Search
Search Results
-
scCDC: a computational method for gene-specific contamination detection and correction in single-cell and single-nucleus RNA-seq data
In droplet-based single-cell and single-nucleus RNA-seq assays, systematic contamination of ambient RNA molecules biases the quantification of gene...
-
Single-cell gene and isoform expression analysis reveals signatures of ageing in haematopoietic stem and progenitor cells
Single-cell approaches have revealed that the haematopoietic hierarchy is a continuum of differentiation, from stem cell to committed progenitor,...
-
Multiple Cell Lineages Give Rise to a Cell Type
It has long been assumed that a specific cell type arises following stepwise specification of cells corresponding to the branching of cell lineages....
-
Multiplexed single-cell 3D spatial gene expression analysis in plant tissue using PHYTOMap
Retrieving the complex responses of individual cells in the native three-dimensional tissue context is crucial for a complete understanding of tissue...
-
Dual-Fluorescence Chromosome-Located Labeling System for Accurate In Vivo Single-Cell Gene Expression Analysis in Pseudomonas syringae
Epigenetic regulation as a means for bacterial adaptation is receiving increasing interest in the last decade. Significant efforts have been directed...
-
Integrated analysis reveals FLI1 regulates the tumor immune microenvironment via its cell-type-specific expression and transcriptional regulation of distinct target genes of immune cells in breast cancer
BackgroundImmunotherapy is a practical therapeutic approach in breast cancer (BRCA), and the role of FLI1 in immune regulation has gradually been...
-
Identification of cell-type specific alternative transcripts in the multicellular alga Volvox carteri
BackgroundCell type specialization is a hallmark of complex multicellular organisms and is usually established through implementation of...
-
Gene expression study of host-human T-cell leukaemia virus type 1 (HTLV-1) interactions: adult T-cell leukaemia/lymphoma (ATLL)
BackgroundIn HTLV-1-associated malignant disease, adult T-cell leukaemia/lymphoma (ATLL), the interaction of virus and host was evaluated at the...
-
Investigation of the Effect of Tamoxifen on hERG1 Potassium Channel Gene Expression in MCF-7 Cell Line
AbstractObjective: Tamoxifen (TAM) is a nonstreroidal antiestrogenic pharmaceutical agent extensively employed in the therapeutic management of...
-
scMuffin: an R package to disentangle solid tumor heterogeneity by single-cell gene expression analysis
IntroductionSingle-cell (SC) gene expression analysis is crucial to dissect the complex cellular heterogeneity of solid tumors, which is one of the...
-
Powerful and accurate detection of temporal gene expression patterns from multi-sample multi-stage single-cell transcriptomics data with TDEseq
We present a non-parametric statistical method called TDEseq that takes full advantage of smoothing splines basis functions to account for the...
-
Identification of genetic variants that impact gene co-expression relationships using large-scale single-cell data
BackgroundExpression quantitative trait loci (eQTL) studies show how genetic variants affect downstream gene expression. Single-cell data allows...
-
CeDAR: incorporating cell type hierarchy improves cell type-specific differential analyses in bulk omics data
Bulk high-throughput omics data contain signals from a mixture of cell types. Recent developments of deconvolution methods facilitate cell...
-
Genome-wide identification and expression analysis of Ubiquitin-specific protease gene family in maize (Zea mays L.)
BackgroundUbiquitin-specific proteases (UBPs) are a large family of deubiquitinating enzymes (DUBs). They are widespread in plants and are critical...
-
Paralog transcriptional differentiation in the D. melanogaster-specific gene family Sdic across populations and spermatogenesis stages
How recently originated gene copies become stable genomic components remains uncertain as high sequence similarity of young duplicates precludes...
-
Genetic variation in cis-regulatory domains suggests cell type-specific regulatory mechanisms in immunity
Studying the interplay between genetic variation, epigenetic changes, and regulation of gene expression is crucial to understand the modification of...
-
Two Arabidopsis promoters drive seed-coat specific gene expression in pennycress and camelina
BackgroundPennycress and camelina are two important novel biofuel oilseed crop species. Their seeds contain high content of oil that can be easily...
-
Transcriptomic characterization of Trichoderma harzianum T34 primed tomato plants: assessment of biocontrol agent induced host specific gene expression and plant growth promotion
In this study, we investigated the intricate interplay between Trichoderma and the tomato genome, focusing on the transcriptional and metabolic...
-
Overexpression of BBF3 encoding a tobacco Dof transcription factor alters gene expression and cell death induction during N-mediated hypersensitivity to tobacco mosaic virus
Dof (DNA binding with one finger) proteins are plant-specific transcription factors involved in gene regulation during abiotic and biotic stresses....
