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Biotechnology Information gene expression microarray experiments
Gene Expression Microarray Experiments, supplied by Biotechnology Information, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
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Microarray:

Article Title: Identification and experimental validation of ulcerative colitis-associated hub genes through integrated WGCNA and lysosomal autophagy analysis
Article Snippet: .. The microarray data were sourced from the National Center for Biotechnology Information Gene Expression Omnibus (NCBI-GEO, v5.12; https://www.ncbi.nlm.nih .gov/geo/), a publicly accessible database for gene expression profiling. ..

Article Title: Knockdown of eIF3a alleviates pulmonary arterial hypertension by inhibiting endothelial-to-mesenchymal transition via TGFβ1/SMAD pathway
Article Snippet: .. Microarray data set of IPAH ( GSE113439 ) was downloaded from Gene Expression Omnibus (GEO) database at the National Center for Biotechnology Information (NCBI) ( http://www.ncbi.nlm.nih.gov/geo/ ). ..

Article Title: Identification and experimental validation of ulcerative colitis-associated hub genes through integrated WGCNA and lysosomal autophagy analysis.
Article Snippet: .. The microarray data were sourced from the National Center for Biotechnology Information Gene Expression Omnibus (NCBI-GEO, v5.12; https:// www. ncbi. nlm. nih.gov/geo/), a publicly accessible database for gene expression profiling. ..

Article Title: Critical Immune Checkpoints Linked with NK and T Cells for Overall Survival of Breast Cancer Subtypes
Article Snippet: .. Data Availability Statement: Publicly available microarray datasets is deposited in the National Center for Biotechnology Information GEO database (http://www.ncbi.nlm.nih.gov/geo/, accessed on 27 January 2021). ..

Article Title: Metabolism and response to stress gene signatures reveal ulcerative colitis heterogeneity and identify patients with increased response to therapy
Article Snippet: .. Publicly available microarray gene expression datasets used to predict response to ustekinumab ( GSE206285 ) and anti-TNF therapies ( GSE16879 , GSE23597 , GSE73661 , and GSE92415 ) were obtained from the National Center for Biotechnology Information Gene Expression Omnibus (GEO) data repository. ..

Article Title: Critical Immune Checkpoints Linked with NK and T Cells for Overall Survival of Breast Cancer Subtypes
Article Snippet: .. Data analysis was performed on publicly available microarray datasets that were deposited in the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) (http://www.ncbi.nlm.nih.gov/geo/, accessed on 25 January 2019) database under accession number GSE12777 for breast cancer cell lines (9 basal-like TNBC; 6 mesenchymal TNBC; 7 luminal androgen receptor TNBC; 11 HER2; 12 luminal A; 5 luminal B cell lines). ..

Article Title: Metabolism and response to stress gene signatures reveal ulcerative colitis heterogeneity and identify patients with increased response to therapy
Article Snippet: .. Publicly available microarray gene expression datasets that were used to predict response to ustekinumab ( GSE206285 ) and anti-TNF therapies ( GSE16879 , GSE23597 , GSE73661 , and GSE92415 ) were obtained from the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) data repository: https://www.ncbi.nlm.nih.gov/geo/ . .. The andecaliximab (GS-5745) dataset was provided by Gilead Sciences, Inc. by permission, and will be shared on request to the corresponding author with permission of Gilead Sciences, Inc.

Gene Expression:

Article Title: Identification and experimental validation of ulcerative colitis-associated hub genes through integrated WGCNA and lysosomal autophagy analysis
Article Snippet: .. The microarray data were sourced from the National Center for Biotechnology Information Gene Expression Omnibus (NCBI-GEO, v5.12; https://www.ncbi.nlm.nih .gov/geo/), a publicly accessible database for gene expression profiling. ..

Article Title: Knockdown of eIF3a alleviates pulmonary arterial hypertension by inhibiting endothelial-to-mesenchymal transition via TGFβ1/SMAD pathway
Article Snippet: .. Microarray data set of IPAH ( GSE113439 ) was downloaded from Gene Expression Omnibus (GEO) database at the National Center for Biotechnology Information (NCBI) ( http://www.ncbi.nlm.nih.gov/geo/ ). ..

Article Title: Identification and experimental validation of ulcerative colitis-associated hub genes through integrated WGCNA and lysosomal autophagy analysis.
Article Snippet: .. The microarray data were sourced from the National Center for Biotechnology Information Gene Expression Omnibus (NCBI-GEO, v5.12; https:// www. ncbi. nlm. nih.gov/geo/), a publicly accessible database for gene expression profiling. ..

Article Title: Metabolism and response to stress gene signatures reveal ulcerative colitis heterogeneity and identify patients with increased response to therapy
Article Snippet: .. Publicly available microarray gene expression datasets used to predict response to ustekinumab ( GSE206285 ) and anti-TNF therapies ( GSE16879 , GSE23597 , GSE73661 , and GSE92415 ) were obtained from the National Center for Biotechnology Information Gene Expression Omnibus (GEO) data repository. ..

Article Title: Critical Immune Checkpoints Linked with NK and T Cells for Overall Survival of Breast Cancer Subtypes
Article Snippet: .. Data analysis was performed on publicly available microarray datasets that were deposited in the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) (http://www.ncbi.nlm.nih.gov/geo/, accessed on 25 January 2019) database under accession number GSE12777 for breast cancer cell lines (9 basal-like TNBC; 6 mesenchymal TNBC; 7 luminal androgen receptor TNBC; 11 HER2; 12 luminal A; 5 luminal B cell lines). ..

Article Title: Metabolism and response to stress gene signatures reveal ulcerative colitis heterogeneity and identify patients with increased response to therapy
Article Snippet: .. Publicly available microarray gene expression datasets that were used to predict response to ustekinumab ( GSE206285 ) and anti-TNF therapies ( GSE16879 , GSE23597 , GSE73661 , and GSE92415 ) were obtained from the National Center for Biotechnology Information (NCBI) Gene Expression Omnibus (GEO) data repository: https://www.ncbi.nlm.nih.gov/geo/ . .. The andecaliximab (GS-5745) dataset was provided by Gilead Sciences, Inc. by permission, and will be shared on request to the corresponding author with permission of Gilead Sciences, Inc.

other:

Article Title: A mechanism of global gene expression regulation is disrupted by multiple disease states and drug treatments.
Article Snippet: Microarray-based gene expression datasets were downloaded from Gene Expression Omnibus (GEO, hosted by the National Center for Biotechnology Information, NCBI) [43].



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ZEB1-AS1 sponges miR-141-3p in CRC cells. ( A ) Nuclear and cytoplasmic fractionation was analyzed for ZEB1-AS1 expression in SW480 and LOVO. ( B ) The <t>microRNA</t> array analysis in normal and tumor tissues. ( C ) The potential binding sites between ZEB1-AS1 and miR-141-3p. ( D ) The expressions of miR-141-3p in CRC tissues were detected by RT-qPCR. ( E ) Luciferase reporter assay showed ZEB1-AS1-wt activity was impaired by miR-141-3p. ( F ) The expression of miR-141-3p in SW480 and LOVO was upregulated after ZEB1-AS1 expression was downregulated identified by RT-qPCR. ( G ) The expression of miR-141-3p was negatively correlated with ZEB1-AS1 expression in CRC tissues. * P < 0.05.
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ABCG2 upregulation is associated with SIK3 attenuation. (A) List of ABC family proteins from <t>microarray</t> data for which the expression changed more than 1.5-fold compared with control cells. (B) The mRNA expression levels of ABC proteins were verified by real-time PCR in OVCAR4 and SKOV3 cells. The white bar (shLuc) represents control cells, and the gray bar (shSIK3#01) and black bar (shSIK3#61) represent indicated cells with SIK3 knockdown. Data are represented as the mean ± SEM from three independent experiments and analyzed by one-way ANOVA. *: p <0.05 and **: p <0.01 (compared to the shLuc control). Note that ABCG1 and ABCG2 were both significantly upregulated in cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (C) The protein expression levels of ABCG1 and ABCG2 were further verified by Western blotting. Note that only ABCG2 was upregulated in OVCAR4 and SKOV3 cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (D) The functional MDR activity of the ABCG2 protein was determined using an MDR assay kit (Abcam). A total of 2 x 10 5 suspended cells were pretreated with the inhibitor novobiocin (50 nM) or DMSO. Then, diluted Efflux Gold Detection Reagent was added at 37°C for 30 minutes. The cellular orange fluorescence signal of the Efflux Gold Detection Reagent was measured immediately by flow cytometry in the living (PI-negative) cell population. The numbers in the upper left corners are MAF values.
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ZEB1-AS1 sponges miR-141-3p in CRC cells. ( A ) Nuclear and cytoplasmic fractionation was analyzed for ZEB1-AS1 expression in SW480 and LOVO. ( B ) The microRNA array analysis in normal and tumor tissues. ( C ) The potential binding sites between ZEB1-AS1 and miR-141-3p. ( D ) The expressions of miR-141-3p in CRC tissues were detected by RT-qPCR. ( E ) Luciferase reporter assay showed ZEB1-AS1-wt activity was impaired by miR-141-3p. ( F ) The expression of miR-141-3p in SW480 and LOVO was upregulated after ZEB1-AS1 expression was downregulated identified by RT-qPCR. ( G ) The expression of miR-141-3p was negatively correlated with ZEB1-AS1 expression in CRC tissues. * P < 0.05.

Journal: International Journal of Medical Sciences

Article Title: Long noncoding RNA ZEB1-AS1 acts as a Sponge of miR-141-3p to Inhibit Cell Proliferation in Colorectal Cancer

doi: 10.7150/ijms.46698

Figure Lengend Snippet: ZEB1-AS1 sponges miR-141-3p in CRC cells. ( A ) Nuclear and cytoplasmic fractionation was analyzed for ZEB1-AS1 expression in SW480 and LOVO. ( B ) The microRNA array analysis in normal and tumor tissues. ( C ) The potential binding sites between ZEB1-AS1 and miR-141-3p. ( D ) The expressions of miR-141-3p in CRC tissues were detected by RT-qPCR. ( E ) Luciferase reporter assay showed ZEB1-AS1-wt activity was impaired by miR-141-3p. ( F ) The expression of miR-141-3p in SW480 and LOVO was upregulated after ZEB1-AS1 expression was downregulated identified by RT-qPCR. ( G ) The expression of miR-141-3p was negatively correlated with ZEB1-AS1 expression in CRC tissues. * P < 0.05.

Article Snippet: Shanghai Biotechnology Co., Ltd conducted the microRNA microarray gene expression experiments and data analysis.

Techniques: Fractionation, Expressing, Binding Assay, Quantitative RT-PCR, Luciferase, Reporter Assay, Activity Assay

ABCG2 upregulation is associated with SIK3 attenuation. (A) List of ABC family proteins from microarray data for which the expression changed more than 1.5-fold compared with control cells. (B) The mRNA expression levels of ABC proteins were verified by real-time PCR in OVCAR4 and SKOV3 cells. The white bar (shLuc) represents control cells, and the gray bar (shSIK3#01) and black bar (shSIK3#61) represent indicated cells with SIK3 knockdown. Data are represented as the mean ± SEM from three independent experiments and analyzed by one-way ANOVA. *: p <0.05 and **: p <0.01 (compared to the shLuc control). Note that ABCG1 and ABCG2 were both significantly upregulated in cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (C) The protein expression levels of ABCG1 and ABCG2 were further verified by Western blotting. Note that only ABCG2 was upregulated in OVCAR4 and SKOV3 cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (D) The functional MDR activity of the ABCG2 protein was determined using an MDR assay kit (Abcam). A total of 2 x 10 5 suspended cells were pretreated with the inhibitor novobiocin (50 nM) or DMSO. Then, diluted Efflux Gold Detection Reagent was added at 37°C for 30 minutes. The cellular orange fluorescence signal of the Efflux Gold Detection Reagent was measured immediately by flow cytometry in the living (PI-negative) cell population. The numbers in the upper left corners are MAF values.

Journal: Journal of Cancer

Article Title: Downregulated Salt-inducible Kinase 3 Expression Promotes Chemoresistance in Serous Ovarian Cancer via the ATP‐binding Cassette Protein ABCG2

doi: 10.7150/jca.34886

Figure Lengend Snippet: ABCG2 upregulation is associated with SIK3 attenuation. (A) List of ABC family proteins from microarray data for which the expression changed more than 1.5-fold compared with control cells. (B) The mRNA expression levels of ABC proteins were verified by real-time PCR in OVCAR4 and SKOV3 cells. The white bar (shLuc) represents control cells, and the gray bar (shSIK3#01) and black bar (shSIK3#61) represent indicated cells with SIK3 knockdown. Data are represented as the mean ± SEM from three independent experiments and analyzed by one-way ANOVA. *: p <0.05 and **: p <0.01 (compared to the shLuc control). Note that ABCG1 and ABCG2 were both significantly upregulated in cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (C) The protein expression levels of ABCG1 and ABCG2 were further verified by Western blotting. Note that only ABCG2 was upregulated in OVCAR4 and SKOV3 cells with SIK3 knocked down by shSIK3#01 and shSIK3#61. (D) The functional MDR activity of the ABCG2 protein was determined using an MDR assay kit (Abcam). A total of 2 x 10 5 suspended cells were pretreated with the inhibitor novobiocin (50 nM) or DMSO. Then, diluted Efflux Gold Detection Reagent was added at 37°C for 30 minutes. The cellular orange fluorescence signal of the Efflux Gold Detection Reagent was measured immediately by flow cytometry in the living (PI-negative) cell population. The numbers in the upper left corners are MAF values.

Article Snippet: TRIzol-isolated RNA samples were shipped on dry ice to Welgene Biotech (Taiwan), where the gene expression microarray experiments were performed as a contract service.

Techniques: Microarray, Expressing, Control, Real-time Polymerase Chain Reaction, Knockdown, Western Blot, Functional Assay, Activity Assay, Fluorescence, Flow Cytometry