Publications by authors named "S Ajaib"
Single-cell RNA sequencing has revolutionized our understanding of cellular heterogeneity, but routine methods require cell lysis and fail to probe the dynamic trajectories responsible for cellular state transitions, which can only be inferred. Here, we present a nanobiopsy platform that enables the injection of exogenous molecules and multigenerational longitudinal cytoplasmic sampling from a single cell and its progeny. The technique is based on scanning ion conductance microscopy (SICM) and, as a proof of concept, was applied to longitudinally profile the transcriptome of single glioblastoma (GBM) brain tumor cells in vitro over 72 hours.
View Article and Find Full Text PDFBackground: Glioblastoma (GBM) brain tumors lacking IDH1 mutations (IDHwt) have the worst prognosis of all brain neoplasms. Patients receive surgery and chemoradiotherapy but tumors almost always fatally recur.
Results: Using RNA sequencing data from 107 pairs of pre- and post-standard treatment locally recurrent IDHwt GBM tumors, we identify two responder subtypes based on longitudinal changes in gene expression.
Article Synopsis
- This study focuses on improving the understanding of glioblastoma (GBM) tumors by developing a tool to analyze immune and cancer cell types within tumor samples using bulk RNA sequencing data.
- Researchers created a specific single immune cell reference for GBM and combined it with existing cancer cell data to develop effective deconvolution tools for characterizing the cellular makeup of tumors.
- The tool, named GBMdeconvoluteR, proved to be the most accurate method for quantifying cell types in GBM, revealing insights into the relationship between cancer cells and immune cells, particularly in patients with poorer prognoses.
Background: The genetic risk associated with rheumatoid arthritis (RA) includes genes regulating DNA methylation, one of the hallmarks of epigenetic re-programing, as well as many T-cell genes, with a strong MHC association, pointing to immunogenetic mechanisms as disease triggers leading to chronicity. The aim of our study was to explore DNA methylation in early, drug-naïve RA patients, towards a better understanding of early events in pathogenesis.
Result: Monocytes, naïve and memory CD4 T-cells were sorted from 6 healthy controls and 10 RA patients.