\documentclass[a4paper]{article}
\usepackage{pgfplots}

\pgfplotstableread{
0 10
1 10
2 10
3 10
4 10
5 10
}\datatableTEN

\pgfplotstableread{
0 90
1 90
2 90
3 90
4 90
5 90
}\datatableNINETY

\pgfplotstableread{
0 2
1 2
2 2
3 2
4 2
5 2
}\datatableTWO

\begin{document}
\begin{tikzpicture}
\begin{semilogyaxis}[small,title={Log basis default}, stack plots=y]
\addplot table {\datatableTEN};
\addplot [draw=red] table {\datatableNINETY};
\end{semilogyaxis}
\end{tikzpicture}~%
\begin{tikzpicture}
\begin{semilogyaxis}[small,log basis y=10, title={Log basis 10}, stack plots=y]
\addplot table {\datatableTEN};
\addplot [draw=red] table {\datatableNINETY};
\end{semilogyaxis}
\end{tikzpicture}~%
\begin{tikzpicture}
\begin{semilogyaxis}[small,log basis y=2, title={Log basis 2}, stack plots=y]
\addplot table {\datatableTWO};
\addplot [draw=red] table {\datatableTWO};
\end{semilogyaxis}
\end{tikzpicture}
\end{document}

