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\subsection*{Supplementary information}
\textbf{Prediction of HER2 FISH result from registered H\&E and IHC slides in breast cancer} 

Amit Frechter\afflink{1}\textsuperscript{,*}, Edmond Sabo\afflink{2} \afflink{3}, Alexandra Cretu\afflink{2}, António Polónia\afflink{4} \afflink{5}, Shahar Cohen\afflink{1}, Frederick M. Howard\afflink{6}, Karin Stoliar\afflink{7}, Ron Kimmel\afflink{1} \afflink{8} \& Gil Shamai\afflink{1}
\newline
* Corresponding author
\newline
amitf@campus.technion.ac.il


\afftarget{1}Department of Computer Science, Technion---Israel Institute of Technology, Haifa, Israel.

\afftarget{2}Department of Pathology, Carmel Medical Center, Haifa, Israel.

\afftarget{3}Ruth and Bruce Rappaport Faculty of Medicine, Technion---Israel Institute of Technology, Haifa, Israel.

\afftarget{4}Institute of Molecular Pathology and Immunology of the University of Porto, Porto, Portugal.

\afftarget{5}School of Medicine and Biomedical Sciences, Fernando Pessoa University, Porto, Portugal.

\afftarget{6}Department of Medicine, University of Chicago, Chicago, IL, USA.

\afftarget{7}Department of Otolaryngology--Head and Neck Surgery, Rabin Medical Center, Petach Tikva, Israel.

\afftarget{8}Department of Electrical and Computer Engineering, Technion---Israel Institute of Technology, Haifa, Israel.


\newpage
\textbf{Supplementary Fig. 1: Registration mean deviation distance per number of landmarks.}
\begin{figure}[H]
\centering
\includegraphics[width=1\textwidth]{Sup_figure1_regis_num_landmarks.png}
\caption{\textbf{Mean deviation distance after registration across slides grouped by the number of annotated landmarks}}
\label{fig:sup_fig1_regis_num_landmarks}
\end{figure}

\newpage
\textbf{Supplementary Fig. 2: Mispredictions by the IHC-only baseline.}
\begin{figure}[H]
\centering
\includegraphics[width=1\textwidth]{Sup_figure2_baseline_mispred.png}
\caption{\textbf{Examples for slide pairs mispredicted by the IHC-only baseline, but accurately predicted by the multimodal model}}
\label{fig:sup_fig2_baseline_mispred}
\end{figure}

\newpage
\textbf{Supplementary Fig. 3: Mispredictions by the IHC-only baseline and the multimodal model.}
\begin{figure}[H]
\centering
\includegraphics[width=1\textwidth]{Sup_figure3_both_mispred.png}
\caption{\textbf{Examples for slide pairs mispredicted by both the IHC-only baseline and the multimodal model}}
\label{fig:sup_fig3_both_mispred}
\end{figure}

\newpage
\textbf{Supplementary Fig. 4: Mispredictions by the  multimodal model.}
\begin{figure}[H]
\centering
\includegraphics[width=1\textwidth]{Sup_figure4_multimodal_mispred.png}
\caption{\textbf{Examples for slide pairs partly mispredicted by the multimodal model, but accurately predicted by the IHC-only baseline}}
\label{fig:sup_fig4_multimodel_mispred}
\end{figure}

\end{document}