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We are analyzing https://www.nature.com/articles/s41467-018-07767-w.

Title:
Local mutational diversity drives intratumoral immune heterogeneity in non-small cell lung cancer | Nature Communications
Description:
Combining whole exome sequencing, transcriptome profiling, and T cell repertoire analysis, we investigate the spatial features of surgically-removed biopsies from multiple loci in tumor masses of 15 patients with non-small cell lung cancer (NSCLC). This revealed that the immune microenvironment has high spatial heterogeneity such that intratumoral regional variation is as large as inter-personal variation. While the local total mutational burden (TMB) is associated with local T-cell clonal expansion, local anti-tumor cytotoxicity does not directly correlate with neoantigen abundance. Together, these findings caution against that immunological signatures can be predicted solely from TMB or microenvironmental analysis from a single locus biopsy. Intratumoral immunity heterogeneity is poorly characterized. Here the authors apply exome sequencing, transcriptome profiling and T-cell repertoire profiling to multiple loci of non-small-cell lung cancer patients
Website Age:
30 years and 10 months (reg. 1994-08-11).

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Keywords {πŸ”}

pubmed, immune, article, tumor, google, scholar, cell, data, cas, cancer, central, mutations, supplementary, fig, tcell, heterogeneity, patients, tmb, nature, cells, local, correlation, lung, infiltration, sequencing, loci, samples, analysis, mutational, expression, nsclc, antitumor, tme, intratumoral, repertoire, hot, cytotoxicity, neoantigen, response, neoantigens, somatic, ads, area, spatial, cold, blockade, based, nat, multiple, burden,

Topics {βœ’οΈ}

nature portfolio privacy policy immune editing tailed mann–whitney u-test computational genomics tools intratumoral regional variation medical research anti-human cd33-apc/cy7 advertising pre-primed cytotoxic t-lymphocyte qi-jing li anti-pd-l1 antibody mpdl3280a anti-human hla-dr-pe pre-existing anti-tumor reactivity io/picard/ social media supplementary data small-cell lung cancer jia-nan cheng rna-seq libraries high-quality paired-end reads antigen-specific t-cell receptors t-cell-inflamed tumor microenvironment reprints supplementary information anti-pd-1/pd-l1 treatment paired single-cell analyses development library selection schemes systemic nature dominant t-cell clones local t-cell expansion functional nature anti-human cd14-apc cd8+ t-cell infiltration11 t-cell repertoire clonality8 measuring anti-tumor reactivity anti-human cd45-pacificblue anti-human cd3-fitc diversified t-cell clonotypes unlike t-cell activation anti-human cd8-percp cd8+ t-cell infiltration transcriptomic expression data intratumoral t-cell repertoires anti-pd-l1 treatment4 boost cd52-mediated cd8+ fluorescence-activated cell sorter rna profiling data org/cancer/cga/mutect

Schema {πŸ—ΊοΈ}

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         headline:Local mutational diversity drives intratumoral immune heterogeneity in non-small cell lung cancer
         description:Combining whole exome sequencing, transcriptome profiling, and T cell repertoire analysis, we investigate the spatial features of surgically-removed biopsies from multiple loci in tumor masses of 15 patients with non-small cell lung cancer (NSCLC). This revealed that the immune microenvironment has high spatial heterogeneity such that intratumoral regional variation is as large as inter-personal variation. While the local total mutational burden (TMB) is associated with local T-cell clonal expansion, local anti-tumor cytotoxicity does not directly correlate with neoantigen abundance. Together, these findings caution against that immunological signatures can be predicted solely from TMB or microenvironmental analysis from a single locus biopsy. Intratumoral immunity heterogeneity is poorly characterized. Here the authors apply exome sequencing, transcriptome profiling and T-cell repertoire profiling to multiple loci of non-small-cell lung cancer patients' biopsies and find high spatial immune heterogeneity with local mutational burden correlating with T-cell clonal expansion but not with cytotoxicity.
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      headline:Local mutational diversity drives intratumoral immune heterogeneity in non-small cell lung cancer
      description:Combining whole exome sequencing, transcriptome profiling, and T cell repertoire analysis, we investigate the spatial features of surgically-removed biopsies from multiple loci in tumor masses of 15 patients with non-small cell lung cancer (NSCLC). This revealed that the immune microenvironment has high spatial heterogeneity such that intratumoral regional variation is as large as inter-personal variation. While the local total mutational burden (TMB) is associated with local T-cell clonal expansion, local anti-tumor cytotoxicity does not directly correlate with neoantigen abundance. Together, these findings caution against that immunological signatures can be predicted solely from TMB or microenvironmental analysis from a single locus biopsy. Intratumoral immunity heterogeneity is poorly characterized. Here the authors apply exome sequencing, transcriptome profiling and T-cell repertoire profiling to multiple loci of non-small-cell lung cancer patients' biopsies and find high spatial immune heterogeneity with local mutational burden correlating with T-cell clonal expansion but not with cytotoxicity.
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      name:Institute of Cancer, Xinqiao Hospital, Third Military Medical University, Chongqing, China
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      name:Institute of Cancer, Xinqiao Hospital, Third Military Medical University, Chongqing, China
      name:Chongqing Key Laboratory of Tumor Immunotherapy, Chongqing, China
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