations contribute to congenital heart disease

The paper identifies mosaic mutations in blood and cardiac tissue from CHD patients, finding 1% of cases have detectable mosaic variants that may contribute to congenital heart disease.

Single-cell transcriptome analysis during cardiogenesis reveals basis for organ level developmental anomalies

The paper uses single-cell RNA sequencing to analyze cardiac progenitor cells during normal and abnormal cardiogenesis, identifying transcriptional changes linked to congenital heart defects.

Unique Transcription Factor Functions Regulate Epigenetic and Transcriptional Dynamics During Cardiac Reprogramming

This study investigates how Gata4, Mef2c, and Tbx5 drive cardiac reprogramming by analyzing transcriptomic and epigenomic changes in fibroblasts.

Robust identification of deletions in exome and genome sequence data based on clustering of Mendelian errors

The paper introduces MEM, a method to identify deletion CNVs in WES and WGS trio data by clustering Mendelian errors, achieving high validation rates and detecting additional de novo deletions and contamination.

Oligogenic inheritance of congenital heart disease involving a NKX2-5 modifier

The paper shows that a congenital heart defect can result from three inherited heterozygous missense variants in MYH7, MKL2, and NKX2-5.