microarray mrna data  (Jackson Laboratory)

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

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

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

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

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

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

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