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Publications

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Highlighted Publications

  1. Xianghu Wang, Michael Strobel, Allegra T Aron, Vanessa V Phelan, Deepa D Acharya, Christopher J Brown, Ken Clevenger, Jie Hu, Ashley Kretsch, Elizabeth H Mahood, Carla Menegatti, Quanbo Xiong, Mingxun Wang "Network Topology Evaluation and Transitive Alignments for Molecular Networking." Journal of the American Society for Mass Spectrometry 2024, PMID: 39133821

  2. Mohammad Reza Zare Shahneh, Michael Strobel, Giovanni Andrea Vitale, Christian Geibel, Yasin El Abiead, Neha Garg, Berenike Wagner, Karl Forchhammer, Allegra Aron, Vanessa V Phelan, Daniel Petras, Mingxun Wang "ModiFinder: Tandem Mass Spectral Alignment Enables Structural Modification Site Localization." Journal of the American Society for Mass Spectrometry 2024, PMID: 38830143

  3. Daniel Petras, Vanessa V Phelan, Deepa Acharya, Andrew E Allen, Allegra T Aron, Nuno Bandeira, Benjamin P Bowen, Deirdre Belle-Oudry, Simon Boecker, Dale A Cummings, Jessica M Deutsch, Eoin Fahy, Neha Garg, Rachel Gregor, Jo Handelsman, Mirtha Navarro-Hoyos, Alan K Jarmusch, Scott A Jarmusch, Katherine Louie, Katherine N Maloney, Michael T Marty, Michael M Meijler, Itzhak Mizrahi, Rachel L Neve, Trent R Northen, Carlos Molina-Santiago, Morgan Panitchpakdi, Benjamin Pullman, Aaron W Puri, Robin Schmid, Shankar Subramaniam, Monica Thukral, Felipe Vasquez-Castro, Pieter C Dorrestein, Mingxun Wang "GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser." Nature methods 2021, PMID: 34862502

  4. Tiago F Leao, Chase M Clark, Anelize Bauermeister, Emmanuel O Elijah, Emily C Gentry, Makhai Husband, Michelli F Oliveira, Nuno Bandeira, Mingxun Wang, Pieter C Dorrestein "Quick-start infrastructure for untargeted metabolomics analysis in GNPS." Nature metabolism 2021, PMID: 34244695

  5. Daniel Petras, Andrés Mauricio Caraballo-Rodríguez, Alan K Jarmusch, Carlos Molina-Santiago, Julia M Gauglitz, Emily C Gentry, Pedro Belda-Ferre, Diego Romero, Shirley M Tsunoda, Pieter C Dorrestein, Mingxun Wang "Chemical Proportionality within Molecular Networks." Analytical chemistry 2021, PMID: 34533933

  6. Louis-Félix Nothias, Daniel Petras, Robin Schmid, Kai Dührkop, Johannes Rainer, Abinesh Sarvepalli, Ivan Protsyuk, Madeleine Ernst, Hiroshi Tsugawa, Markus Fleischauer, Fabian Aicheler, Alexander A Aksenov, Oliver Alka, Pierre-Marie Allard, Aiko Barsch, Xavier Cachet, Andres Mauricio Caraballo-Rodriguez, Ricardo R Da Silva, Tam Dang, Neha Garg, Julia M Gauglitz, Alexey Gurevich, Giorgis Isaac, Alan K Jarmusch, Zdeněk Kameník, Kyo Bin Kang, Nikolas Kessler, Irina Koester, Ansgar Korf, Audrey Le Gouellec, Marcus Ludwig, Christian Martin H, Laura-Isobel McCall, Jonathan McSayles, Sven W Meyer, Hosein Mohimani, Mustafa Morsy, Oriane Moyne, Steffen Neumann, Heiko Neuweger, Ngoc Hung Nguyen, Melissa Nothias-Esposito, Julien Paolini, Vanessa V Phelan, Tomáš Pluskal, Robert A Quinn, Simon Rogers, Bindesh Shrestha, Anupriya Tripathi, Justin J J van der Hooft, Fernando Vargas, Kelly C Weldon, Michael Witting, Heejung Yang, Zheng Zhang, Florian Zubeil, Oliver Kohlbacher, Sebastian Böcker, Theodore Alexandrov, Nuno Bandeira, Mingxun Wang, Pieter C Dorrestein "Feature-based molecular networking in the GNPS analysis environment." Nature methods 2020, PMID: 32839597

  7. Alan K Jarmusch, Mingxun Wang, Christine M Aceves, Rohit S Advani, Shaden Aguirre, Alexander A Aksenov, Gajender Aleti, Allegra T Aron, Anelize Bauermeister, Sanjana Bolleddu, Amina Bouslimani, Andres Mauricio Caraballo Rodriguez, Rama Chaar, Roxana Coras, Emmanuel O Elijah, Madeleine Ernst, Julia M Gauglitz, Emily C Gentry, Makhai Husband, Scott A Jarmusch, Kenneth L Jones, Zdenek Kamenik, Audrey Le Gouellec, Aileen Lu, Laura-Isobel McCall, Kerry L McPhail, Michael J Meehan, Alexey V Melnik, Riya C Menezes, Yessica Alejandra Montoya Giraldo, Ngoc Hung Nguyen, Louis Felix Nothias, Mélissa Nothias-Esposito, Morgan Panitchpakdi, Daniel Petras, Robert A Quinn, Nicole Sikora, Justin J J van der Hooft, Fernando Vargas, Alison Vrbanac, Kelly C Weldon, Rob Knight, Nuno Bandeira, Pieter C Dorrestein "ReDU: a framework to find and reanalyze public mass spectrometry data." Nature methods 2020, PMID: 32807955

  8. Allegra T Aron, Emily C Gentry, Kerry L McPhail, Louis-Félix Nothias, Mélissa Nothias-Esposito, Amina Bouslimani, Daniel Petras, Julia M Gauglitz, Nicole Sikora, Fernando Vargas, Justin J J van der Hooft, Madeleine Ernst, Kyo Bin Kang, Christine M Aceves, Andrés Mauricio Caraballo-Rodríguez, Irina Koester, Kelly C Weldon, Samuel Bertrand, Catherine Roullier, Kunyang Sun, Richard M Tehan, Cristopher A Boya P, Martin H Christian, Marcelino Gutiérrez, Aldo Moreno Ulloa, Javier Andres Tejeda Mora, Randy Mojica-Flores, Johant Lakey-Beitia, Victor Vásquez-Chaves, Yilue Zhang, Angela I Calderón, Nicole Tayler, Robert A Keyzers, Fidele Tugizimana, Nombuso Ndlovu, Alexander A Aksenov, Alan K Jarmusch, Robin Schmid, Andrew W Truman, Nuno Bandeira, Mingxun Wang, Pieter C Dorrestein "Reproducible molecular networking of untargeted mass spectrometry data using GNPS." Nature protocols 2020, PMID: 32405051

  9. Mingxun Wang, Alan K Jarmusch, Fernando Vargas, Alexander A Aksenov, Julia M Gauglitz, Kelly Weldon, Daniel Petras, Ricardo da Silva, Robert Quinn, Alexey V Melnik, Justin J J van der Hooft, Andrés Mauricio Caraballo-Rodríguez, Louis Felix Nothias, Christine M Aceves, Morgan Panitchpakdi, Elizabeth Brown, Francesca Di Ottavio, Nicole Sikora, Emmanuel O Elijah, Lara Labarta-Bajo, Emily C Gentry, Shabnam Shalapour, Kathleen E Kyle, Sara P Puckett, Jeramie D Watrous, Carolina S Carpenter, Amina Bouslimani, Madeleine Ernst, Austin D Swafford, Elina I Zúñiga, Marcy J Balunas, Jonathan L Klassen, Rohit Loomba, Rob Knight, Nuno Bandeira, Pieter C Dorrestein "Mass spectrometry searches using MASST." Nature biotechnology 2020, PMID: 31894142

  10. Mingxun Wang, Jian Wang, Jeremy Carver, Benjamin S Pullman, Seong Won Cha, Nuno Bandeira "Assembling the Community-Scale Discoverable Human Proteome." Cell systems 2018, PMID: 30172843

  11. Mingxun Wang, Jeremy J Carver, Vanessa V Phelan, Laura M Sanchez, Neha Garg, Yao Peng, Don Duy Nguyen, Jeramie Watrous, Clifford A Kapono, Tal Luzzatto-Knaan, Carla Porto, Amina Bouslimani, Alexey V Melnik, Michael J Meehan, Wei-Ting Liu, Max Crüsemann, Paul D Boudreau, Eduardo Esquenazi, Mario Sandoval-Calderón, Roland D Kersten, Laura A Pace, Robert A Quinn, Katherine R Duncan, Cheng-Chih Hsu, Dimitrios J Floros, Ronnie G Gavilan, Karin Kleigrewe, Trent Northen, Rachel J Dutton, Delphine Parrot, Erin E Carlson, Bertrand Aigle, Charlotte F Michelsen, Lars Jelsbak, Christian Sohlenkamp, Pavel Pevzner, Anna Edlund, Jeffrey McLean, Jörn Piel, Brian T Murphy, Lena Gerwick, Chih-Chuang Liaw, Yu-Liang Yang, Hans-Ulrich Humpf, Maria Maansson, Robert A Keyzers, Amy C Sims, Andrew R Johnson, Ashley M Sidebottom, Brian E Sedio, Andreas Klitgaard, Charles B Larson, Cristopher A Boya P, Daniel Torres-Mendoza, David J Gonzalez, Denise B Silva, Lucas M Marques, Daniel P Demarque, Egle Pociute, Ellis C O'Neill, Enora Briand, Eric J N Helfrich, Eve A Granatosky, Evgenia Glukhov, Florian Ryffel, Hailey Houson, Hosein Mohimani, Jenan J Kharbush, Yi Zeng, Julia A Vorholt, Kenji L Kurita, Pep Charusanti, Kerry L McPhail, Kristian Fog Nielsen, Lisa Vuong, Maryam Elfeki, Matthew F Traxler, Niclas Engene, Nobuhiro Koyama, Oliver B Vining, Ralph Baric, Ricardo R Silva, Samantha J Mascuch, Sophie Tomasi, Stefan Jenkins, Venkat Macherla, Thomas Hoffman, Vinayak Agarwal, Philip G Williams, Jingqui Dai, Ram Neupane, Joshua Gurr, Andrés M C Rodríguez, Anne Lamsa, Chen Zhang, Kathleen Dorrestein, Brendan M Duggan, Jehad Almaliti, Pierre-Marie Allard, Prasad Phapale, Louis-Felix Nothias, Theodore Alexandrov, Marc Litaudon, Jean-Luc Wolfender, Jennifer E Kyle, Thomas O Metz, Tyler Peryea, Dac-Trung Nguyen, Danielle VanLeer, Paul Shinn, Ajit Jadhav, Rolf Müller, Katrina M Waters, Wenyuan Shi, Xueting Liu, Lixin Zhang, Rob Knight, Paul R Jensen, Bernhard O Palsson, Kit Pogliano, Roger G Linington, Marcelino Gutiérrez, Norberto P Lopes, William H Gerwick, Bradley S Moore, Pieter C Dorrestein, Nuno Bandeira "Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking." Nature biotechnology 2016, PMID: 27504778

  12. Mingxun Wang, Nuno Bandeira "Spectral library generating function for assessing spectrum-spectrum match significance." Journal of proteome research 2013, PMID: 23808827

Last update: November 19, 2025 19:08:38