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Bead array confocal scanner

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The Bead Array Confocal Scanner is a high-performance imaging system designed to capture and analyze data from Illumina's bead array technology. It uses a confocal microscope and laser excitation to detect and measure fluorescent signals emitted from labeled samples on the bead arrays. The core function of the Bead Array Confocal Scanner is to enable efficient and accurate data collection from Illumina's bead-based genomic and proteomic assays.

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Lab products found in correlation

Beadstudio software, by Illumina (2 mentions) Amersham fluorolink streptavidin cy3, by GE Healthcare (1 mentions)

3 protocols using bead array confocal scanner

1

RNA Amplification and Labeling for Illumina Microarray

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Total RNA was amplified and purified using a TargetAmp-Nano Labeling Kit for the Illumina Expression BeadChip device (EPICENTRE, Madison, WI, USA) to yield biotinylated complementary RNA (cRNA) according to the manufacturer's instructions. Briefly, 500 ng of total RNA was reverse-transcribed to cDNA using a T7 oligo (dT) primer. Second-strand cDNA was synthesized, transcribed in vitro, and labeled with biotin-NTP. After purification, the cRNA was quantified using a spectrophotometer (ND-1000, NanoDrop).
Biotinylated cRNA was prepared from 0.55 μg of total RNA using the Illumina TotalPrep RNA Amplification Kit (Ambion, Austin, TX, USA). Labeled cRNA samples (750 ng) were hybridized to individual Human HT-12 (version 4.0) Expression BeadChip devices for 17 hours at 58°C according to the manufacturer's instructions (Illumina, San Diego, CA, USA). The array signals were detected using Amersham fluorolink streptavidin-Cy3 (GE Healthcare Bio-Sciences, Little Chalfont, UK) following the bead-array manual. Arrays were scanned with an Illumina bead-array confocal scanner according to the manufacturer's instructions.
Jeon Y.S., Cha J.K., Choi S.H., Lee J.H, & Lee J.S. (2020). Transcriptomic profiles and their correlations in saliva and gingival tissue biopsy samples from periodontitis and healthy patients. Journal of Periodontal & Implant Science, 50(5), 313-326.
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2

Gene Expression Profiling of Infant BCG Immunization

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Gene expression microarrays were undertaken using unstimulated whole blood samples obtained from 42 and 51 infants at one and six weeks, respectively, to assess gene expression profiles after BCG immunisation. The Illumina RNA Amplification Kit (Ambion, Austin, TX, USA) was used to amplify a median of 124 ng (range 63–174 ng) of the extracted RNA. A Biotin-16-UTP label was incorporated into amplified RNA during the in vitro transcription process (Perkin Elmer Life and Analytical Sciences, Woodbridge, Ontario, Canada). Amplification gave yields ranging from 1 μg to 25 μg. Amplified RNA (1000 ng per array) was hybridized to the IlluminaHumanHT-12_V4 BeadChip according to the manufacturer’s instructions (Illumina, San Diego, CA, USA). The IlluminaHumanHT-12_V4 bead chip comprises 42,000 sequences representing 31,000 annotated genes from the curated portion of the NIH Reference Sequence Database (http://www.ncbi.nlm.nih.gov/RefSeq/). Each sequence is represented at least 30 times on the array. Arrays were scanned with an Illumina bead array confocal scanner, according to the manufacturer’s instructions. Array data processing and analysis was performed using Illumina BeadStudio software.
Mawa P.A., Webb E.L., Filali-Mouhim A., Nkurunungi G., Sekaly R.P., Lule S.A., Prentice S., Nash S., Dockrell H.M., Elliott A.M, & Cose S. (2017). Maternal BCG scar is associated with increased infant proinflammatory immune responses. Vaccine, 35(2), 273-282.
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3

Gene Expression Analysis of Infant BCG Immunization

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Gene expression microarrays were undertaken using unstimulated whole blood samples obtained from 42 and 51 infants at one and six weeks, respectively, to assess gene expression profiles after BCG immunisation. The Illumina RNA Amplification Kit (Ambion, Austin, TX, USA) was used to amplify a median of 124 ng (range 63–174 ng) of the extracted RNA. A Biotin-16-UTP label was incorporated into amplified RNA during the in vitro transcription process (Perkin Elmer Life and Analytical Sciences, Woodbridge, Ontario, Canada). Amplification gave yields ranging from 1 μg to 25 μg. Amplified RNA (1000 ng per array) was hybridized to the IlluminaHumanHT-12_V4 BeadChip according to the manufacturer’s instructions (Illumina, San Diego, CA, USA). The IlluminaHumanHT-12_V4 bead chip comprises 42,000 sequences representing 31,000 annotated genes from the curated portion of the NIH Reference Sequence Database (http://www.ncbi.nlm.nih.gov/RefSeq/). Each sequence is represented at least 30 times on the array. Arrays were scanned with an Illumina bead array confocal scanner, according to the manufacturer’s instructions. Array data processing and analysis was performed using Illumina BeadStudio software.
Mawa P.A., Webb E.L., Filali-Mouhim A., Nkurunungi G., Sekaly R.P., Lule S.A., Prentice S., Nash S., Dockrell H.M., Elliott A.M, & Cose S. (2017). Maternal BCG scar is associated with increased infant proinflammatory immune responses. Vaccine, 35(2), 273-282.
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