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...
Cancer is a major global public health concern, with its complex pathological processes and diverse manifestations being a focus of research. Many studies have shown that acid-base imbalance plays a crucial role in the occurrence and development of cancer, but the underlying mechanisms are not fully understood. In this study titled “Acid–base homeo...
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...
Comprehensive Characterization and Transcriptome Analysis of Terminal Erythropoiesis in Human Fetal Liver Background and Research Question Erythropoiesis is the process of red blood cell production. Initially, “primitive” erythropoiesis occurs in the yolk sac, gradually replaced by “terminal” erythropoiesis in the fetal liver (FL) and postnatal bon...
A Study on Protein Lactylation and Metabolic Regulation Reveals New Areas of Toxoplasma gondii Biology Background: Toxoplasma gondii is a globally distributed protozoan parasite that infects over 30% of the world’s population. It causes toxoplasmosis, a widespread zoonotic disease. The parasite has a complex life cycle, including sexual and asexual...
Sequence-based Functional Metagenomics Reveals New Natural Diversity of Functional COPA Genes in Environmental Microbiomes The natural diversity of functional genes/proteins in environmental microbiomes is an essential component of evolutionary and bioengineering research. To gain a deeper understanding of the diversity of the copper (Cu) resistanc...