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Exact matches for:

• Author = Humphrey SJ

1. Xiao D, Lin M, Liu C, Geddes TA, Burchfield JG, Parker BL, Humphrey SJ, Yang P
Di Xiao, Michael Lin, Chunlei Liu, Thomas A Geddes, James G Burchfield, Benjamin L Parker, Sean J Humphrey, Pengyi Yang: SnapKin: a snapshot deep learning ensemble for kinase-substrate prediction from phosphoproteomics data, NAR Genomics and Bioinformatics, 5 (2023), no. 4, Article number Iqad099 (12 pages).

2. Fazakerley DJ, van Gerwen J, Cooke KC, Duan X, Needham EJ, Díaz-Vegas A, Madsen S, Norris DM, Shun-Shion AS, Krycer JR, Burchfield JG, Yang P, Wade MR, Brozinick JT, James DE, Humphrey SJ
Daniel J Fazakerley, Julian van Gerwen, Kristen C Cooke , Xiaowen Duan , Elise J Needham , Alexis Díaz-Vegas , Søren Madsen , Dougall M. Norris , Amber S Shun-Shion, James R. Krycer, James G Burchfield, Pengyi Yang, Mark R .Wade, Joseph T Brozinick, David E James and Sean J Humphrey: Phosphoproteomics reveals rewiring of the insulin signaling network and multi-nodal defects in insulin resistance, Nature Communications, Published Online (2023), no. 18 February 2023, 20 pages.

3. Duan X, Norris DM, Humphrey SJ, Yang P, Cooke KC, Bultitude WP, Parker BL, Conway OJ, Burchfield JG, Krycer JR, Brodsky FM, James DE, Fazakerley DJ
Xiaowen Duan, Dougall M Norris, Sean J Humphrey, Pengyi Yang, Kristen C Cooke, Will P Bultitude, Benjamin L Parker, Olivia J Conway, James G Burchfield, James R Krycer, Frances M Brodsky, David E James and Daniel J Fazakerley: Trafficking regulator of GLUT4-1 (TRARG1) is a GSK3 substrate, Biochemical Journal, 479 (2022), no. 11, 1237–1257.

4. Kim HJ, Kim T, Hoffman NJ, Xiao D, James DE, Humphrey SJ, Yang P
Hani Jieun Kim, Taiyun Kim, Nolan J. Hoffman, Di Xiao, David E. James, Sean J. Humphrey, Pengyi Yang: PhosR enables processing and functional analysis of phosphoproteomic data, Cell Reports, 34 (2021), no. 8, 108771.

5. Krycer JR, Quek LE, Francis D, Zadoorian A, Weiss FC, Cooke KC, Nelson ME, Diaz-Vegas A, Humphrey SJ, Scalzo R, Hirayama A, Ikeda S, Shoji F, Suzuki K, Huynh K, Giles C, Varney B, Nagarajan SR, Hoy AJ, Soga T, Meikle PJ, Cooney GJ, Fazakerley DJ, James DE
James R Krycer, Lake-Ee Quek, Deanne Francis, Armella Zadoorian, Fiona C Weiss, Kristen C Cooke, Marin E Nelson, Alexis Diaz-Vegas, Sean J Humphrey, Richard Scalzo, Akiyoshi Hirayama, Satsuki Ikeda, Futaba Shoji, Kumi Suzuki, Kevin Huynh, Corey Giles, Bianca Varney, Shilpa R Nagarajan, Andrew J Hoy, Tomoyoshi Soga, Peter J Meikle, Gregory J Cooney, Daniel J Fazakerley and David E James: Insulin signaling requires glucose to promote lipid anabolism in adipocytes, Journal of Biological Chemistry, 295 (2020), no. 38, 13250–13266.

6. Kim PS, Osteil P, Humphrey SJ, Cinghu S, Oldfield AJ, Patrick E, Wilkie EE, Peng G, Suo S, Jothi R, Tam PPL, Yang P
Hani Jieun Kim, Pierre Osteil, Sean J Humphrey, Senthilkumar Cinghu, Andrew J Oldfield, Ellis Patrick, Emilie E Wilkie, Guangdun Peng, Shengbao Suo, Raja Jothi, Patrick P L Tam, Pengyi Yang: Transcriptional network dynamics during the progression of pluripotency revealed by integrative statistical learning, Nucleic acids research, 48 (2020), no. 4, 1828–1842.

7. Kim T, Chen IR, Parker BL, Humphrey SJ, Crossett B, Cordwell SJ, Yang P, Yang YH
Taiyun Kim, Irene Rui Chen, Benjamin L Parker, Sean J Humphrey, Ben Crossett, Stuart J Cordwell, Pengyi Yang, Jean Yee Hwa Yang: QCMAP: An Interactive Web-Tool for Performance Diagnosis and Prediction of LC-MS Systems, Proteomics, 19 (2019), no. 13, 1900068 (4 pages).

8. Yang P, Humphrey SJ, Cinghu S, Pathania R, Oldfield AJ, Kumar D, Perera D, Yang YH, James DE, Mann M, Jothi R
Pengyi Yang, Sean J Humphrey, Senthilkumar Cinghu, Rajneesh Pathania, Andrew J Oldfield, Dhirendra Kumar, Dinuka Perera, Jean Y H Yang, David E James, Matthias Mann, Raja Jothi: Multi-omic profiling reveals dynamics of the phased progression of pluripotency, Cell Systems, 8 (2019), no. 5, 427–445.

9. Fazakerley DJ, Chaudhuri R, Yang P, Maghzal GJ, Thomas KC, Krycer JR, Humphrey SJ, Parker BL, Fisher-Wellman KH, Meoli CC, Hoffman NJ, Diskin C, Birchfield JG, Cowley MJ, Kaplan WH, Modrusan Z, Kolumam G, Yang YH, Chen DL, Samocha-Bonet D, Greenfield JR, Hoehn KL, Stocker R, James DE
Daniel J Fazakerley, Rima Chaudhuri, Pengyi Yang, Ghassan J Maghzal, Kristen C Thomas, James R Krycer, Sean J Humphrey, Benjamin L Parker, Kelsey H Fisher-Wellman, Christopher C Meoli, Nolan J Hoffman, Ciana Diskin, James G Burchfield, Mark J Cowley, Warren Kaplan, Zora Modrusan, Ganesh Kolumam, Jean YH Yang, Daniel L Chen, Dorit Samocha-Bonet, Jerry R Greenfield, Kyle L Hoehn, Roland Stocker and David E James: Mitochondrial CoQ deficiency is a common driver of mitochondrial oxidants and insulin resistance, eLIFE, 7 (2018), e32111.

10. Yang P, Patrick E, Humphrey SJ, Ghazanfar S, James DE, Jothi R, Yang YH
Pengyi Yang, Ellis Patrick, Sean J Humphrey, Shila Ghazanfar, David E James, Raja Jothi, Jean Yee Hwa Yang: KinasePA: Phosphoproteomics data annotation using hypothesis driven kinase perturbation analysis, Proteomics, 16 (2016), no. 13, 1868–1871.

11. Domanova W, Kycer J, Chaudhuri R, Yang P, Vafaee F, Fazakerley DJ, Humphrey SJ, James DE, Kuncic Z
Westa Domanova, James Krycer, Rima Chaudhuri, Pengyi Yang, Fatemeh Vafaee, Daniel Fazakerley, Sean Humphrey, David James, Zdenka Kuncic: Unraveling Kinase Activation Dynamics Using Kinase-Substrate Relationships from Temporal Large-Scale Phosphoproteomics Studies, PLoS One, 11 (2016), no. 6, Art. e0157763 (14 pages).

12. Yang P, Patrick E, Humphrey SJ, Ghazanfar S, James DE, Jothi R, Yang YH
Pengyi Yang, Ellis Patrick, Sean J. Humphrey, Shila Ghazanfar, David E. James, Raja Jothi, Jean Yee Hwa Yang: KinasePA: Phosphoproteomics data annotation using hypothesis driven kinase perturbation analysis, Proteomics, 16 (2016), 1868 – 1871.

13. Domanova W, Krycer JR, Chaudhuri R, Yang P, Vafaee F, Fazakerley DJ, Humphrey SJ, James DE, Kuncic Z
Westa Domanova , James Krycer , Rima Chaudhuri, Pengyi Yang, Fatemeh Vafaee, Daniel Fazakerley, Sean Humphrey, David James, Zdenka Kuncic: Unraveling Kinase Activation Dynamics Using Kinase-Substrate Relationships from Temporal Large-Scale Phosphoproteomics Studies, PLoS One, 23 June 2016 (2016), Online.

14. Chaudhuri R, Sadrieh A, Hoffman N, Parker B, Humphrey SJ, Stöckli J, Hill A, James DE, Yang YH
Rima Chaudhuri, Arash Sadrieh, Nolan Hoffman, Benjamin Parker, Sean Humphrey, Jacqueline Stöckli, Adam Hill, David James, Jean Yang: PhosphOrtholog: a web-based tool for cross-species mapping of orthologous protein post-translational modification, BMC Genomics, 16 (2015), no. 1, Art. 617.

15. Humphrey SJ, Yang G, Yang P, Fazakerley DJ, Stöckli J, Yang YH, James DE
Sean J Humphrey, Guang Yang, Pengyi Yang, Daniel J Fazakerley, Jacqueline Stöckli, Jean Y Yang, and David E James: Dynamic adipocyte phosphoproteome reveals that akt directly regulates mTORC2, Cell Metabolism, 17 (2013), no. 6, 1009–1020.

16. Yang P, Humphrey SJ, Fazakerley DJ, Prior MJ, Yang G, James DE, Yang YH
Yang P, Humphrey SJ, Fazakerley DJ, Prior MJ, Yang G, James DE, Yang JYH: Re-Fraction: A Machine Learning Approach for Deterministic Identification of Protein Homologues and Splice Variants in Largescale MS-based Proteomics, Journal of Proteome Research, 11 (2012), no. 5, 3035–3045.