Single cell transcriptomics is a robust approach to defining disease biology in complex clinical settings

EJ Kort, M Weiland, E Grins, E Eugster, H Milliron… - bioRxiv, 2019 - biorxiv.org
Fluidics based single cell RNASeq (scRNASeq) provides a high throughput method for
quantifying gene expression at single cell resolution. However, it remains unclear whether …

Single nucleus multi-omics links human cortical cell regulatory genome diversity to disease risk variants

C Luo, H Liu, F Xie, EJ Armand, K Siletti, TE Bakken… - Biorxiv, 2019 - biorxiv.org
Single-cell technologies enable measure of unique cellular signatures, but are typically
limited to a single modality. Computational approaches allow integration of diverse single …

Extraction of biological signals by factorization enables the reliable analysis of single-cell transcriptomics

F Zeng, X Kong, F Yang, T Chen, J Han - bioRxiv, 2023 - biorxiv.org
Accurately and reliably capturing actual biological signals from single-cell transcriptomics is
vital for achieving legitimate scientific results, which is unfortunately hindered by the …

Patient-specific alterations in blood plasma cfRNA profiles enable accurate classification of cancer patients and controls

A Morlion, P Decruyenaere, K Schoofs, J Anckaert… - medRxiv, 2023 - medrxiv.org
Circulating nucleic acids in blood plasma form an attractive resource to study human health
and disease. Here, we applied mRNA capture sequencing of blood plasma cell-free RNA …

Single-cell sequencing leads a new era of profiling transcriptomic landscape

H Zhang, N Cui, Y Cai, F Lei… - Journal of Bio-X Research, 2018 - journals.lww.com
Understanding the complexity of biological systems requires a comprehensive analysis of
their cell populations. Ideally, this should be done at the single cell level, because bulk …

Technical optimization of spatially resolved single-cell transcriptomic datasets to study clinical liver disease

B Rocque, K Guion, P Singh, S Bangerth, L Pickard… - Scientific Reports, 2024 - nature.com
Single cell and spatially resolved 'omic'techniques have enabled deep characterization of
clinical pathologies that remain poorly understood, providing unprecedented insights into …

ctQC improves biological inferences from single cell and spatial transcriptomics data

V Lakshmanan, M Kahraman, DC Macalinao, N Gunn… - bioRxiv, 2024 - biorxiv.org
Quality control (QC) is the first critical step in single cell and spatial data analysis pipelines.
QC is particularly important when analysing data from primary human samples, since …

cfOmics: a cell-free multi-Omics database for diseases

M Li, T Zhou, M Han, H Wang, P Bao… - Nucleic Acids …, 2024 - academic.oup.com
Liquid biopsy has emerged as a promising non-invasive approach for detecting, monitoring
diseases, and predicting their recurrence. However, the effective utilization of liquid biopsy …

Depletion‐assisted multiplexed cell‐free RNA sequencing reveals distinct human and microbial signatures in plasma versus extracellular vesicles

H Wang, Q Zhan, M Ning, H Guo… - Clinical and …, 2024 - Wiley Online Library
Abstract Background Cell‐free long RNAs in human plasma and extracellular vesicles (EVs)
have shown promise as biomarkers in liquid biopsy, despite their fragmented nature …

Terminal modifications independent cell-free RNA sequencing enables sensitive early cancer detection and classification

J Wang, J Huang, Y Hu, Q Guo, S Zhang, J Tian… - Nature …, 2024 - nature.com
Cell-free RNAs (cfRNAs) offer an opportunity to detect diseases from a transcriptomic
perspective, however, existing techniques have fallen short in generating a comprehensive …