A5054814616- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- RNA Research and Splicing
- RNA regulation and disease
- Cancer Genomics and Diagnostics
- Immune cells in cancer
- RNA and protein synthesis mechanisms
- Single-cell and spatial transcriptomics
- Molecular Biology Techniques and Applications
- Cytomegalovirus and herpesvirus research
- interferon and immune responses
- Mycobacterium research and diagnosis
- Immune Cell Function and Interaction
- Cancer Immunotherapy and Biomarkers
Harbin Medical University
2020-2024
Long non-coding RNAs (lncRNAs), as important ncRNA regulators, play crucial roles in the regulation of various biological processes, and their aberrant expression is related to occurrence development diseases, which gradually validated by more studies. Alzheimer's disease (AD) a chronic neurodegenerative that often develops slowly deteriorates over time. However, functions lncRNAs perform AD are almost unknown. In this study, we performed transcriptome analysis AD, containing 12,892 known...
Abstract The interactions between tumor cells and the microenvironment play pivotal roles in initiation, progression metastasis of cancer. advent spatial transcriptomics data offers an opportunity to unravel intricate dynamics cellular states cell–cell Herein, we have developed integrated omics resource cancer (SORC, http://bio-bigdata.hrbmu.edu.cn/SORC), which interactively visualizes analyzes We manually curated currently available datasets for 17 types cancer, comprising 722 899 spots...
Single nucleotide variants (SNVs), as important components of genetic variation, affect gene expression, function and phenotype. Mining summarizing the spatial distribution SNVs in diseased normal tissues for a better understanding their characteristics potential roles cell-lineage determination, aging, or disease occurrence is significant. Herein, we have developed comprehensive mutation resource stSNV (http://bio-bigdata.hrbmu.edu.cn/stSNV/index.jsp), which provides an atlas major human...
Long non-coding RNAs (lncRNAs) can crosstalk with each other by post-transcriptionally co-regulating genes involved in the same or similar functions; however, regulatory principles and biological insights tumor-immune are still unclear. Here, we show a multiple-step model to identify lncRNA-lncRNA immune cooperation based on functional modules integrating multi-omics data across 20 cancer types. Moreover, lncRNA cooperative networks (LICNs) constructed, which likely modulate microenvironment...
Exhausted T (TEX) cells are main immunotherapy targets in cancer, but it lacks a general identification method to characterize TEX cell disease. To assess the characterization of cell, we extract signature from large cancer and chronic infection cohorts. Based on single-cell transcriptomes, systematic exhaustion prediction (TEXP) model is designed define infection. We then prioritize 42 marker genes, including HAVCR2, PDCD1, TOX, TIGIT LAG3, which associated with exhaustion. TEXP could...
Abstract Long non-coding RNAs (lncRNAs) have emerged as significant players for maintaining the morphology and function of tissues or cells. The precise regulatory effectiveness lncRNA is closely associated with spatial expression patterns across Here, we proposed Cellular-Elevated LncRNA (LncCE) database to systematically explore cellular-elevated (CE) lncRNAs normal cancer in single LncCE encompasses 87,946 CE 149 cell types by analyzing 181 single-cell RNA sequencing (scRNA-seq) datasets,...
Abstract Rapid progresses in RNA-Seq and computational methods have assisted quantifying A-to-I RNA editing altered sites been widely observed various diseases. Nevertheless, functional characterization of the still remains a challenge. Here, we developed perturbations (PRES; http://bio-bigdata.hrbmu.edu.cn/PRES/) as webserver for decoding based on editome profiling. After uploading an profile among samples different groups, PRES will first annotate to genomic elements detect differential...
Abstract The distribution and extent of immune cell infiltration into solid tumors play pivotal roles in cancer immunology therapy. Here we introduced an long non-coding RNA (lncRNA) signature-based method (ILnc), for estimating the abundance 14 types from lncRNA transcriptome data. Performance evaluation through pure data shows that our signature sets can be more accurate than protein-coding gene signatures. We found signatures are significantly enriched to functions pathways, such as...