{"id":"hum0394","version":3,"url":"https://humandbs.dbcls.jp/research/hum0394/v3","datePublished":"2025-07-09","versions":[{"version":1,"datePublished":"2024-04-08"},{"version":2,"datePublished":"2024-11-20"},{"version":3,"datePublished":"2025-07-09"}],"title":{"ja":"非小細胞肺癌における空間トランスクリプトーム解析に関する多施設共同研究","en":"Multi-institutional joint research of spatial transcriptome analysis for non-small cell lung cancers"},"summary":{"aims":{"ja":"非小細胞肺がん組織におけるがんおよび周囲の間質細胞の状態を詳細に明らかにすることで、複雑な腫瘍内不均一性およびがん微小環境を考慮した新規肺がん層別化手法の開発を目指す。肺がん手術検体より得られた凍結およびホルマリン固定パラフィン包埋（FFPE）組織切片を用いた空間トランスクリプトーム解析および関連するさまざまなオミクス解析により、がん細胞のオミクスステータスだけでなく、腫瘍浸潤リンパ球、がん関連線維芽細胞等の種類、空間分布などの特徴づけを行い、がん-微小環境の相互作用そのものを評価する新しい指標を提案するものである。","en":"We perform spatial transcriptome analysis and other omics analyses, such as genome/epigenome sequencing and multiplexed immunofluorescence, using fresh-frozen and FFPE specimens of non-small cell lung cancers. We try to develop a novel stratification method for lung cancer patients by considering intratumor heterogeneity and conditions of complicated microenvironments of cancer tissues. We aim to characterize omics statuses of cancer cells and their surrounding stromal cells and immune cells, such as cancer-associated fibroblasts and tumor-infiltrating lymphocytes, at a spatial level and evaluate tumor cell-microenvironment relationships at a molecular level."},"methods":{"ja":"【Visium：Spatial transcriptome sequencing】Illuminaによる空間トランスクリプトームVisiumシークエンスデータ\n【Xenium：High-performance in situ gene expression mapping】10xによる高性能in situ遺伝子発現マッピングデータ\n【Multiplex fluorescence immunostaining】 PhenoCyclerシステムによる多重蛍光免疫染色データ\n【Whole Genome Sequencing】 illumina および Nanopore による全ゲノムシークエンスデータ\n【Targeted Long-Read Methylation Sequencing】Nanopore によるターゲットロングリードメチル化シークエンスデータ","en":"Spatial transcriptome sequencing Visium, high-performance in situ gene expression mapping Xenium, Multiplex Fluorescence Immunostaining, Whole Genome Sequencing and Targeted Long-Read Methylation Sequencing (t-nanoEM)"},"targets":{"ja":"【Visium：Spatial transcriptome sequencing】非小細胞肺がん症例の腫瘍組織 8症例（16検体）\n【Xenium：High-performance in situ gene expression mapping】非小細胞肺がん症例の腫瘍組織 5症例（5検体）\n【Multiplex fluorescence immunostaining】 非小細胞肺がん症例の腫瘍組織3症例（3検体）\n【Whole Genome Sequencing】 非小細胞肺がん1＋1症例の腫瘍組織 1＋1検体、非腫瘍組織 1＋1検体\n【Targeted Long-Read Methylation Sequencing】非小細胞肺がん1＋1症例のマイクロダイセクションした複数領域の腫瘍組織 1＋1検体","en":"[Visium] 16 tumor sections from 8 non-small cell lung cancer patients\n[Xenium] Five tumor sections from 5 non-small cell lung cancer patients\n[WGS] 1 + 1 tumor sections and 1 + 1 non-tumor sections from 1 + 1 non-small cell lung cancer patients\n[t-nanoEM] Multiple microdissected tumor regions from 1 + 1 non-small cell lung cancer patients"},"url":{"ja":null,"en":null}},"listingSummary":{"methods":{"ja":"発現\n病理画像\nメチル化","en":"Expression profiling, Histological imaging, Methylation profiling"},"targets":{"ja":"非小細胞肺癌：8症例\n（日本人）","en":"8 non-small cell lung cancer patients\n(Japanese)"},"typeOfData":{"ja":"NGS\n（Visium Spatial Gene Expression、WGS、t-nanoEM）\n病理画像\nXenium In Situ Gene Expression\nMultiplex Fluorescence Immunostaining","en":"NGS\n(Visium Spatial Gene Expression, WGS, t-nanoEM)\nHistological image\nXenium In Situ Gene Expression\nMultiplex Fluorescence Immunostaining"}},"releaseNote":{"ja":"非小細胞肺がん1症例（非腫瘍組織1検体、腫瘍組織1検体）を用いた全ゲノムシークエンス解析データ、および同症例（マイクロダイセクションした4領域の腫瘍組織1検体）を用いたターゲットロングリードメチル化シークエンス解析データをfastqおよびbamファイルにて提供する。","en":"- 1 tumor section and 1 non-tumor section from 1 non-small cell lung cancer patient were used for Whole Genome Sequencing. Fastq and bam files are provided.\n- 1 sample of four microdissected tumor regions from 1 non-small cell lung cancer patient were used for Targeted Long-Read Methylation Sequencing (t-nanoEM). Fastq files are provided."},"dataProviders":[{"name":{"ja":"鈴木 絢子","en":"Ayako Suzuki"},"organization":{"name":{"ja":"東京大学大学院 新領域創成科学研究科 メディカル情報生命専攻 メディカルオミクス解析分野","en":"Laboratory of Medical Omics Data Analysis, Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo"}}}],"researchProjects":[],"grants":[{"title":{"ja":"肺がん組織における空間的遺伝子発現および局所変異解析手法の構築","en":"Development of spatial genome and transcriptome analytical methods in local regions of lung cancer tissues"},"agency":{"ja":"科学研究費助成事業 若手研究","en":"KAKENHI Grant-in-Aid for Early-Career Scientists"},"grantIds":["21K15566"]},{"title":{"ja":"先進ゲノム解析研究推進プラットフォーム","en":"Platform for Advanced Genome Science"},"agency":{"ja":"科学研究費助成事業 学術変革領域研究","en":"KAKENHI Grant-in-Aid for Transformative Research Areas"},"grantIds":["22H04925"]},{"title":{"ja":"ターゲット特異的な長鎖DNAメチル化解析法の開発と乳がんでの応用解析","en":"Development of a method for targeted long-read methylation analysis and application to breast cancer specimens"},"agency":{"ja":"科学研究費助成事業 基盤研究（B）","en":"KAKENHI Grant-in-Aid for Scientific Research (B)"},"grantIds":["23K27160"]}],"relatedPublications":[],"datasets":["JGAD000742","JGAD000898"],"controlledAccessUsers":[]}