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Citations per year

Number of citations per year for the bioinformatics software tool MagicViewer
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Protocols

MagicViewer specifications

Information


Unique identifier OMICS_00887
Name MagicViewer
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Zhongsheng Sun

Publication for MagicViewer

MagicViewer citations

 (8)
library_books

A Retrospective Review of Microbiological Methods Applied in Studies Following the Deepwater Horizon Oil Spill

2018
Front Microbiol
PMCID: 5876298
PMID: 29628913
DOI: 10.3389/fmicb.2018.00520

[…] recent years, including Tablet (Milne et al., ), Integrative Genomics Viewer (IGV) (Robinson et al., ), Sequence Annotation, Visualization, and ANalysis Tool (Savant) Genome Browser (Fiume et al., ), MagicViewer (Hou et al., ), and Cytoscape (Kohl et al., ). In the microbiological studies on the DWH oil spill, these ST and databases were broadly used for analyzing DNA- and RNA-based data. Moreover […]

library_books

Sporadic Hirschsprung Disease: Mutational Spectrum and Novel Candidate Genes Revealed by Next generation Sequencing

2017
Sci Rep
PMCID: 5666020
PMID: 29093530
DOI: 10.1038/s41598-017-14835-6

[…] by VariantFiltration of GATK software. We annotated the identified SNPs and InDels using the exome-assistant program. Short read alignment and candidate SNP and InDel validation were performed using MagicViewer. We used the PolyPhen, SIFT, and MutationTaster algorithms to evaluate non-synonymous variants to determine pathogenicity. […]

call_split

Different Phenotypes of the Two Chinese Probands with the Same c.889G>A (p.C162Y) Mutation in COCH Gene Verify Different Mechanisms Underlying Autosomal Dominant Nonsyndromic Deafness 9

2017
PLoS One
PMCID: 5243127
PMID: 28099493
DOI: 10.1371/journal.pone.0170011
call_split See protocol

[…] identified using SOAPsnp and GATK programs. Subsequently, the reads were realigned to the reference genome using BWA. The identified SNPs and InDels were annotated using the Exome-assistant program. MagicViewer was used to view the short read alignments and validate the candidate SNPs and InDels. The variants detected by targeted next-generation sequencing were confirmed by Sanger sequencing. The […]

library_books

Identification of a missense mutation of COL3A1 in a Chinese family with atypical Ehlers Danlos syndrome using targeted next generation sequencing

2016
PMCID: 5364830
PMID: 28035354
DOI: 10.3892/mmr.2016.6082

[…] d insertions (InDels) were detected using Genome Analysis Toolkit software (). The identified SNPs and InDels were annotated using the Exome-assistant program (http://122.228.158.106/exomeassistant). MagicViewer was used to view the short read alignment, and confirm the candidate SNPs and InDels (). Non-synonymous variants were evaluated using the four algorithms, PolyPhen (http://genetics.bwh.har […]

library_books

A novel deleterious mutation in the COMP gene that causes pseudoachondroplasia

2016
Hum Genome Var
PMCID: 4899602
PMID: 27330822
DOI: 10.1038/hgv.2016.9

[…] els) using the genome analysis toolkit program. The identified single-nucleotide polymorphisms and InDels were annotated using the Exome-assistant program (http://122.228.158.106/exomeassistant). The MagicViewer software was used to view the short-read alignments and validate the candidate single-nucleotide polymorphisms and InDels. Finally, non-synonymous variants were evaluated using four algori […]

library_books

Efficient SNP Discovery by Combining Microarray and Lab on a Chip Data for Animal Breeding and Selection

2015
Microarrays
PMCID: 4996412
PMID: 27600241
DOI: 10.3390/microarrays4040570

[…] the sequencing data and to accurately identify the SNPs of interest, bioinformatics algorithms for searching SNPs have been developed, including Tablet [], Pyrobayes [], SOAP [], VarScan [], MAQ [], MagicViewer [], Atlas-SNP2 []. Hence, SNP discovery can also result from DNA resequencing analysis using novel deep-sequencing strategies. Although the sequence-dependent strategy is powerful, it reli […]


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MagicViewer institution(s)
Institute of Genomic Medicine, Wenzhou Medical College, Wenzhou, China; Center for Comparative Genomics and Bioinformatics, Department of Biochemistry and Molecular Biology, Pennsylvania State University, PA, USA; School of Pharmaceutical Science/Zhejiang Provincial Key Laboratory of Biotechnology Pharmaceutical Engineering, Wenzhou Medical College, Wenzhou; Behavioral Genetics Center, Institute of Psychology, Chinese Academy of Science, Beijing, China

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