Jeff Eron Mold

The paper uses single-cell proteomics and transcriptomics to reveal cell-type-specific functional coordination in PBMCs, showing protein covariation that reflects protein-protein interactions and pathway rewiring.

This study uses longitudinal scRNAseq to analyze temporal dynamics of the tumor microenvironment in mouse breast tumors, identifying three patterns of multi-cellular phenotypic changes during progression.

mt-SCITE reconstructs cell lineages from mitochondrial mutations, outperforming existing methods and revealing subclonal relationships in CD8+ T cells post-vaccination.

This study examines fetal innate lymphoid cells (ILCs) across human tissues, revealing distinct distribution, developmental kinetics, and gene expression profiles, with a novel ILC progenitor identified in the fetal intestine.

The paper identifies heritable transcriptional diversity within cell types by studying clonal human lymphocytes and mouse brain cells, showing clone-specific chromatin accessibility leads to distinct gene expression.

This study uses long-read sequencing to analyze the genomic architecture of single human cells, revealing high-resolution genetic variation and structural variants.

PhylEx reconstructs clonal structure by integrating bulk DNA-seq and scRNA-seq data, outperforming existing methods in clonal-tree reconstruction and mutation clustering.

The paper shows that parenchymal astrocytes can undergo neurogenesis when Notch signaling is reduced, mimicking neural stem cell behavior in both striatal and cortical regions.

Conbase identifies clonal somatic mutations in single cells using read phasing, validated on simulated data and human samples.

The paper introduces a probabilistic Count Matrix Factorization method for single-cell expression data analysis, showing improved clustering performance compared to existing methods.