Ingenuity Variant Analysis statistics

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Citations per year

Number of citations per year for the bioinformatics software tool Ingenuity Variant Analysis
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Tool usage distribution map

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Protocols

Ingenuity Variant Analysis specifications

Information


Unique identifier OMICS_05452
Name Ingenuity Variant Analysis
Interface Web user interface
Restrictions to use License purchase required
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Ingenuity Variant Analysis Team

Additional information


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Ingenuity Variant Analysis citations

 (70)
library_books

Copy number variants implicate cardiac function and development pathways in earthquake induced stress cardiomyopathy

2018
Sci Rep
PMCID: 5954162
PMID: 29765130
DOI: 10.1038/s41598-018-25827-5

[…] ded in Supplementary Table .Joint variant calling was performed with GATK’s HaplotypeCaller. This included de novo assembly at each potential variant locus. Variants were annotated and analysed using Ingenuity Variant Analysis (IVA) software (QIAGEN, Redwood City, CA, USA), MutationTaster2, SnpEff, SeattleSeq annotation server, and Galaxy (via usegalaxy.org). Allele frequencies and additional anno […]

call_split

Unexpected cancer predisposition gene variants in Cowden syndrome and Bannayan Riley Ruvalcaba syndrome patients without underlying germline PTEN mutations

2018
PLoS Genet
PMCID: 5933810
PMID: 29684080
DOI: 10.1371/journal.pgen.1007352
call_split See protocol

[…] Genome Analysis Toolkit (GATK, ) []. We implemented the eXome Hidden Markov Model (XHMM) algorithm to call copy number variations (CNVs) from WES (, ).WES variants were annotated and classified using Ingenuity Variant Analysis (IVA, Qiagen, Redwood City, California), which classifies variants according to ACMG guidelines [, ] (). We prioritized variants with a minor allele frequency (MAF) ≤0.01 (1 […]

library_books

Importance of Comprehensive Molecular Profiling for Clinical Outcome in Children With Recurrent Cancer

2018
PMCID: 5920151
PMID: 29732366
DOI: 10.3389/fped.2018.00114

[…] tXT Clinical Research Exome kit. Paired-end sequencing was performed on Illumina instruments, with an average coverage of 50–100×. Data were processed using Qiagen's Biomedical Genomics Workbench and Ingenuity Variant Analysis. RNA sequencing was performed using Illumina's TruSeq Stranded Total RNA Library Prep Kit and paired-end sequencing was performed to gain an average output of 50–100 M reads […]

library_books

Clinically actionable mutation profiles in patients with cancer identified by whole genome sequencing

2018
PMCID: 5880257
PMID: 29610388
DOI: 10.1101/mcs.a002279

[…] Calls were annotated using VariantStudio v2 (Illumina), a software using variant effect predictor (VEP) v2.8, COSMIC v77 and 1000 Genomes (v3). In a second approach, data were analyzed using QIAGEN's Ingenuity Variant Analysis software (QIAGEN Redwood City).For copy-number and zygosity detection and analyses, Log2R values were generated from paired and unpaired tumor and germline data and these, t […]

call_split

Pediatric Dilated Cardiomyopathy‐Associated LRRC10 (Leucine‐Rich Repeat–Containing 10) Variant Reveals LRRC10 as an Auxiliary Subunit of Cardiac L‐Type Ca2+ Channels

2018
PMCID: 5850229
PMID: 29431102
DOI: 10.1161/JAHA.117.006428
call_split See protocol

[…] across all 4 samples simultaneously using the Genome Analysis Toolkit's UnifiedGenotyper with variant quality score recalibration. The resultant variant call format files were analyzed with Qiagen's Ingenuity Variant Analysis software using an iterative filtering process. To determine rarity of variants, minor allele frequencies from 3 publicly available databases were utilized: 1000 Genomes (who […]

call_split

Experience with genomic sequencing in pediatric patients with congenital cardiac defects in a large community hospital

2018
PMCID: 5902396
PMID: 29368431
DOI: 10.1002/mgg3.357
call_split See protocol

[…] ividuals and WGS was performed as described (Khromykh et al., ). Filtering for candidate pathogenic variants was conducted with an internally developed analysis pipeline and two commercial pipelines, Ingenuity Variant Analysis (QIAGEN Inc., Valencia, CA, USA), and Personalis Research Analysis Service (Personalis, Inc., Menlo Park, CA, USA), both applied by the vendors. For the internal pipeline, s […]


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