Dhruv Sareen

Exploring transcriptomic and genomic latent variable correction approaches in differential expression analysis.

This paper evaluates combining expression-based surrogate variables and genotype-based principal components in differential expression analysis, finding the combined approach improves replicability and biological recall in ALS datasets.

Disease related changes in ATAC-Seq of more than 450 iPSC-derived motor neuron lines from ALS patients and controls

The paper analyzes ATAC-seq data from iPSC-derived motor neurons of ALS patients and controls to identify disease-specific chromatin accessibility changes and their predictive power for disease progression.

Identification of Disease-relevant, Sex-based Proteomic Differences in iPSC-derived Vascular Smooth Muscle

This study identifies sex-based proteomic differences in iPSC-derived vascular smooth muscle cells and their potential impact on cardiovascular disease.

Cell environment shapes TDP-43 function: implications in neuronal and muscle disease

The paper compares TDP-43's transcriptional and splicing effects in muscle and neuronal cells, showing tissue-specific roles in disease.

G4C2 repeat RNA mediates the disassembly of the nuclear pore complex in C9orf72 ALS/FTD

The paper identifies POM121 as a critical nucleoporin affected by C9orf72 repeat RNA, leading to nuclear pore complex disassembly and neuronal toxicity in ALS/FTD.

Postmortem Cortex Samples Identify Distinct Molecular Subtypes of ALS: Retrotransposon Activation, Oxidative Stress, and Activated Glia

The paper uses unsupervised machine learning to identify three molecular subtypes in ALS cortex samples, associated with oxidative stress, retrotransposon activation, and glial activation.

A Comparison of mRNA Sequencing with Random Primed and 3’-Directed Libraries

This study compares 3-DGE and conventional mRNAseq, finding similar gene expression results with 3-DGE offering cost savings and scalability.

Cell freezing protocol optimized for ATAC-Seq on motor neurons derived from human induced pluripotent stem cells

The paper develops a freezing protocol for ATAC-Seq on motor neurons derived from human induced pluripotent stem cells, showing that slow-cooled cryopreserved samples yield comparable results to fresh cells.