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

\pgfplotstableread{
1e0 10
1e1 10
1e2 10
1e3 10
1e4 10
1e5 10
}\datatableTEN

\pgfplotstableread{
1e0 90
1e1 90
1e2 90
1e3 90
1e4 90
1e5 90
}\datatableNINETY

\pgfplotstableread{
1e0 2
1e1 2
1e2 2
1e3 2
1e4 2
1e5 2
}\datatableTWO

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

