Comprehensive Transcriptome Annotation of Thousands of HIV-1 Genomes.

ABSTRACT: Alternative splicing in HIV-1 has been a central focus of decades of research, uncovering key mechanisms of viral gene regulation, immune evasion, and therapeutic response - yet, no reference resource has existed to support transcriptome-wide analysis, limiting adoption of modern computational methods. We present HIV Atlas (https://ccb.jhu.edu/HIV_Atlas), the first reference-quality annotation of HIV-1 and SIV transcriptional diversity. We manually curated transcriptomes for HIV-1_HXB2 and SIV_mac239 and developed Vira, an automated annotation-transfer method specifically designed to address unique challenges of viral genome biology, to generate high-quality annotations for 2,077 complete HIV-1 genomes. Using the resources presented in our work, we evaluated conservatio

SUBMITTER: Varabyou A 

PROVIDER: S-EPMC12485963 | biostudies-literature | 2025 Sep

REPOSITORIES: biostudies-literature