CLIQS 1D Pro – a powerful platform for 1D gel database creation and analysis

Perform large dataset investigations with a fast and easy to use interface

CLIQS 1D Pro includes TotalLab’s advanced CLIQS 1D image analysis software together with a robust database package to create a powerful analysis platform.

Compare lanes from multiple gels and experiments

The CLIQS 1D Pro software is incredibly powerful as it allows a completely flexible approach to matching. Each individual lane can be compared to any other lane within the database. The results of matching across many gels can be presented as a dendrogram or tables that show band and lane similarities.

 

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Identify lane relationships across multiple experiments

Clustering lanes using dendrograms, which allow the study of relationships between lanes stored in the database, are easy to create from the match results.

Once built, the dendrogram is scalable and fully interactive, to allow a flexible presentation of lane relationships. The dendrogram also allows you to create groups of related lanes that can then be reported on in a cluster table.

Excellent software for the study of SSCP gel fingerprinting. Thanks to its characteristics we have been able to estimate the diversity index and similarity profile of our samples, we have also obtained the different matrices generated by the software. This software is easy to use and very intuitive; this fact is very important and difficult to find in similar software.

Matteo Evangelisti, Ph.D
- Universita Tor Vergata, Italy

Classify unknown samples

Lanes containing unknown samples can be identified and classified against a defined reference library of identified samples. Maintenance of the library is very straightforward, and it can be easily shared with co-workers to facilitate collaboration on large projects.

The research focussed on the role of bacteria and fungi in sustainable agricultural practices. This required comparing bacterial and fungal communities in different types of crop rotations, fertilizer treatments and irrigation regimes. The main problem faced by the researchers was handing distortion in gels that were run and pooled. Even when gel images were acquired, analysis was difficult due to hard to use software, software that only used proprietary image formats or software that had limited analytical capacity. CLIQS 1D Pro provided a versatile tool to analyse all types of images and quickly and easily compare images from different experiments.

A collaborative study between the Environmental Sciences Institute, Florida and the University of Florida

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Why does automatic lane creation fail on my gel?

There could be several reasons why this happens…

  • The lanes are short or have very few bands
  • The lanes are too close together so the algorithm cannot split them
  • The lanes are not quite the same width which is an assumption the algorithm uses
  • The resolution of the image is very low and there is not enough band information

Using an AOI for lane detection can help (draw a box when in automatic detection mode) or simply try to create the lanes manually.

You can also contact us with any support questions.

How does molecular sizing work?

Each lane has its own calibration curve calculated from where the iso-molecular weight lines (yellow) cross the centre of a lane.

With only one standard lane these curves are usually the same as the lines just run horizontally across the gel.

However, with more than one standard lane it joins up the bands of the same value and so the lines can be slightly off horizontal depending on the gel.

What is band volume?

This is defined as the total value of all the pixels in a band with background subtracted. The pixels are shown on the image as between the 2 red lines (the band edges).

Another way to look at it is as the area under the profile for the band (with background subtracted) multiplied by the lane width.

My question isn't listed here, where should I go?

We have more answered questions on our FAQ page here and we’re always adding to this and likewise to our resources page where you may find the answer you need. If you’re still unsure you can always contact our support desk, support@totallab.com.