Wang, Mingxun

Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2

Bolyen, E., Rideout, J. R., Dillon, M. R., Bokulich, N. A., Abnet, C. C., Al-Ghalith, G. A., Alexander, H., Alm, E. J., Arumugam, M., Asnicar, F., et al. (2019) · Nature Biotechnology

Scientific Computing and Data ManagementGut microbiota and health

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Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

Wang, M., Carver, J. J., Phelan, V. V., Sanchez, L. M., Garg, N., Peng, Y., Nguyen, D. D., Watrous, J., Kapono, C. A., Luzzatto-Knaan, T., et al. (2016) · Nature Biotechnology

Metabolomics and Mass Spectrometry StudiesMass Spectrometry Techniques and Applications

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Integrative analysis of multimodal mass spectrometry data in MZmine 3

Schmid, R., Heuckeroth, S., Korf, A., Smirnov, A., Myers, O., Dyrlund, T. S., Bushuiev, R., Murray, K. J., Hoffmann, N., Lu, M., et al. (2023) · Nature Biotechnology

Metabolomics and Mass Spectrometry StudiesMass Spectrometry Techniques and Applications

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Global chemical effects of the microbiome include new bile-acid conjugations

Quinn, R. A., Melnik, A. V., Vrbanac, A., Fu, T., Patras, K. A., Christy, M. P., Bodai, Z., Belda-Ferre, P., Tripathi, A., Chung, L. K., et al. (2020) · Nature

Gut microbiota and healthMetabolomics and Mass Spectrometry Studies

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NPClassifier: A Deep Neural Network-Based Structural Classification Tool for Natural Products

Kim, H. W., Wang, M., Leber, C. A., Nothias, L.-F., Reher, R., Kang, K. B., van der Hooft, J. J. J., Dorrestein, P. C., Gerwick, W. H., & Cottrell, G. W. (2021) · Journal of Natural Products

Computational Drug Discovery MethodsMicrobial Natural Products and Biosynthesis

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Bioactivity-Based Molecular Networking for the Discovery of Drug Leads in Natural Product Bioassay-Guided Fractionation

Nothias, L.-F., Nothias-Esposito, M., da Silva, R., Wang, M., Protsyuk, I., Zhang, Z., Sarvepalli, A., Leyssen, P., Touboul, D., Costa, J., et al. (2018) · Journal of Natural Products

Mass Spectrometry Techniques and ApplicationsComputational Drug Discovery Methods

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Mass spectrometry searches using MASST

Wang, M., Jarmusch, A. K., Vargas, F., Aksenov, A. A., Gauglitz, J. M., Weldon, K., Petras, D., da Silva, R., Quinn, R., Melnik, A. V., et al. (2020) · Nature Biotechnology

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Assembling the Community-Scale Discoverable Human Proteome

Wang, M., Wang, J., Carver, J., Pullman, B. S., Cha, S. W., & Bandeira, N. (2018) · Cell Systems

Advanced Proteomics Techniques and ApplicationsMass Spectrometry Techniques and Applications

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A Synthesis-Based Reverse Metabolomics Approach for the Discovery of Chemical Structures from Humans and Animals.

Dorrestein, P., Gentry, E., Collins, S., Panitchpakdi, M., Belda-Ferre, P., Stewart, A., Wang, M., Jarmusch, A., Avila-Pacheco, J., Plichta, D., et al. (2021) · Nature

Metabolomics and Mass Spectrometry StudiesGut microbiota and health

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ReDU: a framework to find and reanalyze public mass spectrometry data

Jarmusch, A. K., Wang, M., Aceves, C. M., Advani, R. S., Aguirre, S., Aksenov, A. A., Aleti, G., Aron, A. T., Bauermeister, A., Bolleddu, S., et al. (2020) · Nature Methods

Metabolomics and Mass Spectrometry StudiesResearch Data Management Practices

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Connecting metabolome and phenotype: recent advances in functional metabolomics tools for the identification of bioactive natural products

Vitale, G. A., Geibel, C., Minda, V., Wang, M., Aron, A. T., & Petras, D. (2024) · Natural Product Reports

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Native metabolomics identifies the rivulariapeptolide family of protease inhibitors

Reher, R., Aron, A. T., Fajtová, P., Stincone, P., Wagner, B., Pérez-Lorente, A. I., Liu, C., Shalom, I. Y. B., Bittremieux, W., Wang, M., et al. (2022) · Nature Communications

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NPOmix: a machine learning classifier to connect mass spectrometry fragmentation data to biosynthetic gene clusters

Leão, T. F., Wang, M., da Silva, R., Gurevich, A., Bauermeister, A., Gomes, P. W. P., Brejnrod, A., Glukhov, E., Aron, A. T., Louwen, J. J. R., et al. (2021) · PNAS Nexus

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