Hao Hong

HAdV55 reprograms host 3D genome architecture and mitochondrial metabolism to drive pathogenesis

Kaiying Wang, Jinhui Li, Zixuan Chen, Ning Wang et autres

Human adenovirus type 55 (HAdV55), an emerging recombinant pathogen linked to severe respiratory outbreaks, exhibits heightened virulence and replication efficiency, yet its mechanisms of host interaction remain poorly resolved. Here, we integrate transcriptomic and 3D genomic analyses to define the spatiotemporal interplay …

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GPAS: an online AI system for rapid and accurate pathogen identification and LLM-based interpretation

Tingting Li, Hao Hong, Duchangjiang Fan, Ting Li et autres

Abstract Accurate identification of unknown pathogens is critical for medicine and public health, yet current metagenomic workflows remain heavily dependent on specialized bioinformatics expertise and manual interpretation, creating substantial bottlenecks in time-sensitive diagnostic settings 1 . The key challenges lie in achieving …

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MAGdb: a comprehensive high quality MAGs repository for exploring microbial metagenome-assemble genomes

Ye Guo, Hao Hong, Ting Li, Jin Li et autres

Metagenomic analyses of microbial communities have unveiled a substantial level of interspecies and intraspecies genetic diversity by reconstructing metagenome-assembled genomes (MAGs). The MAG database (MAGdb) boasts an impressive collection of 74 representative research papers, spanning clinical, environmental, and animal categories and comprising …

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De novo genome assembly depicts the immune genomic characteristics of cattle

Tingting Li, Tian Xia, Jiaqi Wu, Hao Hong et autres

Immunogenomic loci remain poorly understood because of their genetic complexity and size. Here, we report the de novo assembly of a cattle genome and provide a detailed annotation of the immunogenomic loci. The assembled genome contains 143 contigs (N50 ~ 74.0 Mb). …

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The immunogenomic landscape of cattle

Tingting Li, Tian Xia, Jiaqi Wu, Hao Hong et autres

ABSTRACT Here, we report the de novo assembly of a cattle genome using ultra-long-read nanopore sequencing in conjunction with other advanced technologies. The assembled genome contains only 145 contigs (N50 ∼ 74.0 Mb). Compare to the current reference cattle genome ARS-UCD1.2, 154 …

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Inferring transcription factor regulatory networks from single-cell ATAC-seq data based on graph neural networks

Hao Li, Yu Sun, Hao Hong, Xin Huang et autres

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