Supported Instrumentation


The Problem:

Obtaining absolute PCR quantification currently requires the laborious preparation of standards and acquiring a standard curve, thereby wasting reagents and using valuable plate real estate. In addition, the traditional analysis method for qPCR determines the "cycle threshold", Ct or Cq, which varies for different assays, different machines, and varies from plate to plate, thereby making the Ct value hard to interpret.

 

The Solution:

DNA Software has made a breakthrough in understanding the mechanism of PCR amplification. Our new product, qPCR CopyCount™, allows for any qPCR curve to be analyzed to directly determine the absolute number of copies of DNA at cycle zero. The DNA copy count is the quantity that every biologist wants and the results provided by qPCR CopyCount have unprecedented relative and absolute accuracy.  Click here to watch a video seminar on Copy Count.

 

How secure is CopyCount Cloud Edition?

Export Formats

qPCR CopyCount requires that you upload your raw qPCR fluorescence data for each cycle as a text based CSV/TSV file or Excel XLS/XLSX formats. At this time we are unable to support direct binary formats such as SDS and EDS files. Currently, we can automatically detect the following formats:

  • Abbott m2000rt
  • ABI 7500/7900
  • Bio-Rad:  CFX and iCycler
  • Life Technologies: ViiA 7, Step One, OpenArray 12K Flex
  • Qiagen: Rotor-Gene
  • Roche: LC480 and Lightcycler Series
  • StrataGene MX
  • General Column-Layout CSV
  • General Row-Layout CSV 

If your data is not in one of the above formats, please contact DNA Software and we will work on adding it to the system!

Export Instructions

ABI 7500

  1. Open the project file.
  2. Click the Export in the tool bar
  3. Go to File / Export / Right click on export spectra
  4. Ensure only the Sample Setup and Raw Data checkboxes are checked.
  5. Select One File from the drop down.
  6. Enter the Export FIle Name and ensure that the File Type is set to (*.txt)
  7. Set the Export File Location
  8. Click Start Export to export your raw fluoroescence data. You may now upload this file to qPCR CopyCount

ABI 7900

  1. Click on the plate document to select it.
  2. In the File menu, select Export
  3. Navigate to the directory you would like to export the data files to.
  4. In the Export drop down list, select "Clipped"
  5. Select All Wells, you will have the opportunity to narrow the selction down in the qPCR CopyCount tool.
  6. In the File name box, enter the name ofr the exported data set.
  7. Click Export. You may now upload this file to qPCR CopyCount

LightCycler

  1. Browse to your experiment in the Navigator.
  2. Select the Export function in the LightCycler Navigator.
  3. Select the experiment that you would like to export, click “Export” at the bottom of the screen.
  4. Select “Experiment Text File” as the file type you would like to export.
  5. Click Export. You may now upload this file to qPCR CopyCount

Bio-Rad CFX

  1. Open your experiment results.
  2. Click Export
  3. Choose "Export All Datasheets to Excel"
  4. Choose a save location. We recommend using an empty folder due to the large number of files exported.
  5. When uploading to qPCR CopyCount, choose the file ending with "- Quantification Amplification Results"

StrataGene MX

  1. Open your experiment results.
  2. Click File and then click Export Instrument Data
  3. Choose "Export Instrument Data to Excel"
  4. Choose "Format 1"
  5. Choose a save location. You may now upload this file to qPCR CopyCount

Abbott m2000rt

  1. Select Results, then View By Plate
  2. Select the desired PCR plate
  3. From the Plate Tasks menu, select Export
  4. Go to the section of the screen that says Exporting Plate Results and then to the section Export File Names.  The .csv file contains the raw fluorescence data that is needed for qPCR CopyCount.
  5. Save the .csv file to the computer hard drive, CD, or flash drive.  Be sure to give the file an informative name so you know what data is in that file.  Note the folder location of that file since you will need to browse to that location when using qPCR CopyCount.

Step One

  1. Click on Export under the file menu bar
  2. Deselect results and check raw data in the top section
  3. Click Start Export on the bottom right
  4. You may now upload this file to qPCR CopyCount

ViiA 7

  1. Select Export button on lower left side of software
  2. Deselect all tabs except for the Raw Data Tab
  3. Choose the data file for export and select Start Export
  4. You may now upload this file to qPCR CopyCount

 

 

 

Not finding what you’re looking for? Let us help. Click or Call +1.734.222.9080

Our Latest

Thursday, 06 November 2014 22:15

DNA Software introduced the full commercial release of ThermoBLAST Cloud Edition (TB-CE). TB-CE provides a new standard for evaluating the target specificity of oligonucleotides.  Click here to learn more.  

read moreView All News & Events
“We find it [Visual OMP™] makes very accurate and sometimes surprising (but true) predictions about binding efficiency in multiplexes...” David Whitcombe, Chief Scientific Officer, DxS Ltd, UK.
“It [Visual OMP™] is very powerful software when used for multiplexing design...” Chris Novak, Ambion
“I have designed over 10,000 PCR assays in my experience with DNA Software’s Visual OMP™ and found greater than 95% success rate when using it to design my assays compared to less than 20% success without it.” Dr. Eric Bruening, MolecularMD
“I have been using DNA [Software™] for a long time, at least 8 years. I want to have the best tools available and that is why we use it.” Dr. Nancy Schoenbrunner, Roche Molecular Systems
“I am a long-term user of Visual OMP™. I like this program very much because it provides a solid scientific basis for oligo design and cuts the development time by more than half.” Olga Budker, longtime Visual OMP user
“In my experience, DNA Software™ saved me 75% of my oligo costs.” Helen Minnis, Wave 80
“DNA [Software™] has passed my tests. I’ve recommended it [Visual OMP™]. It performs extremely well.” Dr. Ned Sekinger, Luminex Corporation
“Learning to use the program [Visual OMP™] is time well spent, and the support staff at DNA Software is always ready and able to help” Dr. Sue J. Kohlhepp, Providence Portland Medical Center.