Displaying a virtual electrophoresis map

Question

[Yongjie Zhang]

Hello,

I want to display a virtual electrophoresis map based on a DNA template (i.e. a long DNA sequence) and some primer pairs. I do not want to do PCR experiment and run a real gel. Do you know if there is a tool to help me?

Thanks for any comments.

Yongjie

Answer 1

[natasha.sernova]

An old main paper:

Automated band mapping in electrophoretic gel images using background information

http://nar.oxfordjournals.org/content/33/9/2806.full

Some modern approach:

Beyond gel electrophoresis: Microfluidic separations, fluorescence burst analysis, and DNA stretching

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3595390/

Other special cases for DNA-gels.

A review of many sequencing techniques : Next Generation DNA Sequencing and the Future of Genomic Medicine

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3960862/

SnapGene: Cloning is simpler when you can see exactly what you are doing.

https://www.snapgene.com/products/snapgene/about_snapgene/

VIRS: A visual tool for identifying restriction sites in multiple DNA sequences.

http://www.ncbi.nlm.nih.gov/pubmed/19637395

DNA Fragment Analysis by Capillary Electrophoresis

https://tools.thermofisher.com/content/sfs/manuals/4474504.pdf

Restriction Landmark Genomic Scanning (RLGS) spot identification by second generation virtual RLGS in multiple genomes with multiple enzyme combinations

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2235865/

BAC-HAPPY Mapping (BAP Mapping): A New and Efficient Protocol for Physical Mapping

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2816996/

[Yongjie Zhang]

Thanks for your answer, but my question seems not be solved. I hope to input a DNA sequence (as templates) and some primer pairs. Then,the tool can generate a virtual electrophoretic gel image, where each lane correpsonds to the amplification result of a primer pair.