UM DNA Sequencing Core - Microarray Web Site 
Microarray Core Facility

Agilent 2100 Bioanalyzer

The Agilent 2100 Bioanalyzer is a microfluidics-based platform for sizing, quantification and quality control of DNA, RNA, proteins and cells. The platform is the industry standard for RNA sample QC and has mostly replaced labor-intensive gel electrophoresis.

RNA applications

The core requires the use of either the bioanalyzer or the tapestation for all DNA micorarray and RNA-seq aplications.

You will get back a pdf report that contains the samples electropheragrahm and pseudo-gel images, as well as a concentration and RIN value.

bioanalyzer image The RIN, or RNA Integrity Number, is a method for determining RNA quality. RIN is calculated algorithmically by including the 28s/18s ratio, the region before the peaks, signal areas, and intensities. These calculations enable use of the whole graph to make RNA quality assessments. We make an initial assessment of total RNA QC based on 260/280 and 260/230 ratios. However, we place the highest reliance for QC on the Bioanalyzer integrity assessment. Each sample is assigned a RIN score: 10 corresponds to a pure, un-degraded total RNA sample while a RIN of 1 corresponds to a completely degraded sample. The core recommends only using samples with RIN's greater than 7.

Currently, Agilent manufactures two total RNA testing kits. Qualitative ranges for the Agilent 2100 Bioanalyzer RNA kits are as follows:

  • RNA 6000 Nano Kit: Range for RNA loaded = Total RNA: 5-500 ng/ul, mRNA: 25-250 ng/ul
  • RNA 6000 Pico Kit: Range for RNA loaded = Total RNA: 50-5000 pg/ul, mRNA: 250-5000 pg/ul

  • We request a 3ul aliquot of each sample in the above concentrations for analysis by Bioanalyzer. The samples for QC should be in a separate tube from the portion of sample intended for other services within the core. This assists us in minimizing freeze thaw cycles. If you have RNA that you wish only to have tested for RNA quality, we will also perform RNA testing on the Bioanalyzer as a “stand alone” service.

    Interpretation of Agilent 2100 Bioanalyzer Data

    RNA Nano LabChip:  $52.00  per chip.
    RNA Pico LabChip:  $55.00  per chip.
    DNA 1k LabChip:  $52.00  per chip.
    DNA 1k High Sensitivity LabChip:  $70.00  per chip.

    Related Services:

    Recharge Rate Product
     $1.00  Qubit Service
    Unit price per sample. RNA or dsDNA concentration determination using Invitrogen's Qubit.
     $1.00  Nanodrop Service
    Unit price per sample. RNA or dsDNA concentration determination using Nanodrop Spectrophotometer.
     $4.50  RNA 6k Tapestation
    Unit price per sample. Samples can be either RNA or cDNA. Results include both a concentration estimate and a RNA Integrity Number (RIN) report.
     $6.00  RNA 6k High Sensitivity Tapestation
    Unit price per sample. Samples can be either RNA or cDNA. Results include both a concentration estimate and a RNA Integrity Number (RIN) report.
     $4.50  DNA 1k Tapestation
    Unit price per sample. Intended for DNA fragments less than 1000bp. Results include both a concentration estimate and a RNA Integrity Number (RIN) report.
     $6.00  DNA 1k High Sensitivity Tapestation
    Unit price per sample. Intended for DNA fragments less than 1000bp. Results include both a concentration estimate and a RNA Integrity Number (RIN) report.
     $16.50  DNA isolation from Whole Blood
    Unit price per sample. Genomic DNA can be isolated from up to 5mL of fresh whole blood. See link for additional options.
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