\chapter{مراجع}
\begin{thebibliography}{99} % assumes less than 100 references
\addcontentsline{toc}{section}{  مراجع} % to add the references to index
%چنانچه مرجع فارسی نیز داشته باشید باید دستور فوق را فعال کنید و مراجع فارسی خود را بعد از این دستور وارد کنید
% 1
\bibitem{bionetbook}
بیورن یونکر، فالک شرایبر، کاربرد شبکه‌ها در بیوانفورماتیک (تحلیل شبکه‌های زیستی)، ترجمه دکتر محی الدین جعفری و وحید نقشینه ارجمند، انتشارات کیهان، 1394
% 2
\bibitem{whatbio}
نفیسه صداقت و محمود فتحی، "مروری بر کاربرد هوش مصنوعی در زیست محاسباتی"، دانشکده مهندسی کامپیوتر، دانشگاه علم و صنعت ایران، کنفرانس ملی دانش پژوهان کامپیوتر و فناوری اطلاعات، آبان 1390

\begin{LTRitems}

%3
\bibitem{wikicell}
\url{https://en.wikipedia.org/wiki/Cell_(biology)}

%4
\bibitem{central_dogma_ncbi}
\url{http://www.ncbi.nlm.nih.gov/Class/MLACourse/Modules/MolBioReview/central_dogma.html}

%5
\bibitem{study.com}
\url{http://study.com/academy/course/college-biology-help-and-review.html }

%6
\bibitem{genomepic}
\url{https://commons.wikimedia.org/wiki/File:Genome-en.svg}

%7
\bibitem{geneexpression-img}
\url{http://biosocialmethods.isr.umich.edu}

%8
\bibitem{wikiprotein}
\url{https://fa.wikipedia.org/wiki/Protein}

%9
\bibitem{wikicancer}
\url{https://en.wikipedia.org/wiki/Cancer}

%10
\bibitem{Platzer2007}
Platzer, A., Perco, P., Lukas, A., & Mayer, B. (2007). Characterization of protein-interaction networks in tumors. BMC Bioinformatics, 8, 224. http://doi.org/10.1186/1471-2105-8-224

%11
\bibitem{drsadeghi}
Mirzarezaee, M., N Araabi, B., & Sadeghi, M. (2010). Comparison of Hubs in Effective Normal and Tumor Protein Interaction Networks. Basic and Clinical Neuroscience, 2(1), 44–50.

%12
\bibitem{graphbiological}
Pavlopoulos et al.: \textbf{Using graph theory to analyze biological networks}. BioData Mining 2011 4:10.

%13
\bibitem{graphbase}
Tero Aittokallio and Benno Schwikowski, \textbf{Graph-based methods for analysing networks in cell biology}, 2006

%14
\bibitem{Sun2010}
Sun, J., & Zhao, Z. (2010). A comparative study of cancer proteins in the human protein-protein interaction network, 11(Suppl 3), 1–10.

%15
\bibitem{Xiong2014}
Xiong, W., Xie, L., Zhou, S., Liu, H., & Guan, J. (2014). The centrality of cancer proteins in human protein-protein interaction network: a revisit. International Journal of Computational Biology and Drug Design, 7(2/3), 146–156. http://doi.org/10.1504/IJCBDD.2014.061643

%16
\bibitem{biologicalnetwork-img}
\url{http://www.blopig.com/blog/author/malte/}

% 17
\bibitem{Sanz-Pamplona2012}
Sanz-Pamplona, R., Berenguer, A., Sole, X., Cordero, D., Crous-Bou, M., Serra-Musach, J., … Moreno, V. (2012). Tools for protein-protein interaction network analysis in cancer research. Clinical and Translational Oncology, 14(1), 3–14. http://doi.org/10.1007/s12094-012-0755-9


% 18
\bibitem{Rahman2013}
Rahman, K. M. T., Islam, F., Banik, R. S., Honi, U., & Diba, F. S. (2013). Changes in protein interaction networks between normal and cancer conditions : Total chaos or ordered disorder, 3(1), 15–28.

% 19
\bibitem{Islam2013}
Islam, F., Hoque, M., Banik, R. S., Roy, S., & Sumi, S. S. (2013). Comparative analysis of differential network modularity in tissue specific normal and cancer protein interaction networks, 1–23.

%20
\bibitem{Masoudi-nejad2014}
Masoudi-nejad, A., Ghasemi, M., Seidkhani, H., Tamimi, F., Rahgozar, M., & Masoudi-nejad, A. (2014). Centrality Measures in Biological Networks, (MAY), 1–17. http://doi.org/10.2174/15748936113086660013

%21
\bibitem{littlebook}
"A Little Book of R For Bioinformatics", Avril Coghlan, 2014

%22
\bibitem{hub5}
Han JD, Bertin N, Hao T, Goldberg DS, Berriz GF, et al. (2004) Evidence for dynamically organized modularity in the yeast protein-protein interaction network. Nature 430: 88–93.

%23
\bibitem{hub8}
Ekman D, Light S, Bjo ¨rklund AK, Elofsson A (2006) What properties characterize the hub proteins of the protein-protein interaction network of Saccharomyces cerevisiae Genome Biol 7: R45.

%24
\bibitem{hub12}
Jin G, Zhang S, Zhang XS, Chen L (2007) Hubs with network motifs organize modularity dynamically in the protein-protein interaction network of yeast. PLoS ONE 2: e1207.

%25
\bibitem{hub20}
Aragues R, Sali A, Bonet J, Marti-Renom MA, Oliva B (2007) Characterization of protein hubs by inferring interacting motifs from protein interactions. PLoS Comput Bio 3: e178.

%26
\bibitem{centiscape}
Scardoni et al: \textbf{CentiScaPe: Network centralities for Cytoscape}

%27
\bibitem{centralitybiological}
Ghasemi et al, \textbf{Centrality Measures in Biological Networks}, 2014

%28
\bibitem{Estrada2006}
Estrada, E. (2006). Virtual identification of essential proteins within the protein interaction network of yeast. Proteomics, 6(1), 35–40. http://doi.org/10.1002/pmic.200500209 [doi]

%29
\bibitem{CMIntro}
\url{https://sites.google.com/site/networkanalysisacourse/schedule/an-introduction-to-centrality-measures}

%30
\bibitem{Estrada-subgraph}
Estrada, E., Rodríguez-velázquez, J. A. (n.d.). Subgraph Centrality in Complex Networks, University Carlos III de Madrid.

% 31
\bibitem{EstradaSlide}
Ernesto Estrada, "Introduction to Network Theory: Modern Conscepts, Algorithms and Application", Slide, University of Strathclyde

\end{LTRitems}

%32
\bibitem{SNCentrality}
ریحانه ریگی، دکتر مهرداد جلالی، دکتر محمدحسین معطر، "مروری بر شاخص های مرکزیت در شبکه های اجتماعی"، همایش ملی مهندسی رایانه و فناوری اطلاعات
\begin{LTRitems}

% 33
\bibitem{Graph2010}
Reinhard Diestel, "Graph Theory", Fourth Edition, 2010, Springer

% 34
\bibitem{NetworkAnalyzer}
\url{http://med.bioinf.mpi-inf.mpg.de/netanalyzer/help/2.7/}

% 35
\bibitem{SadeghiSlide}
Sadeghi, Mehdi, "System Biology and Network Biology", Slide, IPM

% 35
\bibitem{MirzaieIPM}
Mehdi Mirzaie, "Introduction to Graph theory", Slide, System Biology Workshop, IPM

\end{LTRitems}

% 36
\bibitem{shahraki1393}
حسین شهرکی قدیم، بهرام گلیائی، مطالعه برهمکنش های پروتئین پروتئین بر اساس روش انتقال انرژی رزونانس فلورسانس، مجله سمینارهای بیوفیزیک ایران، 1393
\end{thebibliography}