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Antonino Ingargiola edited Concepts.tex
about 8 years ago
Commit id: fd89a46b2d24e93662c223f938ea880ff6fb548d
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The recorded stream of timestamps is the result of two processes: one characterized
by a high count rate, due to fluorescence photons of single molecules crossing the
excitation volume, and another characterized by a lower count rate, due to
“background
counts” "background
counts" originating from detector dark counts, afterpulsing, out-of-focus molecules
and sample scattering and/or impurities~\cite{Gopich_2008}.
% Gopich provides a theoretical expression for out-of-focus counts, but ignores scattering, impurities, dcr and afterpulsing (which you do not mention). For this reason, I would rather cite an original experimental paper going back to the early FCS works (dealing with exactly the same issues.
The signature of these two types of processes can be
...
Experimentally, we found that when the background is not constant,
it usually varies
on time scales of tens of seconds (see figure~\ref{fig:bg_timetrace}).
FRETBursts divides the
data set acquisition in
constant duration constant-duration time
windows called \textit{background periods} and computes the background rates for
each of these windows (see section~\ref{sec:bg_calc}).
Note that FRETBursts uses
the same definitions of constant these local background
period windows rates also during burst search,
in order to compute time-dependent burst detection thresholds
and for background correction of burst data (see section~\ref{sec:burstsearch}).