A5111897629- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- Chromosomal and Genetic Variations
- Genetic Associations and Epidemiology
- RNA Research and Splicing
- Cancer Genomics and Diagnostics
- RNA modifications and cancer
- SARS-CoV-2 and COVID-19 Research
- Genomics and Chromatin Dynamics
- Bioinformatics and Genomic Networks
- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Viral gastroenteritis research and epidemiology
- Animal Virus Infections Studies
- Gene expression and cancer classification
- CRISPR and Genetic Engineering
- Microbial Metabolic Engineering and Bioproduction
- Molecular Biology Techniques and Applications
- Evolution and Genetic Dynamics
- Cancer-related molecular mechanisms research
- Breast Cancer Treatment Studies
- Plant Disease Resistance and Genetics
- Genomics and Rare Diseases
- Silkworms and Sericulture Research
- Epigenetics and DNA Methylation
BGI Group (China)
2011-2024
Chinese Academy of Sciences
2003-2024
Chinese PLA General Hospital
2005-2024
Jilin University
2024
Second Affiliated Hospital of Zhejiang University
2024
Traditional Chinese Medicine Hospital of Kunshan
2024
Nanjing University of Chinese Medicine
2024
Shanghai University of Traditional Chinese Medicine
2015-2024
Berkshire Healthcare NHS Foundation Trust
2024
Wuhan Botanical Garden
2024
A 2.91-billion base pair (bp) consensus sequence of the euchromatic portion human genome was generated by whole-genome shotgun sequencing method. The 14.8-billion bp DNA over 9 months from 27,271,853 high-quality reads (5.11-fold coverage genome) both ends plasmid clones made five individuals. Two assembly strategies—a and a regional chromosome assembly—were used, each combining data Celera publicly funded effort. public were shredded into 550-bp segments to create 2.9-fold those regions...
There is a rapidly increasing amount of de novo genome assembly using next-generation sequencing (NGS) short reads; however, several big challenges remain to be overcome in order for this efficient and accurate. SOAPdenovo has been successfully applied assemble many published genomes, but it still needs improvement continuity, accuracy coverage, especially repeat regions. To these challenges, we have developed its successor, SOAPdenovo2, which the advantage new algorithm design that reduces...
Abstract Motivation: Molecular biotechnology now makes it possible to build elaborate systems models, but the biology community needs information standards if models are be shared, evaluated and developed cooperatively. Results: We summarize Systems Biology Markup Language (SBML) Level 1, a free, open, XML-based format for representing biochemical reaction networks. SBML is software-independent language describing common research in many areas of computational biology, including cell...
Anopheles gambiae is the principal vector of malaria, a disease that afflicts more than 500 million people and causes 1 deaths each year. Tenfold shotgun sequence coverage was obtained from PEST strain A. assembled into scaffolds span 278 base pairs. A total 91% genome organized in 303 scaffolds; largest scaffold 23.1 There substantial genetic variation within this strain, apparent existence two haplotypes approximately equal frequency ("dual haplotypes") fraction likely reflects outbred...
Potato (Solanum tuberosum L.) is the world's most important non-grain food crop and central to global security. It clonally propagated, highly heterozygous, autotetraploid, suffers acute inbreeding depression. Here we use a homozygous doubled-monoploid potato clone sequence assemble 86% of 844-megabase genome. We predict 39,031 protein-coding genes present evidence for at least two genome duplication events indicative palaeopolyploid origin. As first an asterid, reveals 2,642 specific this...
We report a draft sequence for the genome of domesticated silkworm (Bombyx mori), covering 90.9% all known genes. Our estimated gene count is 18,510, which exceeds 13,379 genes reported Drosophila melanogaster. Comparative analyses to fruitfly, mosquito, spider, and butterfly reveal both similarities differences in content.
To validate the clinical efficacy and practical feasibility of massively parallel maternal plasma DNA sequencing to screen for fetal trisomy 21 among high risk pregnancies clinically indicated amniocentesis or chorionic villus sampling.Diagnostic accuracy validated against full karyotyping, using prospectively collected archived samples.Prenatal diagnostic units in Hong Kong, United Kingdom, Netherlands.753 pregnant women at who underwent definitive diagnosis by whom 86 had a fetus with 21....
High-throughput sequencing technology enables population-level surveys of human genomic variation. Here, we examine the joint allele frequency distributions across continental populations and present an approach for combining complementary aspects whole-genome, low-coverage data targeted high-coverage data. We apply this to generated by pilot phase Thousand Genomes Project, including whole-genome 2–4× coverage 179 samples from HapMap European, Asian, African panels as well target exons 800...
Gene expression profiling is being widely applied in cancer research to identify biomarkers for clinical endpoint prediction. Since RNA-seq provides a powerful tool transcriptome-based applications beyond the limitations of microarrays, we sought systematically evaluate performance RNA-seq-based and microarray-based classifiers this MAQC-III/SEQC study prediction using neuroblastoma as model.We generate gene profiles from 498 primary neuroblastomas both 44 k microarrays. Characterization...
Genetic studies of Tibetans, an ethnic group with a long-lasting presence on the Tibetan Plateau which is known as highest plateau in world, may offer unique opportunity to understand biological adaptations human beings high-altitude environments. We conducted genome-wide study 1,000,000 genetic variants 46 Tibetans (TBN) and 92 Han Chinese (HAN) for identifying signals (HAAs) genomes. discovered most differentiated between TBN HAN at chromosome 1q42.2 2p21. EGLN1 (or HIFPH2, MIM 606425)...
TreeFam (http://www.treefam.org) was developed to provide curated phylogenetic trees for all animal gene families, as well orthologue and paralogue assignments. Release 4.0 of contains 1314 families automatically generated another 14,351 families. We have expanded include 25 fully sequenced genomes, four genomes from plant fungal outgroup species. also introduced more accurate approaches grouping genes into building trees, inferring orthologues paralogues. The user interface viewing family...
The high degree of similarity between the mouse and human genomes is demonstrated through analysis sequence chromosome 16 (Mmu 16), which was obtained as part a whole-genome shotgun assembly genome. genome about 10% smaller than genome, owing to lower repetitive DNA content. Comparison structure protein-coding potential Mmu with that homologous segments identifies regions conserved synteny chromosomes (Hsa) 3, 8, 12, 16, 21, 22. Gene content order are highly syntenic blocks Of 731 predicted...
Background Streptococcus suis serotype 2 (SS2) is an important zoonotic pathogen, causing more than 200 cases of severe human infection worldwide, with the hallmarks meningitis, septicemia, arthritis, etc. Very recently, SS2 has been recognized as etiological agent for streptococcal toxic shock syndrome (STSS), which was originally associated pyogenes (GAS) in Streptococci. However, molecular mechanisms underlying STSS are poorly understood.Methods and FindingsTo elucidate genetic...
Thermoanaerobacter tengcongensis is a rod-shaped, gram-negative, anaerobic eubacterium that was isolated from freshwater hot spring in Tengchong, China. Using whole-genome-shotgun method, we sequenced its 2,689,445-bp genome an isolate, MB4 T (Genbank accession no. AE008691 ). The encodes 2588 predicted coding sequences (CDS). Among them, 1764 (68.2%) are classified according to homology other documented proteins, and the rest, 824 CDS (31.8%), functionally unknown. One of interesting...
BioMart Central Portal is a first of its kind, community-driven effort to provide unified access dozens biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource the Portal, allowing it be exposed shared with research community, linking other resources in portal. Users take advantage common interface quickly utilize different sources without learning new system for each. The...
Abstract Chronic pain is a global public health problem, but the underlying molecular mechanisms are not fully understood. Here we examine genome-wide DNA methylation, first in 50 identical twins discordant for heat sensitivity and then further unrelated individuals. Whole-blood methylation was characterized at 5.2 million loci by MeDIP sequencing assessed longitudinally to identify differentially methylated regions associated with high or low (pain DMRs). Nine meta-analysis DMRs show robust...
The gut microbiota is closely associated with gastrointestinal (GI) motility disorder, but the mechanism(s) by which bacteria interact and affect host GI remains unclear. In this study, through using metabolomic metagenomic analyses, an animal model of neonatal maternal separation (NMS) characterized accelerated colonic dysbiosis was used to investigate mechanism underlying microbiota-driven dysfunction. An excess intracolonic saturated long-chain fatty acids (SLCFAs) enhanced bowel in NMS...
Extrachromosomal circular DNA (eccDNA) and ring chromosomes are genetic alterations found in humans with disorders. However, there is a lack of engineering tools to recapitulate study the biogenesis eccDNAs. Here, we created dual-fluorescence biosensor cassette, which upon delivery pairs CRISPR/Cas9 guide RNAs, CRISPR-C, allows us specific fluorophore expressing eccDNA human cells. We show that CRISPR-C can generate functional eccDNA, using novel system. further reveal also eccDNAs from...
To estimate the incidence of urinary incontinence (UI), including its subtypes stress UI (SUI), urgency (UUI) and mixed (MUI), to examine risk factors for de novo SUI UUI in Chinese women.Nationwide longitudinal study.Six geographic regions China.Women aged ≥20 years old were included using a multistage, stratified, cluster sampling method.This study was conducted between May 2014 March 2016, with follow up 2018. Data on demographics, medical history, lifestyle physiological anthropometric...
Actinidia arguta, the most widely distributed and second cultivated species within genus, has distinguished difference from current kiwifruit in biological characters like small smooth fruit, rapid-softening excellent cold tolerance. Knowledge of adaptive evolution tetraploid genetic basis its important agronomic traits is still unclear. A chromosome-scale genome assembly an autotetraploid male A. arguta been generated. The was 2.77 Gb length with a contig N50 9.97Mb anchored into 116...