Systems-level analysis of mechanisms regulating yeast metabolic flux

Autor: David H. Perlman, David Botstein, Junyoung O. Park, Jonathan Goya, Patrick A. Gibney, Joshua D. Rabinowitz, Wenxin Xu, John D. Storey, Vito R T Zanotelli, Sean R. Hackett

Publikováno v: Science (New York, N.Y.). 354(6311)

INTRODUCTION Metabolism is among the most strongly conserved processes across all domains of life and is crucial for both bioengineering and disease research, yet we still have an unclear understanding of how metabolic rates (fluxes) are determined.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::4ea52bd81e71faa05e1b7b90972ec897
https://pubmed.ncbi.nlm.nih.gov/28125790

FNTM: a server for predicting functional networks of tissues in mouse

Autor: Aaron K. Wong, Victoria Yao, Jonathan Goya, Arjun Krishnan, Max Homilius, Olga G. Troyanskaya

Publikováno v: Nucleic Acids Research

Functional Networks of Tissues in Mouse (FNTM) provides biomedical researchers with tissue-specific predictions of functional relationships between proteins in the most widely used model organism for human disease, the laboratory mouse. Users can exp

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::69a5117d2554243562a45dc2a12dc6ee
https://pubmed.ncbi.nlm.nih.gov/25940632

A community computational challenge to predict the activity of pairs of compounds

Autor: Bansal, M, Yang, J, Karan, C, Menden, Mp, Costello, Jc, Tang, H, Xiao, G, Li, Y, Allen, J, Zhong, R, Chen, B, Kim, M, Wang, T, Heiser, Lm, Realubit, R, Mattioli, M, Alvarez, Mj, Shen, Y, Gallahan, D, Singer, D, Saez Rodriguez, J, Xie, Y, Stolovitzky, G, Califano, A, NCI DREAM Community: Jean Paul Abbuehl, NCI DREAM C. o. m. m. u. n. i. t. y., Jeffrey, Allen, Altman, Russ B., Shawn, Balcome, Mukesh, Bansal, Ana, Bell, Andreas, Bender, Bonnie, Berger, Jonathan, Bernard, Bieberich, Andrew A., Giorgos, Borboudakis, Andrea, Califano, Christina, Chan–, Beibei, Chen, Ting Huei Chen, Jaejoon, Choi, Luis Pedro Coelho, Costello, James C., Creighton, Chad J., Will, Dampier, Jo Davisson, V., Raamesh, Deshpande, Lixia, Diao, DI CAMILLO, Barbara, Murat, Dundar, Adam, Ertel, Cellworks, Group, Daniel, Gallahan, Goswami, Chirayu P., Assaf, Gottlieb, Gould, Michael N., Jonathan, Goya, Michael, Grau, Gray, Joe W., Heiser, Laura M., Hejase, Hussein A., Hoffmann, Michael F., Krisztian, Homicsko, Max, Homilius, Woochang, Hwang, Ijzerman, Adriaan P., Olli, Kallioniemi, Bilge, Karacali, Charles, Karan, Samuel, Kaski, Junho, Kim, Minsoo, Kim, Arjun, Krishnan, Junehawk, Lee, Young Suk Lee, Lenselink, Eelke B., Peter, Lenz, Lang, Li, Jun, Li, Yajuan, Li, Han, Liang, Michela, Mattioli, Menden, Michael P., John Patrick Mpindi, Myers, Chad L., Newton, Michael A., Overington, John P., Juuso, Parkkinen, Prill, Robert J., Jian, Peng, Richard, Pestell, Peng, Qiu, Bartek, Rajwa, Ronald, Realubit, Anguraj, Sadanandam, Julio Saez Rodriguez, Sambo, Francesco, Dinah, Singer, Gustavo, Stolovitzky, Arvind, Sridhar, Wei, Sun, Hao, Tang, Toffolo, GIANNA MARIA, Aydin, Tozeren, Troyanskaya, Olga G., Ioannis, Tsamardinos, van Vlijmen, Herman W. T., Tao, Wang, Wen, Wang, Wegner, Joerg K., Krister, Wennerberg, van Westen, Gerard J. P., Tian, Xia, Guanghua, Xiao, Yang, Xie, Jichen, Yang, Yang, Yang, Victoria, Yao, Yuan, Yuan, Haoyang, Zeng, Shihua, Zhang, Junfei, Zhao, Jian, Zhou, Rui, Zhong

Publikováno v: PMC

Recent therapeutic successes have renewed interest in drug combinations, but experimental screening approaches are costly and often identify only small numbers of synergistic combinations. The DREAM consortium launched an open challenge to foster the

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6036fbfc7df321554faadce111f774d4
http://hdl.handle.net/1721.1/110181

Ceramide And Sphingosine-1-Phosphate Imbalance In COPD

Autor: Jagadeshwar G. Reddy, Mary Van Demark, Jonathan Goya, Changyu Shen, Irina Gorshkova, Irina Petrache, Evgeny Berdyshev

Publikováno v: A13. ADVANCES IN COPD PATHOGENESIS AND EXACERBATION SUSCEPTIBILITY.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::bf76b82b7029b18c6fb57b67c9cb3746
https://doi.org/10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a1005

SQID: An intensity-incorporated protein identification algorithm for tandem mass spectrometry

Autor: Jonathan Goya, Wenzhou Li, Guanhong Tan, Vicki H. Wysocki, Li Ji

To interpret LC-MS/MS data in proteomics, most popular protein identification algorithms primarily use predicted fragment m/z values to assign peptide sequences to fragmentation spectra. The intensity information is often undervalued, because it is n

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::467f2626ef6716d435da118a8a427713
https://europepmc.org/articles/PMC3477243/