Journal: Oncotarget

Article Title: The homeoprotein Dlx5 drives murine T-cell lymphomagenesis by directly transactivating Notch and upregulating Akt signaling

doi: 10.18632/oncotarget.14784

Figure Lengend Snippet: ( A ) RNA microarray heatmap demonstrating that compared to thymocytes from three WT mice, primary T-cell lymphomas from three Lck-Dlx5 mice exhibit upregulation ( Red ) of genes involved in Notch signaling, cell cycle progression, chromatin modification, calcium homeostasis, glucose, fatty acid and nucleotide metabolism, as well as classical Dlx5 target genes. Down-regulated genes ( Green ) are implicated in pro-apoptotic events ( Tnf , Fas , Xaf1 , INFb signaling-related genes), tumor suppression, and DNA damage repair. ( B ) compared to T-cell lymphomas from Lck-MyrAkt2 mice, Lck-Dlx5 lymphomas show upregulation of Notch1/3 and downregulation of Lats2 , Appl2 , Jak3 , Tet2 , and Tnik . Note that in the interests of journal space, the heatmap shown here includes only one sample from each group. The full heatmaps for all three samples examined per group can be found in Supplementary Figure 2C. ( C ) real-time PCR on three T-cell samples from WT mice (samples 1–3), 11 primary lymphomas from Lck-Dlx5 mice (samples 4-14: F86-785, -801, -793, -1149; F63-0, -1263, -1210; F47-0, -1247, -918; and F84-1063), and 7 lymphomas from Lck-MyrAkt2 mice (samples 15-21: F72-918, -2811, -3148, -3154; and F420-577, -1174, -1073), confirming unique upregulation of Notch signaling in Dlx5-driven tumors. Data = mean ± SEM. ( D ) immunoblot showing overexpression of Notch1, NIC1, Notch3, Hes1 and Myc in lymphoma lines (F63-0, F47-0, F47-918) from Lck-Dlx5 mice. Loss of Pten expression and corresponding high levels of phospho-Akt in Lck-Dlx5 -derived tumor cells are also shown, as are cyclin D1 levels. Dlx5 proteins have high molecular weight (a, b) and low molecular weight (c) forms. Notch proteins have full length ( F ) and cleaved (C) forms. *, non-specific bands. ( E ) H&E and immunohistochemical staining of lymphoma invading lung of Lck-Dlx5 mouse. Note strong staining for Notch1, Notch3, Hes1, Myc and phospho-Akt in lymphoma. (F) summary of real-time PCR analysis of RNA from 15 pediatric T-ALL specimens showing expression levels of DLX5 , NOTCH1 and NOTCH3 .

Article Snippet: Antibodies against Dlx5, Notch3, cyclin A, cyclin D1, Irs2, Gapdh and β-actin were from Santa Cruz Biotechnology; antibodies against Notch1, Notch1 (Val1744), Pten, p-Akt, Akt, Myc-Tag, Myc-Tag-Alexa647, and cleaved caspase-3-Alexa488 were from Cell Signaling.

Techniques: Microarray, Modification, Real-time Polymerase Chain Reaction, Western Blot, Over Expression, Expressing, Derivative Assay, High Molecular Weight, Molecular Weight, Immunohistochemical staining, Staining

Journal: Oncotarget

Article Title: The homeoprotein Dlx5 drives murine T-cell lymphomagenesis by directly transactivating Notch and upregulating Akt signaling

doi: 10.18632/oncotarget.14784

Figure Lengend Snippet: ( A ) Flow cytometry analysis of thymic T cells from 5-week-old WT and Lck-Dlx5 mice demonstrating that Lck-Dlx5 mice have increased percentage of CD4-CD8- cells and decreased percentage of CD4+CD8+ cells. ( B ) modest but statistically significantly increased survival of CD4-CD8- (DN) T cells from Lck-Dlx5 mice, as shown by Annexin V/PI staining. ( C ) CD25 and CD44 staining showing increased population of CD25+CD44- cells in thymus of Lck -Dlx5 mice. DN1 = CD25− CD44+; DN2 = CD25+ CD44+; DN3 = CD25+CD44−; and DN4 = CD25- CD44−. Administration of DAPT for 5 d resulted in a decrease in this cell population. ( D ) annexin V/PI staining demonstrating that CD25+CD44− population in Lck-Dlx5 mice has increased cell viability compared to that of DN3 cells from WT mice, and that DAPT treatment reverses Dlx5′s pro-survival effect. ( E ) staining for cleaved caspase3 showing that T cells from Lck-Dlx5 mice have much less caspase3 activation at the DN3 stage compared to that of T cells from WT mice, which was partially rescued by treatment with DAPT. ( F ) immunoblot analysis demonstrating that treatment of T cells from Lck-Dlx5 mice with DAPT (D) and/or RAD001 (R) results in increased gross cleavage of caspase3. M = mock (placebo) treatment. ( G ) proposed mechanism of Dlx5-induced lymphomagenesis. Aberrant expression of Dlx5 in immature thymic T cells results in direct binding to Notch1 and Notch3 enhancer sequences as well as to promoters of Irs2 and Ccnd1 , which activates expression of these critical target genes. Resulting augmented Notch and Akt signaling promotes survival of affected immature T cells during β-selection. Fully transformed T cells continue to rely on Notch and Akt signaling for proliferation and dissemination via subsequent mutation of Notch1 and loss of Pten.

Article Snippet: Antibodies against Dlx5, Notch3, cyclin A, cyclin D1, Irs2, Gapdh and β-actin were from Santa Cruz Biotechnology; antibodies against Notch1, Notch1 (Val1744), Pten, p-Akt, Akt, Myc-Tag, Myc-Tag-Alexa647, and cleaved caspase-3-Alexa488 were from Cell Signaling.

Techniques: Flow Cytometry, Staining, Activation Assay, Western Blot, Expressing, Binding Assay, Selection, Transformation Assay, Mutagenesis

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) A gene expression heat map representing fold changes greater than 1.5 in samples from lung cancer spheroids grown in CM from cultured HUVECs, cultured NCI-H460 cells, or lung cancer cells co-cultured with HUVECs. (B and C) Categorization of biological pathways (B) and biological processes (C) identified by microarray analysis as markedly altered in lung cancer spheroids grown in CM from cultured HUVECs, cultured NCI-H460 cells, or lung cancer cells co-cultured with HUVECs. (D) Expression levels of CARS, HYOU1, MARS, and pAKT (Ser437) in lung cancer spheroids grown in CM from NCI-H460 cells cultured alone or co-cultured with HUVECs, as assessed by western blot analysis.

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Expressing, Cell Culture, Microarray, Western Blot

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) Bright-field images of 3D spheroids co-cultured with HUVECs and NSCLC cells (NCI-H460 or A549) and spheroids cultured with lung cancer cells alone. The images were obtained using the Operetta ® High Content Screening System with a 10× objective. (B) Expression levels of ATF6, HYOU1, IRE1, and pAKT (Ser473) in spheroids co-cultured with HUVECs and NSCLC cells (NCI-H460 or A549) and spheroids cultured with lung cancer cells alone, as assessed by western blot analysis. (C) Multilayer image showing immunofluorescence staining of HYOU1 in NSCLC (NCI-H460 or A549) spheroids co-cultured with HUVECs and Hoechst staining of both cell types. (D) Expression levels of cleaved caspase-3 and HYOU1 in lung cancer cells transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1) and co-cultured with HUVECs with or without 10 μM or 20 μM gefitinib or cisplatin for 72 h, as assessed by western blot analysis.

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Cell Culture, High Content Screening, Expressing, Western Blot, Immunofluorescence, Staining, Transfection

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) Expression levels of HIF1 and HYOU1 in monolayer (2D)- or spheroid (3D)-cultured NSCLC cells (NCI-H460, A549, H1299, and PC9), as assessed by western blot analysis. (B) Clonogenic survival in NSCLC cells (NCI-H460, A549, and H1299) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1), as assessed by colony formation assay. (C) Immunofluorescence and bright-field images of lung cancer spheroids (NCI-H460, A549, and H1299) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1). The spheroids were stained with 4 μM EthD-1. The images were obtained using the Operetta ® High Content Screening System, and the intensity of EthD-1 staining in lung cancer spheroids relative to controls was analyzed using Harmony software. (D) Expression of cleaved caspase-3, cleaved PARP, HIF1, HYOU1, pp38, p53, and pErk1/2 in lung cancer spheroids (NCI-H460 and A549) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1). The data shown are the mean ± SD from three independent experiments; ** P < 0.01, *** P < 0.001, and **** P < 0.0001 compared to the control group.

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Expressing, Cell Culture, Western Blot, Transfection, Colony Assay, Immunofluorescence, Staining, High Content Screening, Software

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) CSC spheroid formation of H1299, A549, and NCI-H460 cells transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1). (B) Expression levels of CD133 and HYOU1 in H1299 cells transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1). (C) Bright-field and immunofluorescence images of lung cancer spheroids (NCI-H460 and A549) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1) and treated with 20 μM gefitinib. The spheroids were stained with 4 μM EthD-1. The images were obtained using the Operetta ® High Content Screening System, and the intensity of EthD-1 staining in lung cancer spheroids was analyzed using Harmony software. (D) Bright-field images of NSCLC cells (NCI-H460 and A549) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1), as assessed by migration assay. (E) Expression levels of α-SMA, collagen I, HYOU1, N-cadherin, and vimentin in in lung cancer spheroids (NCI-H460 and A549) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1). The data shown are the mean ± SD from three independent experiments; * P < 0.05 compared to the control group.

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Transfection, Expressing, Immunofluorescence, Staining, High Content Screening, Software, Migration

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) Target pathways identified by microarray analysis as markedly altered in NCI-H460 cells transfected with siHYOU1. (B) Expression levels of IFN-α, and IFN-β in NSCLC cells (NCI-H460 and A549) transfected with nonspecific siRNA (siCont) or HYOU1 siRNA (siHYOU1).

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Microarray, Transfection, Expressing

Journal: Molecules and Cells

Article Title: Expression of HYOU1 via Reciprocal Crosstalk between NSCLC Cells and HUVECs Control Cancer Progression and Chemoresistance in Tumor Spheroids

doi: 10.14348/molcells.2020.0212

Figure Lengend Snippet: (A) Expression levels of HYOU1 in NSCLC cells (NCI-H460 and H1299) treated with 0.1 μM or 1 μM of an mTOR inhibitor (Torin2 or WYE-125132) or a PI3K inhibitor (GDC0032 or PKI-402). (B) Expression levels of HYOU1 and mTOR in NSCLC cells (NCI-H460 and H1299) transfected with nonspecific siRNA (siCont), HYOU1 siRNA (siHYOU1), or mTOR siRNA (simTOR). The data shown are the mean ± SD from three independent experiments; * P < 0.05 compared to the control group.

Article Snippet: After washing with DPBS three times, the spheroids were incubated with rabbit polyclonal anti-HYOU1 (1:100; Cell Signaling Technology, USA) in DPBS with 10% normal goat serum (Vector Laboratories, USA) for 16 h at 4°C, and then washed three times for 10 min with DPBS.

Techniques: Expressing, Transfection

Journal: Cell host & microbe

Article Title: Reshaping of the Dendritic Cell Chromatin Landscape and Interferon Pathways During HIV Infection

doi: 10.1016/j.chom.2018.01.012

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Rabbit monoclonal anti-TBK1 , Cell Signaling Technology , Cat# 3504, RRID: AB_2255663.

Techniques: Virus, Recombinant, Saline, High Molecular Weight, Electron Microscopy, SYBR Green Assay, Staining, Library Quantification, Next-Generation Sequencing, Fractionation, Plasmid Preparation, DNA Purification, Bicinchoninic Acid Protein Assay, Enzyme-linked Immunosorbent Assay, Luciferase, Infection, Sequencing, Cloning, Control, shRNA, Software, Flow Cytometry, Gene Expression, Microarray

Journal: Cell host & microbe

Article Title: Reshaping of the Dendritic Cell Chromatin Landscape and Interferon Pathways During HIV Infection

doi: 10.1016/j.chom.2018.01.012

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Rabbit monoclonal anti-STING (D2P2F) , Cell Signaling Technology , Cat# 13647.

Techniques: Virus, Recombinant, Saline, High Molecular Weight, Electron Microscopy, SYBR Green Assay, Staining, Library Quantification, Next-Generation Sequencing, Fractionation, Plasmid Preparation, DNA Purification, Bicinchoninic Acid Protein Assay, Enzyme-linked Immunosorbent Assay, Luciferase, Infection, Sequencing, Cloning, Control, shRNA, Software, Flow Cytometry, Gene Expression, Microarray

Journal: Cell host & microbe

Article Title: Reshaping of the Dendritic Cell Chromatin Landscape and Interferon Pathways During HIV Infection

doi: 10.1016/j.chom.2018.01.012

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: QuadroMACS Separator , Miltenyi Biotec, Inc , 130-090-976.

Techniques: Virus, Recombinant, Saline, High Molecular Weight, Electron Microscopy, SYBR Green Assay, Staining, Library Quantification, Next-Generation Sequencing, Fractionation, Plasmid Preparation, DNA Purification, Bicinchoninic Acid Protein Assay, Enzyme-linked Immunosorbent Assay, Luciferase, Infection, Sequencing, Cloning, Control, shRNA, Software, Flow Cytometry, Gene Expression, Microarray

Journal: Cell host & microbe

Article Title: Reshaping of the Dendritic Cell Chromatin Landscape and Interferon Pathways During HIV Infection

doi: 10.1016/j.chom.2018.01.012

Figure Lengend Snippet: KEY RESOURCES TABLE

Article Snippet: Rabbit monoclonal anti-phospho-IRF3 (Ser396) Clone 4D4G , Cell Signaling Technology , Cat# 4947S, RRID:AB_823547.

Techniques: Virus, Recombinant, Saline, High Molecular Weight, Electron Microscopy, SYBR Green Assay, Staining, Library Quantification, Next-Generation Sequencing, Fractionation, Plasmid Preparation, DNA Purification, Bicinchoninic Acid Protein Assay, Enzyme-linked Immunosorbent Assay, Luciferase, Infection, Sequencing, Cloning, Control, shRNA, Software, Flow Cytometry, Gene Expression, Microarray

Journal: Oncotarget

Article Title: The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis

doi: 10.18632/oncotarget.12769

Figure Lengend Snippet: A. Analysis of USP54 expression from microarray data (GEO accession number GSE27605). High, high Lgr5 or EphB2 receptor expression levels; Med, medium EphB2 receptor expression levels; Low, low Lgr5 or EphB2 receptor expression levels. B. qRT-PCR analysis of USP54 expression in two different colorectal carcinoma xenografts (SP5 and SP9), two-tailed Student's t-test (***, P < 0.001). C. Anchorage-independent growth of control (pLKO.1) and USP54-depleted HCT116 cells (shUSP54.854 and shUSP54.856), two-tailed Student's t-test (**, P < 0.01; ***, P < 0.001). RFU, relative fluorescence units. D. qRT-PCR analysis of USP54 expression in HCT116 cells transduced with control (pLKO.1) or USP54 -specific shRNAs (shUSP54.854 and shUSP54.856). Statistical significance was assessed by two-tailed Student's t-test (***, P < 0.001). E. MTT proliferation analysis of wild-type and USP54-deficient HCT116 cells, Mann Whitney-Wilcoxon test (**, P < 0.01). F. Average area of invasion of HCT116 cells transduced with empty vector (pLKO.1) or USP54 -specific shRNAs (shUSP54.854 and shUSP54.856). Mann Whitney-Wilcoxon test was used to analyze statistical significance (*, P < 0.05; **, P < 0.01). G. Tumor xenograft model performed with subcutaneously injected control and USP54-depleted HCT116 cells. Data are presented as mean ± SEM and statistical significance was assessed by using a non-parametric Mann Whitney-Wilcoxon test (*, P < 0.05).

Article Snippet: Then, qRT-PCR was performed using TaqMan ® gene expression assay for murine samples ( Usp54 , Mm00513373_m1) or Power SYBR ® Green PCR Master Mix for human cells (Life Technologies), using an Applied Biosystems 7300HT Real-Time PCR System.

Techniques: Expressing, Microarray, Quantitative RT-PCR, Two Tailed Test, Control, Fluorescence, Transduction, MANN-WHITNEY, Plasmid Preparation, Injection

Journal: Oncotarget

Article Title: The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis

doi: 10.18632/oncotarget.12769

Figure Lengend Snippet: A. , B. Kaplan-Meier survival curves for wild-type and Usp54-deficient males (A) and females (B). C. TaqMan-based qRT-PCR analysis of Usp54 in MEFs and liver tissues from Usp54 +/+ and Usp54 KF/KF mice. Data are represented as relative quantification, RQ ± SEM, two-tailed Student's t-test (**, P < 0.01). D. Body weight curves of Usp54 +/+ and Usp54 KF/KF female mice kept on standard diet. E. Body weight curves of Usp54 +/+ and Usp54 KF/KF female mice kept on high-fat diet and a representative image of females of each genotype at the end of the experiment. F. Total weight gain in the same animals. G. Percentage of gonadal and subscapular fat mass with respect to total body weight of the same animals. H. Mean adipocyte area in gonadal and skin fat. I. Representative histological images. Scale bar: 20 μm (gonadal fat) and 200 μm (skin fat). J. Average thickness of the subcutaneous fat deposits for each genotype. Statistical significance was assessed by a non-parametric Mann Whitney-Wilcoxon test (*, P < 0.05; **, P < 0.01; ***, P < 0.001).

Article Snippet: Then, qRT-PCR was performed using TaqMan ® gene expression assay for murine samples ( Usp54 , Mm00513373_m1) or Power SYBR ® Green PCR Master Mix for human cells (Life Technologies), using an Applied Biosystems 7300HT Real-Time PCR System.

Techniques: Quantitative RT-PCR, Quantitative Proteomics, Two Tailed Test, MANN-WHITNEY

Journal: Oncotarget

Article Title: The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis

doi: 10.18632/oncotarget.12769

Figure Lengend Snippet: A. Schematic representation of azoxymethane-induced colon tumor protocol. B. Percentage of animals with the indicated histological alterations. L-Dys, light dysplasia; S-Dys, severe dysplasia; Adeno, adenocarcinomas; Inf. Adeno., infiltrating adenocarcinomas. C. Percentage of infiltrating and mucosal tumors within all carcinomas of each genotype and representative histological images. Scale bar: 500 μm. D. Average number of adenocarcinomas per mouse. E. Length of the colon at the end of the experiment. F. Analysis of USP54 expression from 32 colorectal cancer patient samples, comprising pairs of tumor and matched normal mucosa (GEO accession GDS2947). G. Kaplan-Meier survival plot for 269 patients with intestinal cancer grouped as a function of quantile expressions of USP54 . Statistical significance was assessed by a non-parametric Mann Whitney-Wilcoxon test (*, P < 0.05; **, P < 0.01).

Article Snippet: Then, qRT-PCR was performed using TaqMan ® gene expression assay for murine samples ( Usp54 , Mm00513373_m1) or Power SYBR ® Green PCR Master Mix for human cells (Life Technologies), using an Applied Biosystems 7300HT Real-Time PCR System.

Techniques: Expressing, MANN-WHITNEY

Journal: Oncotarget

Article Title: The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis

doi: 10.18632/oncotarget.12769

Figure Lengend Snippet: A. TaqMan-based qRT-PCR analysis of Usp54 expression in B16F10 cells transduced with the indicated Usp54-specific shRNA or the empty lentiviral vector (pLKO.1) as a control. Data are represented as relative quantification, RQ ± SEM, two-tailed Student's t-test (***, P < 0.001). B. Number of metastases bigger than 200 μm in diameter. Statistical significance was assessed using a non-parametric Mann Whitney-Wilcoxon test (*, P < 0.05; ***, P < 0.001). C. Representative images of lungs and histological analysis for each condition. Scale bar: 200 μm.

Article Snippet: Then, qRT-PCR was performed using TaqMan ® gene expression assay for murine samples ( Usp54 , Mm00513373_m1) or Power SYBR ® Green PCR Master Mix for human cells (Life Technologies), using an Applied Biosystems 7300HT Real-Time PCR System.

Techniques: Quantitative RT-PCR, Expressing, Transduction, shRNA, Plasmid Preparation, Control, Quantitative Proteomics, Two Tailed Test, MANN-WHITNEY

Journal: Oncotarget

Article Title: The deubiquitinase USP54 is overexpressed in colorectal cancer stem cells and promotes intestinal tumorigenesis

doi: 10.18632/oncotarget.12769

Figure Lengend Snippet: Summary of USP54 genetic alterations found in human cancer. ACC, Adrenocortical Carcinoma; Adeno, Adenocarcinoma; CCLE, Cancer Cell Line Encyclopedia; chRCC, Kidney Chromophobe; CS, Carcinosarcoma; DESM, Desmoplastic Melanoma; MPNST, Malignant Peripheral Nerve Sheath Tumor; NEPC, Neuroendocrine Prostate Cancer; PAAC, Acinar Cell Carcinoma of the Pancreas; SC, Small Cell; Sq and Squ, Squamous Cell Carcinoma; ucs, Uterine Carcinosarcoma. Data were obtained from cBioportal ( http://cbioportal.org ).

Article Snippet: Then, qRT-PCR was performed using TaqMan ® gene expression assay for murine samples ( Usp54 , Mm00513373_m1) or Power SYBR ® Green PCR Master Mix for human cells (Life Technologies), using an Applied Biosystems 7300HT Real-Time PCR System.

Techniques: