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View additional product information for Clariom™ S Assay, rat - FAQs (902935, 902934)
7 product FAQs found
Tough-Spots® labels are small adhesive stickers used to temporarily seal the backs of cartridge arrays during the overnight hybridization step. They are required to prevent loss of volume due to evaporation through the septa. We recommend using Tough-Spots® labels on Rolls from USA Scientific (Item No. 9185-0000)
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Proper hybridization volume is critical to obtaining an even signal across a given array. Too little volume can lead to black circles in the middle of the array. Too much volume can leak out of the back of the array. The correct hybridization volume leaves enough room for a small air bubble to circulate around the array surface during the overnight hybridization. Here are the recommended hybridization and fill volumes based on the array format:
Array Format; Hybridization Volume; Fill Volume
- 49 Format (Standard); 200 µL; 250 µL
- 64 Format; 200 µL; 250 µL
- 100 Format (Midi); 130 µL; 160 µL
- 169 Format (Mini); 80 µL; 100 µL
- 400 Format (Micro); 80 µL; 100µL
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Clariom D arrays have probes that cover all known regions of transcription including probes in overlapping regions from both strands. To obtain strand-specific information from the Clariom D arrays, the WT Pico and WT Plus reagents (which are strand-specific) must be used. This is important because without strand-specific reagent, it would not be possible to decipher the source strand of DNA, which makes it challenging to untangle true gene- and exon- level expression and alternative splicing events.
Strand-specificity is significantly less important for customers interested in gene-level only information (i.e., those using Clariom S) as compared to customers who want to understand the complexities of the whole transcriptome including identifying antisense transcripts and ncRNA (i.e., those using Clariom D). While strand-specificity is less important for gene-level expression only, probes within regions of overlapping transcription from both strands are avoided in the Clariom S array design (unlike Clariom D). This is important because if Clariom S did not preserve strand-specificity, there could be an overestimation of gene-level expression causing false positive or negative results. With Clariom S having a "stranded" design, it does not necessarily need a strand-specific reagent kit.
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No, the Clariom S array is not capable of exon-level analysis. The probes have selected to be the most constitutive probes, representing the most common areas of a gene model. This means that most of the exons in the gene model will likely not have representation on the array, meaning that it is not practical to enable exon-level analysis.
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Clariom D Assay - scan time is about 33 min.
- DAT file size about 790-800MB
- CEL file size about 68 MB
The Clariom S - scan time is about 5 min.
- DAT file size about 35-40MB
- CEL file size about 3 MB
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No, globin reduction is not necessary for the Clariom S assay. The Clariom S assay is designed to preserve sample integrity and reduce data variability without requiring a globin or rRNA removal step. This means that you can perform the Clariom S assay without the need to perform globin reduction on your samples.
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The Clariom S array is a 400 format, the correct script is FS450_0007.
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