BGI Group (China)

Structural Variants in the Human Genome Associated With Gut Microbiome and Blood Metabolic Traits With Potential Causal Links

ABSTRACT Research on genetic variants affecting the gut microbiome and blood metabolites has mainly focused on single nucleotide variants (SNPs), leaving structural variants (SVs) largely unexplored. Here, we analyzed high‐coverage (∼42×) whole‐genome sequencing data from 2002 in...

Protein sequence dataset of CENH3 and NASP for structural analysis

This dataset contains all protein FASTA files used for CENH3 phylogenetic tree construction, multiple sequence alignment (MSA), and comparative structural analysis of CENH3 and NASP kinetochore proteins: all_CENH3_pep.fasta: Full-length CENH3 amino acid sequences collected from d...

Protein sequence dataset of CENH3 and NASP for structural analysis

This dataset contains all protein FASTA files used for CENH3 phylogenetic tree construction, multiple sequence alignment (MSA), and comparative structural analysis of CENH3 and NASP kinetochore proteins: all_CENH3_pep.fasta: Full-length CENH3 amino acid sequences collected from d...

A low-complexity, tissue-function-guided engineering workflow for AlphaFold 3-assisted affinity maturation of a CD21 diagnostic nanobody

High-affinity antibodies with reliable tissue-staining performance are needed for reproducible immunohistochemistry (IHC), yet affinity maturation workflows often optimize recombinant-antigen binding and treat staining in formalin-fixed, paraffin-embedded tissue as a downstream v...

Towards molecular-based functional classification of fetal bovine serum

Quality and price of fetal bovine serum (FBS) are traditionally determined by geographical origin and parameters listed in the Certificate of Analysis (CoA). Despite its central role in cell culture, selecting suitable FBS batches remains costly and labor-intensive due to substan...

Multiomics profiling identifies molecular and cellular signatures of regular exercise in human peripheral blood

Regular exercise is well established to protect against metabolic disorders and bolster immunity, but the underlying molecular and cellular mechanisms remain incompletely understood. We integrated plasma metabolomics and lipidomics with single-cell transcriptomic and chromatin ac...

Potential of plasma metagenomic next-generation sequencing to guide antibiotic therapy in acute necrotizing pancreatitis with early fever: a prospective multicenter cohort study

Indiscriminate antibiotic use remains common in febrile patients with acute necrotizing pancreatitis (ANP), particularly during the early phase. Metagenomic next‑generation sequencing (mNGS) has shown diagnostic utility for infected pancreatic necrosis (IPN) and may offer a means...

ExMODE: A comprehensive resource for extremophile genomic and functional exploration

ExMODE (https://db.genomics.cn/exmode/) integrates 3518 samples to build a unified extremophile resource, which hosts 1.35 billion habitat-specific non-redundant genes, 5.25 million representative protein structures, 67,026 metagenome-assembled genomes (MAGs), and 164,132 biosynt...

Genomic predisposition is associated with the direction of sex chromosome evolution

Sex chromosome evolution is among the most dynamic genomic innovations in vertebrates, yet why some lineages evolve XY while others evolve ZW remains unclear. Using chromosome-level genomes from 19 geckos, we found that gecko sex chromosomes originated independently from 16 ances...

Complete genome-derived metabolic interactions reveal the impact of gut ecology on human health

Abstract Metabolic interactions govern gut microbiome assembly, yet functional rules remain obscured by genomic incompleteness and fragmentation. Here, we leverage 1,150 complete genomes to construct genome-scale metabolic models, demonstrating that draft genomes introduce system...

The comprehensive detection of hemoglobinopathy variants via long-read sequencing

ABSTRACT BACKGROUND The genetic complexity of hemoglobin genes, characterized by high GC content and homologous sequences, poses significant challenges for detecting hemoglobin variants in clinical settings. METHODS A long-read indexed PCR method utilizing the novel CycloneSEQ na...

Comparative Genomics Reveals Diversification and Chromosomal Organization of Putative Antimicrobial Peptide-Derived Sequences in Amphibious Mudskippers

Antimicrobial peptides (AMPs) and AMP-like fragments are important components of vertebrate innate immunity, but their genome-wide diversification in amphibious fishes remains unclear. Here, we performed integrated bioinformatics and comparative genomic analyses of three represen...