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Performance Visualization specifications

Information


Unique identifier OMICS_23404
Name Performance Visualization
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Publication for Performance Visualization

Performance Visualization citations

 (10)
library_books

Molecular cloning of novel transcripts of human kallikrein related peptidases 5, 6, 7, 8 and 9 (KLK5 – KLK9), using Next generation sequencing

2017
Sci Rep
PMCID: 5725587
PMID: 29229980
DOI: 10.1038/s41598-017-16269-6

[…] GV was used for interactive visual exploration of the results contained in the BAM and BED files, uncovering alternative splicing events in read alignments (see Supplementary Fig. ). IGV enables high performance visualization and thorough examination of regions in the reference genome where the sequencing reads are mapped, and at the same time provides the read coverage of every genomic region. […]

library_books

High throughput m6A seq reveals RNA m6A methylation patterns in the chloroplast and mitochondria transcriptomes of Arabidopsis thaliana

2017
PLoS One
PMCID: 5683568
PMID: 29131848
DOI: 10.1371/journal.pone.0185612

[…] nts with a parameter of “-p”[].The distributing patterns of the mapped m6A-seq data were visualized using free software, Integrative Genomics Viewer (IGV2.3, Boston, MA, USA) []. IGV is used for high-performance visualization of interactive exploration of large, integrated genomic datasets []. The tool is able to present extent of m6A methylation, sequencing depth, sequencing fragment alignment, a […]

library_books

Identification of Substitutions and Small Insertion Deletions Induced by Carbon Ion Beam Irradiation in Arabidopsis thaliana

2017
Front Plant Sci
PMCID: 5665000
PMID: 29163581
DOI: 10.3389/fpls.2017.01851

[…] shed reference genome. This step was an essential premise for detecting the mutations caused by CIB irradiation. To reduce false positives, we verified the detected mutations by using the IGV, a high-performance visualization tool for the interactive exploration of large, integrated genomic datasets.Heavy-ion beam irradiation is thought to generate mutations in the form of substitutions, small IND […]

library_books

Locus specific ChIP combined with NGS analysis reveals genomic regulatory regions that physically interact with the Pax5 promoter in a chicken B cell line

2017
PMCID: 5737561
PMID: 28586432
DOI: 10.1093/dnares/dsx023

[…] vitro enChIP-Seq) () and PCR (). Next, we examined whether the 33 peaks identified by iChIP-Seq (Step 3 in ) were also observed by in vitro enChIP-Seq (). Based on visual confirmation in IGV, a high-performance visualization tool, approximately half of the peaks (14 peaks) were also observed by in vitro enChIP-Seq in the presence of Pax5 gRNA but not in the absence of gRNA ( and ); representative […]

library_books

Fast assembling of neuron fragments in serial 3D sections

2017
Brain Inform
PMCID: 5563299
PMID: 28365869
DOI: 10.1007/s40708-017-0063-9

[…] ent algorithms for 3D and high-dimensional image analysis and data mining, building single-neuron whole-brain level 3D digital atlases for model animals, and Vaa3D (http://vaa3d.org), which is a high-performance visualization-assisted analysis system for large 3D/multi-dimensional biological and biomedical image datasets. He built the first neuron stereotypy map of a fruit fly brain, co-developed […]

library_books

Whole exome sequencing identifies SGCD and ACVRL1 mutations associated with total anomalous pulmonary venous return (TAPVR) in Chinese population

2017
Oncotarget
PMCID: 5438610
PMID: 28412737
DOI: 10.18632/oncotarget.15434

[…] d using SnpEff, SnpSift (http://snpeff.sourceforge.net) and ANNOVAR(http://annovar.openbioinformatics.org/en/latest/). The Integrative Genomics Viewer (IGV)(http://www.broadinstitute.org/igv), a high-performance visualization tool, was used to check the variations manually according to genomic position []. […]

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Performance Visualization institution(s)
Department of Computer Science, University of California, CA, Davis; Lawrence Livermore National Laboratory, Livermore, CA, USA
Performance Visualization funding source(s)
Supported in part by the University of California Laboratory Fees Research Grant Program and the Department of Energy Office of Science Graduate Fellowship Program (DOE SCGF) administered by ORISE-ORAU under contract no. DE-AC05-06OR23100; the U.S. Department of Energy by Lawrence Livermore National Laboratory under Contract DE-AC52-07NA27344. LLNL-CONF-652873.

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