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Research Article

Perturbation Biology: Inferring Signaling Networks in Cellular Systems

  • Evan J. Molinelli equal contributor,

    equal contributor Contributed equally to this work with: Evan J. Molinelli, Anil Korkut, Weiqing Wang

    Affiliations: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America, Tri-Institutional Program for Computational Biology and Medicine, Weill Cornell Medical College, New York, New York, United States of America

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  • Anil Korkut equal contributor,

    equal contributor Contributed equally to this work with: Evan J. Molinelli, Anil Korkut, Weiqing Wang

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Weiqing Wang equal contributor,

    equal contributor Contributed equally to this work with: Evan J. Molinelli, Anil Korkut, Weiqing Wang

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Martin L. Miller,

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Nicholas P. Gauthier,

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Xiaohong Jing,

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Poorvi Kaushik,

    Affiliations: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America, Tri-Institutional Program for Computational Biology and Medicine, Weill Cornell Medical College, New York, New York, United States of America

    X
  • Qin He,

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

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  • Gordon Mills,

    Affiliation: Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America

    X
  • David B. Solit,

    Affiliations: Program in Molecular Pharmacology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America, Human Oncology and Pathogenesis Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Christine A. Pratilas,

    Affiliations: Program in Molecular Pharmacology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America, Department of Pediatrics, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Martin Weigt,

    Affiliation: Laboratoire de Génomique des Microorganismes, Université Pierre et Marie Curie, Paris, France

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  • Alfredo Braunstein,

    Affiliation: Politecnico di Torino and Human Genetics Foundation, HuGeF, Torino, Italy

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  • Andrea Pagnani,

    Affiliation: Politecnico di Torino and Human Genetics Foundation, HuGeF, Torino, Italy

    X
  • Riccardo Zecchina,

    Affiliation: Politecnico di Torino and Human Genetics Foundation, HuGeF, Torino, Italy

    X
  • Chris Sander mail

    perturbation-biology@cbio.mskcc.org

    Affiliation: Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America

    X
  • Published: December 19, 2013
  • DOI: 10.1371/journal.pcbi.1003290

About the Authors

Evan J. Molinelli, Anil Korkut, Weiqing Wang, Martin L. Miller, Nicholas P. Gauthier, Xiaohong Jing, Poorvi Kaushik, Qin He, Chris Sander
Computational Biology Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America
Evan J. Molinelli, Poorvi Kaushik
Tri-Institutional Program for Computational Biology and Medicine, Weill Cornell Medical College, New York, New York, United States of America
Gordon Mills
Department of Systems Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of America
David B. Solit, Christine A. Pratilas
Program in Molecular Pharmacology, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America
David B. Solit
Human Oncology and Pathogenesis Program, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America
Christine A. Pratilas
Department of Pediatrics, Memorial Sloan-Kettering Cancer Center, New York, New York, United States of America
Martin Weigt
Laboratoire de Génomique des Microorganismes, Université Pierre et Marie Curie, Paris, France
Alfredo Braunstein, Andrea Pagnani, Riccardo Zecchina
Politecnico di Torino and Human Genetics Foundation, HuGeF, Torino, Italy

Corresponding Author

Email: perturbation-biology@cbio.mskcc.org

Competing Interests

The authors have declared that no competing interests exist.

Author Contributions

Conceived and designed the experiments: EJM AK WW CS . Performed the experiments: WW MLM NPG XJ PK QH. Analyzed the data: EJM AK. Contributed reagents/materials/analysis tools: GM DBS CAP. Wrote the paper: EJM AK WW AP CS. Reverse Phase Protein Array Platform: GM. Cell lines: DBS CAP. Development and optimization of code: EJM AK AB AP. Statistical physics: MW AB AP RZ. Network modeling with synthetic data: EJM. Network modeling with biological data: AK.