Super rna labelling kit

Manufactured by Arraystar

Sourced in United States

The Arraystar Super RNA Labelling Kit is a laboratory product designed for the labeling of RNA samples. It provides a method for the incorporation of fluorescent or other detectable labels into RNA molecules, enabling their subsequent analysis and detection.

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Lab products found in correlation

Rnase r, by Illumina (14 mentions) Human circrna array v2, by Arraystar (10 mentions) Agilent scanner g2505c, by Agilent Technologies (10 mentions) Hybridization oven, by Agilent Technologies (7 mentions) Scanner g2505c, by Agilent Technologies (3 mentions) Agilent feature extraction software, by Agilent Technologies (3 mentions) Human circrna array, by Arraystar (3 mentions) Trizol reagent, by Thermo Fisher Scientific (2 mentions) Agilent feature extraction software version 11.0.1.1, by Agilent Technologies (2 mentions) Nanodrop nd 1000 spectrophotometer, by Agilent Technologies (1 mentions) Super rna labeling kit, by Arraystar (1 mentions) Human circrna microarray, by Arraystar (1 mentions) Axon genepix 4000b microarray scanner, by Molecular Devices (1 mentions) Rneasy mini kit, by Qiagen (1 mentions) Human lncrna microarray v4, by Arraystar (1 mentions) Rnase r, by Merck Group (1 mentions) Human circrna array version 2, by Arraystar (1 mentions) Human circular rna microarray, by Arraystar (1 mentions) Feature extraction software, by Agilent Technologies (1 mentions) Human mrna lncrna epitranscriptomic microarray 8x60k, by Arraystar (1 mentions)

18 protocols using super rna labelling kit

Profiling Circular RNA Expression via Microarray Analysis

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Total RNA from each sample was quantified using a NanoDrop ND-1000. Sample preparation and microarray hybridization were performed based on Arraystar’s standard protocols. Total RNA was digested with RNase R (Epicentre, Inc.) to remove linear RNAs and enrich circular RNAs. The enriched circular RNAs were subsequently amplified and transcribed into fluorescent cRNAs utilizing a random priming method (Arraystar Super RNA Labelling Kit, Arraystar). The labelled cRNAs were hybridized onto the Arraystar Human circRNA Array V2 (8 × 15 K, Arraystar). After the slides were washed, the arrays were scanned with an Agilent G2505C scanner.
Agilent Feature Extraction software (version 11.0.1.1) was used to analyse the acquired array images. Quantile normalization and subsequent data processing were performed using the R software package limma. Significantly differentially expressed circRNAs between the two groups were identified through volcano plot filtering. Differentially expressed circRNAs between two samples were identified through fold change filtering. Hierarchical clustering was performed to visualize the distinguishable circRNA expression patterns among the samples.
Microarray procedures and analysis were performed by KangChen Biotech (Shanghai, China).

Ren J., Chen W., Zhou Y., Sun J, & Jiang G. (2024). The novel circRNA circ_0045881 inhibits cell proliferation and invasion by targeting mir-214-3p in triple-negative breast cancer. BMC Cancer, 24, 278.

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Profiling circRNA Expression in COPD

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Pulmonary arterial explants of lung samples were collected from the COPD group and the non-COPD group (three samples from each group). Total RNA was isolated using TRIzol reagent (Invitrogen, Carlsbad, USA) according to the manufacturer’s protocol. RNA concentration determination, RNA quality control and microarray hybridization were performed according to the manufacturer’s instructions of the Arraystar Super RNA Labeling kit (Arraystar, Rockville, USA). Linear RNAs were eliminated using RNase R (Epicenter, New York, USA). The enriched circRNAs were subsequently amplified and transcribed into fluorescent complementary RNAs (cRNAs) with a random priming method of the Arraystar Super RNA Labelling Kit. Labelled cRNAs were then purified using the RNeasy Mini kit (Qiagen GmbH, Hilden, Germany). Labelled cRNA quality and quantity were determined with the NanoDrop ND-1000 spectrophotometer (Agilent Technologies, Santa Clara, USA). Subsequently, the labelled cRNA was fragmented and hybridized onto the Arraystar human circRNA microarray (circular RNA array V2.0 RNA; Arraystar). The hybridized arrays were scanned using an Axon GenePix 4000B microarray scanner (Axon Instruments, Foster City, USA).

Wang C., Liu Y., Zhang W., Huang J., Jiang J., Wang R, & Zeng D. (2022). circ-BPTF serves as a miR-486-5p sponge to regulate CEMIP and promotes hypoxic pulmonary arterial smooth muscle cell proliferation in COPD: Hpoxia induces circ-BPTF/miR-486-5p/CEMIP axis in COPD. Acta Biochimica et Biophysica Sinica, 55(3), 438-448.

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Profiling LncRNA in Nasopharyngeal Carcinoma

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Total RNA was extracted from fresh‐frozen NPC and matching para‐carcinoma tissues using the TRIzol reagent (Invitrogen) according to the manufacturer's protocol. The concentration and purity of the isolated RNA samples were determined using a Nano‐200 spectrophotometer (Aosheng, Hangzhou, China). To identify the lncRNA profiles associated with nasopharyngeal carcinoma, five paired NPC tumour tissues and matching para‐carcinoma tissues were provided to KangChen Bio‐tech (Shanghai, China). Briefly, RNA was labelled using an Arraystar Super RNA Labelling Kit, and then the labelled lncRNAs were hybridized onto an Arraystar Human LncRNA Microarray V4.0 (Arraystar, Rockville, MD, USA), which contained 40173 lncRNAs. The data were analysed with a Robust Multichip Analysis algorithm using the Affymetrix default analysis settings with global scaling as the normalization method. To determine the significance of the differences and the false discovery rate (FDR), thresholds of P < .05 and FDR < 0.05 were used. Gene expression fold changes of either >2 or <0.5 were set as the default filter criteria for identifying significantly differentially expressed genes.

Peng J., Liu F., Zheng H., Wu Q, & Liu S. (2019). Long noncoding RNA ZFAS1 promotes tumorigenesis and metastasis in nasopharyngeal carcinoma by sponging miR‐892b to up‐regulate LPAR1 expression. Journal of Cellular and Molecular Medicine, 24(2), 1437-1450.

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Microarray Analysis of circRNA Expression in RCC

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Microarray analysis of expression of circRNAs was conducted using Arraystar Human circRNA Array V2.0. Total RNA was purified from 3 pairs of RCC and adjacent normal tissues. Microarray hybridization was conducted according to the standard protocols from Arraystar. In short, total RNA was treated with RNase R (Sigma) to remove the linear RNA, and then, the circRNAs were enriched. Then, RNAs were amplified for cRNA and labelled using the Arraystar Super RNA labelling kit (Arraystar). Then, these labelled RNAs were hybridized and the hybridization was scanned by the Scanner G2505C (Agilent).

Yu R., Yao J, & Ren Y. (2020). A novel circRNA, circNUP98, a potential biomarker, acted as an oncogene via the miR‐567/ PRDX3 axis in renal cell carcinoma. Journal of Cellular and Molecular Medicine, 24(17), 10177-10188.

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Profiling CircRNAs in Colorectal Cancer

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To search for circRNAs that could be used as targets for the diagnosis and treatment of CRC, we collected 3 pairs of cancer and paracancerous tissues from patients with CRC and 3 pairs of peripheral blood specimens from patients with CRC and healthy individuals for the microarray detection of circRNAs. Total RNA from each sample was quantified using a NanoDrop ND-1000. Sample preparation and microarray hybridization were performed based on the standard protocols recommended by Arraystar. Briefly, total RNA was digested with RNase R (Epicentre, Inc.) for the removal of linear RNAs and enrichment of circRNAs. The enriched circRNAs were then amplified and transcribed into fluorescent cRNA utilizing a random priming method (Arraystar Super RNA Labelling Kit; Arraystar). The labelled circRNAs were hybridized onto the Arraystar Human circRNA Array V2 (8x15K, Arraystar). The slides were washed, and the arrays were scanned using an Agilent Scanner G2505C.

Lin C., Ma M., Zhang Y., Li L., Long F., Xie C., Xiao H., Liu T., Tian B., Yang K., Guo Y., Chen M., Chou J., Gong N., Li X, & Hu G. (2022). The N6-methyladenosine modification of circALG1 promotes the metastasis of colorectal cancer mediated by the miR-342-5p/PGF signalling pathway. Molecular Cancer, 21, 80.

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Profiling Circulating RNAs in Lung Cancer

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We detected the expression profile of circRNAs in six tissue samples, including three paired LUAD cancer tissues and patient-matched normal lung tissues. Microarray analysis was performed by KangChen Biotech, Shanghai. Total RNA from each sample was quantified using a NanoDrop ND-2000. The sample preparation and microarray hybridization were performed based on Arraystar’s standard protocols. Briefly, total RNA was digested with RNase R (Epicentre, Inc.) to remove linear RNAs and enrich circRNAs. Then, the enriched circRNAs were amplified and transcribed into fluorescent circRNAs utilizing a random priming method (Arraystar Super RNA Labelling Kit; Arraystar). The labelled circRNAs were hybridized onto an Arraystar Human circRNA Array V2 (8x15K, Arraystar). After washing the slides, the arrays were scanned by an Agilent Scanner G2505C.
Quantile normalization and subsequent data processing were performed using the R software limma package. Differentially expressed circRNAs with statistical significance between the two groups were identified through volcano plot filtering. Differentially expressed circRNAs between two samples were identified through fold change filtering. Hierarchical clustering was performed to show the distinguishable circRNA expression pattern among samples.

Lian X., Cao D., Hu X., Mo W., Yao X., Mo J, & Wang H. (2022). Circular RNAs Hsa_circ_101555 and Hsa_circ_008068 as Diagnostic Biomarkers for Early-Stage Lung Adenocarcinoma. International Journal of General Medicine, 15, 5579-5589.

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Circular RNA Profiling Protocol

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Sample preparation and microarray hybridization were performed following a standard protocol (Arraystar, Rockville, MD, USA). Briefly, in order to eliminate linear RNAs and improve circRNAs, total RNA was digested with RNAse R (Epicentre, Madison, WI, USA). The improved circRNAs were then expanded and transcribed into fluorescent cRNAs using a random priming method with Arraystar Super RNA Labelling Kit (Arraystar). Labelled cRNAs were hybridized onto the Arraystar Human circRNA Array V1.0. Finally, the array was scanned using the Agilent Scanner G2505C and the resulting array images were analysed.

Shen W., Sun B., Zhou C., Ming W., Zhang S, & Wu X. (2020). CircFOXP1/FOXP1 promotes osteogenic differentiation in adipose‐derived mesenchymal stem cells and bone regeneration in osteoporosis via miR‐33a‐5p. Journal of Cellular and Molecular Medicine, 24(21), 12513-12524.

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Circular RNA Profiling by Arraystar Array

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Arraystar Human circRNA Array v2 analysis was performed on the samples (Kangchen, Shanghai, China), and a NanoDrop ND-1000 was used to quantify otal RNA in each sample. The standard l Arraystar-based protocol was used for sample preparation and microarray hybridization. Briefly, RNase R (Epicentre, Inc.) was used to digest total RNA, remove linear RNAs, and enrich circular RNAs. We amplified and transcribed the enriched circRNAs into the fluorescent cRNA (Arraystar Super RNA Labelling Kit; Arraystar) and hybridized labelled cRNAs on the Arraystar Human circRNA Array v2 (8x15K, Arraystar). After washing, the array was scanned using an Agilent G2505C scanner.
The array image obtained by Agilent Feature Extraction software (version 11.0.1.1) was analyzed. Quantile normalization and subsequent data processing were performed using the LIMMA (implemented with the R software package). Volcanic maps were used to identify significant differences in the circRNA expression between the two groups and the hierarchical clustering method shows the distinguishable patterns of circRNA expression between samples. |log2 fold change (FC)| ≥ 2 and a P value < 0.05 by t test were considered to be statistically significant.

Zhou Y., Yu Z., Wang X., Chen W., Liu Y., Zhang Y., Yin J, & Han S. (2021). Exosomal circRNAs contribute to intestinal development via the VEGF signalling pathway in human term and preterm colostrum. Aging (Albany NY), 13(8), 11218-11233.

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Profiling circRNA Landscape in Cell Lines

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Cell line (from three independent biological replicates) analysis was performed using the Arraystar Human circRNA Array version 2.0 (Arraystar, Rockville, MD, USA). The sample preparation and microarray hybridization were performed according to manufacturer’s instructions. Briefly, total RNA was digested with RNAse R (Epicentre, Illumina, San Diego, CA, USA) to remove linear RNAs and enrich for circRNAs. The enriched circRNAs were amplified and transcribed into fluorescent cRNA utilizing a random priming method Arraystar Super RNA Labelling Kit (Arraystar). The labelled cRNAs were hybridized onto the Arraystar Human circRNA Array V2 (8 × 15 K). The array slides were washed and scanned on the Agilent Scanner G2505C. Agilent Feature Extraction software (version 11.0.1.1) was used to analyse acquired array images.

Greene J., Baird A.M., Casey O., Brady L., Blackshields G., Lim M., O’Brien O., Gray S.G., McDermott R, & Finn S.P. (2019). Circular RNAs are differentially expressed in prostate cancer and are potentially associated with resistance to enzalutamide. Scientific Reports, 9, 10739.

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Profiling Circular RNA in MSC-hiPSC

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Sample preparation and microarray hybridization were performed as previously reported [12] (link) according to the manufacturer's protocol (Arraystar). Briefly, total RNA was isolated from MSC-hiPSC using TRIzol reagent was treated with RNase R to remove linear RNA and enrich for circRNA. Next, circRNA was amplified and transcribed into fluorescent cRNA using the random priming method with a Super RNA Labelling Kit (Arraystar). The labelled cRNA was hybridized onto an Arraystar Human Circular RNA Microarray (Arraystar V1.0). The array was scanned with the Agilent Scanner G2505C, and raw data were extracted by Agilent Feature Extraction software (version 11.0.1.1). Comparison with MSC was performed on previously published dataset available at NCBI GEO database through series accession number GSE122178 (sample C2) [12] (link). Comparison with F-hiPSC [13] (link) and hESC [19] (link) was performed on datasets available at the indicated publications. Identification and analysis of circRNA were restricted to circBASE database available nomenclature and data.

Barilani M., Cherubini A., Peli V., Polveraccio F., Bollati V., Guffanti F., Del Gobbo A., Lavazza C., Giovanelli S., Elvassore N, & Lazzari L. (2020). A circular RNA map for human induced pluripotent stem cells of foetal origin. EBioMedicine, 57, 102848.

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