A5101608823- Single-cell and spatial transcriptomics
- Genomics and Chromatin Dynamics
- CRISPR and Genetic Engineering
- Gene expression and cancer classification
- Cancer Genomics and Diagnostics
- RNA and protein synthesis mechanisms
- Extracellular vesicles in disease
- Lipid metabolism and disorders
- Bacteriophages and microbial interactions
- Cardiac, Anesthesia and Surgical Outcomes
- Avian ecology and behavior
- Congenital Diaphragmatic Hernia Studies
- Pluripotent Stem Cells Research
- Entomopathogenic Microorganisms in Pest Control
- Plant Gene Expression Analysis
- Mollusks and Parasites Studies
- Protein Degradation and Inhibitors
- Bacterial Genetics and Biotechnology
- Cancer-related molecular mechanisms research
- Neonatal Respiratory Health Research
- Connective tissue disorders research
- Plant pathogens and resistance mechanisms
- Adipose Tissue and Metabolism
- Insects and Parasite Interactions
- Biological Research and Disease Studies
Peking University
2024
Peking University People's Hospital
2024
The University of Queensland
2019-2023
Hunan Institute of Microbiology
2022
Lanzhou University
2021
Hunan Normal University
2020
Hunan Provincial People's Hospital
2020
Tongji University
2019
Children's Hospital of Fudan University
2018
Virginia Tech
2018
ABSTRACT Spatial Transcriptomics is an emerging technology that adds spatial dimensionality and tissue morphology to the genome-wide transcriptional profile of cells in undissociated tissue. Integrating these three types data creates a vast potential for deciphering novel biology cell their native morphological context. Here we developed innovative integrative analysis approaches utilise all first find types, then reconstruct type evolution within tissue, search regions with high...
Spatial transcriptomics (ST) technologies generate multiple data types from biological samples, namely gene expression, physical distance between points, and/or tissue morphology. Here we developed three computational-statistical algorithms that integrate all to advance understanding of cellular processes. First, present a spatial graph-based method, pseudo-time-space (PSTS), model and uncover relationships transcriptional states cells across tissues undergoing dynamic change (e.g....
Abstract A variety of methods have been developed to demultiplex pooled samples in a single cell RNA sequencing (scRNA-seq) experiment which either require hashtag barcodes or sample genotypes prior pooling. We introduce scSplit utilizes genetic differences inferred from scRNA-seq data alone samples. also enables mapping clusters original Using simulated, merged, and multi-individual datasets, we show that prediction is highly concordant with demuxlet predictions consistent the known truth...
The success of mRNA vaccines has been realised, in part, by advances manufacturing that enabled billions doses to be produced at sufficient quality and safety. However, must rigorously analysed measure their integrity detect contaminants reduce effectiveness induce side-effects. Currently, therapies are using a range time-consuming costly methods. Here we describe streamlined method analyse long-read nanopore sequencing. Compared other industry-standard techniques, VAX-seq can...
Heterotaxy syndrome (HTX) is characterized by left-right (LR) asymmetry disturbances associated with severe heart malformations. However, the exact genetic cause of HTX pathogenesis remains unclear. The aim this study was to investigate pathogenic mechanism underlying heterotaxy syndrome. Targeted next-generation sequencing (NGS) performed for twenty-two candidate genes correlated LR axis development in sixty-six patients from unrelated families. Variants were filtered databases and...
The extent of ischemic injury in response to cerebral ischemia is known be affected by native vasculature. However, the nonvascular and dynamic vascular responses their genetic basis are not well understood. We performed a genome-wide association study 235 mice from 33 inbred strains using middle artery occlusion model. Population structure relatedness were accounted for efficient mixed-model method. Human orthologs genes associated with significant suggestive single-nucleotide polymorphisms...
Inonotus hispidus (I. hispidus) is a medicinal macrofungus that plays key role in anti-tumor and antioxidant functions. To further understand enhance the value of I. hispidus, we performed whole-genome sequencing an analysis its strain for first time. was sequenced using Illumina NovaSeq high-throughput platform. The genome length 35,688,031 bp 30 contigs, with average 1,189,601.03 bp. Moreover, database alignment annotated 402 CAZyme genes 93 functional involved regulating secondary...
Abstract A variety of experimental and computational methods have been developed to demultiplex samples from pooled individuals in a single-cell RNA sequencing (scRNA-Seq) experiment which either require adding information (such as hashtag barcodes) or measuring genotypes) prior pooling. We introduce scSplit utilises genetic differences inferred scRNA-Seq data alone samples. also extracts minimal set high confidence presence/absence genotypes each cluster can be used map clusters original...
SUMMARY Determining genes orchestrating cell differentiation in development and disease remains a fundamental goal of biology. This study establishes genome-wide metric based on the gene-repressive tri-methylation histone 3 lysine 27 (H3K27me3) across hundreds diverse types to identify genetic regulators differentiation. We introduce computational method, TRIAGE, that uses discordance between tendency expression drivers identity. apply TRIAGE millions single-cell transcriptomes, omics...
Rearrangement of the mixed lineage leukemia (MLL; also known as lysine methyltransferase 2A) gene is a recurrent genomic aberration in acute myeloid (AML). MLLT3, super elongation complex subunit (AF9) one most common MLL fusion partners AML. The present study aimed to explore aberrant expression genes associated with MLL‑AF9 translocation and identified potential new targets for therapy AML translocation. transcriptomic epigenetic datasets were downloaded from National Center Biotechnology...
The aim of the present report was to describe clinical presentation, diagnosis, and treatment a case carbamoyl phosphate synthetase 1 (CPS1) deficiency in neonate, specifically, 3 day-old female who visited Hunan Provincial People's Hospital due anorexia lethargy for day. Physical laboratory examination, MRI were undertaken. Whole exome sequencing (WES) applied molecular etiology identification. Sanger utilized validate variants detected by WES. Structural modeling conducted pathogenic...
Genes are subject to birth and death during the long evolutionary period. Here, young old duplicate genes were identified in Vernicia fordii . We performed integrative analyses, including expression pattern, gene complexity, evolution, functional divergence between genes. Compared with genes, have higher values of Ka Ks, lower Ka/Ks values, average intrinsic structural disorder (ISD) values. Gene ontology RNA-seq suggested that most contained asymmetric functions. Only likely participate...
Background and Objective: A study was conducted to test the hypothesis that differences in DNA sequence variations of turkey Clock gene may be associated with growth reproductive traits.The turClock for screened evaluated relationships among its haplotypes (based on haplogroups) traits turkey.Methodology: total 290 birds including hybrid turkeys seven different varieties heritage were used.DNA sequences (24.6 kb) by re-sequencing individual amplicons.Haplogroups determined based output from...