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next-generation sequencing (ngs) data  (Caris Life Sciences)

 
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    Caris Life Sciences next-generation sequencing (ngs) data
    Next Generation Sequencing (Ngs) Data, supplied by Caris Life Sciences, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/ngs+sequencing+data/next+generation+sequencing/pm40420168-41-24-29
    Average 90 stars, based on 1 article reviews
    next-generation sequencing (ngs) data - by Bioz Stars, 2026-11
    90/100 stars

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    Related Articles

    Next-Generation Sequencing:

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration.
    Article Snippet: .. Next-generation sequencing was performed by Caris® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of Curr. ..

    Article Title: Human papillomavirus related multiphenotypic sinonasal carcinoma: Report of a case with metastatic disease to the brain.
    Article Snippet: Human papillomavirus (HPV) is implicated in the pathogenesis of approximately 20–25 % of head and neck carcinomas [1].. While HPVrelated head and neck carcinomas are most associated with the oropharynx, the sinonasal tract has been identified as an additional hotspot [2].. In the sinonasal tract, HPV is most frequently discovered in squamous cell carcinoma, but Bishop et al discovered a distinct subset of HPV related carcinomas more histologically like adenoid cystic carcinomas [3].

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration
    Article Snippet: .. Next-generation sequencing was performed by Caris ® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of a neoplastic process. .. This mutation is consistent with the germline testing performed by Ambry Genetics ® which detected a heterozygous c.1179delC (p.M394Cfs*74) pathogenic germline mutation in the FLCN gene.

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration.
    Article Snippet: .. Next-generation sequencing was performed by Caris® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of a neoplastic process. .. This mutation is consistent with the germline testing performed by Ambry Genetics® which detected a heterozygous c.1179delC (p.M394Cfs*74) pathogenic germline mutation in the FLCN gene.

    Mutagenesis:

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration.
    Article Snippet: .. Next-generation sequencing was performed by Caris® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of Curr. ..

    Article Title: Human papillomavirus related multiphenotypic sinonasal carcinoma: Report of a case with metastatic disease to the brain.
    Article Snippet: Human papillomavirus (HPV) is implicated in the pathogenesis of approximately 20–25 % of head and neck carcinomas [1].. While HPVrelated head and neck carcinomas are most associated with the oropharynx, the sinonasal tract has been identified as an additional hotspot [2].. In the sinonasal tract, HPV is most frequently discovered in squamous cell carcinoma, but Bishop et al discovered a distinct subset of HPV related carcinomas more histologically like adenoid cystic carcinomas [3].

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration
    Article Snippet: .. Next-generation sequencing was performed by Caris ® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of a neoplastic process. .. This mutation is consistent with the germline testing performed by Ambry Genetics ® which detected a heterozygous c.1179delC (p.M394Cfs*74) pathogenic germline mutation in the FLCN gene.

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration.
    Article Snippet: .. Next-generation sequencing was performed by Caris® Life Sciences on the tumor from the thyroid, which showed a pathogenic p.M394fs mutation (VAF 82%) in the FLCN gene, indicative of biallelic inactivation (double hit) and supportive of a neoplastic process. .. This mutation is consistent with the germline testing performed by Ambry Genetics® which detected a heterozygous c.1179delC (p.M394Cfs*74) pathogenic germline mutation in the FLCN gene.

    other:

    Article Title: Targeting DNA helicase CMG complex and NFκB2-driven drug-resistant transcriptional axis to effectively treat KRAS G12D -mutated pancreatic cancer.
    Article Snippet: To access the clinical relevance of the identified drugresistant genes and their prognostic value, we analyzed transcriptomic datasets from approximately 13,704 PDAC patients with next-generation sequencing (NGS) data from Caris Life Sciences (Fig. 2A), and NCI-TCGA database (Supple.

    Article Title: Prevalence and molecular correlates of acquired EGFR resistance mutations in non-small cell lung cancer (NSCLC).
    Article Snippet: Background While EGFR tyrosine kinase inhibitors (TKIs) are effective in treating patients with nonsmall cell lung cancer (NSCLC) with EGFR mutations, acquired resistance is expected.. We Full Article 5/24/25, 4:11 PM Prevalence and molecular correlates of acquired EGFR resistance mutations in non-small cell lung cancer (NSCLC): Expert Review... https://www.tandfonline.com/doi/full/10.1080/14737140.2025.2491648 1/9 aimed to determine the prevalence and molecular correlates of EGFR resistance mutations in a large, real-world cohort of EGFR-mutated NSCLC.. Research design and methods NSCLC tumors (N = 46,505) were profiled by next-generation sequencing (NGS) and immunohistochemistry at Caris Life Sciences (Phoenix, AZ).

    Article Title: Folliculin ( FLCN ) in Thyroid Tumors: Incidence, Significance, and Role as a Driver Gene and Secondary Alteration.
    Article Snippet: To further characterize the tumor and identify potential targetable alterations, nextgeneration sequencing was performed by Caris® Life Sciences on the tumor from the jugular vein thrombus, revealing oncogenic mutations in the following genes but no targetable alterations: FLCN p.E464* (VAF 85%), RB1 p.R320* (VAF 78%), and TP53 p.E336fs (VAF 80%).



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    Data preprocessing workflow. When analyzing NGS datasets with KPop, one can optionally pre-process sequencing reads in order to eliminate biases and/or have the method focus on specific parts of the genome. For instance, one might align reads to a (pan-)genome and separate them into reads that align (likely to originate from the organism being studied) and reads that do not (likely to come from contaminations). Furthermore, reads that do map to the pan-genome might be separated into groups specific to different genomic features; for instance, one might align them to a set of MLST genes or AMR genes. Full k -mer spectra would then be separately obtained from each group of reads (contaminations, pan-genomic, MLST genes, AMR genes) and given as input to downstream/classification methods. The choice of the group of reads from which spectra are computed determines the set of sequences seen by the method, and hence the scope of the classification

    Journal: Genome Biology

    Article Title: KPop: accurate and scalable comparative analysis of microbial genomes by sequence embeddings

    doi: 10.1186/s13059-025-03585-8

    Figure Lengend Snippet: Data preprocessing workflow. When analyzing NGS datasets with KPop, one can optionally pre-process sequencing reads in order to eliminate biases and/or have the method focus on specific parts of the genome. For instance, one might align reads to a (pan-)genome and separate them into reads that align (likely to originate from the organism being studied) and reads that do not (likely to come from contaminations). Furthermore, reads that do map to the pan-genome might be separated into groups specific to different genomic features; for instance, one might align them to a set of MLST genes or AMR genes. Full k -mer spectra would then be separately obtained from each group of reads (contaminations, pan-genomic, MLST genes, AMR genes) and given as input to downstream/classification methods. The choice of the group of reads from which spectra are computed determines the set of sequences seen by the method, and hence the scope of the classification

    Article Snippet: In order to do so, simulated next-generation sequencing (NGS) data was generated for each genome using ART [ ], emulating Illumina HiSeq 2500 paired-end reads of length 150 bp with an average coverage of 20-fold.

    Techniques: Sequencing