PT  - JOURNAL ARTICLE
AU  - Prashant Vaidyanathan
AU  - Evan Appleton
AU  - David Tran
AU  - Alexander Vahid
AU  - George Church
AU  - Douglas Densmore
TI  - Algorithms for the selection of fluorescent reporters
AID  - 10.1101/2020.05.15.098186
DP  - 2020 Jan 01
TA  - bioRxiv
PG  - 2020.05.15.098186
4099  - http://biorxiv.org/content/early/2020/05/16/2020.05.15.098186.short
4100  - http://biorxiv.org/content/early/2020/05/16/2020.05.15.098186.full
AB  - Molecular biologists rely on the use of fluorescent probes to take measurements of their model systems. These fluorophores fall into various classes (e.g. fluorescent dyes, fluorescent proteins, etc.), but they all share some general properties (such as excitation and emission spectra, brightness) and require similar equipment for data acquisition. Selecting an ideal set of fluorophores for a particular measurement technology or vice versa is a multidimensional problem that is difficult to solve with ad hoc methods due to the enormous solution space of possible fluorophore panels. Choosing sub-optimal fluorophore panels can result in unreliable or erroneous measurements of biochemical properties in model systems. Here, we describe a set of algorithms, implemented in an open-source software tool, for solving these problems efficiently to arrive at fluorophore panels optimized for maximal signal and minimal bleed-through.Competing Interest StatementThe authors have declared no competing interest.