In silico experiment system for testing hypothesis on gene functions using three condition specific biological networks

Autor: Lee, Chai-Jin, Kang, Dongwon, Lee, Sangseon, Lee, Sunwon, Kang, Jaewoo, Kim, Sun

Publikováno v: In Methods 1 August 2018 145:10-15

Assessment of network module identification across complex diseases

Autor: Choobdar, Sarvenaz, Ahsen, Mehmet E., Natoli, Ted, Lysenko, Artem, Ma, Tianle, Mall, Raghvendra, Marbach, Daniel, Mattia, Tomasoni, Medvedovic, Mario, Menche, Jörg, Mercer, Johnathan, Micarelli, Elisa, Monaco, Alfonso, Narayan, Rajiv, Müller, Felix, Narykov, Oleksandr, Norman, Thea, Park, Sungjoon, Perfetto, Livia, Perrin, Dimitri, Pirrò, Stefano, Przytycka, Teresa M., DREAM Module Identification Challenge Consortium, Qian, Xiaoning, Raman, Karthik, Ramazzotti, Daniele, Ramsahai, Emilie, Ravindran, Balaraman, Rennert, Philip, Sáez Rodríguez, Julio, Schärfe, Charlotta, Sharan, Roded, Shi, Ning, Subramanian, Aravind, Shin, Wonho, Shu, Hai, Sinha, Himanshu, Slonim, Donna K., Spinelli, Lionel, Srinivasan, Suhas, Suver, Christine, Szklarczyk, Damian, Tangaro, Sabina, Zhang, Jitao D., Thiagarajan, Suresh, Tichit, Laurent, Tiede, Thorsten, Tripathi, Beethika, Tsherniak, Aviad, Tsunoda, Tatsuhiko, Türei, Dénes, Ullah, Ehsan, Vahedi, Golnaz, Valdeolivas, Alberto, Stolovitzky, Gustavo, Vivek, Jayaswal, von Mering, Christian, Waagmeester, Andra, Wang, Bo, Wang, Yijie, Weir, Barbara A., White, Shana, Winkler, Sebastian, Xu, Ke, Xu, Taosheng, Kutalik, Zoltán, Yan, Chunhua, Yang, Liuqing, Yu, Kaixian, Yu, Xiangtian, Zaffaroni, Gaia, Zaslavskiy, Mikhail, Zeng, Tao, Zhang, Lu, Zhang, Weijia, Lage, Kasper, Zhang, Lixia, Zhang, Xinyu, Zhang, Junpeng, Zhou, Xin, Zhou, Jiarui, Zhu, Hongtu, Zhu, Junjie, Zuccon, Guido, Crawford, Jake, Cowen, Lenore J., Bergmann, Sven, Aicheler, Fabian, Amoroso, Nicola, Arenas, Alex, Azhagesan, Karthik, Baker, Aaron, Banf, Michael, Batzoglou, Serafim, Tomasoni, Mattia, Baudot, Anaïs, Bellotti, Roberto, Boroevich, Keith A., Brun, Christine, Cai, Stanley, Caldera, Michael, Calderone, Alberto, Cesareni, Gianni, Chen, Weiqi, Fang, Tao, Chichester, Christine, Cowen, Lenore, Cui, Hongzhu, Dao, Phuong, De Domenico, Manlio, Dhroso, Andi, Didier, Gilles, Divine, Mathew, Lamparter, David, Del Sol, Antonio, Feng, Xuyang, Flores-Canales, Jose C., Fortunato, Santo, Gitter, Anthony, Gorska, Anna, Guan, Yuanfang, Guénoche, Alain, Gómez, Sergio, Lin, Junyuan, Hamza, Hatem, Hartmann, András, He, Shan, Heijs, Anton, Heinrich, Julian, Hescott, Benjamin, Hu, Xiaozhe, Hu, Ying, Huang, Xiaoqing, Hughitt, V. Keith, Jeon, Minji, Jeub, Lucas, Johnson, Nathan T., Joo, Keehyoung, Joung, InSuk, Jung, Sascha, Kalko, Susana G., Kamola, Piotr J., Kang, Jaewoo, Kaveelerdpotjana, Benjapun, Kim, Minjun, Kim, Yoo-Ah, Kohlbacher, Oliver, Korkin, Dmitry, Krzysztof, Kiryluk, Kunji, Khalid, Kutalik, Zoltàn, Lang-Brown, Sean, Le, Thuc Duy, Lee, Jooyoung, Lee, Sunwon, Lee, Juyong, Li, Dong, Li, Jiuyong, Liu, Lin, Loizou, Antonis, Luo, Zhenhua

Publikováno v: Nature Methods
Nature methods 16(9), 843-852 (2019). doi:10.1038/s41592-019-0509-5
Nature Methods, 2019, 16 (9), pp.843-852. ⟨10.1038/s41592-019-0509-5⟩
Nature Methods, Nature Publishing Group, 2019, 16 (9), pp.843-852. ⟨10.1038/s41592-019-0509-5⟩
Nature methods, vol. 16, no. 9, pp. 843-852

Many bioinformatics methods have been proposed for reducing the complexity of large gene or protein networks into relevant subnetworks or modules. Yet, how such methods compare to each other in terms of their ability to identify disease-relevant modu

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::31ab672e0c945979c1daea08c7529bc9
https://hdl.handle.net/11573/1660164

Open Community Challenge Reveals Molecular Network Modules with Key Roles in Diseases

Autor: Choobdar, Sarvenaz, Ahsen, Mehmet E., Crawford, Jake, Tomasoni, Mattia, Fang, Tao, Lamparter, David, Lin, Junyuan, Hescott, Benjamin, Hu, Xiaozhe, Mercer, Johnathan, Natoli, Ted, Narayan, Rajiv, Subramanian, Aravind, Zhang, Jitao D., Stolovitzky, Gustavo, Kutalik, Zoltán, Lage, Kasper, Slonim, Donna K., Saez-Rodriguez, Julio, Cowen, Lenore J., Bergmann, Sven, Marbach, Daniel, Aicheler, Fabian, Amoroso, Nicola, Arenas, Alex, Azhagesan, Karthik, Baker, Aaron, Banf, Michael, Batzoglou, Serafim, Baudot, Anaïs, Bellotti, Roberto, Boroevich, Keith A., Brun, Christine, Cai, Stanley, Caldera, Michael, Calderone, Alberto, Cesareni, Gianni, Chen, Weiqi, Chichester, Christine, Cowen, Lenore, Cui, Hongzhu, Dao, Phuong, Domenico, Manlio De, Dhroso, Andi, Didier, Gilles, Divine, Mathew, Sol, Antonio del, Feng, Xuyang, Flores-Canales, Jose C., Fortunato, Santo, Gitter, Anthony, Gorska, Anna, Guan, Yuanfang, Guénoche, Alain, Gómez, Sergio, Hamza, Hatem, Hartmann, András, He, Shan, Heijs, Anton, Heinrich, Julian, Hu, Ying, Huang, Xiaoqing, Hughitt, V. Keith, Jeon, Minji, Jeub, Lucas, Johnson, Nathan, Joo, Keehyoung, Joung, InSuk, Jung, Sascha, Kalko, Susana G., Kamola, Piotr J., Kang, Jaewoo, Kaveelerdpotjana, Benjapun, Kim, Minjun, Kim, Yoo-Ah, Kohlbacher, Oliver, Korkin, Dmitry, Krzysztof, Kiryluk, Kunji, Khalid, Kutalik, Zoltàn, Lang-Brown, Sean, Le, Thuc Duy, Lee, Jooyoung, Lee, Sunwon, Lee, Juyong, Li, Dong, Li, Jiuyong, Liu, Lin, Loizou, Antonis, Luo, Zhenhua, Lysenko, Artem, Ma, Tianle, Mall, Raghvendra, Mattia, Tomasoni, Medvedovic, Mario, Menche, Jörg, Micarelli, Elisa, Monaco, Alfonso, Müller, Felix, Narykov, Oleksandr, Norman, Thea, Park, Sungjoon, Perfetto, Livia, Perrin, Dimitri, Pirrò, Stefano, Przytycka, Teresa M., Qian, Xiaoning, Raman, Karthik, Ramazzotti, Daniele, Ramsahai, Emilie, Ravindran, Balaraman, Rennert, Philip, Schärfe, Charlotta, Sharan, Roded, Shi, Ning, Shin, Wonho, Shu, Hai, Sinha, Himanshu, Spinelli, Lionel, Srinivasan, Suhas, Suver, Christine, Szklarczyk, Damian, Tangaro, Sabina, Thiagarajan, Suresh, Tichit, Laurent, Tiede, Thorsten, Tripathi, Beethika, Tsherniak, Aviad, Tsunoda, Tatsuhiko, Türei, Dénes, Ullah, Ehsan, Vahedi, Golnaz, Valdeolivas, Alberto, Vivek, Jayaswal, Mering, Christian von, Waagmeester, Andra, Wang, Bo, Wang, Yijie, Weir, Barbara A., White, Shana, Winkler, Sebastian, Xu, Ke, Xu, Taosheng, Yan, Chunhua, Yang, Liuqing, Yu, Kaixian, Yu, Xiangtian, Zaffaroni, Gaia, Zaslavskiy, Mikhail, Zeng, Tao, Zhang, Lu, Zhang, Weijia, Zhang, Lixia, Zhang, Xinyu, Zhang, Junpeng, Zhou, Xin, Zhou, Jiarui, Zhu, Hongtu, Zhu, Junjie, Zuccon, Guido

Identification of modules in molecular networks is at the core of many current analysis methods in biomedical research. However, how well different approaches identify disease-relevant modules in different types of gene and protein networks remains p

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::bebaa80c867fcd54ef9d72df4bd496d1

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