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    Thermo Fisher oncomine research premium edition database
    (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD <t>–</t> <t>Prostate</t> adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the <t>Oncomine</t> database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).
    Oncomine Research Premium Edition Database, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/oncomine+research+premium+edition+database/oncomine+research+premium+edition+database/bio_rxiv__2025__03__05__641137-231-28-33
    Average 90 stars, based on 1 article reviews
    oncomine research premium edition database - by Bioz Stars, 2026-10
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    1) Product Images from "Thyroid Hormone Receptor Beta Signaling is a Targetable Driver of Prostate Cancer Growth"

    Article Title: Thyroid Hormone Receptor Beta Signaling is a Targetable Driver of Prostate Cancer Growth

    Journal: bioRxiv

    doi: 10.1101/2025.03.05.641137

    (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD – Prostate adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the Oncomine database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).
    Figure Legend Snippet: (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD – Prostate adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the Oncomine database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).

    Techniques Used: Derivative Assay, Sequencing, Protein-Protein interactions, Mutagenesis, Variant Assay, Immunohistochemistry, Expressing, Control

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    Gene Expression:

    Article Title: STAT3 restricts prostate cancer metastasis and antiandrogen resistance by controlling LKB1/CREB signaling pathway
    Article Snippet: .. Gene expression analysis of STAT3, PTEN, EIF4EBP1 and SIK3 was performed in various prostate cancer datasets representing normal, tumor or metastatic samples deposited in the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI). ..

    Article Title: Development of HDAC Inhibitors Exhibiting Therapeutic Potential in T-Cell Prolymphocytic Leukemia
    Article Snippet: .. HDAC gene expression data and associated statistical analyses were extracted from the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI),46,59 from the data sets described in Figure 7 using the following reporters: HDAC1 (201209_at), HDAC2 (201833_at), HDAC3 (216326_s_at), HDAC4 (204225_at), HDAC5 (202455_at), HDAC6 (206846_s_at), HDAC9 (205659_at), and HDAC11 (219847_at). ..

    Article Title: Development of HDAC Inhibitors Exhibiting Therapeutic Potential in T-Cell Prolymphocytic Leukemia
    Article Snippet: .. HDAC gene expression data and associated statistical analyses were extracted from the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) from the Durig Leukemia data set., ..

    Article Title: Development of HDAC Inhibitors Exhibiting Therapeutic Potential in T-Cell Prolymphocytic Leukemia
    Article Snippet: .. HDAC gene expression data and associated statistical analyses were extracted from the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI), , from the data sets described in Figure using the following reporters: HDAC1 (201209_at), HDAC2 (201833_at), HDAC3 (216326_s_at), HDAC4 (204225_at), HDAC5 (202455_at), HDAC6 (206846_s_at), HDAC9 (205659_at), and HDAC11 (219847_at). .. Statistical analysis was performed using two-way ANOVA with Tukey’s multiple comparisons test in GraphPad Prism 6.0 (GraphPad Software Inc.).

    Article Title: Thyroid Hormone Receptor Beta Signaling is a Targetable Driver of Prostate Cancer Growth
    Article Snippet: .. Gene expression data for THRB mRNA were extracted from various prostate cancer datasets (Grasso Prostate, Luo Prostate 2, Arredouani Prostate), including normal and tumor samples, using in the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) (10.1016/s1476-5586(04)80047-2). ..

    Article Title: Development of HDAC Inhibitors Exhibiting Therapeutic Potential in T-Cell Prolymphocytic Leukemia
    Article Snippet: .. HDAC gene expression data and associated statistical analyses were extracted from the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) from the Durig Leukemia data set.46,59 ■ ASSOCIATED CONTENT *sı Supporting Information The Supporting Information is available free of charge at https://pubs.acs.org/doi/10.1021/acs.jmedchem.1c00420. .. Raw data, structures of inhibitors, additional biochemical assay results, docking results, flow cytometry, pharmacokinetic evaluations, cytotoxicity assays, and compound characterizations (PDF) Molecular formula strings (CSV) In silico docking binding pose of 5 in human HDAC6 (PDB) In silico docking binding pose of 14 in human HDAC6 (PDB) In silico docking binding pose of 14 in human HDAC8 (PDB) In vitro IC50 values for 1−14, SAHA, ricolinostat, and citarinostat (XLSX) In vitro IC50 values for 14 and citarinostat (XLSX) Pharmacology of 14 and citarinostat (XLSX) Cellular IC50 values for 14 and citarinostat (XLSX) Pharmacokinetic parameters of 14 (XLSX) ■ AUTHOR INFORMATION Corresponding Authors Patrick T. Gunning − Department of Chemical and Physical Sciences, University of Toronto Mississauga, Mississauga, Ontario L5L 1C6, Canada; Department of Chemistry, University of Toronto, Toronto, Ontario M5S 3H6, Canada; Centre for Medicinal Chemistry, University of Toronto Mississauga, Mississauga, Ontario L5L 1C6, Canada; orcid.org/0000-0003-0654-735X; Phone: 905-828- 5354; Email: patrick.gunning@utoronto.ca Marco Herling − Department of Internal Medicine, Center for Integrated Oncology Aachen-Bonn-Cologne-Duesseldorf (CIO ABCD), University of Cologne (UoC), 50923 Cologne, Germany; Excellence Cluster for Cellular Stress Response and Aging-Associated Diseases (CECAD) and Center for Molecular Medicine Cologne (CMMC), UoC, 50923 Cologne, Germany; Email: marco.herling@uk-koeln.de Satu Mustjoki − Hematology Research Unit Helsinki, Helsinki University Hospital Comprehensive Cancer Center, Helsinki 00029, HUS, Finland; Translational Immunology Research Program and Department of Clinical Chemistry and Hematology, University of Helsinki, Helsinki 00014, Finland; iCAN Digital Precision Cancer Medicine Flagship, 00014 Helsinki, Finland; Email: satu.mustjoki@helsinki.fi Richard Moriggl − Institute of Animal Breeding and Genetics, University of Veterinary Medicine Vienna, A-1210 Vienna, Austria; Email: richard.moriggl@vetmeduni.ac.at

    other:

    Article Title: PDGFRβ promotes oncogenic progression via STAT3/STAT5 hyperactivation in anaplastic large cell lymphoma.
    Article Snippet: The following publicly avail‐ able datasets were used: the Piccaluga Lymphoma dataset [32] using the OncomineTM Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) [34] and the human genomic DNA methylation dataset retrieved from Hassler et al., 2016 (data analyzed and tracked on UCSC genome browser).

    Article Title: ABCC1 and glutathione metabolism limit the efficacy of BCL-2 inhibitors in acute myeloid leukemia
    Article Snippet: Gene expression data for ABCC1 were extracted from the Haferlach Leukemia, Valk Leukemia or TCGA Leukemia datasets (reporter: 202804_at) using the OncomineTM Research Premium Edition database (Thermo Fisher, USA) , accessed in July, 2021.



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    oncomine research premium edition database  (Thermo Fisher)
    90
    Thermo Fisher oncomine research premium edition database
    (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD <t>–</t> <t>Prostate</t> adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the <t>Oncomine</t> database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).
    Oncomine Research Premium Edition Database, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/oncomine+research+premium+edition+database/oncomine+research+premium+edition+database/bio_rxiv__2025__03__05__641137-231-28-33
    Average 90 stars, based on 1 article reviews
    oncomine research premium edition database - by Bioz Stars, 2026-10
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    oncomine™ research premium edition database  (Thermo Fisher)
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    Thermo Fisher oncomine™ research premium edition database
    a) GP130 gene expression in adjacent (n=52) and PCa (n=497) tissue in TCGA-PRAD data set. Statistical analysis of the two risk groups was determined by using the Mann-Whitney test. b) Kaplan-Meier plot showing time of disease-free survival in months for GP130 low and GP130 high risk groups of the TCGA-PRAD data set. Groups were assessed based on the maximally selected rank statistics. blue: high GP130 expressing group, red: low GP130 expressing group. The blue and red numbers below horizontal axis represent the number of patients. c) Proportion of GP130 alterations in the TCGA-PRAD data set. Mutation types: deep deletion (n=21; red), truncating mutations (n=2; black) and multiple alterations (n=1; grey). One patient has simultaneous mutations. The data originate from cBioPortal. d) GP130 mRNA expression levels of four different data sets of PCa patient samples compared to <t>healthy</t> <t>prostate</t> sample control. Normalized data and statistical analyses were extracted from the <t>Oncomine</t> Platform. The respective prostate data set and n-numbers are indicated. Representation: boxes as interquartile range, horizontal line as the mean, whiskers as lower and upper limits. e) Spearman-correlation analysis of GP130 and STAT3 expression in TCGA-PRAD data set using cBioPortal analysis tool.
    Oncomine™ Research Premium Edition Database, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/oncomine+research+premium+edition+database/bio_rxiv__2024__02__11__579838-281-17-22
    Average 90 stars, based on 1 article reviews
    oncomine™ research premium edition database - by Bioz Stars, 2026-10
    90/100 stars
    		  Buy from Supplier

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    (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD – Prostate adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the Oncomine database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).

    Journal: bioRxiv

    Article Title: Thyroid Hormone Receptor Beta Signaling is a Targetable Driver of Prostate Cancer Growth

    doi: 10.1101/2025.03.05.641137

    Figure Lengend Snippet: (A) Waterfall plot the most frequently mutated genes derived from whole exome sequencing of 102 treatment-naïve patients who had undergone radical prostatectomy. (B) Bubble plot of signaling pathways in which the SNV-affected genes from the same PCa patient cohort are enriched. Each bubble represents a pathway; the size corresponds to the number of genes affected by SNVs within that pathway, and the color indicates the number of patients affected. The x-axis represents the combined score, representing the significance and impact of the pathway mutations. Mutation impact ratings (high, moderate, low) were determined according to the Ensembl Variant Effect Predictor (VEP) classification. (C) THRB transcript levels across different cancer types (BLCA – Bladder urothelial carcinoma, BRCA – Breast invasive carcinoma, COAD – Colon adenocarcinoma, GBM – Glioblastoma multiforme, HNSC – Head and neck squamous cell carcinoma, LIHC – Liver hepatocellular carcinoma, LUAD – Lung squamous cell carcinoma, OV – Ovarian serous cystadenocarcinoma, PAAD – Pancreatic adenocarcinoma, PRAD – Prostate adenocarcinoma, TGCT – Testicular germ cell tumors, THCA – Thyroid carcinoma), source: GEPIA. Patient numbers in each cohort are listed in the supplementary table. (D) THRB mRNA levels extracted using the Oncomine database from three different datasets: Grasso et al. (Normal n = 26, PCa n = 59), Luo et al. (Normal n = 15, PCa n = 15), Arredouani et al. (Normal n = 8, PCa n = 13). (E) Representative IHC staining of TRβ in normal prostate and PCa tissue, low expression depicts H-score 20, high expression depicts H-score 300, scale bar 100 µm. (F) Histological scoring of IHC staining of TRβ sowing significantly higher TRβ expression in PCa patients (n = 230 slides) compared to healthy control tissue (n = 142 slides).

    Article Snippet: Gene expression data for THRB mRNA were extracted from various prostate cancer datasets (Grasso Prostate, Luo Prostate 2, Arredouani Prostate), including normal and tumor samples, using in the Oncomine Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) (10.1016/s1476-5586(04)80047-2).

    Techniques: Derivative Assay, Sequencing, Protein-Protein interactions, Mutagenesis, Variant Assay, Immunohistochemistry, Expressing, Control

    a) GP130 gene expression in adjacent (n=52) and PCa (n=497) tissue in TCGA-PRAD data set. Statistical analysis of the two risk groups was determined by using the Mann-Whitney test. b) Kaplan-Meier plot showing time of disease-free survival in months for GP130 low and GP130 high risk groups of the TCGA-PRAD data set. Groups were assessed based on the maximally selected rank statistics. blue: high GP130 expressing group, red: low GP130 expressing group. The blue and red numbers below horizontal axis represent the number of patients. c) Proportion of GP130 alterations in the TCGA-PRAD data set. Mutation types: deep deletion (n=21; red), truncating mutations (n=2; black) and multiple alterations (n=1; grey). One patient has simultaneous mutations. The data originate from cBioPortal. d) GP130 mRNA expression levels of four different data sets of PCa patient samples compared to healthy prostate sample control. Normalized data and statistical analyses were extracted from the Oncomine Platform. The respective prostate data set and n-numbers are indicated. Representation: boxes as interquartile range, horizontal line as the mean, whiskers as lower and upper limits. e) Spearman-correlation analysis of GP130 and STAT3 expression in TCGA-PRAD data set using cBioPortal analysis tool.

    Journal: bioRxiv

    Article Title: Cell-autonomous GP130 activation suppresses prostate cancer development via STAT3/ARF/p53-driven senescence and confers an immune-active tumor microenvironment

    doi: 10.1101/2024.02.11.579838

    Figure Lengend Snippet: a) GP130 gene expression in adjacent (n=52) and PCa (n=497) tissue in TCGA-PRAD data set. Statistical analysis of the two risk groups was determined by using the Mann-Whitney test. b) Kaplan-Meier plot showing time of disease-free survival in months for GP130 low and GP130 high risk groups of the TCGA-PRAD data set. Groups were assessed based on the maximally selected rank statistics. blue: high GP130 expressing group, red: low GP130 expressing group. The blue and red numbers below horizontal axis represent the number of patients. c) Proportion of GP130 alterations in the TCGA-PRAD data set. Mutation types: deep deletion (n=21; red), truncating mutations (n=2; black) and multiple alterations (n=1; grey). One patient has simultaneous mutations. The data originate from cBioPortal. d) GP130 mRNA expression levels of four different data sets of PCa patient samples compared to healthy prostate sample control. Normalized data and statistical analyses were extracted from the Oncomine Platform. The respective prostate data set and n-numbers are indicated. Representation: boxes as interquartile range, horizontal line as the mean, whiskers as lower and upper limits. e) Spearman-correlation analysis of GP130 and STAT3 expression in TCGA-PRAD data set using cBioPortal analysis tool.

    Article Snippet: Gene expression data for GP130 ( IL6ST ) were extracted from the following data sets using the Oncomine™ Research Premium Edition database (Thermo Fisher, Ann Arbor, MI) : Arredouani Prostate (reporter: 204863_s_at), Lapointe Prostate (reporter: IMAGE:2018581), Wallace Prostate (reporter: 204863_s_at), Varambally Prostate (reporter: 204863_s_at and 204864_s_at), Grasso Prostate (reporter: A_32_P140656), Holzbeierlein Prostate (reporter: 35842_at), Taylor Prostate 3 (reporter: 6733), Glinsky Prostate (reporter: 212196_at) and Best Prostate 2 (reporter: 212196_at).

    Techniques: Expressing, MANN-WHITNEY, Mutagenesis