Search Results - Demir, Emek

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  1. 1
    Crosstalk between signaling pathways provided by single and multiple protein phosphorylation sites

    Crosstalk between signaling pathways provided by single and multiple protein phosphorylation sites by Nishi, Hafumi, Demir, Emek, Panchenko, Anna R.

    Published 2014
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  2. 2
    Algorithms for effective querying of compound graph-based pathway databases

    Algorithms for effective querying of compound graph-based pathway databases by Dogrusoz, Ugur, Cetintas, Ahmet, Demir, Emek, Babur, Ozgun

    Published 2009
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  3. 3
    ChiBE: interactive visualization and manipulation of BioPAX pathway models

    ChiBE: interactive visualization and manipulation of BioPAX pathway models by Babur, Ozgun, Dogrusoz, Ugur, Demir, Emek, Sander, Chris

    Published 2010
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  4. 4
    The BioPAX Validator

    The BioPAX Validator by Rodchenkov, Igor, Demir, Emek, Sander, Chris, Bader, Gary D.

    Published 2013
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  5. 5
    Automated Network Analysis Identifies Core Pathways in Glioblastoma

    Automated Network Analysis Identifies Core Pathways in Glioblastoma by Cerami, Ethan, Demir, Emek, Schultz, Nikolaus, Taylor, Barry S., Sander, Chris

    Published 2010
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  6. 6
    Discovering modulators of gene expression

    Discovering modulators of gene expression by Babur, Özgün, Demir, Emek, Gönen, Mithat, Sander, Chris, Dogrusoz, Ugur

    Published 2010
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  7. 7
    Systematic interrogation of mutation groupings reveals divergent downstream expression programs within key cancer genes

    Systematic interrogation of mutation groupings reveals divergent downstream expression programs within key cancer genes by Grzadkowski, Michal R., Holly, Hannah D., Somers, Julia, Demir, Emek

    Published 2021
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  8. 8
    PaxtoolsR: pathway analysis in R using Pathway Commons

    PaxtoolsR: pathway analysis in R using Pathway Commons by Luna, Augustin, Babur, Özgün, Aksoy, Bülent Arman, Demir, Emek, Sander, Chris

    Published 2016
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  9. 9
    Pattern search in BioPAX models

    Pattern search in BioPAX models by Babur, Özgün, Aksoy, Bülent Arman, Rodchenkov, Igor, Sümer, Selçuk Onur, Sander, Chris, Demir, Emek

    Published 2014
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  10. 10
    BioPAX support in CellDesigner

    BioPAX support in CellDesigner by Mi, Huaiyu, Muruganujan, Anushya, Demir, Emek, Matsuoka, Yukiko, Funahashi, Akira, Kitano, Hiroaki, Thomas, Paul D.

    Published 2011
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  11. 11
    Prediction of individualized therapeutic vulnerabilities in cancer from genomic profiles

    Prediction of individualized therapeutic vulnerabilities in cancer from genomic profiles by Aksoy, Bülent Arman, Demir, Emek, Babur, Özgün, Wang, Weiqing, Jing, Xiaohong, Schultz, Nikolaus, Sander, Chris

    Published 2014
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  12. 12
    Integrating biological pathways and genomic profiles with ChiBE 2

    Integrating biological pathways and genomic profiles with ChiBE 2 by Babur, Özgün, Dogrusoz, Ugur, Çakır, Merve, Aksoy, Bülent Arman, Schultz, Nikolaus, Sander, Chris, Demir, Emek

    Published 2014
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  13. 13
    Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations

    Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations by Babur, Özgün, Gönen, Mithat, Aksoy, Bülent Arman, Schultz, Nikolaus, Ciriello, Giovanni, Sander, Chris, Demir, Emek

    Published 2015
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  14. 14
    Meeting report from the first meetings of the Computational Modeling in Biology Network (COMBINE)

    Meeting report from the first meetings of the Computational Modeling in Biology Network (COMBINE) by Le Novère, Nicolas, Hucka, Michael, Anwar, Nadia, Bader, Gary D, Demir, Emek, Moodie, Stuart, Sorokin, Anatoly

    Published 2011
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  15. 15
    SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps

    SBGNViz: A Tool for Visualization and Complexity Management of SBGN Process Description Maps by Sari, Mecit, Bahceci, Istemi, Dogrusoz, Ugur, Sumer, Selcuk Onur, Aksoy, Bülent Arman, Babur, Özgün, Demir, Emek

    Published 2015
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  16. 16
    Analyzing causal relationships in proteomic profiles using CausalPath

    Analyzing causal relationships in proteomic profiles using CausalPath by Luna, Augustin, Siper, Metin Can, Korkut, Anil, Durupinar, Funda, Dogrusoz, Ugur, Aslan, Joseph E., Sander, Chris, Demir, Emek, Babur, Ozgun

    Published 2021
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  17. 17
    Pathway Commons, a web resource for biological pathway data

    Pathway Commons, a web resource for biological pathway data by Cerami, Ethan G., Gross, Benjamin E., Demir, Emek, Rodchenkov, Igor, Babur, Özgün, Anwar, Nadia, Schultz, Nikolaus, Bader, Gary D., Sander, Chris

    Published 2011
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  18. 18
    Using Biological Pathway Data with Paxtools

    Using Biological Pathway Data with Paxtools by Demir, Emek, Babur, Özgün, Rodchenkov, Igor, Aksoy, Bülent Arman, Fukuda, Ken I., Gross, Benjamin, Sümer, Onur Selçuk, Bader, Gary D., Sander, Chris

    Published 2013
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  19. 19
    Cancer-associated mutations in DICER1 RNase IIIa and IIIb domains exert similar effects on miRNA biogenesis

    Cancer-associated mutations in DICER1 RNase IIIa and IIIb domains exert similar effects on miRNA biogenesis by Vedanayagam, Jeffrey, Chatila, Walid K., Aksoy, Bülent Arman, Majumdar, Sonali, Skanderup, Anders Jacobsen, Demir, Emek, Schultz, Nikolaus, Sander, Chris, Lai, Eric C.

    Published 2019
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  20. 20
    Large-scale automated machine reading discovers new cancer-driving mechanisms

    Large-scale automated machine reading discovers new cancer-driving mechanisms by Valenzuela-Escárcega, Marco A, Babur, Özgün, Hahn-Powell, Gus, Bell, Dane, Hicks, Thomas, Noriega-Atala, Enrique, Wang, Xia, Surdeanu, Mihai, Demir, Emek, Morrison, Clayton T

    Published 2018
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