Diverse clonal fates emerge upon drug treatment of homogeneous cancer cells

Y Goyal, GT Busch, M Pillai, J Li, RH Boe, EI Grody… - Nature, 2023 - nature.com
Even among genetically identical cancer cells, resistance to therapy frequently emerges
from a small subset of those cells,,,,,–. Molecular differences in rare individual cells in the …

Omics-based investigations of breast cancer

AN Neagu, D Whitham, P Bruno, H Morrissiey… - Molecules, 2023 - mdpi.com
Breast cancer (BC) is characterized by an extensive genotypic and phenotypic
heterogeneity. In-depth investigations into the molecular bases of BC phenotypes …

Unraveling non-genetic heterogeneity in cancer with dynamical models and computational tools

M Pillai, E Hojel, MK Jolly, Y Goyal - Nature Computational Science, 2023 - nature.com
Individual cells within an otherwise genetically homogenous population constantly undergo
fluctuations in their molecular state, giving rise to non-genetic heterogeneity. Such diversity …

Normal breast tissues harbour rare populations of aneuploid epithelial cells

Y Lin, J Wang, K Wang, S Bai, A Thennavan, R Wei… - Nature, 2024 - nature.com
Aneuploid epithelial cells are common in breast cancer,; however, their presence in normal
breast tissues is not well understood. To address this question, we applied single-cell DNA …

Synthetic DNA barcodes identify singlets in scRNA-seq datasets and evaluate doublet algorithms

Z Zhang, ME Melzer, KM Arun, H Sun, CJ Eriksson… - Cell Genomics, 2024 - cell.com
Single-cell RNA sequencing (scRNA-seq) datasets contain true single cells, or singlets, in
addition to cells that coalesce during the protocol, or doublets. Identifying singlets with high …

Pre-determined diversity in resistant fates emerges from homogenous cells after anti-cancer drug treatment

Y Goyal, IP Dardani, GT Busch, B Emert, D Fingerman… - BioRxiv, 2021 - biorxiv.org
Even amongst genetically identical cancer cells, therapy resistance often only emerges from
a very small subset of those cells. Much effort has gone into uncovering the molecular …

Applications of advanced technologies for detecting genomic structural variation

VA Laufer, TW Glover, TE Wilson - Mutation Research/Reviews in Mutation …, 2023 - Elsevier
Chromosomal structural variation (SV) encompasses a heterogenous class of genetic
variants that exerts strong influences on human health and disease. Despite their …

Application of high-throughput single-nucleus DNA sequencing in pancreatic cancer

H Zhang, ER Karnoub, S Umeda, R Chaligné… - Nature …, 2023 - nature.com
Despite insights gained by bulk DNA sequencing of cancer it remains challenging to resolve
the admixture of normal and tumor cells, and/or of distinct tumor subclones; high-throughput …

Transformer-based modeling of Clonal Selection and Expression Dynamics reveals resistance mechanisms in breast cancer

ND Maulding, J Zou, W Zhou, C Metcalfe… - npj Systems Biology …, 2025 - nature.com
Understanding transcriptional heterogeneity in cancer cells and its implication for treatment
response is critical to identify how resistance occurs and may be targeted. Such …

Advances and applications in single-cell and spatial genomics

J Wang, F Ye, H Chai, Y Jiang, T Wang, X Ran… - Science China Life …, 2024 - Springer
The applications of single-cell and spatial technologies in recent times have revolutionized
the present understanding of cellular states and the cellular heterogeneity inherent in …