原创力文档hivbrainseqdb a database of annotated hiv envelope sequences from brain and other anatomical siteshivbrainseqdb数据库的注释hiv信封序列从大脑和其他解剖网站.pdfVIP
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hivbrainseqdb a database of annotated hiv envelope sequences from brain and other anatomical siteshivbrainseqdb数据库的注释hiv信封序列从大脑和其他解剖网站
Holman et al. AIDS Research and Therapy 2010, 7:43
/content/7/1/43
RESEARCH Open Access
HIVBrainSeqDB: a database of annotated HIV
envelope sequences from brain and other
anatomical sites
1 1 2 1,3*
Alexander G Holman , Megan E Mefford , Niall O’Connor , Dana Gabuzda
Abstract
Background: The population of HIV replicating within a host consists of independently evolving and interacting
sub-populations that can be genetically distinct within anatomical compartments. HIV replicating within the brain
causes neurocognitive disorders in up to 20-30% of infected individuals and is a viral sanctuary site for the
development of drug resistance. The primary determinant of HIV neurotropism is macrophage tropism, which is
primarily determined by the viral envelope (env) gene. However, studies of genetic aspects of HIV replicating in the
brain are hindered because existing repositories of HIV sequences are not focused on neurotropic virus nor
annotated with neurocognitive and neuropathological status. To address this need, we constructed the HIV Brain
Sequence Database.
Results: The HIV Brain Sequence Database is a public database of HIV envelope sequences, directly sequenced
from brain and other tissues from the same patients. Sequences are annotated with clinical data including viral
load, CD4 count, antiretroviral status, neurocognitive impairment, and neuropathological diagnosis, all curated from
the original publication. Tissue source is coded using an anatomical ontology, the Foundational Model of Anatomy,
to capture the maximum level of detail available, while maintaining ontological relationships between tissues and
their subparts. 44 tissue types are represented within the database, grouped into 4 categories: (i) brain, bra
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