SOLiD BioScope Software statistics

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Citations per year

Number of citations per year for the bioinformatics software tool SOLiD BioScope Software
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SOLiD BioScope Software specifications

Information


Unique identifier OMICS_19505
Name SOLiD BioScope Software
Alternative name BioScope Software
Software type Pipeline/Workflow
Interface Graphical user interface
Restrictions to use License purchase required
Biological technology Life Technologies
Operating system Unix/Linux, Mac OS, Windows
Computer skills Medium
Stability Stable
Maintained No

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SOLiD BioScope Software citations

 (34)
library_books

B3GALNT2 mutations associated with non syndromic autosomal recessive intellectual disability reveal a lack of genotype–phenotype associations in the muscular dystrophy dystroglycanopathies

2017
Genome Med
PMCID: 5740572
PMID: 29273094
DOI: 10.1186/s13073-017-0505-2

[…] CA, USA). DNA samples were multiplexed and sequenced using the SOLiDTM 4 System, leading to 6.09 Gb and 7.22 Gb of mappable sequence, respectively. Read mapping and variant calling was performed with SOLiD bioscope software v1.3 using hg19 as the human reference genome. For Family B, a genome-wide single nucleotide polymorphism (SNP) genotyping analysis was first undertaken in four affected (IV:1, […]

library_books

Identification and characterization of two functional variants in the human longevity gene FOXO3

2017
Nat Commun
PMCID: 5727304
PMID: 29234056
DOI: 10.1038/s41467-017-02183-y

[…] GM12752, GM12753, GM12755, GM11997, GM10838, GM10839). Library preparation and sequencing were performed according to Melum et al.. The obtained reads were mapped using the default parameters of the BioScope Software (Thermo Fisher Scientific Inc., Waltham, USA) against the target region that was created using the FASTA NCBI36/hg18 reference sequence. Due to both poor coverage for parts of the FO […]

library_books

DNA methylation regulates TMEM16A/ANO1 expression through multiple CpG islands in head and neck squamous cell carcinoma

2017
Sci Rep
PMCID: 5680248
PMID: 29123240
DOI: 10.1038/s41598-017-15634-9

[…] on a SOLiD sequencer to generate on average ~25–50 million 50 bp single-end reads per sample according to the manufacturer’s protocols (Life Tech). The resulting color-space reads were aligned using Bioscope software (Applied Biosystems).Utilizing MACS-processed MBD-Seq data, we separated the human genome into 30,975,368 of 100 bp regions. The methylation status of each 100 bp segment for each sa […]

library_books

A comparison of nucleosome organization in Drosophila cell lines

2017
PLoS One
PMCID: 5453549
PMID: 28570602
DOI: 10.1371/journal.pone.0178590

[…] aded on a SoLiD flow cell for cluster generation. Nucleosomal reads were separated into separate library files based on their barcodes, and mapped to the Drosophila dm3 reference genome using the ABI BioScope™ software (Applied Biosystems). SOLiD sequencing generated 4 million to 12 million uniquely mapped reads for each sample. From the aligned reads, only unique, paired DNA fragments sized betwe […]

library_books

A novel, somatic, transforming mutation in the extracellular domain of Epidermal Growth Factor Receptor identified in myeloproliferative neoplasm

2017
Sci Rep
PMCID: 5446393
PMID: 28550306
DOI: 10.1038/s41598-017-02655-7

[…] Gen). For capture, the 15 DNA samples were combined into 5 pools without barcoding (Suppl. Table ). Captured DNA was sequenced on a SOLiD (3.5) platform and base calling and alignment performed using SOLiD™ BioScope™ software 1.3 (Applied Biosystems). A total of 8 958 exons were captured and 88.3% of these produced efficient sequence. SeattleSeq Annotation was used to annotate sequence variants. T […]

library_books

Integrated computational approach to the analysis of RNA seq data reveals new transcriptional regulators of psoriasis

2016
PMCID: 5133374
PMID: 27811935
DOI: 10.1038/emm.2016.97

[…] in color space format (*.csfasta) and were filtered for quality. The adaptor sequences were trimmed, and the reads were aligned to the UCSC human reference genome (hg19) using the Applied Biosystems Bioscope software (Applied Biosystems Bioscope, Thermo Fisher Scientific, Waltham, MA, USA) to obtain reads in the BAM format. Mapping to multiple locations was permitted. The aligned read BAM files w […]


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