VirusSeq statistics

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Associated diseases

Associated diseases

VirusSeq specifications


Unique identifier OMICS_00227
Name VirusSeq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes


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Publication for VirusSeq

VirusSeq in publications

PMCID: 5924777
PMID: 29740407
DOI: 10.3389/fmicb.2018.00749

[…] rins, slim, surpi, taxy-pro, “unknown pathogens from mixed clinical samples,” vip and viromescan), or even days (5 workflows: exhaustive iterative assembly, viralfusionseq, virfind, virusfinder and virusseq)., for 17 workflows for which these data were available, we looked for correlations by plotting performance scores against the analysis steps included (figure ). workflows that included […]

PMCID: 5818640
PMID: 29497257
DOI: 10.6026/97320630014031

[…] two hours [, ]. the rins is an intersection-based pathogen detection workflow that utilizes a user-reference genome set for the identification of non-human sequences in deep sequencing datasets. virusseq is an algorithmic method that is also used for detecting known viruses and their integration sites in the human genome using ngs data. virusseq was developed using perl platform […]

PMCID: 5719570
PMID: 29212479
DOI: 10.1186/s12916-017-0973-7

[…] virus-induced host genome instability and viral genome variability [, ]. it has been shown that virusfinder performs better than other state-of-the-art virus integration detection pipelines such as virusseq [] and virusfusionseq [] in terms of both accuracy and time efficiency []. our virus integration detection pipeline was based on virusfinder, with several modifications. firstly, […]

PMCID: 5689691
PMID: 29156801
DOI: 10.18632/oncotarget.21174

[…] we described previously [, ]. we stained the rppa slides with 305 unique antibodies (), which were analyzed as we previously described []., for hpv detection and integration analysis, we applied the virusseq pipeline previously developed in the department of bioinformatics and computational biology at the university of texas md anderson cancer center []. the hpv detection analysis began […]

PMCID: 5590820
PMID: 28886030
DOI: 10.1371/journal.pone.0183606

[…] included in the study (table a in ). choice of adjacent control tissue from same patient was intentional to minimize inter-individual differences in tobacco exposure and the affected tissue site., virusseq algorithm[], which uses subtraction method to detect viruses and integration sites, was applied to identify patients with or without infection of any virus such as hbv, hcv, hiv including […]

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VirusSeq institution(s)
Department of Genitourinary Medical Oncology, The University of Texas MD Anderson Cancer Center, Houston, TX, USA

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