Evidence map›Paper›PMID 29582356›Full record

ArticleJournal of neurovirology2018

No reliable gene expression biomarkers of current or impending neurocognitive impairment in peripheral blood monocytes of persons living with HIV.

Austin Quach, Steve Horvath, Natasha Nemanim, Dimitrios Vatakis, Mallory D Witt, Eric N Miller, Roger Detels, Peter Langfelder, Paul Shapshak, Elyse J Singer and 1 more

Open access · greenAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Journal of neurovirology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.

0numbers the graph read from it
0cells of the map it votes in
6citing papers in PubMed
0.7field-weighted citation impact, top 35% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

6 citing papers in PubMed, 7 citations in OpenAlex.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

11 authors at 3 institutions in 1 country.

Austin QuachDepartment of Human Genetics, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Steve HorvathDepartment of Human Genetics, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Natasha NemanimDepartment of Neurology, National Neurological AIDS Bank, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Dimitrios VatakisDepartment of Medicine, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Mallory D WittDavid Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Eric N MillerDepartment of Psychiatry and Biobehavioral Science, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Roger DetelsDavid Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Peter LangfelderDepartment of Human Genetics, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Paul ShapshakDepartment of Medicine (Division of Infectious Disease and International Medicine), Morsani College of Medicine, University of South Florida, Tampa, FL, 33620, USA.
Elyse J SingerDepartment of Neurology, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA.
Andrew J LevineDepartment of Neurology, David Geffen School of Medicine at the University of California, Los Angeles, CA, 90095, USA. ajlevine@mednet.ucla.edu.
University of California, Los Angeles · USUCLA Medical Center · USUniversity of South Florida · US

Funding

UCLA Clinical Translational Science InstituteUL1TR001881 · NCATS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI ARLEEN F. BROWN, ARASH NAEIM · 2016 to 2026
$118.1M
NATURAL HISTORY OF AIDS IN HOMOSEXUAL MENU01AI035040 · NIAID · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI DETELS, ROGER, MARTINEZ-MAZA, OTONIEL · 1993 to 2018
$75.2M
UCLA Clinical and Translational Science InstituteUL1TR000124 · NCATS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI DUBINETT, STEVEN M. · 2012 to 2015
$57.0M
NATIONAL NEUROLOGICAL AIDS BANKU24MH100929 · NIMH · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI SINGER, ELYSE J · 2013 to 2023
$12.5M
Pathways to HIV-Associated Neurocognitive Disorders: A Systems Biology ApproachR01DA030913 · NIDA · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI HORVATH, STEVE, LEVINE, ANDREW J · 2010 to 2014
$1.5M
Cross-tissue study of an accelerated epigenetic aging mechanism caused by HIVR21AG046954 · NIA · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI HORVATH, STEVE, LEVINE, ANDREW J · 2015 to 2016
$424k
NCATS NIH HHS UL1 TR000124NCATS NIH HHS UL1TR000124NCATS NIH HHS UL1 TR001881NCATS NIH HHS UL1TR001881NIAID NIH HHS U01 AI035040NIAID NIH HHS U01-AI-35040NIA NIH HHS R21 AG046954NIDA NIH HHS R01 DA030913NIDA NIH HHS R01DA030913NIMH NIH HHS U24 MH100929
6 · The paper itself

Abstract

Events leading to and propagating neurocognitive impairment (NCI) in HIV-1-infected (HIV+) persons are largely mediated by peripheral blood monocytes. We previously identified expression levels of individual genes and gene networks in peripheral blood monocytes that correlated with neurocognitive functioning in HIV+ adults. Here, we expand upon those findings by examining if gene expression data at baseline is predictive of change in neurocognitive functioning 2 years later. We also attempt to validate the original findings in a new sample of HIV+ patients and determine if the findings are HIV specific by including HIV-uninfected (HIV-) participants as a comparison group. At two time points, messenger RNA (mRNA) was isolated from the monocytes of 123 HIV+ and 60 HIV- adults enrolled in the Multicenter AIDS Cohort Study and analyzed with the Illumina HT-12 v4 Expression BeadChip. All participants received baseline and follow-up neurocognitive testing 2 years after mRNA analysis. Data were analyzed using standard gene expression analysis and weighted gene co-expression network analysis with correction for multiple testing. Gene sets were analyzed for GO term enrichment. Only weak reproducibility of associations of single genes with neurocognitive functioning was observed, indicating that such measures are unreliable as biomarkers for HIV-related NCI; however, gene networks were generally preserved between time points and largely reproducible, suggesting that these may be more reliable. Several gene networks associated with variables related to HIV infection were found (e.g., MHC I antigen processing, TNF signaling, interferon gamma signaling, and antiviral defense); however, no significant associations were found for neurocognitive function. Furthermore, neither individual gene probes nor gene networks predicted later neurocognitive change. This study did not validate our previous findings and does not support the use of monocyte gene expression profiles as a biomarker for current or future HIV-associated neurocognitive impairment.

Indexed as

Gene Regulatory NetworksTranscriptomeAdultBiomarkersCase-Control StudiesCognitive DysfunctionFemaleGene Expression RegulationGene OntologyHistocompatibility Antigens Class IHIV InfectionsHumansInterferon-gammaMaleMiddle AgedMolecular Sequence AnnotationBiomarkersHistocompatibility Antigens Class IInterferon-gammaTumor Necrosis FactorsBiomarkerGene expressionHIV-associated neurocognitive disordersMonocyteneuroHIVWGCNA

Identifiers

PMID29582356
PMCPMC6411303
OpenAlexW2796392866

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.