Eduati, Federica ORCID: 0000-0002-7822-3867, Mangravite, Lara M., Wang, Tao, Tang, Hao, Bare, J. Christopher ORCID: 0000-0003-1006-1491, Huang, Ruili, Norman, Thea, Kellen, Mike, Menden, Michael P., Yang, Jichen, Zhan, Xiaowei, Zhong, Rui, Xiao, Guanghua, Xia, Menghang, Abdo, Nour, Kosyk, Oksana, Friend, Stephen, Dearry, Allen, Simeonov, Anton, Tice, Raymond R., Rusyn, Ivan ORCID: 0000-0001-9340-7384, Wright, Fred A., Stolovitzky, Gustavo, Xie, Yang, Saez-Rodriguez, Julio ORCID: 0000-0002-8552-8976, Aittokallio, Tero ORCID: 0000-0002-0886-9769, Alaimo, Salvatore, Amadoz, Alicia ORCID: 0000-0003-3915-0404, Ammad-ud-din, Muhammad, Azencott, Chloe-Agathe ORCID: 0000-0003-1003-301X, Bacardit, Jaume ORCID: 0000-0002-2692-7205, Barron, Pelham, Bernard, Elsa ORCID: 0000-0002-2057-7187, Beyer, Andreas ORCID: 0000-0002-3891-2123, Bin, Shao, van Boemmel, Alena, Borgwardt, Karsten, Brys, April M., Caffrey, Brian, Chang, Jeffrey, Chang, Jungsoo, Chheda, Himanshu, Christodoulou, Eleni G., Clement-Ziza, Mathieu ORCID: 0000-0003-2763-249X, Cohen, Trevor, Cowherd, Marianne ORCID: 0000-0002-3165-4504, Demeyer, Sofie ORCID: 0000-0002-8193-5734, Dopazo, Joaquin, Elhard, Joel D., Falcao, Andre O. ORCID: 0000-0002-3588-8746, Ferro, Alfredo, Friedenberg, David A., Giugno, Rosalba ORCID: 0000-0001-9843-7638, Gong, Yunguo, Gorospe, Jenni W., Granville, Courtney A., Grimm, Dominik, Heinig, Matthias ORCID: 0000-0002-5612-1720, Hernansaiz, Rosa D., Hintsanen, Petteri, Hochreiter, Sepp ORCID: 0000-0001-7449-2528, Huang, Liang-Chin, Huska, Matthew, Jaiswal, Alok, Jiao, Yunlong, Kaski, Samuel ORCID: 0000-0003-1925-9154, Kaur, Ismeet, Khan, Suleiman Ali, Klambauer, Guenter, Krasnogor, Natalio, Kuhn, Michael, Kursa, Miron Bartosz, Kutum, Rintu, Lazzarini, Nicola, Lee, Inhan, Leung, Michael K. K., Lim, Weng Khong ORCID: 0000-0003-4391-1130, Liu, Charlie, Lopez, Felipe Llinares, Mammana, Alessandro, Mayr, Andreas, Michoel, Tom ORCID: 0000-0003-4749-4725, Mongiovi, Misael, Moore, Jonathan D., Mpindi, John-Patrick, Narasimhan, Ravi, Opiyo, Stephen O., Pandey, Gaurav, Peabody, Andrea L., Perner, Juliane, Poso, Antti ORCID: 0000-0003-4196-4204, Pulvirenti, Alfredo ORCID: 0000-0002-9764-0295, Rawlik, Konrad, Reinhardt, Susanne, Riffle, Carol G., Ruderfer, Douglas, Sander, Aaron J., Savage, Richard S., Scornet, Erwan, Sebastian-Leon, Patricia, Sharan, Roded, Simon-Gabriel, Carl Johann, Stoven, Veronique, Sun, Jingchun, Tang, Jing ORCID: 0000-0001-7480-7710, Teixeira, Ana L., Tenesa, Albert, Vert, Jean-Philippe ORCID: 0000-0001-9510-8441, Vingron, Martin, Walter, Thomas ORCID: 0000-0001-7419-7879, Wennerberg, Krister, Whalen, Sean, Wisniewska, Zofia, Wu, Yonghui, Xu, Hua, Zhang, Shihua, Zhao, Junfei and Zheng, W. Jim (2015). Prediction of human population responses to toxic compounds by a collaborative competition. Nat. Biotechnol., 33 (9). S. 933 - 944. NEW YORK: NATURE PUBLISHING GROUP. ISSN 1546-1696

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Abstract

The ability to computationally predict the effects of toxic compounds on humans could help address the deficiencies of current chemical safety testing. Here, we report the results from a community-based DREAM challenge to predict toxicities of environmental compounds with potential adverse health effects for human populations. We measured the cytotoxicity of 156 compounds in 884 lymphoblastoid cell lines for which genotype and transcriptional data are available as part of the Tox21 1000 Genomes Project. The challenge participants developed algorithms to predict interindividual variability of toxic response from genomic profiles and population-level cytotoxicity data from structural attributes of the compounds. 179 submitted predictions were evaluated against an experimental data set to which participants were blinded. Individual cytotoxicity predictions were better than random, with modest correlations (Pearson's r < 0.28), consistent with complex trait genomic prediction. In contrast, predictions of population-level response to different compounds were higher (r < 0.66). The results highlight the possibility of predicting health risks associated with unknown compounds, although risk estimation accuracy remains suboptimal.

Item Type: Journal Article
Creators:
CreatorsEmailORCIDORCID Put Code
Eduati, FedericaUNSPECIFIEDorcid.org/0000-0002-7822-3867UNSPECIFIED
Mangravite, Lara M.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Wang, TaoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Tang, HaoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Bare, J. ChristopherUNSPECIFIEDorcid.org/0000-0003-1006-1491UNSPECIFIED
Huang, RuiliUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Norman, TheaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kellen, MikeUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Menden, Michael P.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Yang, JichenUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Zhan, XiaoweiUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Zhong, RuiUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Xiao, GuanghuaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Xia, MenghangUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Abdo, NourUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kosyk, OksanaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Friend, StephenUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Dearry, AllenUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Simeonov, AntonUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Tice, Raymond R.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Rusyn, IvanUNSPECIFIEDorcid.org/0000-0001-9340-7384UNSPECIFIED
Wright, Fred A.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Stolovitzky, GustavoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Xie, YangUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Saez-Rodriguez, JulioUNSPECIFIEDorcid.org/0000-0002-8552-8976UNSPECIFIED
Aittokallio, TeroUNSPECIFIEDorcid.org/0000-0002-0886-9769UNSPECIFIED
Alaimo, SalvatoreUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Amadoz, AliciaUNSPECIFIEDorcid.org/0000-0003-3915-0404UNSPECIFIED
Ammad-ud-din, MuhammadUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Azencott, Chloe-AgatheUNSPECIFIEDorcid.org/0000-0003-1003-301XUNSPECIFIED
Bacardit, JaumeUNSPECIFIEDorcid.org/0000-0002-2692-7205UNSPECIFIED
Barron, PelhamUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Bernard, ElsaUNSPECIFIEDorcid.org/0000-0002-2057-7187UNSPECIFIED
Beyer, AndreasUNSPECIFIEDorcid.org/0000-0002-3891-2123UNSPECIFIED
Bin, ShaoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
van Boemmel, AlenaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Borgwardt, KarstenUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Brys, April M.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Caffrey, BrianUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Chang, JeffreyUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Chang, JungsooUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Chheda, HimanshuUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Christodoulou, Eleni G.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Clement-Ziza, MathieuUNSPECIFIEDorcid.org/0000-0003-2763-249XUNSPECIFIED
Cohen, TrevorUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Cowherd, MarianneUNSPECIFIEDorcid.org/0000-0002-3165-4504UNSPECIFIED
Demeyer, SofieUNSPECIFIEDorcid.org/0000-0002-8193-5734UNSPECIFIED
Dopazo, JoaquinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Elhard, Joel D.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Falcao, Andre O.UNSPECIFIEDorcid.org/0000-0002-3588-8746UNSPECIFIED
Ferro, AlfredoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Friedenberg, David A.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Giugno, RosalbaUNSPECIFIEDorcid.org/0000-0001-9843-7638UNSPECIFIED
Gong, YunguoUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Gorospe, Jenni W.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Granville, Courtney A.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Grimm, DominikUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Heinig, MatthiasUNSPECIFIEDorcid.org/0000-0002-5612-1720UNSPECIFIED
Hernansaiz, Rosa D.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Hintsanen, PetteriUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Hochreiter, SeppUNSPECIFIEDorcid.org/0000-0001-7449-2528UNSPECIFIED
Huang, Liang-ChinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Huska, MatthewUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Jaiswal, AlokUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Jiao, YunlongUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kaski, SamuelUNSPECIFIEDorcid.org/0000-0003-1925-9154UNSPECIFIED
Kaur, IsmeetUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Khan, Suleiman AliUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Klambauer, GuenterUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Krasnogor, NatalioUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kuhn, MichaelUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kursa, Miron BartoszUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Kutum, RintuUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Lazzarini, NicolaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Lee, InhanUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Leung, Michael K. K.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Lim, Weng KhongUNSPECIFIEDorcid.org/0000-0003-4391-1130UNSPECIFIED
Liu, CharlieUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Lopez, Felipe LlinaresUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Mammana, AlessandroUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Mayr, AndreasUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Michoel, TomUNSPECIFIEDorcid.org/0000-0003-4749-4725UNSPECIFIED
Mongiovi, MisaelUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Moore, Jonathan D.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Mpindi, John-PatrickUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Narasimhan, RaviUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Opiyo, Stephen O.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Pandey, GauravUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Peabody, Andrea L.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Perner, JulianeUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Poso, AnttiUNSPECIFIEDorcid.org/0000-0003-4196-4204UNSPECIFIED
Pulvirenti, AlfredoUNSPECIFIEDorcid.org/0000-0002-9764-0295UNSPECIFIED
Rawlik, KonradUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Reinhardt, SusanneUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Riffle, Carol G.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Ruderfer, DouglasUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Sander, Aaron J.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Savage, Richard S.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Scornet, ErwanUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Sebastian-Leon, PatriciaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Sharan, RodedUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Simon-Gabriel, Carl JohannUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Stoven, VeroniqueUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Sun, JingchunUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Tang, JingUNSPECIFIEDorcid.org/0000-0001-7480-7710UNSPECIFIED
Teixeira, Ana L.UNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Tenesa, AlbertUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Vert, Jean-PhilippeUNSPECIFIEDorcid.org/0000-0001-9510-8441UNSPECIFIED
Vingron, MartinUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Walter, ThomasUNSPECIFIEDorcid.org/0000-0001-7419-7879UNSPECIFIED
Wennerberg, KristerUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Whalen, SeanUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Wisniewska, ZofiaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Wu, YonghuiUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Xu, HuaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Zhang, ShihuaUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Zhao, JunfeiUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
Zheng, W. JimUNSPECIFIEDUNSPECIFIEDUNSPECIFIED
URN: urn:nbn:de:hbz:38-395767
DOI: 10.1038/nbt.3299
Journal or Publication Title: Nat. Biotechnol.
Volume: 33
Number: 9
Page Range: S. 933 - 944
Date: 2015
Publisher: NATURE PUBLISHING GROUP
Place of Publication: NEW YORK
ISSN: 1546-1696
Language: English
Faculty: Unspecified
Divisions: Unspecified
Subjects: no entry
Uncontrolled Keywords:
KeywordsLanguage
GENOME-WIDE ASSOCIATION; EXPRESSION; SENSITIVITY; KNOWLEDGE; LIBRARY; MODEL; SETMultiple languages
Biotechnology & Applied MicrobiologyMultiple languages
URI: http://kups.ub.uni-koeln.de/id/eprint/39576

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