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medical school (DMBI)https://www.ebi.ac.uk/ena/browser/view/PRJNA837343Homo sapiensxref:PubMed:38281962Cancer metastasis in the bone represents an incurable disease. About one-third of patients with advanced renal cell carcinoma (ccRCC) have bone metastasis at the time of diagnosis making it a life-threatening disease. The bone metastatic niche, including immune and stroma microenvironment, has not been defined. Here, we created a human single-cell transcriptome cell-atlas of ccRCC bone metastases, contrasted with normal bone marrow immune cells and stroma. Overall design: We collected fresh patient samples directly from the operating room and performed single-cell transcriptomic profiling of solid metastatic tissue (Tumor fraction), liquid bone marrow at the vertebral level of spinal cord compression (Involved), as well as liquid bone marrow from a different vertebral body distant from the tumor site but within the surgical field (Distal). In addition, we enriched immune and stroma cells from patients undergoing hip replacement surgery (Benign) as extra control. Bone marrow were disaggregated and profiled by 10X Genomics Single cell 3 gene expression V2.ENAAdenocarcinoma, Bones and Bone Tissue, d230, clear cell renal cell adenocarcinoma, Collecting Duct, Neoplasms, Single-Cell Analyses, Renal Cell Cancers, Benign Neoplasm, dTAFII250, adenocarcinoma of kidney, Renal Adenocarcinomas, Tumor, EfW1, Papillary Renal Cell Carcinoma, Malignant, CCRCC, osteogenic tissue, dmTAF[[II]]230, Hypernephroid, Adenocarcinoma Of Kidneys, Bone and Bone, Renal Cell Adenocarcinomas, dmTAF1, Taf230, Sarcomatoid Renal Cell Carcinoma, RCC, Hypernephroid Carcinomas, Analysis, Renal Carcinomas, Hypernephroid Carcinoma, hypernephroma, Grawitz Tumor, TAF250, Bone Tissues, metastatic., Single Cell Analysis, Taf200, dTAF[[II]]250, Hypernephromas, TFIID TAF250, Analyses, Malignancy, cel, cell, Tissues, Collecting Duct Carcinoma, Tissue, Taf1p, Renal, Neoplasias, dTAF250, clear cell renal cell carcinoma, Condyles, Renal Collecting Duct Carcinoma, Malignancies, Apophysis, TAF, Collecting Duct Carcinomas (Kidney), Bony Apophyses, Grawitz, Cancer, Tumors, Carcinoma, dTAF[[II]]230, TAF[[II]]250, Adenocarcinoma Of, Malignant Neoplasm, Apophyses, Chromophil Renal Cell Carcinoma, Collecting Duct Carcinomas, TAF200, Renal Cell Carcinomas, l(3)84Ab, Renal Cell Adenocarcinoma, BG:DS00004.13, Renal Adenocarcinoma, Adenocarcinoma Of Kidney, TAFII-250, TAF250/230, Renal Cell Carcinoma, Adenocarcinomas, Single-Cell, Cell, dTAF230, Bones and Bone, Chromophobe Renal Cell Carcinoma, Collecting Duct Carcinoma of the Kidney, TAFII250, renal cell adenocarcinoma, Clear Cell Renal Cell Carcinoma, Benign, p230, Neoplasm, TAF[[II]]250/230, TFIID, Nephroid Carcinomas, bones, Hypernephroma, Carcinomas, Taf[[II]]250, osseous tissue, kidney adenocarcinoma, TAF[[II]]230, Renal Cell, Renal Carcinoma, Kidney, portion of bone tissue, Benign Neoplasms, TAF[II]250, Cancers, Condyle, Nephroid, Bones, CG17603, TAF[[II]], Renal Cell Cancer, Malignant Neoplasms, Papillary, DmelCG17603, mineralized bone tissue, Bony, Taf250, Bone Tissue, bone, SR3-5, Collecting Duct Carcinoma (Kidney), Collecting Duct (Kidney), renal cell carcinoma, calcium tissue, Bony Apophysis, bone organ, Nephroid Carcinoma, Bone, Neoplasia, stromal connective tissue, TAF230, TAF1, Clear Cell Renal CarcinomaAdenocarcinoma, Bones and Bone Tissue, d230, clear cell renal cell adenocarcinoma, Collecting Duct, Neoplasms, Single-Cell Analyses, Renal Cell Cancers, Benign Neoplasm, dTAFII250, adenocarcinoma of kidney, Renal Adenocarcinomas, Tumor, EfW1, Papillary Renal Cell Carcinoma, Malignant, CCRCC, osteogenic tissue, dmTAF[[II]]230, Hypernephroid, Adenocarcinoma Of Kidneys, Bone and Bone, Renal Cell Adenocarcinomas, dmTAF1, Taf230, Sarcomatoid Renal Cell Carcinoma, RCC, Hypernephroid Carcinomas, Analysis, Renal Carcinomas, Hypernephroid Carcinoma, hypernephroma, Grawitz Tumor, TAF250, Bone Tissues, metastatic., Single Cell Analysis, Taf200, dTAF[[II]]250, Hypernephromas, TFIID TAF250, Analyses, Malignancy, cel, cell, Tissues, Collecting Duct Carcinoma, Tissue, Taf1p, Renal, Neoplasias, dTAF250, clear cell renal cell carcinoma, Condyles, Renal Collecting Duct Carcinoma, Malignancies, Apophysis, TAF, Collecting Duct Carcinomas (Kidney), Bony Apophyses, Grawitz, Cancer, Tumors, Carcinoma, dTAF[[II]]230, TAF[[II]]250, Adenocarcinoma Of, Malignant Neoplasm, Apophyses, Chromophil Renal Cell Carcinoma, Collecting Duct Carcinomas, TAF200, Renal Cell Carcinomas, l(3)84Ab, Renal Cell Adenocarcinoma, BG:DS00004.13, Renal Adenocarcinoma, Adenocarcinoma Of Kidney, TAFII-250, TAF250/230, Renal Cell Carcinoma, Adenocarcinomas, Single-Cell, Cell, dTAF230, Bones and Bone, Chromophobe Renal Cell Carcinoma, Collecting Duct Carcinoma of the Kidney, TAFII250, renal cell adenocarcinoma, Clear Cell Renal Cell Carcinoma, Benign, p230, Neoplasm, TAF[[II]]250/230, TFIID, Nephroid Carcinomas, bones, Hypernephroma, Carcinomas, Taf[[II]]250, osseous tissue, kidney adenocarcinoma, TAF[[II]]230, Renal Cell, Renal Carcinoma, Kidney, portion of bone tissue, Benign Neoplasms, TAF[II]250, Cancers, Condyle, Nephroid, Bones, CG17603, TAF[[II]], Renal Cell Cancer, Malignant Neoplasms, Papillary, DmelCG17603, mineralized bone tissue, Bony, Taf250, Bone Tissue, bone, SR3-5, Collecting Duct Carcinoma (Kidney), Collecting Duct (Kidney), renal cell carcinoma, calcium tissue, Bony Apophysis, bone organ, Nephroid Carcinoma, Bone, Neoplasia, stromal connective tissue, TAF230, TAF1, Clear Cell Renal CarcinomafalseSingle-cell analysis of immune and stroma cell remodeling in renal cell carcinoma primary tumors and bone metastatic lesionsSingle-cell analysis of immune and stroma cell remodeling in renal cell carcinoma primary tumors and bone metastatic lesions2025-09-242023-07-19PRJNA837343GSE202813960638281962