Distillation of the clinical algorithm improves prognosis by multi-task deep learning in high-risk Neuroblastoma

per Maggio, Valerio, Chierici, Marco, Jurman, Giuseppe, Furlanello, Cesare
Publicat a PLoS One (2018)

Predictability of drug-induced liver injury by machine learning

per Chierici, Marco, Francescatto, Margherita, Bussola, Nicole, Jurman, Giuseppe, Furlanello, Cesare
Publicat a Biol Direct (2020)

Multi-omics integration for neuroblastoma clinical endpoint prediction

per Francescatto, Margherita, Chierici, Marco, Rezvan Dezfooli, Setareh, Zandonà, Alessandro, Jurman, Giuseppe, Furlanello, Cesare
Publicat a Biol Direct (2018)

Phylogenetic convolutional neural networks in metagenomics

per Fioravanti, Diego, Giarratano, Ylenia, Maggio, Valerio, Agostinelli, Claudio, Chierici, Marco, Jurman, Giuseppe, Furlanello, Cesare
Publicat a BMC Bioinformatics (2018)

Evaluating reproducibility of AI algorithms in digital pathology with DAPPER

per Bizzego, Andrea, Bussola, Nicole, Chierici, Marco, Maggio, Valerio, Francescatto, Margherita, Cima, Luca, Cristoforetti, Marco, Jurman, Giuseppe, Furlanello, Cesare
Publicat a PLoS Comput Biol (2019)

Integrative Network Fusion: A Multi-Omics Approach in Molecular Profiling

per Chierici, Marco, Bussola, Nicole, Marcolini, Alessia, Francescatto, Margherita, Zandonà, Alessandro, Trastulla, Lucia, Agostinelli, Claudio, Jurman, Giuseppe, Furlanello, Cesare
Publicat a Front Oncol (2020)

Surfactant disaturated-phosphatidylcholine kinetics in acute respiratory distress syndrome by stable isotopes and a two compartment model

per Cogo, Paola E, Toffolo, Gianna Maria, Ori, Carlo, Vianello, Andrea, Chierici, Marco, Gucciardi, Antonina, Cobelli, Claudio, Baritussio, Aldo, Carnielli, Virgilio P
Publicat 2007

A Pan-Cancer Approach to Predict Responsiveness to Immune Checkpoint Inhibitors by Machine Learning

per Polano, Maurizio, Chierici, Marco, Dal Bo, Michele, Gentilini, Davide, Di Cintio, Federica, Baboci, Lorena, Gibbs, David L., Furlanello, Cesare, Toffoli, Giuseppe
Publicat a Cancers (Basel) (2019)

Identification of GALNT14 as a novel neuroblastoma predisposition gene

per De Mariano, Marilena, Gallesio, Roberta, Chierici, Marco, Furlanello, Cesare, Conte, Massimo, Garaventa, Alberto, Croce, Michela, Ferrini, Silvano, Tonini, Gian Paolo, Longo, Luca
Publicat a Oncotarget (2015)

Monitoring Perinatal Gut Microbiota in Mouse Models by Mass Spectrometry Approaches: Parental Genetic Background and Breastfeeding Effects

per Levi Mortera, Stefano, Del Chierico, Federica, Vernocchi, Pamela, Rosado, Maria M., Cavola, Agnese, Chierici, Marco, Pieroni, Luisa, Urbani, Andrea, Carsetti, Rita, Lante, Isabella, Dallapiccola, Bruno, Putignani, Lorenza
Publicat a Front Microbiol (2016)

Cellular and gene signatures of tumor-infiltrating dendritic cells and natural-killer cells predict prognosis of neuroblastoma

per Melaiu, Ombretta, Chierici, Marco, Lucarini, Valeria, Jurman, Giuseppe, Conti, Libenzio Adrian, De Vito, Rita, Boldrini, Renata, Cifaldi, Loredana, Castellano, Aurora, Furlanello, Cesare, Barnaba, Vincenzo, Locatelli, Franco, Fruci, Doriana
Publicat a Nat Commun (2020)

Tumor-infiltrating T cells and PD-L1 expression in childhood malignant extracranial germ-cell tumors

per Boldrini, Renata, De Pasquale, Maria Debora, Melaiu, Ombretta, Chierici, Marco, Jurman, Giuseppe, Benedetti, Maria Chiara, Salfi, Nunzio C., Castellano, Aurora, Collini, Paola, Furlanello, Cesare, Pistoia, Vito, Cifaldi, Loredana, Terenziani, Monica, Fruci, Doriana
Publicat a Oncoimmunology (2018)

Focal adhesion kinase depletion reduces human hepatocellular carcinoma growth by repressing enhancer of zeste homolog 2

per Gnani, Daniela, Romito, Ilaria, Artuso, Simona, Chierici, Marco, De Stefanis, Cristiano, Panera, Nadia, Crudele, Annalisa, Ceccarelli, Sara, Carcarino, Elena, D'Oria, Valentina, Porru, Manuela, Giorda, Ezio, Ferrari, Karin, Miele, Luca, Villa, Erica, Balsano, Clara, Pasini, Diego, Furlanello, Cesare, Locatelli, Franco, Nobili, Valerio, Rota, Rossella, Leonetti, Carlo, Alisi, Anna
Publicat a Cell Death Differ (2017)

A comprehensive study design reveals treatment- and transcript abundance–dependent concordance between RNA-seq and microarray data

per Wang, Charles, Gong, Binsheng, Bushel, Pierre R., Thierry-Mieg, Jean, Thierry-Mieg, Danielle, Xu, Joshua, Fang, Hong, Hong, Huixiao, Shen, Jie, Su, Zhenqiang, Meehan, Joe, Li, Xiaojin, Yang, Lu, Li, Haiqing, Łabaj, Paweł P., Kreil, David P., Megherbi, Dalila, Florian, Caiment, Gaj, Stan, van Delft, Joost, Kleinjans, Jos, Scherer, Andreas, Viswanath, Devanarayan, Wang, Jian, Yang, Yong, Qian, Hui-Rong, Lancashire, Lee J., Bessarabova, Marina, Nikolsky, Yuri, Furlanello, Cesare, Chierici, Marco, Albanese, Davide, Jurman, Giuseppe, Riccadonna, Samantha, Filosi, Michele, Visintainer, Roberto, Zhang, Ke K., Li, Jianying, Hsieh, Jui-Hua, Svoboda, Daniel L., Fuscoe, James C., Deng, Youping, Shi, Leming, Paules, Richard S., Auerbach, Scott S., Tong, Weida
Publicat a Nat Biotechnol (2014)

Comparison of RNA-seq and microarray-based models for clinical endpoint prediction

per Zhang, Wenqian, Yu, Ying, Hertwig, Falk, Thierry-Mieg, Jean, Zhang, Wenwei, Thierry-Mieg, Danielle, Wang, Jian, Furlanello, Cesare, Devanarayan, Viswanath, Cheng, Jie, Deng, Youping, Hero, Barbara, Hong, Huixiao, Jia, Meiwen, Li, Li, Lin, Simon M, Nikolsky, Yuri, Oberthuer, André, Qing, Tao, Su, Zhenqiang, Volland, Ruth, Wang, Charles, Wang, May D., Ai, Junmei, Albanese, Davide, Asgharzadeh, Shahab, Avigad, Smadar, Bao, Wenjun, Bessarabova, Marina, Brilliant, Murray H., Brors, Benedikt, Chierici, Marco, Chu, Tzu-Ming, Zhang, Jibin, Grundy, Richard G., He, Min Max, Hebbring, Scott, Kaufman, Howard L., Lababidi, Samir, Lancashire, Lee J., Li, Yan, Lu, Xin X., Luo, Heng, Ma, Xiwen, Ning, Baitang, Noguera, Rosa, Peifer, Martin, Phan, John H., Roels, Frederik, Rosswog, Carolina, Shao, Susan, Shen, Jie, Theissen, Jessica, Tonini, Gian Paolo, Vandesompele, Jo, Wu, Po-Yen, Xiao, Wenzhong, Xu, Joshua, Xu, Weihong, Xuan, Jiekun, Yang, Yong, Ye, Zhan, Dong, Zirui, Zhang, Ke K., Yin, Ye, Zhao, Chen, Zheng, Yuanting, Wolfinger, Russell D., Shi, Tieliu, Malkas, Linda H., Berthold, Frank, Wang, Jun, Tong, Weida, Shi, Leming, Peng, Zhiyu, Fischer, Matthias
Publicat a Genome Biol (2015)

A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency

per Jones, Wendell, Gong, Binsheng, Novoradovskaya, Natalia, Li, Dan, Kusko, Rebecca, Richmond, Todd A., Johann, Donald J., Bisgin, Halil, Sahraeian, Sayed Mohammad Ebrahim, Bushel, Pierre R., Pirooznia, Mehdi, Wilkins, Katherine, Chierici, Marco, Bao, Wenjun, Basehore, Lee Scott, Lucas, Anne Bergstrom, Burgess, Daniel, Butler, Daniel J., Cawley, Simon, Chang, Chia-Jung, Chen, Guangchun, Chen, Tao, Chen, Yun-Ching, Craig, Daniel J., del Pozo, Angela, Foox, Jonathan, Francescatto, Margherita, Fu, Yutao, Furlanello, Cesare, Giorda, Kristina, Grist, Kira P., Guan, Meijian, Hao, Yingyi, Happe, Scott, Hariani, Gunjan, Haseley, Nathan, Jasper, Jeff, Jurman, Giuseppe, Kreil, David Philip, Łabaj, Paweł, Lai, Kevin, Li, Jianying, Li, Quan-Zhen, Li, Yulong, Li, Zhiguang, Liu, Zhichao, López, Mario Solís, Miclaus, Kelci, Miller, Raymond, Mittal, Vinay K., Mohiyuddin, Marghoob, Pabón-Peña, Carlos, Parsons, Barbara L., Qiu, Fujun, Scherer, Andreas, Shi, Tieliu, Stiegelmeyer, Suzy, Suo, Chen, Tom, Nikola, Wang, Dong, Wen, Zhining, Wu, Leihong, Xiao, Wenzhong, Xu, Chang, Yu, Ying, Zhang, Jiyang, Zhang, Yifan, Zhang, Zhihong, Zheng, Yuanting, Mason, Christopher E., Willey, James C., Tong, Weida, Shi, Leming, Xu, Joshua
Publicat a Genome Biol (2021)

Cross-oncopanel study reveals high sensitivity and accuracy with overall analytical performance depending on genomic regions

per Gong, Binsheng, Li, Dan, Kusko, Rebecca, Novoradovskaya, Natalia, Zhang, Yifan, Wang, Shangzi, Pabón-Peña, Carlos, Zhang, Zhihong, Lai, Kevin, Cai, Wanshi, LoCoco, Jennifer S., Lader, Eric, Richmond, Todd A., Mittal, Vinay K., Liu, Liang-Chun, Johann, Donald J., Willey, James C., Bushel, Pierre R., Yu, Ying, Xu, Chang, Chen, Guangchun, Burgess, Daniel, Cawley, Simon, Giorda, Kristina, Haseley, Nathan, Qiu, Fujun, Wilkins, Katherine, Arib, Hanane, Attwooll, Claire, Babson, Kevin, Bao, Longlong, Bao, Wenjun, Lucas, Anne Bergstrom, Best, Hunter, Bhandari, Ambica, Bisgin, Halil, Blackburn, James, Blomquist, Thomas M., Boardman, Lisa, Burgher, Blake, Butler, Daniel J., Chang, Chia-Jung, Chaubey, Alka, Chen, Tao, Chierici, Marco, Chin, Christopher R., Close, Devin, Conroy, Jeffrey, Coleman, Jessica Cooley, Craig, Daniel J., Crawford, Erin, del Pozo, Angela, Deveson, Ira W., Duncan, Daniel, Eterovic, Agda Karina, Fan, Xiaohui, Foox, Jonathan, Furlanello, Cesare, Ghosal, Abhisek, Glenn, Sean, Guan, Meijian, Haag, Christine, Hang, Xinyi, Happe, Scott, Hennigan, Brittany, Hipp, Jennifer, Hong, Huixiao, Horvath, Kyle, Hu, Jianhong, Hung, Li-Yuan, Jarosz, Mirna, Kerkhof, Jennifer, Kipp, Benjamin, Kreil, David Philip, Łabaj, Paweł, Lapunzina, Pablo, Li, Peng, Li, Quan-Zhen, Li, Weihua, Li, Zhiguang, Liang, Yu, Liu, Shaoqing, Liu, Zhichao, Ma, Charles, Marella, Narasimha, Martín-Arenas, Rubén, Megherbi, Dalila B., Meng, Qingchang, Mieczkowski, Piotr A., Morrison, Tom, Muzny, Donna, Ning, Baitang, Parsons, Barbara L., Paweletz, Cloud P., Pirooznia, Mehdi, Qu, Wubin, Raymond, Amelia, Rindler, Paul, Ringler, Rebecca, Sadikovic, Bekim, Scherer, Andreas, Schulze, Egbert, Sebra, Robert, Shaknovich, Rita, Shi, Qiang, Shi, Tieliu, Silla-Castro, Juan Carlos, Smith, Melissa, López, Mario Solís, Song, Ping, Stetson, Daniel, Strahl, Maya, Stuart, Alan, Supplee, Julianna, Szankasi, Philippe, Tan, Haowen, Tang, Lin-ya, Tao, Yonghui, Thakkar, Shraddha, Thierry-Mieg, Danielle, Thierry-Mieg, Jean, Thodima, Venkat J., Thomas, David, Tichý, Boris, Tom, Nikola, Garcia, Elena Vallespin, Verma, Suman, Walker, Kimbley, Wang, Charles, Wang, Junwen, Wang, Yexun, Wen, Zhining, Wirta, Valtteri, Wu, Leihong, Xiao, Chunlin, Xiao, Wenzhong, Xu, Shibei, Yang, Mary, Ying, Jianming, Yip, Shun H., Zhang, Guangliang, Zhang, Sa, Zhao, Meiru, Zheng, Yuanting, Zhou, Xiaoyan, Mason, Christopher E., Mercer, Timothy, Tong, Weida, Shi, Leming, Jones, Wendell, Xu, Joshua
Publicat a Genome Biol (2021)

Differential roles of epigenetic changes and Foxp3 expression in regulatory T cell-specific transcriptional regulation

per Morikawa, Hiromasa, Ohkura, Naganari, Vandenbon, Alexis, Itoh, Masayoshi, Nagao-Sato, Sayaka, Kawaji, Hideya, Lassmann, Timo, Carninci, Piero, Hayashizaki, Yoshihide, Forrest, Alistair R. R., Standley, Daron M., Date, Hiroshi, Sakaguchi, Shimon, Forrest, Alistair R.R., Kawaji, Hideya, Rehli, Michael, Baillie, J. Kenneth, de Hoon, Michiel J.L., Haberle, Vanja, Lassmann, Timo, Kulakovskiy, Ivan V., Lizio, Marina, Itoh, Masayoshi, Andersson, Robin, Mungall, Christopher J., Meehan, Terrence F., Schmeier, Sebastian, Bertin, Nicolas, Jørgensen, Mette, Dimont, Emmanuel, Arner, Erik, Schmidl, Christian, Schaefer, Ulf, Medvedeva, Yulia A., Plessy, Charles, Vitezic, Morana, Severin, Jessica, Semple, Colin A., Ishizu, Yuri, Francescatto, Margherita, Alam, Intikhab, Albanese, Davide, Altschuler, Gabriel M., Archer, John A.C., Arner, Peter, Babina, Magda, Baker, Sarah, Balwierz, Piotr J., Beckhouse, Anthony G., Pradhan-Bhatt, Swati, Blake, Judith A., Blumenthal, Antje, Bodega, Beatrice, Bonetti, Alessandro, Briggs, James, Brombacher, Frank, Burroughs, A. Maxwell, Califano, Andrea, Cannistraci, Carlo V., Carbajo, Daniel, Chen, Yun, Chierici, Marco, Ciani, Yari, Clevers, Hans C., Dalla, Emiliano, Davis, Carrie A., Deplancke, Bart, Detmar, Michael, Diehl, Alexander D., Dohi, Taeko, Drabløs, Finn, Edge, Albert S.B., Edinger, Matthias, Ekwall, Karl, Endoh, Mitsuhiro, Enomoto, Hideki, Fagiolini, Michela, Fairbairn, Lynsey, Fang, Hai, Farach-Carson, Mary C., Faulkner, Geoffrey J., Favorov, Alexander V., Fisher, Malcolm E., Frith, Martin C., Fujita, Rie, Fukuda, Shiro, Furlanello, Cesare, Furuno, Masaaki, Furusawa, Jun-ichi, Geijtenbeek, Teunis B., Gibson, Andrew, Gingeras, Thomas, Goldowitz, Daniel, Gough, Julian, Guhl, Sven, Guler, Reto, Gustincich, Stefano, Ha, Thomas J., Hamaguchi, Masahide, Hara, Mitsuko, Harbers, Matthias, Harshbarger, Jayson, Hasegawa, Akira, Hasegawa, Yuki, Hashimoto, Takehiro, Herlyn, Meenhard, Hitchens, Kelly J., Sui, Shannan J. Ho, Hofmann, Oliver M., Hoof, Ilka, Hori, Fumi, Huminiecki, Lukasz, Iida, Kei, Ikawa, Tomokatsu, Jankovic, Boris R., Jia, Hui, Joshi, Anagha, Jurman, Giuseppe, Kaczkowski, Bogumil, Kai, Chieko, Kaida, Kaoru, Kaiho, Ai, Kajiyama, Kazuhiro, Kanamori-Katayama, Mutsumi, Kasianov, Artem S., Kasukawa, Takeya, Katayama, Shintaro, Kato, Sachi, Kawaguchi, Shuji, Kawamoto, Hiroshi, Kawamura, Yuki I., Kawashima, Tsugumi, Kempfle, Judith S., Kenna, Tony J., Kere, Juha, Khachigian, Levon M., Kitamura, Toshio, Klinken, S. Peter, Knox, Alan J., Kojima, Miki, Kojima, Soichi, Kondo, Naoto, Koseki, Haruhiko, Koyasu, Shigeo, Krampitz, Sarah, Kubosaki, Atsutaka, Kwon, Andrew T., Laros, Jeroen F.J., Lee, Weonju, Lennartsson, Andreas, Li, Kang, Lilje, Berit, Lipovich, Leonard, Mackay-sim, Alan, Manabe, Ri-ichiroh, Mar, Jessica C., Marchand, Benoit, Mathelier, Anthony, Mejhert, Niklas, Meynert, Alison, Mizuno, Yosuke, Morais, David A. de Lima, Morikawa, Hiromasa, Morimoto, Mitsuru, Moro, Kazuyo, Motakis, Efthymios, Motohashi, Hozumi, Mummery, Christine L., Murata, Mitsuyoshi, Nagao-Sato, Sayaka, Nakachi, Yutaka, Nakahara, Fumio, Nakamura, Toshiyuki, Nakamura, Yukio, Nakazato, Kenichi, van Nimwegen, Erik, Ninomiya, Noriko, Nishiyori, Hiromi, Noma, Shohei, Nozaki, Tadasuke, Ogishima, Soichi, Ohkura, Naganari, Ohmiya, Hiroko, Ohno, Hiroshi, Ohshima, Mitsuhiro, Okada-Hatakeyama, Mariko, Okazaki, Yasushi, Orlando, Valerio, Ovchinnikov, Dmitry A., Pain, Arnab, Passier, Robert, Patrikakis, Margaret, Persson, Helena, Piazza, Silvano, Prendergast, James G.D., Rackham, Owen J.L., Ramilowski, Jordan A., Rashid, Mamoon, Ravasi, Timothy, Rizzu, Patrizia, Roncador, Marco, Roy, Sugata, Rye, Morten B., Saijyo, Eri, Sajantila, Antti, Saka, Akiko, Sakaguchi, Shimon, Sakai, Mizuho, Sato, Hiroki, Satoh, Hironori, Savvi, Suzana, Saxena, Alka, Schneider, Claudio, Schultes, Erik A., Schulze-Tanzil, Gundula G., Schwegmann, Anita, Sengstag, Thierry, Sheng, Guojun, Shimoji, Hisashi, Shimoni, Yishai, Shin, Jay W., Simon, Christophe, Sugiyama, Daisuke, Sugiyama, Takaaki, Suzuki, Masanori, Swoboda, Rolf K., 't Hoen, Peter A.C., Tagami, Michihira, Takahashi, Naoko, Takai, Jun, Tanaka, Hiroshi, Tatsukawa, Hideki, Tatum, Zuotian, Thompson, Mark, Toyoda, Hiroo, Toyoda, Tetsuro, Valen, Eivind, van de Wetering, Marc, van den Berg, Linda M., Verardo, Roberto, Vijayan, Dipti, Vorontsov, Ilya E., Wasserman, Wyeth W., Watanabe, Shoko, Wells, Christine A., Winteringham, Louise N., Wolvetang, Ernst, Wood, Emily J., Yamaguchi, Yoko, Yamamoto, Masayuki, Yoneda, Misako, Yonekura, Yohei, Yoshida, Shigehiro, Zabierowski, Suzan E., Zhang, Peter G., Zhao, Xiaobei, Zucchelli, Silvia, Summers, Kim M., Suzuki, Harukazu, Daub, Carsten O., Kawai, Jun, Heutink, Peter, Hide, Winston, Freeman, Tom C., Lenhard, Boris, Bajic, Vladimir B., Taylor, Martin S., Makeev, Vsevolod J., Sandelin, Albin, Hume, David A., Carninci, Piero, Hayashizaki, Yoshihide
Publicat 2014