The standard deviation of the noise, , can be computed as the sample standard deviation of a portion of the data in which there were no calcium transients. The parameters that determine the speed of the rise and decay of the pulse, and , are predominantly defined by characteristics of the fluorescent indicator that was used to generate the imaging data. In Table 1, we provide documented values of and for four commonly used fluorescent indicators, extracted from the corresponding references: Cal-520 AM (Tada et al., 2014), OGB-1 AM (Lütcke, Gerhard, Zenke, Gerstner, & Helmchen, 2013), and GCaMP6f and GCaMP6s (Chen et al., 2013). These values can be used as a guideline; in practice, they will vary with the indicator expression level, as well as the cell type. We note that the time taken for a calcium transient to rise to its peak and the decay time are functions of both and ; the values presented in Table 1 are thus not easily interpretable in terms of the shape of a calcium transient pulse.
Fluorescent Indicator . | . | . |
---|---|---|
GCaMP6f | 4.88 | 60.97 |
GCaMP6s | 1.26 | 15.16 |
OGB-1 AM | 1.5 | 101.5 |
Cal-520 AM | 3.18 | 34.39 |
Fluorescent Indicator . | . | . |
---|---|---|
GCaMP6f | 4.88 | 60.97 |
GCaMP6s | 1.26 | 15.16 |
OGB-1 AM | 1.5 | 101.5 |
Cal-520 AM | 3.18 | 34.39 |
Notes: To calculate CosMIC's pulse width, the parameters that define the speed of rise and decay of the calcium transient, and , are required. Here, we provide documented values of these parameters for four commonly used fluorescent indicators.