Neelanjan Mukherjee

Fatty Acid Synthase Binds Cellular mRNAs and its Depletion Reduces Translational Efficiency

This study identifies FASN's RNA binding sites and shows its depletion reduces translational efficiency of associated mRNAs.

Isoform-Specific Localization Diversifies Human MSI2 Function

This study identifies alternative splicing as a mechanism determining MSI2 subcellular localization and regulatory function, showing isoform-specific effects on translation and nuclear processes.

eIF3d and eIF3e mediate selective translational control of hypoxia that can be inhibited by novel small molecules

The paper identifies eIF3d and eIF3e as mediators of hypoxia-induced translational control and shows that small molecules can inhibit this process.

Systematic analysis of nonsense variants uncovers peptide release rate as a novel modifier of nonsense-mediated mRNA decay

The paper identifies the amino acid preceding a premature termination codon as a key determinant of nonsense-mediated mRNA decay efficiency.

PDGFRα signaling regulates Srsf3 transcript binding to affect PI3K signaling and endosomal trafficking

This study shows PDGFRα signaling regulates Srsf3 binding to transcripts, affecting PI3K signaling and endosomal trafficking in craniofacial development.

The RNA binding protein HNRNPA2B1 regulates RNA abundance and motor protein activity in neurites

This study shows that HNRNPA2B1 prevents specific RNAs from localizing to neuronal projections, affecting motor protein transport and RNA stability.

Comparative analysis of 43 distinct RNA modifications by nanopore tRNA sequencing

This study demonstrates the use of updated nanopore sequencing to characterize 43 RNA modifications in tRNAs, including mitochondrial and viral tRNAs, and provides best practices for future research.

In situ spatial reconstruction of distinct normal and pathological cell populations within the human adrenal gland

This study uses spatial transcriptomics to analyze human adrenal tissue, supporting the centripetal differentiation model and characterizing aldosterone-producing micronodules.

Small molecule inhibition of multiple RNA binding proteins underlies Musashi-2 independent phenotypes

The paper identifies a small molecule inhibitor that targets multiple RNA binding proteins, showing its effects are independent of Musashi-2 and provides a framework for validating RBP inhibitor specificity.

RNA-binding proteins regulate aldosterone homeostasis in human steroidogenic cells

The paper identifies RNA-binding proteins and RNA decay factors that regulate aldosterone production kinetics in steroidogenic cells through coordinated transcription and decay mechanisms.

A streamlined, cost-effective, and specific method to deplete transcripts for RNA-seq

The paper develops a cost-effective RNaseH-based method for rRNA depletion in RNA-seq, showing comparable or better performance than commercial kits.

ELAVL1 Primarily Couples mRNA Stability with the 3'UTRs of Interferon Stimulated Genes

This study identifies ELAVL1's context-dependent binding sites and regulatory role in immune activation by integrating multiple high-throughput approaches.

Global identification of functional microRNA::mRNA interactions in Drosophila

The paper identifies functional miRNA::mRNA interactions in Drosophila using AGO CLIP experiments and quantifies their impact on gene expression and translation.

Deciphering human ribonucleoprotein regulatory networks

The paper analyzes RBP-RNA interactions across 64 RBPs to identify regulatory modules and their functional roles in RNA metabolism and localization.

SSMART: Sequence-structure motif identification for RNA-binding proteins

SSMART identifies sequence-structure motifs for RNA-binding proteins by integrating sequence and structural preferences from RNA targets.

Integrative classification of human coding and non-coding genes based on RNA metabolism profiles

The paper classifies human coding and non-coding genes based on RNA metabolism profiles, revealing distinct metabolic patterns and functional subsets of lncRNAs.

A spectral analysis approach to detect actively translated open reading frames in high-resolution ribosome profiling data

RiboTaper identifies actively translated open reading frames using spectral analysis of Ribo-seq data, revealing novel ORFs and validating peptide products in HEK293 cells.