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mrna microarray data  (Illumina Inc)


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    Structured Review

    Illumina Inc mrna microarray data
    WGCNA analysis <t>mRNA</t> <t>microarray</t> data of GSE20129. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 5. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation
    Mrna Microarray Data, supplied by Illumina Inc, 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/microarray+mrna+data/mrna+microarrays/pmc07988968-57-9-19
    Average 90 stars, based on 1 article reviews
    mrna microarray data - by Bioz Stars, 2026-09
    90/100 stars

    Images

    1) Product Images from "A 2 miRNAs-based signature for the diagnosis of atherosclerosis"

    Article Title: A 2 miRNAs-based signature for the diagnosis of atherosclerosis

    Journal: BMC Cardiovascular Disorders

    doi: 10.1186/s12872-021-01960-4

    WGCNA analysis mRNA microarray data of GSE20129. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 5. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation
    Figure Legend Snippet: WGCNA analysis mRNA microarray data of GSE20129. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 5. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Techniques Used: Microarray

    WGCNA analysis miRNA microarray data of GSE59421. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 18. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation
    Figure Legend Snippet: WGCNA analysis miRNA microarray data of GSE59421. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 18. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Techniques Used: Microarray

    Related Articles

    Mutagenesis:

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [ ], while Illumina mRNA array data from the validation cohort have been published previously [ ]. ..

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation.
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [21], while Illumina mRNA array data from the validation cohort have been published previously [22]. ..

    Article Title: Desmoplakin mutations in cardiac fibroblasts cause TGFβ1-mediated pathological fibrogenesis in desmoplakin cardiomyopathy via beclin-1 regulation
    Article Snippet: .. To obtain a global view of how DSP deficiency affects the gene expression networks (Figures S6E-F and S7), we used Illumina mRNA expression microarrays to profile iPSC-MSCs from DSP R160X proband, DSP R160X proband’s mother (carrying the same heterozygous DSP mutation but with no clinical ACM), DSP E1159R proband, and the normal (SW) line at baseline to find common deregulated pathways. ..

    RNA Sequencing:

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [ ], while Illumina mRNA array data from the validation cohort have been published previously [ ]. ..

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation.
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [21], while Illumina mRNA array data from the validation cohort have been published previously [22]. ..

    Biomarker Discovery:

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [ ], while Illumina mRNA array data from the validation cohort have been published previously [ ]. ..

    Article Title: Th2 Cells Are Associated with Tumor Recurrence Following Radiation.
    Article Snippet: .. Tumor mutation and RNA-seq data available for the discovery cohort and the TCGA cohort have been previously described and downloaded from cBioPortal [21], while Illumina mRNA array data from the validation cohort have been published previously [22]. ..

    other:

    Article Title: Identification of a Gene Expression Signature to Predict the Risk of Early Recurrence and the Degree of Immune Cell Infiltration in Triple-negative Breast Cancer.
    Article Snippet: Microarray mRNA expression levels of 20,603 genes, expressed as log intensity levels, were obtained from the data_mrna_illumina_microarray.txt file.

    Expressing:

    Article Title: MARCH2, a Novel Oncogene-regulated SNAIL E3 Ligase, Suppresses Triple-negative Breast Cancer Metastases
    Article Snippet: .. The mRNA expression was profiled using Illumina HT-12 v3 platforms. ..

    Article Title: Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array
    Article Snippet: .. For example, polymorphisms throughout the interval of hybridization have been shown to affect the binding of probes used in Illumina mRNA expression arrays [ ], which have the same probe lengths as the 450 k array. .. Similar effects have also been observed in Affymetrix mRNA expression arrays (Affymetrix, Santa Clara, CA, USA), although these use shorter probes that might be more sensitive to sequence mismatches [ ].

    Article Title: Desmoplakin mutations in cardiac fibroblasts cause TGFβ1-mediated pathological fibrogenesis in desmoplakin cardiomyopathy via beclin-1 regulation
    Article Snippet: .. To obtain a global view of how DSP deficiency affects the gene expression networks (Figures S6E-F and S7), we used Illumina mRNA expression microarrays to profile iPSC-MSCs from DSP R160X proband, DSP R160X proband’s mother (carrying the same heterozygous DSP mutation but with no clinical ACM), DSP E1159R proband, and the normal (SW) line at baseline to find common deregulated pathways. ..

    Article Title: Deep sequencing of gastric carcinoma reveals somatic mutations relevant to personalized medicine
    Article Snippet: .. We took a global approach by assaying the samples on affymetrix SNP arrays and Illumina mRNA expression arrays. ..

    Hybridization:

    Article Title: Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array
    Article Snippet: .. For example, polymorphisms throughout the interval of hybridization have been shown to affect the binding of probes used in Illumina mRNA expression arrays [ ], which have the same probe lengths as the 450 k array. .. Similar effects have also been observed in Affymetrix mRNA expression arrays (Affymetrix, Santa Clara, CA, USA), although these use shorter probes that might be more sensitive to sequence mismatches [ ].

    Binding Assay:

    Article Title: Additional annotation enhances potential for biologically-relevant analysis of the Illumina Infinium HumanMethylation450 BeadChip array
    Article Snippet: .. For example, polymorphisms throughout the interval of hybridization have been shown to affect the binding of probes used in Illumina mRNA expression arrays [ ], which have the same probe lengths as the 450 k array. .. Similar effects have also been observed in Affymetrix mRNA expression arrays (Affymetrix, Santa Clara, CA, USA), although these use shorter probes that might be more sensitive to sequence mismatches [ ].

    Gene Expression:

    Article Title: Desmoplakin mutations in cardiac fibroblasts cause TGFβ1-mediated pathological fibrogenesis in desmoplakin cardiomyopathy via beclin-1 regulation
    Article Snippet: .. To obtain a global view of how DSP deficiency affects the gene expression networks (Figures S6E-F and S7), we used Illumina mRNA expression microarrays to profile iPSC-MSCs from DSP R160X proband, DSP R160X proband’s mother (carrying the same heterozygous DSP mutation but with no clinical ACM), DSP E1159R proband, and the normal (SW) line at baseline to find common deregulated pathways. ..



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    Image Search Results


    Dutasteride, a 5α-reductase inhibitor, reverses the increase in growth and proliferation of bladder cancer cell lines induced by testosterone treatment A mRNA expression analysis of androgen receptor (AR) and SLC39A9 (mAR) in normal bladder and cancer cell lines. The relative expression level was normalized against the housekeeping gene GAPDH. N = 3. B , C Proliferation of T24 and J82 bladder cancer cells with or without 10 nM testosterone (T) and 1 μM dutasteride was analyzed by counting the number of cells every 24 h for 3 days with trypan blue exclusion. Two-way ANOVA followed by Tukey's multiple comparison tests. N = 3. D – G Bladder cancer cell colonies were cultured with or without 10 nM testosterone and 1 μM dutasteride and the number of colonies after 2 weeks was quantified. N = 3. One-way ANOVA followed by Tukey’s post-hoc test. All values are shown as mean ± SD of three independent experiments. *p < 0.05, **p < 0.01, ***p < 0.001

    Journal: Journal of Translational Medicine

    Article Title: Anti-oncogenic effects of dutasteride, a dual 5-alpha reductase inhibitor and a drug for benign prostate hyperplasia, in bladder cancer

    doi: 10.1186/s12967-023-03972-4

    Figure Lengend Snippet: Dutasteride, a 5α-reductase inhibitor, reverses the increase in growth and proliferation of bladder cancer cell lines induced by testosterone treatment A mRNA expression analysis of androgen receptor (AR) and SLC39A9 (mAR) in normal bladder and cancer cell lines. The relative expression level was normalized against the housekeeping gene GAPDH. N = 3. B , C Proliferation of T24 and J82 bladder cancer cells with or without 10 nM testosterone (T) and 1 μM dutasteride was analyzed by counting the number of cells every 24 h for 3 days with trypan blue exclusion. Two-way ANOVA followed by Tukey's multiple comparison tests. N = 3. D – G Bladder cancer cell colonies were cultured with or without 10 nM testosterone and 1 μM dutasteride and the number of colonies after 2 weeks was quantified. N = 3. One-way ANOVA followed by Tukey’s post-hoc test. All values are shown as mean ± SD of three independent experiments. *p < 0.05, **p < 0.01, ***p < 0.001

    Article Snippet: The mRNA microarray data of steroid 5 alpha reductase 1, 2 (SRD5A1 and SRD5A2) in BCa and normal tissues were acquired from the Oncomine database version 4.5 (Thermo Fisher Scientific Inc., MI, USA) [ , ] and analyzed using the Gene Expression Profiling Interactive Analysis (GEPIA, Beijing, China) [ ].

    Techniques: Expressing, Comparison, Cell Culture

    Expression of Steroidal 5α-reductase 1 ( SRD5A1 ) and correlation with survival rate in patients with bladder cancer A Reverse transcription-polymerase chain reaction (RT-PCR) was used to measure relative SRD5A1 mRNA expression in the human urothelial cell line, SV-HUC1, and bladder cancer cell lines, T24 and J82, and relative mRNA expression was calculated against glyceraldehyde 3-phosphate dehydrogenase ( GAPDH ). N = 3. B – D mRNA expression levels of SRD5A1 in bladder cancer tissues compared with normal tissues. Data were obtained from the Gene Expression Profiling Interactive Analysis (GEPIA) and Oncomine webtool and were statistically determined as fold-change threshold > 1.5 in the Oncomine dataset and p -value < 0.05 in all databases. E – G Survival rate of patients with bladder cancer in groups with high and low SRD5A1 expression from different datasets obtained from the R2 database. p -values are shown in the graphs

    Journal: Journal of Translational Medicine

    Article Title: Anti-oncogenic effects of dutasteride, a dual 5-alpha reductase inhibitor and a drug for benign prostate hyperplasia, in bladder cancer

    doi: 10.1186/s12967-023-03972-4

    Figure Lengend Snippet: Expression of Steroidal 5α-reductase 1 ( SRD5A1 ) and correlation with survival rate in patients with bladder cancer A Reverse transcription-polymerase chain reaction (RT-PCR) was used to measure relative SRD5A1 mRNA expression in the human urothelial cell line, SV-HUC1, and bladder cancer cell lines, T24 and J82, and relative mRNA expression was calculated against glyceraldehyde 3-phosphate dehydrogenase ( GAPDH ). N = 3. B – D mRNA expression levels of SRD5A1 in bladder cancer tissues compared with normal tissues. Data were obtained from the Gene Expression Profiling Interactive Analysis (GEPIA) and Oncomine webtool and were statistically determined as fold-change threshold > 1.5 in the Oncomine dataset and p -value < 0.05 in all databases. E – G Survival rate of patients with bladder cancer in groups with high and low SRD5A1 expression from different datasets obtained from the R2 database. p -values are shown in the graphs

    Article Snippet: The mRNA microarray data of steroid 5 alpha reductase 1, 2 (SRD5A1 and SRD5A2) in BCa and normal tissues were acquired from the Oncomine database version 4.5 (Thermo Fisher Scientific Inc., MI, USA) [ , ] and analyzed using the Gene Expression Profiling Interactive Analysis (GEPIA, Beijing, China) [ ].

    Techniques: Expressing, Reverse Transcription, Polymerase Chain Reaction, Reverse Transcription Polymerase Chain Reaction, Gene Expression

    Effects of SRD5A1 silencing in T24 and J82 bladder cancer cell lines A , B Gene expression of SRD5A1 in shSRD5A1-transduced and control (Scr) cells was analyzed using reverse transcription-polymerase chain reaction (RT-PCR). The PCR products were run in an agarose gel ( A ) and the relative mRNA expression of SRD5A1 was normalized against GAPDH ( B ). N = 3. C The number of SRD5A1 -silenced cells and control cells was counted after trypan blue exclusion for 3 days. N = 3. D Representative images from the colony forming unit assay and quantification of the number of colonies in shSRD5A1-transduced and control Scr cells. N = 3. E Cell closure analysis. The upper panels represent wound closure of control and SRD5A1- silenced cells, and the closure rates are indicated in the bottom panel. N T24 = 4. N J82 = 3 F Migration analysis in T24 and J82 control and shSRD5A1 cells using transwell. The upper panels show representative images of the migration analysis and the relative migrated area is shown in the bottom panel. N = 3. All values are expressed as mean ± SD of at least three independent experiments, and statistical significance was analyzed using ordinary one-way ANOVA and two-way ANOVA. (* p < 0.05; ** p < 0.01; *** p < 0.001; **** p < 0.0001)

    Journal: Journal of Translational Medicine

    Article Title: Anti-oncogenic effects of dutasteride, a dual 5-alpha reductase inhibitor and a drug for benign prostate hyperplasia, in bladder cancer

    doi: 10.1186/s12967-023-03972-4

    Figure Lengend Snippet: Effects of SRD5A1 silencing in T24 and J82 bladder cancer cell lines A , B Gene expression of SRD5A1 in shSRD5A1-transduced and control (Scr) cells was analyzed using reverse transcription-polymerase chain reaction (RT-PCR). The PCR products were run in an agarose gel ( A ) and the relative mRNA expression of SRD5A1 was normalized against GAPDH ( B ). N = 3. C The number of SRD5A1 -silenced cells and control cells was counted after trypan blue exclusion for 3 days. N = 3. D Representative images from the colony forming unit assay and quantification of the number of colonies in shSRD5A1-transduced and control Scr cells. N = 3. E Cell closure analysis. The upper panels represent wound closure of control and SRD5A1- silenced cells, and the closure rates are indicated in the bottom panel. N T24 = 4. N J82 = 3 F Migration analysis in T24 and J82 control and shSRD5A1 cells using transwell. The upper panels show representative images of the migration analysis and the relative migrated area is shown in the bottom panel. N = 3. All values are expressed as mean ± SD of at least three independent experiments, and statistical significance was analyzed using ordinary one-way ANOVA and two-way ANOVA. (* p < 0.05; ** p < 0.01; *** p < 0.001; **** p < 0.0001)

    Article Snippet: The mRNA microarray data of steroid 5 alpha reductase 1, 2 (SRD5A1 and SRD5A2) in BCa and normal tissues were acquired from the Oncomine database version 4.5 (Thermo Fisher Scientific Inc., MI, USA) [ , ] and analyzed using the Gene Expression Profiling Interactive Analysis (GEPIA, Beijing, China) [ ].

    Techniques: Gene Expression, Control, Reverse Transcription, Polymerase Chain Reaction, Reverse Transcription Polymerase Chain Reaction, Agarose Gel Electrophoresis, Expressing, Colony-forming Unit Assay, Migration

     microRNA  and gene expression  microarray  datasets related to idiopathic pulmonary fibrosis.

    Journal: Mediators of Inflammation

    Article Title: Analysis of Microarray-Identified Genes and MicroRNAs Associated with Idiopathic Pulmonary Fibrosis

    doi: 10.1155/2017/1804240

    Figure Lengend Snippet: microRNA and gene expression microarray datasets related to idiopathic pulmonary fibrosis.

    Article Snippet: Microarray data from IPF-related microRNA and mRNA expression profiles were retrieved and downloaded from the National Center for Biotechnology Information (NCBI) GEO database ( http://www.ncbi.nlmNih.gov/geo ).

    Techniques: Expressing, Microarray

    Identification of Lnc-DIF, which was associated with bone formation reduction (A) Selected area of mRNA array (up) and LncRNA array (bottom) heatmap for MACF1-knockdown MC3T3-E1 cell (KD1–KD3) and negative control (C1–C3). (B) Result of Gene Co-expression Networks analysis for LncRNA array and osteogenic mRNA array data. (C) Expression levels of LncRNA in BMSCs of 6- and 18-month-old male C57BL/6 mice, as detected by RT-PCR (mean ± SD, ∗∗p < 0.01, ∗∗∗p < 0.001, N = 3). (D) Expression levels of LncRNA in BMSCs of OVX C57BL/6 mice, as detected by RT-PCR (mean ± SD, ∗p < 0.05, ∗∗p < 0.01, ∗∗∗p < 0.001, N = 3). Sham: sham OVX operation group. OVX: OVX group. (E–H) Correlation analysis between Lnc-DIF levels and Col Iα1 , Runx2 , Alp, and Ocn mRNA levels in femur tissues from C57BL/6 mice, as detected by RT-PCR.

    Journal: iScience

    Article Title: Long noncoding RNA Lnc-DIF inhibits bone formation by sequestering miR-489-3p

    doi: 10.1016/j.isci.2022.103949

    Figure Lengend Snippet: Identification of Lnc-DIF, which was associated with bone formation reduction (A) Selected area of mRNA array (up) and LncRNA array (bottom) heatmap for MACF1-knockdown MC3T3-E1 cell (KD1–KD3) and negative control (C1–C3). (B) Result of Gene Co-expression Networks analysis for LncRNA array and osteogenic mRNA array data. (C) Expression levels of LncRNA in BMSCs of 6- and 18-month-old male C57BL/6 mice, as detected by RT-PCR (mean ± SD, ∗∗p < 0.01, ∗∗∗p < 0.001, N = 3). (D) Expression levels of LncRNA in BMSCs of OVX C57BL/6 mice, as detected by RT-PCR (mean ± SD, ∗p < 0.05, ∗∗p < 0.01, ∗∗∗p < 0.001, N = 3). Sham: sham OVX operation group. OVX: OVX group. (E–H) Correlation analysis between Lnc-DIF levels and Col Iα1 , Runx2 , Alp, and Ocn mRNA levels in femur tissues from C57BL/6 mice, as detected by RT-PCR.

    Article Snippet: Supplemental mRNA microarray data , This paper; Mendeley Data , E-MTAB-11425.

    Techniques: Knockdown, Negative Control, Expressing, Reverse Transcription Polymerase Chain Reaction

    WGCNA analysis mRNA microarray data of GSE20129. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 5. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Journal: BMC Cardiovascular Disorders

    Article Title: A 2 miRNAs-based signature for the diagnosis of atherosclerosis

    doi: 10.1186/s12872-021-01960-4

    Figure Lengend Snippet: WGCNA analysis mRNA microarray data of GSE20129. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 5. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Article Snippet: The cluster analysis was also conducted based on the mRNA microarray data of 119 samples from GSE20129 detected by Illumina humanRef-8 v2.0 expression beadchip platforms, in which two outlier samples were excluded in the subsequent analysis (Fig. a).

    Techniques: Microarray

    WGCNA analysis miRNA microarray data of GSE59421. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 18. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Journal: BMC Cardiovascular Disorders

    Article Title: A 2 miRNAs-based signature for the diagnosis of atherosclerosis

    doi: 10.1186/s12872-021-01960-4

    Figure Lengend Snippet: WGCNA analysis miRNA microarray data of GSE59421. a Schematic diagram of clustering analysis was shown. b Schematic diagram of soft threshold screening was shown, in which the red line in the figure was the correlation coefficient, and the first point above the red line was the soft threshold β = 18. c Schematic diagram of gene module clustering was shown, in which each color represented a module, the genes in the gray module were genes that were not clustered into any module. d The heatmap of the correlation between the gene module and the phenotype was shown, in which the color of red and blue represented the phenotypic correlation

    Article Snippet: The cluster analysis was also conducted based on the mRNA microarray data of 119 samples from GSE20129 detected by Illumina humanRef-8 v2.0 expression beadchip platforms, in which two outlier samples were excluded in the subsequent analysis (Fig. a).

    Techniques: Microarray