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  PDX primary renal cell carcinoma

Overall DesignIn order to identify successful clonal propagation from patient to PDX samples and understand pathogenesis from primary to metastatic RCC, we performed whole-exome sequencing (WES, n=4) and matched aCGH (n=4) on bulk tumor samples. And we utilized single-cell RNA sequencing (scRNA-seq) to model and dissect functional heterogeneity acroass primary and metastatic RCC tumors. We checked whether of capturing live one cell, not more cells, in microfluidics by fluorescent microscopic observation. To construct RNA sequencing libraries, we performed further quality controls including adequate quantities and qualities of amplified transcriptomes respectively from single cells. Tumor cells from the parental mRCC (n=34), PDX-mRCC (n=36) and PDX-pRCC (n=46) were finally analyzed in this study after filtering out poor quality cells.
SummaryClear cell renal cell carcinoma (ccRCC) initiated from the renal epithelium is the most prevalent histological type of adult kidney cancers. Dissecting intratumoral heterogeneity (ITH) of ccRCC has leveraged to extend our knowledge on how primary tumors harboring driver mutations evolve and spread to other sites. The cellular fractions within and across the primary (pRCC) and metastatic RCC (mRCC) are heterogeneous in both their genetic and biological features determining the variability in clinical aggressiveness and sensitivity to the therapy. To achieve sustainable therapeutic benefit with targeted agents in mRCC, the effective target should focus on signaling pathways that are related to driver mutations occurred early in the clonal evolution of the disease and thus should be common to primary tumor and metastatic sites. Considering that extensive genetic heterogeneity may result in drug response variability among patients and treatment resistance, the tailored strategies for metastatic RCC is urgently needed. Here, we analyze single-cell RNA-seq (scRNA-seq) data from a matched primary RCC (pRCC) and lung metastasis (mRCC) to dissect ITH at the highest resolution to date with the objective of discovering the better therapeutic regimen.
Dataset viewGSE73121
PMID27139883

Samples in PDX primary renal cell carcinoma

Displaying 1-10 of 47 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE73121GSM1887253Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_03PDX primary renal cell carcinoma
GSE73121GSM1887254Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_05PDX primary renal cell carcinoma
GSE73121GSM1887255Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_06PDX primary renal cell carcinoma
GSE73121GSM1887256Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_10PDX primary renal cell carcinoma
GSE73121GSM1887257Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_13PDX primary renal cell carcinoma
GSE73121GSM1887258Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_14PDX primary renal cell carcinoma
GSE73121GSM1887259Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_16PDX primary renal cell carcinoma
GSE73121GSM1887260Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_24PDX primary renal cell carcinoma
GSE73121GSM1887261Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_27PDX primary renal cell carcinoma
GSE73121GSM1887262Illumina HiSeq 2500Homo sapiensPDX_pRCC_SC_28PDX primary renal cell carcinoma

Gene rank in PDX primary renal cell carcinoma

Displaying 1-10 of 18370 results.
Rank orderGene SymbolEnsembl ID
1FTLENSG00000087086
2B2MENSG00000166710
3MALAT1ENSG00000251562
4MT-RNR2ENSG00000210082
5CRYABENSG00000109846
6MT-CO1ENSG00000198804
7S100A10ENSG00000197747
8S100A11ENSG00000163191
9ANXA2ENSG00000182718
10EEF1A1ENSG00000156508