A complete list of my publications can be found on my Google Scholar profile. Red color indicates key publications. My complete CV can be found here.


  • M. Santolini, A. Krishna, C. Ellinas, L. Blondel, T.E. Landrain, A-L Barabasi, A large scale laboratory notebook analysis predicts team success in a scientific competition (in preparation) [abstract presented at Complex Networks 2017 – prize for best presentation] [iGEMeta collaboration]
  • A. Dhand, S. Cornelius, M. Santolini, A-L Barabasi, Hospital network centrality predicts mortality (in preparation) [abstract]
  • B. Wang, M. Santolini, K. Glass, DC Chonka, B. Raby, A. Sharma. The peripheral and core properties of a disease module in the interactome (in preparation)
  • M. Santolini*, B. Winborn*, S. Liu, H. Joo Kim, J.P. Taylor, A. Sharma. A disease centrality identifies multi-system proteinopathy disease genes (in preparation) [poster]
  • A. Ameli, M Santolini, S. Liu, A. Kho, JA Park, J. Fredberg, K. Tantisira, ST Weiss, A. Sharma. meRIT: a network-based approach to build miRNA-mRNA disease modules using gene expression data (in preparation)
  • M. Santolini, A-L Barabasi, Predicting perturbation patterns from the topology of biological networks (submitted) [abstract]
  • A. Kilic*, M. Santolini*, A. Al Garawi, S. Uchida, H. Renz, S. T. Weiss, A. Sharma, A novel systems immunology approach identifies the collective impact of five miRNAs in Th2 inflammation (in revision)
  • C. Rees, JH Yang, M. Santolini, JN Weiss and A. Karma. Variability and compensation in cardiac electrophysiology at cellular, organ, and population levels. (in revision).
  • A Sharma, A Halu, J Menche, Y Yu-Liu, J Fadista, M. Santolini, M Padi, ST Weiss, M Vidal, EK Silverman, A Masanori, AL Barabási, L Groop, J Loscalzo. Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes (in revision) [bioRxiv]
  • A. Sharma, X. Zhou, Z. Jiang, M. Cho, J. Menche, M. Kitsak, M. Santolini, A.-L. Barabási, E. K. Silverman. Integration of Molecular Interactome and Targeted Interaction Analysis to Identify a COPD Disease module (in revision)
  • M. Santolini, MC. Romay, C. Rau, S. Ren, J. Saucerman, J. Wang, J. Weiss, Y. Wang, A. Lusis, A. Karma. A personalized, multi-omics approach identifies genes involved in cardiac hypertrophy and heart failure. (accepted at npj Systems Biology and Applications) [bioRxiv]


  • CD Rau, MC Romay, M Tuteryan, JC Wang, M. Santolini, S Ren, A Karma, JN Weiss, Y Wang, AJ Lusis. Systems Genetics Approach Identifies Gene Pathways and Adamts2 as Drivers of Isoproterenol-Induced Cardiac Hypertrophy and Cardiomyopathy in Mice. Cell Systems [web]
  • H Mirzakhani, AA Litonjua, T McElrath, G O’Connor, A Lee-Parritz, R Iverson, G Ma- cones, R Strunk, LB Bacharier, R Zeiger, BW Hollis, DE Handy, A Sharma, N Laranjo, V Carey, W Qiu, M. Santolini, S Liu, D Chhabra, DA Enquobahrie, MA Williams, J Localzo, ST Weiss. Early pregnancy vitamin D status and risk of preeclampsia. J Clin Invest.  [web]
  • I. Sakakibara, M. Wurmser, M. Santolini, R. Davaze, S. Ducommun, K. Sakamoto, P. Maire. Six1 homeoprotein drives myofiber type IIA specialization in soleus muscle. Skeletal Muscle [web]
  • M. Santolini*, I. Sakakibara*, M. Gauthier, V. Mouly, JP. Concordet, PA. Defossez, V. Hakim, P. Maire. MyoD reprogramming requires Six1 and Six4 homeoproteins: genome-wide cis-regulatory module analysis. Nucleic Acids Research [web]


  • M. Santolini, T. Mora, and V. Hakim. A general pairwise interaction model provides an accurate description of in vivo transcription factor binding sites. PLoS One  [web]
  • I. Sakakibara, M. Santolini, A. Ferry, V. Hakim, and P. Maire. Six homeoproteins and a linc-RNA at the fast MYH locus lock fast myofiber terminal phenotype. PLoS Genetics [web]
  • M. Santolini*, H. Rouault*, F. Schweisguth, and V. Hakim. Imogene: identification of motifs and cis-regulatory modules underlying gene co-regulation. Nucleic Acids Research [web]


  • M. Santolini*, D. Menoret*, I. Fernandes, R. Spokony, J. Zanet, I. Gonzalez, Y. Latapie, P. Ferrer, H. Rouault, K. P. White, P. Besse, V. Hakim, S. Aerts, F. Payre, and S. Plaza. Genome-wide analyses of shavenbaby target genes reveals distinct features of enhancer organization. Genome Biology [web]
  • F. Relaix, J. Demignon, C. Laclef, J. Pujol, M. Santolini, C. Niro, M. Lagha, D. Ro- cancourt, M. Bucking- ham, and P. Maire. Six homeoproteins directly activate Myod expression in the gene regulatory networks that control early myogenesis. PLoS Genetics [web]


  • Computational analysis of cis-regulatory elements in drosophila and mammalian genomes. (French) [pdf]

My PhD thesis of physics done at the Laboratoire de Physique Statistique (LPS) of ENS under the supervision of Vincent Hakim.

  • Le Principe Anthropique – La place de l’Homme dans l’Univers.  (French) [pdf]

My Master’s thesis of History and Philosophy of Science done at ENS under the supervision of Marc Lachièze-Rey during 2008.

  • Estimating cosmological parameters through cross-correlation of galaxy surveys and Cosmic Microwave Background fluctuations. [pdf]

Thesis from my internship done at the Departement of Astrophysical Sciences at Princeton University under the supervision of David Spergel during spring 2007.