Template for Oxford Bioinformatics Journal (new version)

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Oxford Journals
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Abstract
Bioinformatics provides a forum for the exchange of information in the fields of computational molecular biology and post-genome bioinformatics, with emphasis on the documentation of new algorithms and databases that allows the progress of bioinformatics and biomedical research in a significant manner.
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Template for Oxford Bioinformatics Journal (new version)
\PassOptionsToPackage{utf8}{inputenc}
\documentclass{bioinfo}
\copyrightyear{2015} \pubyear{2015}

\access{Advance Access Publication Date: Day Month Year}
\appnotes{Manuscript Category}

\begin{document}
\firstpage{1}

\subtitle{Subject Section}

\title[short Title]{This is a title}
\author[Sample \textit{et~al}.]{Corresponding Author\,$^{\text{\sfb 1,}*}$, Co-Author\,$^{\text{\sfb 2}}$ and Co-Author\,$^{\text{\sfb 2,}*}$}
\address{$^{\text{\sf 1}}$Department, Institution, City, Post Code, Country and \\
$^{\text{\sf 2}}$Department, Institution, City, Post Code,
Country.}

\corresp{$^\ast$To whom correspondence should be addressed.}

\history{Received on XXXXX; revised on XXXXX; accepted on XXXXX}

\editor{Associate Editor: XXXXXXX}

\abstract{\textbf{Motivation:} Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text Text Text Text Text
Text Text Text Text Text.\\
\textbf{Results:} Text  Text Text Text Text Text Text Text Text Text  Text Text Text Text Text
Text Text Text Text Text Text Text Text Text Text Text Text Text  Text Text Text Text Text Text\\
\textbf{Availability:} Text  Text Text Text Text Text Text Text Text Text  Text Text Text Text
Text Text Text Text Text Text Text Text Text Text Text Text Text Text  Text\\
\textbf{Contact:} \href{name@bio.com}{name@bio.com}\\
\textbf{Supplementary information:} Supplementary data are available at \textit{Bioinformatics}
online.}

\maketitle

\section{Introduction}

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Text Text  Text Text Text Text Text Text. Figure~\ref{fig:01}
shows that the above method  Text Text Text Text  Text Text Text
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{\ldots}{\ldots} text follows.
\begin{equation}
\sum \text{\it x}+ \text{\it y} =\text{\it Z}\label{eq:01}\vspace*{-10pt}
\end{equation}

%\enlargethispage{12pt}

\section{Approach}

Equation~(\ref{eq:01}) Text Text Text Text Text Text  Text Text
Text Text Text Text Text Text Text Text Text Text Text Text Text.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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.....


\begin{methods}
\section{Methods}

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Text Text Text Text Text Text Text Text Text  Text Text.
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text\vspace*{1pt}

\begin{itemize}
\item for bulleted list, use itemize
\item for bulleted list, use itemize
\item for bulleted list, use itemize\vspace*{1pt}
\end{itemize}

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Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text\vadjust{\newpage}.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text  Text Text Text Text Text Text.

\subsection{This is subheading}

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Text Text Text Text Text Text Text Text Text  Text Text.
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Text Text Text Text Text Text Text Text Text  Text Text.
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text. Text Text Text Text Text Text  Text Text Text Text Text Text
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Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.


\subsubsection{This is subsubheading}

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Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text  Text Text Text Text Text Text  Text Text.
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text text


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Text Text Text  Text Text Text Text Text Text  Text Text.
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textText Text Text Text Text Text  Text Text Text Text Text Text
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Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
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Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
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Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.

\enlargethispage{6pt}


Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
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Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text



Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text


Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text

Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.


Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text

\begin{table}[!t]
\processtable{This is table caption\label{Tab:01}} {\begin{tabular}{@{}llll@{}}\toprule head1 &
head2 & head3 & head4\\\midrule
row1 & row1 & row1 & row1\\
row2 & row2 & row2 & row2\\
row3 & row3 & row3 & row3\\
row4 & row4 & row4 & row4\\\botrule
\end{tabular}}{This is a footnote}
\end{table}

\end{methods}

\begin{figure}[!tpb]%figure1
\fboxsep=0pt\colorbox{gray}{\begin{minipage}[t]{235pt} \vbox to 100pt{\vfill\hbox to
235pt{\hfill\fontsize{24pt}{24pt}\selectfont FPO\hfill}\vfill}
\end{minipage}}
%\centerline{\includegraphics{fig01.eps}}
\caption{Caption, caption.}\label{fig:01}
\end{figure}

%\begin{figure}[!tpb]%figure2
%%\centerline{\includegraphics{fig02.eps}}
%\caption{Caption, caption.}\label{fig:02}
%\end{figure}

Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text


\subsection{Test1}

Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text





\section{Discussion}

Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text.




Table~\ref{Tab:01} shows that Text Text Text Text Text  Text Text
Text Text Text Text. Figure~2\vphantom{\ref{fig:02}} shows that
the above method Text Text. Text Text Text  Text Text Text Text
Text Text. Figure~2\vphantom{\ref{fig:02}} shows that the above
method Text Text. Text Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method Text
Text.









%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
%     please remove the " % " symbol from \centerline{\includegraphics{fig01.eps}}
%     as it may ignore the figures.
%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%






\section{Conclusion}

(Table~\ref{Tab:01}) Text Text Text Text Text Text  Text Text Text
Text Text Text Text Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text
Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.



Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text  Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about  text text text text \cite{Jukes69}

\begin{enumerate}
\item this is item, use enumerate
\item this is item, use enumerate
\item this is item, use enumerate
\end{enumerate}

Text Text Text Text Text Text Text Text Text Text Text Text Text
Text Text Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows\vadjust{\pagebreak} that the
above method  Text Text Text Text Text Text Text Text Text Text
Text Text.  \citealp{Boffelli03} might want to know about text
text text text Text Text Text Text Text Text  Text Text Text Text
Text Text Text Text Text Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text Text Text Text Text Text Text  Text Text.
\citealp{Boffelli03} might want to know about text text text text
Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text Text Text Text Text Text\break Text.


Text Text Text Text Text Text  Text Text Text Text Text Text Text
Text Text  Text Text Text Text Text Text.
Figure~2\vphantom{\ref{fig:02}} shows that the above method  Text
Text Text Text\vspace*{-10pt}


\section*{Acknowledgements}

Text Text Text Text Text Text  Text Text.  \citealp{Boffelli03} might want to know about  text
text text text\vspace*{-12pt}

\section*{Funding}

This work has been supported by the... Text Text  Text Text.\vspace*{-12pt}

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% Bofelli,F., Name2, Name3 (2003) Article title, {\it Journal Name}, {\bf 199}, 133-154.

% \bibitem[Bag {\it et~al}., 2001]{Bag01}
% Bag,M., Name2, Name3 (2001) Article title, {\it Journal Name}, {\bf 99}, 33-54.

% \bibitem[Yoo \textit{et~al}., 2003]{Yoo03}
% Yoo,M.S. \textit{et~al}. (2003) Oxidative stress regulated genes
% in nigral dopaminergic neurnol cell: correlation with the known
% pathology in Parkinson's disease. \textit{Brain Res. Mol. Brain
% Res.}, \textbf{110}(Suppl. 1), 76--84.

% \bibitem[Lehmann, 1986]{Leh86}
% Lehmann,E.L. (1986) Chapter title. \textit{Book Title}. Vol.~1, 2nd edn. Springer-Verlag, New York.

% \bibitem[Crenshaw and Jones, 2003]{Cre03}
% Crenshaw, B.,III, and Jones, W.B.,Jr (2003) The future of clinical
% cancer management: one tumor, one chip. \textit{Bioinformatics},
% doi:10.1093/bioinformatics/btn000.

% \bibitem[Auhtor \textit{et~al}. (2000)]{Aut00}
% Auhtor,A.B. \textit{et~al}. (2000) Chapter title. In Smith, A.C.
% (ed.), \textit{Book Title}, 2nd edn. Publisher, Location, Vol. 1, pp.
% ???--???.

% \bibitem[Bardet, 1920]{Bar20}
% Bardet, G. (1920) Sur un syndrome d'obesite infantile avec
% polydactylie et retinite pigmentaire (contribution a l'etude des
% formes cliniques de l'obesite hypophysaire). PhD Thesis, name of
% institution, Paris, France.

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