Journal: European Journal of Human Genetics

Article Title: Genomic and clinical characteristics of six patients with partially overlapping interstitial deletions at 10p12p11

doi: 10.1038/ejhg.2011.71

Figure Lengend Snippet: Schematic illustration of chromosome 10 displaying the deletions at 10p12p11 in patients 1–6 and patient by Shadadpuri et al5 detected by microarray using the Ensembl browser. Deleted regions for the respective cases are shown as black bars. Smallest region of overlap (SRO) is indicated by vertical dotted lines. Positions are according to NCBI36 (hg18).

Article Snippet: Confirmation of the deletion and parental analysis of patient 5 was carried out by using Cytochip v2.0 microarray (Bluegnome, Cambridge, UK) and data analysis with BlueFuse for Microarrays v.3.5 (Bluegnome, Cambridge, UK).

Techniques: Microarray

Journal: Archives of Medical Science : AMS

Article Title: Aberrant expression of long non-coding RNAs (lncRNAs) is involved in brain glioma development

doi: 10.5114/aoms.2020.91290

Figure Lengend Snippet: Microarray analysis was applied to detect the lncRNAs and mRNAs in glioma compared to normal peritumoral tissue. A – Differentially expressed lncRNAs were detected in gliomas. A, B – Differentially expressed mRNAs were detected in gliomas. C – Clustering data of lncRNAs in gliomas were analyzed. D – Clustering data of mRNAs in gliomas were analyzed

Article Snippet: The synthesized cDNAs were labeled and hybridized to Arraystar Human lncRNA Microarray V2.0 (Arraystar, Rockville, MD) containing probes for 33,045 lncRNAs and 30,215 mRNAs identified from both publications and authoritative databases, such as RefSeq, UCSC Knowngenes, and Ensembl.

Techniques: Microarray

Journal: Archives of Medical Science : AMS

Article Title: Aberrant expression of long non-coding RNAs (lncRNAs) is involved in brain glioma development

doi: 10.5114/aoms.2020.91290

Figure Lengend Snippet: Summary of data from microarray for three pairs of glioma and adjacent normal tissues

Article Snippet: The synthesized cDNAs were labeled and hybridized to Arraystar Human lncRNA Microarray V2.0 (Arraystar, Rockville, MD) containing probes for 33,045 lncRNAs and 30,215 mRNAs identified from both publications and authoritative databases, such as RefSeq, UCSC Knowngenes, and Ensembl.

Techniques: Microarray, RNA Expression

Journal: Archives of Medical Science : AMS

Article Title: Aberrant expression of long non-coding RNAs (lncRNAs) is involved in brain glioma development

doi: 10.5114/aoms.2020.91290

Figure Lengend Snippet: LncRNA-mRNA co-expression network: nodes with red cycle represent lncRNAs, nodes without cycle represent mRNAs, straight lines represent interactions between genes, purple represents increased expression, and blue represents decreased expression. The size of the node represents the degree; the higher the degree, the more genes interact with the particular node in the network

Article Snippet: The synthesized cDNAs were labeled and hybridized to Arraystar Human lncRNA Microarray V2.0 (Arraystar, Rockville, MD) containing probes for 33,045 lncRNAs and 30,215 mRNAs identified from both publications and authoritative databases, such as RefSeq, UCSC Knowngenes, and Ensembl.

Techniques: Expressing

Journal: Archives of Medical Science : AMS

Article Title: Aberrant expression of long non-coding RNAs (lncRNAs) is involved in brain glioma development

doi: 10.5114/aoms.2020.91290

Figure Lengend Snippet: Degree was used to assess interactions in the lncRNA/mRNA network. This table is a collection of a series of key lncRNA/mRNAs

Article Snippet: The synthesized cDNAs were labeled and hybridized to Arraystar Human lncRNA Microarray V2.0 (Arraystar, Rockville, MD) containing probes for 33,045 lncRNAs and 30,215 mRNAs identified from both publications and authoritative databases, such as RefSeq, UCSC Knowngenes, and Ensembl.

Techniques:

Journal: Archives of Medical Science : AMS

Article Title: Aberrant expression of long non-coding RNAs (lncRNAs) is involved in brain glioma development

doi: 10.5114/aoms.2020.91290

Figure Lengend Snippet: Comparison of microarray data and qPCR results. A – qPCR was used to verify expression of lncRNAs ak125809, ak098473, uc002ehu.1, bc043564, NR_027322, and uc003qmb.2. B – Distribution of lncRNA expression levels were provided. All six lncRNAs of ak125809, ak098473, uc002ehu.1, bc043564, NR_027322, and uc- 003qmb.2 were validated by qPCR analysis in the 40 paired glioma and peritumoral tissues. Each histogram represents the average fold change (T/N) with logarithmic conversion. Error bars are indicative of standard deviation. Distribution of lncRNA expression

Article Snippet: The synthesized cDNAs were labeled and hybridized to Arraystar Human lncRNA Microarray V2.0 (Arraystar, Rockville, MD) containing probes for 33,045 lncRNAs and 30,215 mRNAs identified from both publications and authoritative databases, such as RefSeq, UCSC Knowngenes, and Ensembl.

Techniques: Comparison, Microarray, Expressing, Standard Deviation

Journal: Current eye research

Article Title: Expression Analysis of the Circular RNA Molecules in the Human Retinal Cells Treated with Homocysteine

doi: 10.1080/02713683.2018.1542005

Figure Lengend Snippet: Assessment of RNAs’ integrity, genomic DNA contamination, and cRNAs’ differential expressions. (a) Denaturing agarose gel electrophoresis of samples: Lane 1, 2, and 3 represent total RNAs from untreated, and 4, 5, and 6 from Hcy-treated ARPE-19 cells. (b) A box plot showing a homogeneous distribution expression values in Hcy-treated and untreated ARPE-19 cells after comparing the distributions of intensities from all samples after normalization. (c) Volcano plot for the evaluation of differential expression as derived from the expression profiling of circRNAs’ from Hcy-treated and untreated ARPE-19 cells. Respective difference of each circRNA from one another between Group 2 (Hcy-treated) versus Group 1 (untreated cells). Gray points represent circRNAs that show no statistical significance while the red points represent the differentially expressed circRNAs with statistical significance. The vertical lines correspond to 2.0-fold (log2 scaled) up and down, respectively, and the horizontal line represents a p-value of 0.05 (−log10 scaled). (d) The scatter-plot of cRNAs’ averaged normalized value variation between Group 1; untreated (x-axis) and Group 2; Hcy-treated RPE cells (y-axis). The circRNAs above the top green line and below the bottom green line indicate more than 2.0-fold changes in circRNAs. Middle green line refers to no difference between the groups.

Article Snippet: Arraystar human circRNA microarray V2.0 (Arraystar, Inc.) designed for identification of globally expressed human circRNAs was used for profiling of circRNAs that covers 13,617 human circRNAs curated from circRNA studies dealing with landmark publications allowing systematic identification and profiling of circRNA transcriptomes under physiological and pathophysiological conditions.

Techniques: Agarose Gel Electrophoresis, Expressing, Quantitative Proteomics, Derivative Assay

Journal: Current eye research

Article Title: Expression Analysis of the Circular RNA Molecules in the Human Retinal Cells Treated with Homocysteine

doi: 10.1080/02713683.2018.1542005

Figure Lengend Snippet: (a) Heat map of Group 2 (Hcy-treated) versus Group 1 (untreated) showing expression of all target values of circRNAs, their respective up and down-regulated patterns between ARPE-19 cells. Each column in the map represents a sample, and each row represents a circRNA. The red strip represents high relative expression, and green strip represents low relative expression. (b) Measurement of circRNAs’ relative expression activities employing the hierarchical cluster analysis for the respective up and down-regulated data sets between the Group 2 (Hcy-treated) versus Group-1 (untreated) ARPE-19 cells. Red represents high relative expression and green low relative expression. (c) Differentially expressed circRNAs according to the extent of changes between Hcy-treated and untreated ARPE-19 cells depicting down-regulated and up-regulated circRNAs. Nature of each circRNA’s origin is color-coded. (d) Chromosomal distributions of differentially expressed circRNAs with color codes illustrate their expression profiles with respect to the abundance of total circRNAs between Group 1 versus Group 2.

Article Snippet: Arraystar human circRNA microarray V2.0 (Arraystar, Inc.) designed for identification of globally expressed human circRNAs was used for profiling of circRNAs that covers 13,617 human circRNAs curated from circRNA studies dealing with landmark publications allowing systematic identification and profiling of circRNA transcriptomes under physiological and pathophysiological conditions.

Techniques: Expressing, Stripping Membranes

Journal: Current eye research

Article Title: Expression Analysis of the Circular RNA Molecules in the Human Retinal Cells Treated with Homocysteine

doi: 10.1080/02713683.2018.1542005

Figure Lengend Snippet: Biological information regarding down-regulated circRNAs in Hcy-treated versus untreated ARPE-19 cells.

Article Snippet: Arraystar human circRNA microarray V2.0 (Arraystar, Inc.) designed for identification of globally expressed human circRNAs was used for profiling of circRNAs that covers 13,617 human circRNAs curated from circRNA studies dealing with landmark publications allowing systematic identification and profiling of circRNA transcriptomes under physiological and pathophysiological conditions.

Techniques:

Journal: Current eye research

Article Title: Expression Analysis of the Circular RNA Molecules in the Human Retinal Cells Treated with Homocysteine

doi: 10.1080/02713683.2018.1542005

Figure Lengend Snippet: Biological information regarding up-regulated circRNAs in Hcy-treated and untreated ARPE-19 cells.

Article Snippet: Arraystar human circRNA microarray V2.0 (Arraystar, Inc.) designed for identification of globally expressed human circRNAs was used for profiling of circRNAs that covers 13,617 human circRNAs curated from circRNA studies dealing with landmark publications allowing systematic identification and profiling of circRNA transcriptomes under physiological and pathophysiological conditions.

Techniques: