Publications

Uncovering in vivo biochemical patterns from time-series metabolic dynamics
Yue Wu, Michael T Judge, Arthur S Edison, and Jonathan Arnold
PloS one. (2022)
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Characterizing the gene–environment interaction underlying natural morphological variation in Neurospora crassa conidiophores using high- throughput phenomics and transcriptomics
Emily K Krach, Michael Skaro, Yue Wu, Jonathan Arnold
G3. (2022)
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Wild Isolates of Neurospora crassa Reveal Three Conidiophore Architectural Phenotypes
Krach, E.K.; Wu, Y.; Skaro, M.; Mao, L.; Arnold, J.
Microorganisms. (2020)
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RTExtract: time-series NMR spectra quantification based on 3D surface ridge tracking
Yue Wu, Michael T Judge, Jonathan Arnold, Suchendra M Bhandarkar, Arthur S Edison
Bioinformatics. (2020)
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Continuous in vivo Metabolism by NMR
Judge Michael T., Wu Yue, Tayyari Fariba, Hattori Ayuna, Glushka John, Ito Takahiro, Arnold Jonathan, Edison Arthur S
Frontiers in Molecular Biosciences. 6, 26 (2019)
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Genome-Wide Analysis Reveals Ancestral Lack of Seventeen Different tRNAs and Clade-Specific Loss of tRNA-CNNs in Archaea
Wu Yue, Wu Ping, Wang Bin, Shao Zhu-Qing
Frontiers in Microbiology. 9, 1245. (2018)
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Transcription regulation by DNA methylation under stressful conditions in human cancer
Sha Cao, Yi Zhou, Yue Wu, Tianci Song, Burair Alsaihati, and Ying Xu
Quantitative Biology. 5, 328-337. (2017)
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Systematic analyses of glutamine and glutamate metabolisms across different cancer types
Yuan Tian, Wei Du, Sha Cao, Yue Wu, Ning Dong, Yan Wang, and Ying Xu
Chinese Journal of Cancer. 36, 88. (2017)
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Identification of Arbuscular Mycorrhiza (AM)-Responsive microRNAs in Tomato
Ping Wu, Yue Wu, Cheng-Chen Liu, Li-Wei Liu, Fang-Fang Ma, Xiao-Yi Wu, Mian Wu, Yue-Yu Hang, Jian-Qun Chen, Zhu-Qing Shao, and Bin Wang
Front. Plant Sci 7, 429. (2016)
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Large-scale analyses of angiosperm nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes reveal three anciently diverged classes with distinct evolutionary patterns
Ping Wu, Yue Wu, Cheng-Chen Liu, Li-Wei Liu, Fang-Fang Ma, Xiao-Yi Wu, Mian Wu, Yue-Yu Hang, Jian-Qun Chen, Zhu-Qing Shao, and Bin Wang
Physiology 170, 2095-2109. (2016)
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Talks and Posters

SAND: spectral automatic NMR deconvolution
Yue Wu, Omid Sanati, Frank Delaglio, and Arthur S. Edison
ivan nmr      talk

Automatic NMR spectral decomposition through computational fitting of time-domain signals
Yue Wu, Goncalo Gouveia, Sicong Zhang, Krish Krishnamurthy, Frank Delaglio, and Arthur S. Edison
MANA 2021      talk

Semi-untargeted analysis of metabolic dynamics through network construction
Yue Wu, Michael Judge, Jonathan Arnold, and Arthur Edison
MANA 2020      poster

PyTorch-Based Neural Network Approximation of ODE Solutions
Yue Wu, Michael Judge, Jonathan Arnold, Arthur Edison, Shannon Quinn, and Heinz-Bernd Schuttler
SciPy 2020      poster

A new algorithm for time series NMR spectra quantification by ridge tracking
Yue Wu, Michael T. Judge, Jonathan Arnold, Suchi Bhandarkar, and Arthur S. Edison
MANA 2019      talk

Dynamic metabolic modelling based on in vivo, time series measurements
Yue Wu, Michael Judge, Jonathan Arnold, Arthur S. Edison, and Heinz-Bernd Schüttler
PEARC 2019      poster

Large-scale kinetic modeling of Neurospora crassa driven by real-time, in-vivo metabolomics data
Yue Wu, Michael Judge, Heinz-Bernd Schüttler, Jonathan Arnold, and Arthur S. Edison
Metabolomics 2018      poster