When is a genome suitable for Bionano Optical Genome Mapping?

To check if the genome of your species of interest is suitable for Optical Genome Mapping on the Bioanao Saphyr, you should check the distribution of labeling sequence motifs. For this purpose, Bionano provides in silico digestion tools with the “Label Density Calculator” program. “Bionano Access” also has such a feature. Both programs are available from this webpage: https://bionanogenomics.com/support/software-downloads/

The preferred label density for nickases is 8 to 15 labels per 100kb.  For the methylase-based DLE-1 protocol, the label density can be even higher.
Nt.BspQI and Nb.BssSI are the preferred nickases. They work pretty consistently.
Provided the label densities are sufficient the preferred labeling method would be DLE-1, followed by both Nt.BspQI or Nb.BssSI.
Other nickases should only be used in emergencies.

Category: 03 Sample Preparation & Sample Requirements

← FAQ
Posted in
Latest Tweets
  • Yesterday, the lab got trained on a Mantis (liquid dispenser). Today this visitor shows up and climbed up the stra… ,
  • Writing a great paper may be not enough? Producing an accompanying youtube video might help? An new scRNA-seq prot… ,
  • One of many CCGP reference genomes to become available in the next months - based on work from our long-read sequen… ,
  • Please join our Single-Cell Lunch & Learn with TaKaRa next Wednesday, 06-15 12.30 pm to 1.30 pm GBSF auditorium As… ,