Search
Search Results
-
Metacell-based differential expression analysis identifies cell type specific temporal gene response programs in COVID-19 patient PBMCs
By profiling gene expression in individual cells, single-cell RNA-sequencing (scRNA-seq) can resolve cellular heterogeneity and cell-type gene...
-
Asymmetric gene expression and cell-type-specific regulatory networks in the root of bread wheat revealed by single-cell multiomics analysis
BackgroundHomoeologs are defined as homologous genes resulting from allopolyploidy. Bread wheat, Triticum aestivum , is an allohexaploid species with...
-
SURGE: uncovering context-specific genetic-regulation of gene expression from single-cell RNA sequencing using latent-factor models
Genetic regulation of gene expression is a complex process, with genetic effects known to vary across cellular contexts such as cell types and...
-
Cell-specific clock-controlled gene expression program regulates rhythmic fiber cell growth in cotton
BackgroundThe epidermis of cotton ovule produces fibers, the most important natural cellulose source for the global textile industry. However, the...
-
A human-specific insertion promotes cell proliferation and migration by enhancing TBC1D8B expression
Human-specific insertions play important roles in human phenotypes and diseases. Here we reported a 446-bp insertion (Insert-446) in intron 11 of the TBC1D8B...
-
Joint epigenome profiling reveals cell-type-specific gene regulatory programmes in human cortical organoids
Gene expression is regulated by multiple epigenetic mechanisms, which are coordinated in development and disease. However, current multiomics methods...
-
Inferring cell-type-specific causal gene regulatory networks during human neurogenesis
BackgroundGenetic variation influences both chromatin accessibility, assessed in chromatin accessibility quantitative trait loci (caQTL) studies, and...
-
Single-cell multiomics of the human retina reveals hierarchical transcription factor collaboration in mediating cell type-specific effects of genetic variants on gene regulation
BackgroundSystematic characterization of how genetic variation modulates gene regulation in a cell type-specific context is essential for...
-
PancrESS – a meta-analysis resource for understanding cell-type specific expression in the human pancreas
BackgroundThe human pancreas is composed of specialized cell types producing hormones and enzymes critical to human health. These specialized...
-
DISSECT: deep semi-supervised consistency regularization for accurate cell type fraction and gene expression estimation
Cell deconvolution is the estimation of cell type fractions and cell type-specific gene expression from mixed data. An unmet challenge in cell...
-
Inducible, Tissue-Specific Gene Expression in Arabidopsis Using GR-LhG4-Mediated Trans-Activation
Inducible, tissue-specific gene expression is a potent tool to study gene regulatory networks as it allows spatially and temporally controlled...
-
Regulatory mechanism for the human glioblastoma cell-specific expression of the human GD1c/GT1a/GQ1b synthase (hST8Sia V) gene
In this study we observed that human GD1c/GT1a/GQ1b synthase (hST8Sia V) is particularly expressed in human glioblastoma cells. To address the...
-
Niche-DE: niche-differential gene expression analysis in spatial transcriptomics data identifies context-dependent cell-cell interactions
Existing methods for analysis of spatial transcriptomic data focus on delineating the global gene expression variations of cell types across the...
-
Placental cell type deconvolution reveals that cell proportions drive preeclampsia gene expression differences
The placenta mediates adverse pregnancy outcomes, including preeclampsia, which is characterized by gestational hypertension and proteinuria....
-
Cell type-specific inference of differential expression in spatial transcriptomics
A central problem in spatial transcriptomics is detecting differentially expressed (DE) genes within cell types across tissue context. Challenges to...
-
Patch-seq: Multimodal Profiling of Single-Cell Morphology, Electrophysiology, and Gene Expression
Cells exhibit diverse morphologic phenotypes, biophysical and functional properties, and gene expression patterns. Understanding how these features...
-
Evolution of Cell-Type-Specific RNA Aptamers via Live Cell-Based SELEX
Live cell-based SELEX (Systematic Evolution of Ligand EXponential enrichment) is a promising approach for identifying aptamers that can selectively...
-
A multimodal deep learning model to infer cell-type-specific functional gene networks
BackgroundFunctional gene networks (FGNs) capture functional relationships among genes that vary across tissues and cell types. Construction of...
-
Epigenetic Control of Gene Expression
Genetic mutations lead to inheritable changes in the traits. Alterations in genetic features may also be caused by chromatin modifications without...
-
ISLET: individual-specific reference panel recovery improves cell-type-specific inference
We propose a statistical framework ISLET to infer individual-specific and cell-type-specific transcriptome reference panels. ISLET models the...
