An improved method for scoring protein-protein interactions using semantic similarity within the gene ontology by Jain Shobhit, Bader Gary D

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An automated method for finding molecular complexes in large protein interaction networks by Bader Gary D, Hogue Christopher WV

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Integrative pathway dissection of molecular mechanisms of moxLDL-induced vascular smooth muscle phenotype transformation by Karagiannis George S, Weile Jochen, Bader Gary D, Minta Joe

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cPath: open source software for collecting, storing, and querying biological pathways by Gross Benjamin E, Bader Gary D, Cerami Ethan G, Sander Chris

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<it>clusterMaker: </it>a multi-algorithm clustering plugin for Cytoscape by Morris John H, Apeltsin Leonard, Newman Aaron M, Baumbach Jan, Wittkop Tobias, Su Gang, Bader Gary D, Ferrin Thomas E

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Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019 by Schreiber Falk, Sommer Björn, Bader Gary D., Gleeson Padraig, Golebiewski Martin, Hucka Michael, Keating Sarah M., König Matthias, Myers Chris, Nickerson David, Waltemath Dagmar

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Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2017 by Schreiber Falk, Bader Gary D., Gleeson Padraig, Golebiewski Martin, Hucka Michael, Keating Sarah M., Novère Nicolas Le, Myers Chris, Nickerson David, Sommer Björn, Waltemath Dagmar

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Single-cell transcriptomic profiling of the aging mouse brain by Ximerakis, Methodios, Lipnick, Scott L., Innes, Brendan T., Simmons, Sean Kenneth, Adiconis, Xian, Dionne, Danielle, Mayweather, Brittany A., Nguyen, Lan, Niziolek, Zachary, Ozek, Ceren, Butty, Vincent, Isserlin, Ruth, Buchanan, Sean M., Levine, Stuart S., Regev, Aviv, Bader, Gary D., Levin, Joshua Z., Rubin, Lee L.

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Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity by Andrews, Tallulah S, Atif, Jawairia, Liu, Jeff C, Perciani, Catia T, Ma, Xue-Zhong, Thoeni, Cornelia, Slyper, Michal, Eraslan, Gökcen, Segerstolpe, Asa, Manuel, Justin, Chung, Sai, Winter, Erin, Cirlan, Iulia, Khuu, Nicholas, Fischer, Sandra, Rozenblatt-Rosen, Orit, Regev, Aviv, McGilvray, Ian D, Bader, Gary D, MacParland, Sonya A

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Broadening the horizon – level 2.5 of the HUPO-PSI format for molecular interactions by Cusick Michael E, Cerami Ethan, Salwinski Lukasz, Nerothin Jason, Stümpflen Volker, Oesterheld Matthias, Chatr-aryamontri Andrew, Ceol Arnaud, Moore Susan, Salama John J, Sherman David, Tyers Mike, Wojcik Jérôme, Xenarios Ioannis, Bader Gary D, Vinod Nisha, Quinn Antony F, Aranda Bruno, Montecchi-Palazzi Luisa, Orchard Sandra, Kerrien Samuel, Vidal Marc, Gilson Michael, Armstrong John, Woollard Peter, Hogue Christopher, Eisenberg David, Cesareni Gianni, Apweiler Rolf, Hermjakob Henning

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SH3 interactome conserves general function over specific form by Xin, Xiaofeng, Gfeller, David, Cheng, Jackie, Tonikian, Raffi, Sun, Lin, Guo, Ailan, Lopez, Lianet, Pavlenco, Alevtina, Akintobi, Adenrele, Zhang, Yingnan, Currell, Bridget, Seshagiri, Somasekar, Hao, Tong, Yang, Xinping, Shen, Yun A., Salehi-Ashtiani, Kourosh, Li, Jingjing, Cheng, Aaron T., Bouamalay, Dryden, Lugari, Adrien, Hill, David E., Grimes, Mark L., Drubin, David G., Grant, Barth D., Vidal, Marc, Boone, Charles W., Sidhu, Sachdev S., Bader, Gary D., Rual, Jean-Francois

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