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Flash entropy search to query all mass spectral libraries in real time
Public repositories of metabolomics mass spectra encompass more than 1 billion entries. With open search, dot product or entropy …
Yuanyue Li, Oliver Fiehn
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Alternative Identification of Glycosides Using MS/MS Matching with an In Silico-Modified Aglycone Mass Spectra Library
Elys P. Rodríguez, Yuanyue Li, Arpana Vaniya, Patrick M. Shih, Oliver Fiehn
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Spectral entropy outperforms MS/MS dot product similarity for small-molecule compound identification
Compound identification in small-molecule research, such as untargeted metabolomics or exposome research, relies on matching tandem …
Yuanyue Li, Tobias Kind, Jacob Folz, Arpana Vaniya, Sajjan Singh Mehta, Oliver Fiehn
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Coupling proteomics and metabolomics for the unsupervised identification of protein–metabolite interactions in Chaetomium thermophilum
Protein–metabolite interactions play an important role in the cell’s metabolism and many methods have been developed to screen them in …
Yuanyue Li, Michael Kuhn, Joanna Zukowska-Kasprzyk, Marco L. Hennrich, Panagiotis L. Kastritis, Francis J. O’Reilly, Prasad Phapale, Martin Beck, Anne-Claude Gavin, Peer Bork
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Identification of metabolites from tandem mass spectra with a machine learning approach utilizing structural features
MOTIVATION: Untargeted mass spectrometry (MS/MS) is a powerful method for detecting metabolites in biological samples. However, fast …
Yuanyue Li, Michael Kuhn, Anne-Claude Gavin, Peer Bork
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Capturing protein communities by structural proteomics in a thermophilic eukaryote
Abstract The arrangement of proteins into complexes is a key organizational principle for many cellular functions. Although the …
Panagiotis L Kastritis, Francis J O'Reilly, Thomas Bock, Yuanyue Li, Matt Z Rogon, Katarzyna Buczak, Natalie Romanov, Matthew J Betts, Khanh Huy Bui, Wim J Hagen, Marco L Hennrich, Marie-Therese Mackmull, Juri Rappsilber, Robert B Russell, Peer Bork, Martin Beck, Anne-Claude Gavin
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Group-DIA: analyzing multiple data-independent acquisition mass spectrometry data files
Yuanyue Li, Chuan-Qi Zhong, Xiaozheng Xu, Shaowei Cai, Xiurong Wu, Yingying Zhang, Jinan Chen, Jianghong Shi, Shengcai Lin, Jiahuai Han
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pelo Is Required for High Efficiency Viral Replication
Author Summary Viruses often can highly efficiently utilize the host system to make huge amounts of viral proteins for their …
Xiurong Wu, Wan-Ting He, Shuye Tian, Dan Meng, Yuanyue Li, Wanze Chen, Lisheng Li, Lili Tian, Chuan-Qi Zhong, Felicia Han, Jianming Chen, Jiahuai Han
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Regulator of G-Protein Signaling 19 (RGS19) and Its Partner Gα-Inhibiting Activity Polypeptide 3 (GNAI3) Are Required for zVAD-Induced Autophagy and Cell Death in L929 Cells
Autophagy has diverse biological functions and is involved in many biological processes. The L929 cell death induced by the pan-caspase …
Ting Wu, Yuanyue Li, Deli Huang, Felicia Han, Ying-Ying Zhang, Duan-Wu Zhang, Jiahuai Han
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Quantitative phosphoproteomic analysis of RIP3-dependent protein phosphorylation in the course of TNF-induced necroptosis
Tumor necrosis factor (TNF) induced cell death in murine fibrosarcoma L929 cells is a model system in studying programed necrosis (also …
Chuan-Qi Zhong, Yuanyue Li, Daowei Yang, Na Zhang, Xiaozheng Xu, Yaying Wu, Jinan Chen, Jiahuai Han
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