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  PDX metastatic 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 metastatic renal cell carcinoma

Displaying 1-10 of 36 results.
SeriesSampleInstrumentOrganismTitleCell Source
GSE73121GSM1887216Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_01PDX metastatic renal cell carcinoma
GSE73121GSM1887217Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_03PDX metastatic renal cell carcinoma
GSE73121GSM1887218Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_04PDX metastatic renal cell carcinoma
GSE73121GSM1887219Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_05PDX metastatic renal cell carcinoma
GSE73121GSM1887220Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_06PDX metastatic renal cell carcinoma
GSE73121GSM1887221Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_08PDX metastatic renal cell carcinoma
GSE73121GSM1887222Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_12PDX metastatic renal cell carcinoma
GSE73121GSM1887223Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_14PDX metastatic renal cell carcinoma
GSE73121GSM1887224Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_15PDX metastatic renal cell carcinoma
GSE73121GSM1887225Illumina HiSeq 2500Homo sapiensPDX_mRCC_SC_20PDX metastatic renal cell carcinoma

Gene rank in PDX metastatic renal cell carcinoma

Displaying 1-10 of 18370 results.
Rank orderGene SymbolEnsembl ID
1MT-RNR2ENSG00000210082
2FTLENSG00000087086
3MT-CO2ENSG00000198712
4MT-RNR1ENSG00000211459
5MT-ND4ENSG00000198886
6B2MENSG00000166710
7CRYABENSG00000109846
8SLPIENSG00000124107
9MT-ND1ENSG00000198888
10MT-ATP6ENSG00000198899