UNLABELLED: Single-cell RNA sequencing (scRNA-seq) technology enables researchers to explore heterogeneity of diverse cell types within complex tissues at the single-cell resolution. Cell annotation, as a crucial step in scRNA-seq data analysis, prov...
BACKGROUND: Single-cell RNA sequencing (scRNA-seq) provides extensive opportunities to explore cellular heterogeneity but is often limited by substantial technical noise and variability. The prevalence of zero counts, arising from both biological var...
Accurate cell type classification is critical for downstream analysis in single-cell RNA sequencing (scRNA-seq). Most existing methods rely on a single type of feature representation-such as statistical, information theory, matrix factorization, or d...
RNA sequencing (RNA-seq) is a pivotal tool for transcriptomic analysis, providing comprehensive exploration of gene expression across diverse biological contexts. However, RNA-seq data are susceptible to various biases that can significantly compromi...
BACKGROUND: Necroptosis, a regulated form of programmed cell death, exacerbates inflammatory responses by releasing damage-associated molecular patterns and inflammatory factors. However, the specific mechanisms underlying necroptosis in periodontiti...
BACKGROUND AND AIMS: Metabolic dysfunction-associated steatotic liver disease (MASLD) is a leading cause of chronic liver disease worldwide. Progression from simple metabolic dysfunction-associated steatotic liver (MASL) without necro-inflammation to...
Transcriptome sequencing (RNA-seq) of cancers is widely employed in cancer research to investigate gene expression patterns and their role in disease progression. Somatic copy-number aberrations (SCNAs)-critical genomic drivers of tumorigenesis-can a...
We develop GeneRAIN, a suite of Transformer-based models that learn gene expression relationships from 410 K human bulk RNA-seq samples. Featuring a novel Binning-By-Gene normalization technique, our models capture diverse biological information beyo...
BACKGROUND: Protein lactylation has been implicated in stress-responsive cellular mechanisms, yet its role in lung transplantation-associated ischemia-reperfusion injury (IRI) remains undefined.
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