A5053504398- Cancer Genomics and Diagnostics
- RNA modifications and cancer
- Epigenetics and DNA Methylation
- Bioinformatics and Genomic Networks
- Genomics and Phylogenetic Studies
- Environmental DNA in Biodiversity Studies
- Diet, Metabolism, and Disease
- Lung Cancer Treatments and Mutations
- Liver Disease Diagnosis and Treatment
- Single-cell and spatial transcriptomics
- Microbial Community Ecology and Physiology
- Ferroptosis and cancer prognosis
- Distributed and Parallel Computing Systems
- Plant Gene Expression Analysis
- Genetics, Bioinformatics, and Biomedical Research
- Astronomical Observations and Instrumentation
- Plant Stress Responses and Tolerance
- Technology and Data Analysis
- Glycosylation and Glycoproteins Research
- Genetic Mapping and Diversity in Plants and Animals
- Aluminum toxicity and tolerance in plants and animals
- Molecular Biology Techniques and Applications
- CRISPR and Genetic Engineering
- BRCA gene mutations in cancer
- Wood and Agarwood Research
National Cancer Institute
2021-2025
Yangzhou University
2019-2024
National Institutes of Health
2022-2024
Honghe University
2024
Division of Cancer Epidemiology and Genetics
2021-2023
Chinese Academy of Sciences
2004-2021
Beijing Institute of Genomics
2019-2021
Shanghai Center For Bioinformation Technology
2021
University of Chinese Academy of Sciences
2019-2021
Research Institute of Forestry
2013-2016
The Genome Warehouse (GWH) is a public repository housing genome assembly data for wide range of species and delivering series web services submission, storage, release, sharing. As one the core resources in National Genomics Data Center (NGDC), part China Bioinformation (CNCB; https://ngdc.cncb.ac.cn), GWH accepts both full partial (chloroplast, mitochondrion, plasmid) sequences with different levels, as well an update existing assemblies. For each assembly, collects detailed genome-related...
Abstract The BIG Data Center at Beijing Institute of Genomics (BIG) the Chinese Academy Sciences provides freely open access to a suite database resources in support worldwide research activities both academia and industry. With vast amounts omics data generated ever-greater scales rates, is continually expanding, updating enriching its core through big-data integration value-added curation, including BioCode (a repository archiving bioinformatics tool codes), BioProject biological project...
Abstract Epigenome-Wide Association Study (EWAS) has become an effective strategy to explore epigenetic basis of complex traits. Over the past decade, a large amount data, especially those sourced from DNA methylation array, been accumulated as result numerous EWAS projects. We present Data Hub (https://bigd.big.ac.cn/ewas/datahub), resource for collecting and normalizing array data well archiving associated metadata. The current release integrates comprehensive collection 75 344 samples...
The plant natural resistance-associated macrophage protein (Nramp) family plays an important role in tolerance to heavy metal stress. However, few Nramps have been functionally characterized the metal-accumulating Sedum alfredii. Here, Nramp6 was cloned and identified from S. alfredii its function analyzed transgenic Arabidopsis thaliana. SaNramp6 cDNA contains open reading frame of 1, 638 bp encoding 545 amino acids. SaNramp6's expression can be induced by cadmium (Cd) stress, and, after...
Abstract Genome-wide association studies (GWAS) have identified thousands of genomic loci associated with complex diseases and traits, including cancer. The vast majority common trait-associated variants via GWAS fall in non-coding regions the genome, posing a challenge elucidating causal variants, genes, mechanisms involved. Expression quantitative trait locus (eQTL) other molecular QTL been valuable resources identifying candidate genes from through statistical colocalization methods....
Real-time Quantitative PCR (RT-qPCR) has become an effective method for accurate analysis of gene expression in several biological systems as well under different experimental conditions. Although with high sensitivity, specificity and broad dynamic range, this requires suitable reference genes transcript normalization order to guarantee reproducible meaningful results. In the present study, we evaluated five traditional housekeeping novel Hyperaccumulating ecotype Sedum alfredii, a known...
Understanding lung cancer evolution can identify tools for intercepting its growth. In a landscape analysis of 1024 adenocarcinomas (LUAD) with deep whole-genome sequencing integrated multiomic data, we identified 542 LUAD that displayed diverse clonal architecture. this group, observed an interplay between mobile elements, endogenous and exogenous mutational processes, distinct driver genes, epidemiological features. Our results revealed divergent evolutionary trajectories based on tobacco...
Abstract Lung adenocarcinoma in never smokers (NS-LUAD) has a high mortality rate. Compared to LUAD from patients with smoking history, NS-LUAD are less sensitive immune checkpoint blockade (ICB) potentially due differences tumor mutational burden and microenvironment. Knowledge of phenotypic plasticity cell composition can provide guidance for prognosis treatment. However, previous studies gene expression landscape were predominantly conducted full transcriptomic sequencing (RNA-seq) was...
Transcriptomic profiling is critical to uncovering functional elements from transcriptional and post-transcriptional aspects. Here, we present Gene Expression Nebulas (GEN, https://ngdc.cncb.ac.cn/gen/), an open-access data portal integrating transcriptomic profiles under various biological contexts. GEN features a curated collection of high-quality bulk single-cell RNA sequencing datasets by using standardized processing pipelines structured curation model. Currently, houses large number...
Abstract Epidemiologic studies often rely on questionnaire data, exposure measurement tools, and/or biomarkers to identify risk factors and the underlying carcinogenic processes. An emerging promising complementary approach investigate cancer etiology is study of somatic “mutational signatures” that endogenous exogenous processes imprint cellular genome. These signatures can be identified from a complex web mutations thanks advances in DNA sequencing technology analytical algorithms. This at...
Background. Chinese fir [ Cunninghamia lanceolata (Lamb.) Hook.] is one of the most important native tree species for timber production in southern China. An understanding overall fast growing stage, stem growth stage and senescence cambium transcriptome variation lacking. We used sequencing to identify repertoire genes expressed during development xylem tissue fir, aiming delineate molecular mechanisms wood formation. Results. carried out at three different cultivation ages (7Y, 15Y 21Y)...
To further explore and improve the mechanism of probiotics to alleviate disorder lipid metabolism, transcriptomic metabolomic with bioinformatic analysis were combined. In present study, we successfully established a rat model metabolism using high-fat diet. Intervention Lactobacillus rhamnosus hsryfm 1301 fermented milk resulted in significant reduction body weight, serum free fatty acid blood levels (p < 0.05), which predicted that was alleviated rats. Metabolomics transcriptomics...
APOBEC enzymes are part of the innate immunity and responsible for restricting viruses retroelements by deaminating cytosine residues
Excessive intake of high-energy diets is an important cause most obesity. The intervention rats with high-fat diet can replicate the ideal animal model for studying occurrence human nutritional Proteomics and bioinformatics analyses help us to systematically comprehensively study effect on rat liver. In present study, 4056 proteins were identified in liver by using tandem mass tag. A total 198 significantly changed, which 103 up-regulated ninety-five down-regulated. These significant...
Cadmium is a major toxic heavy-metal pollutant considering their bioaccumulation potential and persistence in the environment. The hyperaccumulating ecotype of Sedum alfredii Hance Zn/Cd co-hyperaccumulator inhabiting region China with soils rich Pb/Zn. Investigations into underlying regulatory mechanisms molecular Cd tolerance are substantial interest. Library screening for genes related to cadmium resulted discovery gene resembling rubber elongation factor here it designated as SaREFl...
ABSTRACT Lung cancer in never smokers (LCINS) accounts for up to 25% of all lung cancers and has been associated with exposure secondhand tobacco smoke air pollution observational studies. Here, we evaluate the mutagenic exposures LCINS by examining deep whole-genome sequencing data from a large international cohort 871 treatment-naïve recruited 28 geographical locations within Sherlock- study. KRAS mutations were 3.8-fold more common adenocarcinomas North America Europe, while 1.6-fold...
A long-term high-fat diet (HFD) leads to significant oxidative stress in the body and induces inflammation. preliminary evidence suggests a potential therapeutic utility of probiotics for this condition. To evaluate effect Lactobacillus fermentum DALI02 on inflammatory damage induced by HFD, we used hyperlipidemic rat as model fed with HFD. Results revealed that HFD However, results reveal L. DALI02, manifested decrease levels malondialdehyde (MDA), tumor necrosis factor-α (TNF-α),...
Harnessing community intelligence in knowledge curation bears significant promise dealing with communication and education the flood of scientific knowledge. As is accumulated at ever-faster rates, nomenclature, a particular kind knowledge, concurrently generated all kinds fields. Since nomenclature system terms used to name things discipline, accurate translation different languages critical importance, not only for communications collaborations English-speaking people, but also...
Abstract Although multiple common susceptibility loci for lung cancer (LC) have been identified by genome-wide association studies, they can explain only a small portion of heritability. The etiological contribution rare deleterious variants (RDVs) to LC risk is not fully characterized and may account part the missing Here, we sequenced whole exomes 2777 participants from Environment Genetics in Lung Etiology study, homogenous population including 1461 cases 1316 controls. In single-variant...
Abstract The Genome Warehouse (GWH) is a public repository housing genome assembly data for wide range of species and delivering series web services submission, storage, release, sharing. As one the core resources in National Genomics Data Center (NGDC), part China Bioinformation (CNCB, https://bigd.big.ac.cn/ ), GWH accepts both full partial (chloroplast, mitochondrion, plasmid) sequences with different levels, as well an update existing assemblies. For each assembly, collects detailed...
Alcoholic liver injury is a serious risk to human health. Probiotics have become popular form of treatment. Lacticaseibacillus casei Grx12 and Limosilactobacillus fermentum Grx07 isolated from the gut long-lived people in Rugao, Jiangsu, were studied determine their protective effects possible mechanisms action on alcoholic injury. The results showed that rat serum ALT AST restored, was reduced after probiotics intervention. level antioxidant enzymes antioxidants such as SOD, GSH GSH-Px...