Cargando…

ViralPlaque: a Fiji macro for automated assessment of viral plaque statistics

Plaque assay has been used for a long time to determine infectious titers and characterize prokaryotic and eukaryotic viruses forming plaques. Indeed, plaque morphology and dimensions can provide information regarding the replication kinetics and the virulence of a particular virus. In this work, we...

Descripción completa

Detalles Bibliográficos
Autores principales:	Cacciabue, Marco, Currá, Anabella, Gismondi, Maria I.
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	PeerJ Inc. 2019
Materias:	Bioinformatics
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6764358/ https://www.ncbi.nlm.nih.gov/pubmed/31579606 http://dx.doi.org/10.7717/peerj.7729

Ejemplares similares

Machine-learning-based automated quantification machine for virus plaque assay counting
por: Phanomchoeng, Gridsada, et al.
Publicado: (2022)

Antiviral efficacy of short-hairpin RNAs and artificial microRNAs targeting foot-and-mouth disease virus
por: Currá, Anabella, et al.
Publicado: (2021)

virMine: automated detection of viral sequences from complex metagenomic samples
por: Garretto, Andrea, et al.
Publicado: (2019)

Long-read viral metagenomics captures abundant and microdiverse viral populations and their niche-defining genomic islands
por: Warwick-Dugdale, Joanna, et al.
Publicado: (2019)

VGEA: an RNA viral assembly toolkit
por: Oluniyi, Paul E., et al.
Publicado: (2021)

A FIJI macro for quantifying pattern in extracellular matrix
por: Wershof, Esther, et al.
Publicado: (2021)

VirSorter: mining viral signal from microbial genomic data
por: Roux, Simon, et al.
Publicado: (2015)

Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study
por: Arizmendi Cárdenas, Yami Ommar, et al.
Publicado: (2022)

Discovering potential interactions between rare diseases and COVID-19 by combining mechanistic models of viral infection with statistical modeling
por: López-Sánchez, Macarena, et al.
Publicado: (2022)

DI-tector: defective interfering viral genomes’ detector for next-generation sequencing data
por: Beauclair, Guillaume, et al.
Publicado: (2018)

Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity
por: Roux, Simon, et al.
Publicado: (2017)

New low-viscosity overlay medium for viral plaque assays
por: Matrosovich, Mikhail, et al.
Publicado: (2006)

Sequencing viral genomes from a single isolated plaque
por: DePew, Jessica, et al.
Publicado: (2013)

First insight into the viral community of the cnidarian model metaorganism Aiptasia using RNA-Seq data
por: Brüwer, Jan D., et al.
Publicado: (2018)

Anti-COVID-19 multi-epitope vaccine designs employing global viral genome sequences
por: Zaheer, Tahreem, et al.
Publicado: (2020)

sgDI-tector: defective interfering viral genome bioinformatics for detection of coronavirus subgenomic RNAs
por: Di Gioacchino, Andrea, et al.
Publicado: (2022)

Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation
por: Pratama, Akbar Adjie, et al.
Publicado: (2021)

Plaques Formed by Mutagenized Viral Populations Have Elevated Coinfection Frequencies
por: Aguilera, Elizabeth R., et al.
Publicado: (2017)

Brain transcriptomes of harbor seals demonstrate gene expression patterns of animals undergoing a metabolic disease and a viral infection
por: Rosales, Stephanie M., et al.
Publicado: (2016)

Automated analysis of small RNA datasets with RAPID
por: Karunanithi, Sivarajan, et al.
Publicado: (2019)

EGAsubmitter: A software to automate submission of nucleic acid sequencing data to the European Genome-phenome Archive
por: Viviani, Marco, et al.
Publicado: (2023)

Automated classification of RNA 3D motifs and the RNA 3D Motif Atlas
por: Petrov, Anton I., et al.
Publicado: (2013)

FIJI Macro 3D ART VeSElecT: 3D Automated Reconstruction Tool for Vesicle Structures of Electron Tomograms
por: Kaltdorf, Kristin Verena, et al.
Publicado: (2017)

jicbioimage: a tool for automated and reproducible bioimage analysis
por: Olsson, Tjelvar S. G., et al.
Publicado: (2016)

Non-plaque-forming virions of Modified Vaccinia virus Ankara express viral genes
por: Lülf, Anna-Theresa, et al.
Publicado: (2016)

The basic reproductive number and particle-to-plaque ratio: comparison of these two parameters of viral infectivity
por: McCormick, Winston, et al.
Publicado: (2021)

Nonsurgical Management of Severe Viral Keratitis with Hypopyon and Retrocorneal Plaques: A Case Series
por: Yang, Zhen, et al.
Publicado: (2022)

Understanding biochemistry: basic aspects of statistics for life sciences
por: Reid, Donald
Publicado: (2023)

PCAtest: testing the statistical significance of Principal Component Analysis in R
por: Camargo, Arley
Publicado: (2022)

GroopM: an automated tool for the recovery of population genomes from related metagenomes
por: Imelfort, Michael, et al.
Publicado: (2014)

The Bacteria Genome Pipeline (BAGEP): an automated, scalable workflow for bacteria genomes with Snakemake
por: Olawoye, Idowu B., et al.
Publicado: (2020)

HiLDA: a statistical approach to investigate differences in mutational signatures
por: Yang, Zhi, et al.
Publicado: (2019)

RNAStat: An Integrated Tool for Statistical Analysis of RNA 3D Structures
por: Guo, Zhi-Hao, et al.
Publicado: (2022)

Automated detection and removal of flat line segments and large amplitude fluctuations in neonatal electroencephalography
por: Tamburro, Gabriella, et al.
Publicado: (2022)

Pigmented viral plaque and basal cell tumor associated with canine papillomavirus infection in Pug dogs
por: YU, Miao, et al.
Publicado: (2019)

ViaFuse: Fiji macros to calculate skeletal muscle cell viability and fusion index
por: Hinkle, Emma Rose, et al.
Publicado: (2021)

Selfie Dental Plaque Index: A New Tool for Dental Plaque Assessment
por: Azevedo, Camila-Lindoni, et al.
Publicado: (2022)

RFfiller: a robust and fast statistical algorithm for gap filling in draft genomes
por: Midekso, Firaol Dida, et al.
Publicado: (2022)

Effects of tofacitinib on lymphocyte sub-populations, CMV and EBV viral load in patients with plaque psoriasis
por: Valenzuela, Fernando, et al.
Publicado: (2015)

Relating plaque morphology to respiratory syncytial virus subgroup, viral load, and disease severity in children
por: Kim, Young-In, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_5dsklbamic8pjnqmhfb8snl6a9