Whole-Genome Sequencing Reveals Autopolyploidy and Evolutionary Trajectory of Chinese Sturgeon Background Chinese sturgeon (Acipenser sinensis), as a member of the sturgeon subclass, is an ancient fish group. Due to its unique genome structure and economic value, the conservation and research of Chinese sturgeon are of great significance. Sturgeons...

Benchmarking Gene Set Scoring Tools for Single-Cell ATAC-seq Data Authors: Xi Wang, Qiwei Lian, Haoyu Dong, Shuo Xu, Yaru Su, Xiaohui Wu Affiliations: Pasteurien College (Soochow University Medical College), Department of Automation, Xiamen University, School of Mathematics and Computer Science, Fuzhou University Corresponding Author: xhwu@suda.edu...

Molecular Evolution of Monkeypox Virus Protein Sequences and Codon Usage Research Background The 2022 Monkeypox virus (MPXV) outbreak has caused significant global public health concern. However, the evolutionary mechanisms of MPXV remain not fully understood. MPXV is a linear double-stranded DNA virus belonging to the family Poxviridae, subfamily ...

Multi-omics Data Reveals the Impact of Sodium Butyrate on Gene Expression and Protein Modification in Streptomyces Academic Background Streptomyces has attracted widespread attention due to its rich gene clusters and potential for producing a large number of natural products. Histone deacetylase (HDAC) inhibitors play an important role in histone m...

Grepore-seq: A Robust Workflow for Detecting Gene Editing Changes through Long-Range PCR and Nanopore Sequencing Research Background The CRISPR/Cas9 system, as an RNA-guided DNA endonuclease system, has been widely applied in genome editing. As its potential in clinical treatment continues to increase, comprehensive evaluation of gene editing resul...

Comparison of SaCas9 and SpCas9 in High-Fidelity and Different Gene Editing Outcomes Research Background CRISPR systems based on Cas9 protein have become powerful tools for genome editing, widely used in basic research and clinical gene therapy. Currently, the most commonly used Cas9 variants are SpCas9 from Streptococcus pyogenes and SaCas9 from S...

High sensitivity of high-throughput metagenomic sequencing in colon tissue biopsies: Eliminating the impact of host DNA Background Evaluating bacterial taxonomic structure through next-generation sequencing without culturing has become a common method for studying the relationship between bacterial imbalance and various diseases. Previous studies h...

Decoding Human Biology and Disease with Single-Cell Omics Technologies Background Introduction Cells are the fundamental units of life. A single fertilized egg can develop into an entire complex human body, composed of approximately 37 trillion cells organized into various tissues, organs, and systems. Traditional cell classification methods primar...

Time-Dependent Multi-Omics Integration in Sepsis-Associated Liver Dysfunction Introduction Sepsis, especially severe cases, causes multiple organ dysfunction due to systemic infection, resulting in up to 5 million deaths globally each year. Traditionally, Sepsis-Associated Liver Dysfunction (SALD) was considered a condition accompanied by jaundice ...

Application of Homologous Recombination Deficiency (HRD) in Tumor Patient Assessment and Treatment Planning Background Homologous Recombination (HR) is an important mechanism for repairing DNA Double-Strand Breaks (DSBs). However, when key genes in the HR repair pathway are mutated or epigenetically inactivated, cells are unable to effectively repa...