human 20 k cdna microarray  (Johns Hopkins HealthCare)

Journal: Non-Coding RNA

Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

doi: 10.3390/ncrna10020025

Figure Lengend Snippet: Top ten upregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

Article Snippet: In this study, purified total RNAs of both the SW480/DR and SW480/DS cells were analyzed using Agilent SurePrint G3 Human Gene Expression v3 8x60k format cDNA microarray and processed in the Agilent GeneSpring GX v14.9.1 software.

Techniques: Microarray, Software

Journal: Non-Coding RNA

Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

doi: 10.3390/ncrna10020025

Figure Lengend Snippet: Top ten downregulated lncRNAs and mRNAs and their respective fold-changes and p -values based on the cDNA microarray dataset. The transcripts were statistically analyzed in the Agilent GeneSpring GX (v14.9.1) software using moderated t -test and Benjamin–Hochberg multiple testing corrections and had satisfied the p -value of <0.05 and fold-change cutoff of ±2.00. Data shown are from four independent experiments.

Article Snippet: In this study, purified total RNAs of both the SW480/DR and SW480/DS cells were analyzed using Agilent SurePrint G3 Human Gene Expression v3 8x60k format cDNA microarray and processed in the Agilent GeneSpring GX v14.9.1 software.

Techniques: Microarray, Software

Journal: Non-Coding RNA

Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

doi: 10.3390/ncrna10020025

Figure Lengend Snippet: Difference in lncRNA and mRNA fold-changes between the cDNA microarray and in-house RT-qPCR experiments. Data shown are from three independent experiments (in triplicates) with calculated SD values to represent error bars and their statistical analyses were conducted using one-way ANOVA.

Article Snippet: In this study, purified total RNAs of both the SW480/DR and SW480/DS cells were analyzed using Agilent SurePrint G3 Human Gene Expression v3 8x60k format cDNA microarray and processed in the Agilent GeneSpring GX v14.9.1 software.

Techniques: Microarray, Quantitative RT-PCR

Journal: Non-Coding RNA

Article Title: Possible Involvement of Long Non-Coding RNAs GNAS-AS1 and MIR205HG in the Modulation of 5-Fluorouracil Chemosensitivity in Colon Cancer Cells through Increased Extracellular Release of Exosomes

doi: 10.3390/ncrna10020025

Figure Lengend Snippet: ( A ) LncRNA-mRNA interaction network was constructed based on the ten selected candidate lncRNAs from the cDNA microarray dataset. The resulting mRNA interactions were predicted using the “rtool” database with −20 kcal as the minimum energy threshold and were filtered to show only mRNAs that were also dysregulated in the dataset. Data were visualized using Cytoscape v3.8.2. (Pink diamond = candidate lncRNA, blue circle = predicted putative mRNA targets). ( B ) A total of nine mRNAs were identified as both responsible in the “regulated exocytosis” hit as well as highly likely to be regulated by the candidate lncRNAs listed in ( A ). Data were visualized using Cytoscape v3.8.2. (pink diamond = candidate regulator lncRNA, blue circle = mRNA predicted involved in the biological process).

Article Snippet: In this study, purified total RNAs of both the SW480/DR and SW480/DS cells were analyzed using Agilent SurePrint G3 Human Gene Expression v3 8x60k format cDNA microarray and processed in the Agilent GeneSpring GX v14.9.1 software.

Techniques: Construct, Microarray

Journal: World Journal of Gastroenterology

Article Title: Transcriptome analysis creates a new era of precision medicine for managing recurrent hepatocellular carcinoma

doi: 10.3748/wjg.v29.i5.780

Figure Lengend Snippet: Comparisons of real-time quantitative reverse transcription PCR, microarrays, and RNA-sequencing and their applications in hepatocellular carcinoma recurrence

Article Snippet: The surfacing of commercial platforms, such as Human UniGene Set RZPD 1 clone set for cDNA microarrays and Affymetrix Human Genome U95Av2 array for oligonucleotide arrays, have made the technology for both types of arrays widely accessible[ ].

Techniques: Isolation, cDNA Library Assay, Amplification, Labeling, Fluorescence, Hybridization, Sequencing, High Throughput Screening Assay