A5100747288- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Cancer-related molecular mechanisms research
- Animal Genetics and Reproduction
- Epigenetics and DNA Methylation
- RNA modifications and cancer
- Genetic Associations and Epidemiology
- Neuroinflammation and Neurodegeneration Mechanisms
- Reproductive Physiology in Livestock
- Cancer-related gene regulation
- Systemic Lupus Erythematosus Research
- Alzheimer's disease research and treatments
- Molecular Biology Techniques and Applications
- Tryptophan and brain disorders
- Genomics and Chromatin Dynamics
- Chromosomal and Genetic Variations
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Genetic diversity and population structure
- Cancer, Lipids, and Metabolism
- Lipid metabolism and disorders
- Immune cells in cancer
- Plant Reproductive Biology
- Genomics and Phylogenetic Studies
- Bioinformatics and Genomic Networks
- Genomic variations and chromosomal abnormalities
Capital Medical University
2014-2025
University of Maryland, College Park
2016-2025
China-Japan Friendship Hospital
2009-2025
Massey University
2025
Jining First People's Hospital
2025
Ningxia Water Conservancy
2024-2025
Livestock Improvement Corporation
2025
Beijing Chest Hospital
2014-2024
Lanzhou University
2005-2024
Lanzhou University Second Hospital
2005-2024
Abstract Previous genome-wide association studies (GWAS), conducted by our group and others, have identified loci that harbor risk variants for neurodegenerative diseases, including Alzheimer's disease (AD). Human are enriched polymorphisms affect gene expression, some known to associate with expression changes in the brain. Postulating many confer via transcriptional regulatory mechanisms, we analyzed levels brain tissue of subjects AD related diseases. Herein, describe collective datasets...
Genome-wide association analysis is a powerful tool for annotating phenotypic effects on the genome and knowledge of genes chromosomal regions associated with dairy phenotypes useful gene-based selection. Here, we report results genome-wide predicted transmitting ability (PTA) 31 production, health, reproduction body conformation traits in contemporary Holstein cows.Genome-wide identified number candidate chromosome U.S. cows. Highly significant include: BTA13's GNAS region milk, fat protein...
Genome-wide association study (GWAS) is a powerful approach to identify genomic regions and genetic variants associated with phenotypes. However, only limited mutual confirmation from different studies available. We conducted large-scale GWAS using 294,079 first-lactation Holstein cows identified new additive dominance effects on five production traits, three fertility somatic cell score. Four chromosomes had the most significant SNP Chr14 region containing DGAT1 mostly positive fat yield...
Meiotic recombination is an essential biological process that generates genetic diversity and ensures proper segregation of chromosomes during meiosis. From a large USDA dairy cattle pedigree with over half million genotyped animals, we extracted 186,927 three-generation families, identified 8.5 maternal paternal events, constructed sex-specific maps for 59,309 autosomal SNPs. The map spans 25.5 Morgans in males 23.2 females, total studied region 2,516 Mb (986 kb/cM 1,085 females). male 10%...
Abstract The Farm Animal Genotype-Tissue Expression (FarmGTEx) project has been established to develop a public resource of genetic regulatory variants in livestock, which is essential for linking polymorphisms variation phenotypes, helping fundamental biological discovery and exploitation animal breeding human biomedicine. Here we show results from the pilot phase PigGTEx by processing 5,457 RNA-sequencing 1,602 whole-genome sequencing samples passing quality control pigs. We build pig...
Plasma cell-free DNA (cfDNA) are small molecules generated through a non-random fragmentation procedure. Despite commendable translational values in cancer liquid biopsy, however, the biology of cfDNA, especially principles cfDNA fragmentation, remains largely elusive. Through orientation-aware analyses patterns against nucleosome structure and integration with multidimensional functional genomics data, here we report methylation - nuclease preference cutting end size distribution axis,...
To test for replication of the association between variants in CLU, CR1, and PICALM genes with Alzheimer disease.Follow-up case-control study.The Mayo Clinics at Jacksonville, Florida, Rochester, Minnesota.Community-based patients European descent late-onset disease (LOAD) controls without dementia who were seen clinics, autopsy-confirmed cases whose pathology was evaluated Clinic Jacksonville. Additional samples obtained from National Cell Repository Disease (NCRAD). A total 1829 LOAD 2576...
Chicken body weight is an economically important trait and great genetic progress has been accomplished in selective for weight. To identify genes chromosome regions associated with weight, we performed a genome-wide association study using the chicken 60 k SNP panel F2 resource population derived from cross between Silky Fowl White Plymouth Rock. A total of 26 effects involving 9 different markers reached 5% Bonferroni significance. 4 (GGA4) region approximately 8.6 Mb length (71.6–80.2 Mb)...
By uniformly analyzing 723 RNA-seq data from 91 tissues and cell types, we built a comprehensive gene atlas studied tissue specificity of genes in cattle. We demonstrated that tissue-specific significantly reflected the tissue-relevant biology, showing distinct promoter methylation evolution patterns (e.g., brain-specific evolve slowest, whereas testis-specific fastest). Through integrative analyses those with large-scale genome-wide association studies, detected relevant tissues/cell types...
Chicken growth traits are important economic in broilers. A large number of studies available on finding genetic factors affecting chicken growth. However, most these identified chromosome regions containing putative quantitative trait loci and causal mutations is still a challenge. In this genome-wide association study (GWAS), we narrow 1.5 Mb region (173.5–175 Mb) (Gallus gallus) (GGA) 1 to be strongly associated with using 47,678 SNPs 489 F2 chickens. The included aggregate body weight...
Abstract Background Health traits are of significant economic importance to the dairy industry due their effects on milk production and associated treatment costs. Genome-wide association studies (GWAS) provide a means identify genomic variants thus reveal insights into genetic architecture complex diseases. The objective this study is investigate basis seven health in cattle potential candidate genes with using GWAS, fine mapping, analyses multi-tissue transcriptome data. Results We studied...
The recent pandemic, COVID-19, is caused by a novel coronavirus, SARS-CoV-2, with elusive origin. SARS-CoV-2 infects mammalian cells via ACE2, transmembrane protein. Therefore, the conservation and expression patterns of ACE2 may provide valuable insights into tracing carriers SARS-CoV-2. In this work, we analyzed its pattern among various species that are close to human beings. We show gene deeply conserved at both DNA peptide levels, suggesting broad range mammals can potentially host...
Abstract A hundred years of data collection in dairy cattle can facilitate powerful studies complex traits. Cattle GWAS have identified many associated genomic regions. With increasing numbers sequenced, fine-mapping causal variants is becoming possible. Here we imputed selected sequence to 27,214 Holstein bulls that highly reliable phenotypes for 35 production, reproduction, and body conformation We performed single-marker scans the traits multi-trait tests three trait groups, revealing 282...
The functional annotation of genomes, including chromatin accessibility and modifications, is important for understanding effectively utilizing the increased amount genome sequences reported. However, while such has been well explored in a diverse set tissues cell types human model organisms, relatively little data are available livestock hindering our complex trait variation, domestication, adaptive evolution. Here, we present first complete global landscape regulatory elements cattle...
MicroRNAs play key roles in many biological processes, and are frequently dysregulated tumor cells. However, there few studies on how microRNAs dysregulated. miR-139-5p, an important suppressor, is often underexpressed gastrointestinal cancer Here, we describe post-transcriptional regulation of this intronic microRNA human colorectal cancer. miR-139-5p expressed independently its overexpressed host gene PDE2A tissues cell lines. The target genes IGF1R, ROCK2 RAP1B exert regulatory effects...
Although genome-wide association and genomic selection studies have primarily focused on additive effects, dominance imprinting effects play an important role in mammalian biology development. The degree to which these non-additive genetic contribute phenotypic variation whether QTL acting a manner can be detected remain controversial. To empirically answer questions, we analyzed large cattle dataset that consisted of 42,701 genotyped Holstein cows with parents records for eight production...