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References from Characterization of the brain virome in human immunodeficiency virus infection and substance use disorder. Local targets link to admitted publications; unresolved targets remain external evidence.
The microbiome and HIV persistence: implications for viral remission and cure
10.1097/coh.0000000000000434 · 2018 · External reference
The challenge of HIV-1 subtype diversity
10.1056/nejmc086373 · 2008 · External reference
AIDS alters the commensal plasma virome
10.1128/jvi.01839-13 · 2013 · External reference
SIV Infection-Mediated Changes in Gastrointestinal Bacterial Microbiome and Virome Are Associated with Immunodeficiency and Prevented by Vaccination
10.1016/j.chom.2016.02.010 · 2016 · External reference
ViroFind: A novel target-enrichment deep-sequencing platform reveals a complex JC virus population in the brain of PML patients
10.1371/journal.pone.0186945 · 2018 · External reference
Fulminant Myocarditis with Combination Immune Checkpoint Blockade
10.1056/nejmoa1609214 · 2016 · External reference
The National NeuroAIDS Tissue Consortium: a new paradigm in brain banking with an emphasis on infectious disease
10.1046/j.0305-1846.2001.00334.x · 2001 · External reference
Finding Pathogenic Nucleic Acid Sequences in Next Generation Sequencing Data.
2015 · External reference
Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads
10.1186/1471-2105-15-182 · 2014 · External reference
Quality control and preprocessing of metagenomic datasets
10.1093/bioinformatics/btr026 · 2011 · External reference
Fast and accurate long-read alignment with Burrows-Wheeler transform
10.1093/bioinformatics/btp698 · 2010 · External reference
BEDOPS: high-performance genomic feature operations
10.1093/bioinformatics/bts277 · 2012 · External reference
Unresolved reference
External reference
SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing
10.1089/cmb.2012.0021 · 2012 · External reference
The Sequence Alignment/Map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
Complex heatmaps reveal patterns and correlations in multidimensional genomic data
10.1093/bioinformatics/btw313 · 2016 · External reference
Distinct Gut Virome Profile of Pregnant Women With Type 1 Diabetes in the ENDIA Study.
10.1093/ofid/ofz025 · 2019 · External reference
iheatmapr: interactive complex heatmaps
10.21105/joss.00359 · 2017 · External reference
Contamination of poliovirus vaccines with simian virus 40 (1955-1963) and subsequent cancer rates.
10.1001/jama.279.4.292 · 1998 · External reference
selection introduces bias and undue noise in direct RNA-sequencing
10.1186/s12864-022-08762-8 · 2022 · External reference
Adenovirus as a rare cause of acute necrotising encephalitis
2019 · External reference
Epstein-Barr Virus and Neurological Diseases.
10.3389/fmolb.2021.816098 · 2021 · External reference
Clinical Relevance of Torque Teno Virus (TTV) in HIV/HCV Coinfected and HCV Monoinfected Patients Treated with Direct-Acting Antiviral Therapy.
10.3390/jcm10102092 · 2021 · External reference
Substance abuse, HIV-1 and hepatitis.
10.2174/157016212803306023 · 2012 · External reference
Hepatitis C virus and neurological damage
10.4254/wjh.v8.i12.545 · 2016 · External reference
Neurological and psychiatric effects of hepatitis C virus infection
10.3748/wjg.v27.i29.4846 · 2021 · External reference
Hepatitis C virus neuroinvasion: identification of infected cells
10.1128/jvi.01890-08 · 2009 · External reference
Extrahepatic manifestations of acute hepatitis B virus infection.
2013 · External reference
Japanese Encephalitis Virus Exploits Dopamine D2 Receptor-phospholipase C to Target Dopaminergic Human Neuronal Cells.
10.3389/fmicb.2017.00651 · 2017 · External reference
Neurotrophic factor expression after CNS viral injury produces enhanced sensitivity to psychostimulants: potential mechanism for addiction vulnerability
10.1523/jneurosci.20-21-j0002.2000 · 2000 · External reference
HIV, Tat and dopamine transmission
10.1016/j.nbd.2017.04.015 · 2017 · External reference
HIV-1 TAT protein enhances sensitization to methamphetamine by affecting dopaminergic function
10.1016/j.bbi.2017.05.004 · 2017 · External reference
Molecular Mechanism: ERK Signaling, Drug Addiction, and Behavioral Effects
10.1016/bs.pmbts.2015.10.017 · 2016 · External reference
T-cell receptor signaling enhances transcriptional elongation from latent HIV proviruses by activating P-TEFb through an ERK-dependent pathway
10.1016/j.jmb.2011.03.054 · 2011 · External reference
Viral exploitation of the MEK/ERK pathway - A tale of vaccinia virus and other viruses
10.1016/j.virol.2016.12.011 · 2017 · External reference
Borna disease virus persistent infection activates mitogen-activated protein kinase and blocks neuronal differentiation of PC12 cells
10.1074/jbc.m005107200 · 2001 · External reference
Phospholipase Cgamma in distinct regions of the ventral tegmental area differentially modulates mood-related behaviors
10.1523/jneurosci.23-20-07569.2003 · 2003 · External reference
Human Endogenous Retrovirus-K HML-2 integration within RASGRF2 is associated with intravenous drug abuse and modulates transcription in a cell-line model
10.1073/pnas.1811940115 · 2018 · External reference
Unmasking the tissue-resident eukaryotic DNA virome in humans
10.1093/nar/gkad199 · 2023 · External reference
Unresolved reference
2017 · External reference
Handling of targeted amplicon sequencing data focusing on index hopping and demultiplexing using a nested metabarcoding approach in ecology
10.1038/s41598-021-98018-4 · 2021 · External reference
Model-based analysis of sample index hopping reveals its widespread artifacts in multiplexed single-cell RNA-sequencing.
10.1038/s41467-020-16522-z · 2020 · External reference
Contamination Issue in Viral Metagenomics: Problems, Solutions, and Clinical Perspectives.
10.3389/fmicb.2021.745076 · 2021 · External reference