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transcriptome sequencing wts data  (Caris Life Sciences)

 
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    Caris Life Sciences transcriptome sequencing wts data
    Transcriptome Sequencing Wts Data, supplied by Caris Life Sciences, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/transcriptomic+sequencing+data/sequencing+transcriptome+whole/pm42236117-215-17-22
    Average 86 stars, based on 1 article reviews
    transcriptome sequencing wts data - by Bioz Stars, 2026-09
    86/100 stars

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    Related Articles

    Sequencing:

    Article Title: Genomic landscape, immune microenvironment and survival in male versus female breast cancer
    Article Snippet: .. We analyzed whole-transcriptome (WTS) and whole exome sequencing from 19 697 deidentified tumor samples provided to Caris Life Sciences. ..

    Article Title: Lineage infidelity in FH-deficient RCC with secondary somatic alterations: a case report and implications for diagnosis and treatment
    Article Snippet: .. To confirm the diagnosis, molecular testing (next-generation sequencing (NGS); whole exome and whole transcriptome sequencing, Caris Life Sciences (Irving, Texas, United States)) revealed an S419P mutation in the FH gene, along with pathogenic mutations in KMT2A , NF2 , and TP53 , discussed in greater detail below. .. Germline testing (Ambry Genetics CancerNext-Expanded ® + RNAinsight ® 71 gene panel) confirmed the S419P mutation to be in the germline.

    Article Title: Spatially resolved single-cell landscape of tumor immunotypes reveals the central role of interferon signaling and plasmacytoid dendritic cells in triple-negative breast cancer.
    Article Snippet: In collaboration with Caris Life Sciences (Phoenix, AZ), we used the CODEai data platform and identified a cohort of 2899 patients with TNBC with available genomic and clinical outcome data (demographic characteristics summarized in online supplemental table S11). .. Within the CODEai data platform, we applied a transcriptomic deconvolution approach to estimate pDC abundance from whole transcriptome sequencing (WTS) data (NovaSeq; Caris Life Sciences, Phoenix, AZ). ..

    Article Title: DICER1-mutated renal neoplasia: A series of 5 cases demonstrating the spectrum of cystic nephroma, Wilms tumor, and anaplastic sarcoma.
    Article Snippet: Objectives: The DICER1 gene encodes a ribonuclease essential for microRNA processing and regulates diverse cellular functions.. Germline DICER1 alterations underlie DICER1-related tumor predisposition syndrome, which can lead to renal neoplasia.. Herein, we studied the spectrum of DICER1-altered renal neoplasia.

    Article Title: Proactive identification of candidates for newly approved targeted therapies using a clinical decision support program
    Article Snippet: .. Between 2018 and 2025, tumor samples were submitted to Caris Life Sciences for whole-exome sequencing, whole-transcriptome sequencing, and immunohistochemistry. ..

    Article Title: Genomic landscape, immune microenvironment and survival in male versus female breast cancer.
    Article Snippet: .. Materials and methods: We analyzed whole-transcriptome (WTS) and whole exome sequencing from 19 697 deidentified tumor samples provided to Caris Life Sciences. ..

    Biomarker Discovery:

    Article Title: Lineage infidelity in FH-deficient RCC with secondary somatic alterations: a case report and implications for diagnosis and treatment
    Article Snippet: .. To confirm the diagnosis, molecular testing (next-generation sequencing (NGS); whole exome and whole transcriptome sequencing, Caris Life Sciences (Irving, Texas, United States)) revealed an S419P mutation in the FH gene, along with pathogenic mutations in KMT2A , NF2 , and TP53 , discussed in greater detail below. .. Germline testing (Ambry Genetics CancerNext-Expanded ® + RNAinsight ® 71 gene panel) confirmed the S419P mutation to be in the germline.

    Next-Generation Sequencing:

    Article Title: Lineage infidelity in FH-deficient RCC with secondary somatic alterations: a case report and implications for diagnosis and treatment
    Article Snippet: .. To confirm the diagnosis, molecular testing (next-generation sequencing (NGS); whole exome and whole transcriptome sequencing, Caris Life Sciences (Irving, Texas, United States)) revealed an S419P mutation in the FH gene, along with pathogenic mutations in KMT2A , NF2 , and TP53 , discussed in greater detail below. .. Germline testing (Ambry Genetics CancerNext-Expanded ® + RNAinsight ® 71 gene panel) confirmed the S419P mutation to be in the germline.

    Article Title: DICER1-mutated renal neoplasia: A series of 5 cases demonstrating the spectrum of cystic nephroma, Wilms tumor, and anaplastic sarcoma.
    Article Snippet: Objectives: The DICER1 gene encodes a ribonuclease essential for microRNA processing and regulates diverse cellular functions.. Germline DICER1 alterations underlie DICER1-related tumor predisposition syndrome, which can lead to renal neoplasia.. Herein, we studied the spectrum of DICER1-altered renal neoplasia.

    Mutagenesis:

    Article Title: Lineage infidelity in FH-deficient RCC with secondary somatic alterations: a case report and implications for diagnosis and treatment
    Article Snippet: .. To confirm the diagnosis, molecular testing (next-generation sequencing (NGS); whole exome and whole transcriptome sequencing, Caris Life Sciences (Irving, Texas, United States)) revealed an S419P mutation in the FH gene, along with pathogenic mutations in KMT2A , NF2 , and TP53 , discussed in greater detail below. .. Germline testing (Ambry Genetics CancerNext-Expanded ® + RNAinsight ® 71 gene panel) confirmed the S419P mutation to be in the germline.

    Immunohistochemistry:

    Article Title: Proactive identification of candidates for newly approved targeted therapies using a clinical decision support program
    Article Snippet: .. Between 2018 and 2025, tumor samples were submitted to Caris Life Sciences for whole-exome sequencing, whole-transcriptome sequencing, and immunohistochemistry. ..



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    Identification of core genes associated with macrophage immune training and heart failure. (A) Schematic overview of human-derived macrophage trained immunity model and <t>transcriptomic</t> profiling workflow ( GSE235897 ). (B) The volcano plot and (C) DEGs heatmap of hMDMs from trained (n=3) and untrained (n=3) samples in the macrophage-trained immunity dataset GSE235897 (|log2FC| ≥ 0.585, p < 0.05). (D) Sample clustering dendrogram of GSE135055 dataset based on gene expression profiles. (E) Scale-free topology fit index and (F) mean connectivity analysis across a range of soft-thresholding powers. (G) Cluster dendrogram of genes showing co-expression modules identified by WGCNA in database GSE135055 . (H) Module-trait heatmap values represent correlation coefficients between healthy controls and HF samples (* p < 0.05, ** p < 0.01). (I) Venn diagram showing the overlap among heart failure DEGs, trained-immunity DEGs, and WGCNA module genes.
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    Image Search Results


    Identification of core genes associated with macrophage immune training and heart failure. (A) Schematic overview of human-derived macrophage trained immunity model and transcriptomic profiling workflow ( GSE235897 ). (B) The volcano plot and (C) DEGs heatmap of hMDMs from trained (n=3) and untrained (n=3) samples in the macrophage-trained immunity dataset GSE235897 (|log2FC| ≥ 0.585, p < 0.05). (D) Sample clustering dendrogram of GSE135055 dataset based on gene expression profiles. (E) Scale-free topology fit index and (F) mean connectivity analysis across a range of soft-thresholding powers. (G) Cluster dendrogram of genes showing co-expression modules identified by WGCNA in database GSE135055 . (H) Module-trait heatmap values represent correlation coefficients between healthy controls and HF samples (* p < 0.05, ** p < 0.01). (I) Venn diagram showing the overlap among heart failure DEGs, trained-immunity DEGs, and WGCNA module genes.

    Journal: Frontiers in Immunology

    Article Title: Identification of MTURN as a trained immunity-related biomarker for heart failure via integrative transcriptomic machine learning analysis and experimental validation

    doi: 10.3389/fimmu.2026.1739660

    Figure Lengend Snippet: Identification of core genes associated with macrophage immune training and heart failure. (A) Schematic overview of human-derived macrophage trained immunity model and transcriptomic profiling workflow ( GSE235897 ). (B) The volcano plot and (C) DEGs heatmap of hMDMs from trained (n=3) and untrained (n=3) samples in the macrophage-trained immunity dataset GSE235897 (|log2FC| ≥ 0.585, p < 0.05). (D) Sample clustering dendrogram of GSE135055 dataset based on gene expression profiles. (E) Scale-free topology fit index and (F) mean connectivity analysis across a range of soft-thresholding powers. (G) Cluster dendrogram of genes showing co-expression modules identified by WGCNA in database GSE135055 . (H) Module-trait heatmap values represent correlation coefficients between healthy controls and HF samples (* p < 0.05, ** p < 0.01). (I) Venn diagram showing the overlap among heart failure DEGs, trained-immunity DEGs, and WGCNA module genes.

    Article Snippet: For single-cell transcriptomic data, we accessed the SCP1303 project from the Broad Institute ( https://singlecell.broadinstitute.org/single_cell ), which includes raw scRNA-seq data from failing human hearts with dilated and hypertrophic cardiomyopathy.

    Techniques: Derivative Assay, Gene Expression, Expressing

    Five heart failure transcriptomic datasets were integrated with a macrophage-trained immunity model to identify immune-related biomarkers. Through DEGs analysis, WGCNA, CIBERSORT, and six machine learning algorithms, hub genes were prioritized with MTURN emerging as the top candidate. Its potential was further validated by scRNA-seq analysis, which confirmed MTURN enrichment in cardiac macrophages. Finally, MTURN expression was validated using previously published heart failure transcriptomic data and in vitro experiments.

    Journal: Frontiers in Immunology

    Article Title: Identification of MTURN as a trained immunity-related biomarker for heart failure via integrative transcriptomic machine learning analysis and experimental validation

    doi: 10.3389/fimmu.2026.1739660

    Figure Lengend Snippet: Five heart failure transcriptomic datasets were integrated with a macrophage-trained immunity model to identify immune-related biomarkers. Through DEGs analysis, WGCNA, CIBERSORT, and six machine learning algorithms, hub genes were prioritized with MTURN emerging as the top candidate. Its potential was further validated by scRNA-seq analysis, which confirmed MTURN enrichment in cardiac macrophages. Finally, MTURN expression was validated using previously published heart failure transcriptomic data and in vitro experiments.

    Article Snippet: For single-cell transcriptomic data, we accessed the SCP1303 project from the Broad Institute ( https://singlecell.broadinstitute.org/single_cell ), which includes raw scRNA-seq data from failing human hearts with dilated and hypertrophic cardiomyopathy.

    Techniques: Expressing, In Vitro