Gary D. Bader
Active 1995–2025
- Also published as
- Gary D Bader
- 255
- Papers
- 89,969
- Citations
- 117
- h-index
- 229
- i10-index
Citations
Citation sources
Countries
Institutions
Fields
- Biochemistry, Genetics and Molecular Biology58.5%
- Medicine22.6%
- Computer Science4.9%
- Neuroscience3.4%
- Immunology and Microbiology3%
- Chemistry1.9%
- Other5.7%
Topics
- Bioinformatics and Genomic Networks7.6%
- Computational Drug Discovery Methods2.6%
- Cancer Genomics and Diagnostics2.4%
- Gene expression and cancer classification2.1%
- RNA modifications and cancer1.9%
- Single-cell and spatial transcriptomics1.9%
- Other81.5%
Coauthors
- Véronique Voisin34
- Ruth Isserlin25
- Chris Sander16
- John E. Dick14
- Jüri Reimand14
- Mark D. Minden12
- Bo Wang11
- Christopher W. V. Hogue11
- Max Franz11
- Changjiang Xu10
- Charles Boone10
- Sonya A. MacParland10
- Aaron D. Schimmer9
- Brendan T. Innes9
- Dagmar Waltemath9
- Emek Demir9
- Federico Abascal9
- Quaid Morris9
- Troy Ketela9
- Alexander R. Pico8
- Chris J. Myers8
- Jeff C. Liu8
- Marc Remke8
- Peter B. Dirks8
All papers
- The reactome pathway knowledgebase 2022
Authors: Marc Gillespie, Bijay Jassal, Ralf Stephan, M Orlic-Milacic, Karen Rothfels, Andrea Senff‐Ribeiro, Johannes Griss, Cristoffer Sevilla, Lisa Matthews, Chuqiao Gong, Chuan Deng, Thawfeek Varusai, Eliot Ragueneau, Yusra Haider, Bruce May, Veronica Shamovsky, Joel Weiser, Timothy Brunson, Nasim Sanati, Liam Beckman, Xiang Shao, Antonio Fabregat, Konstantinos Sidiropoulos, Julieth Murillo, Guilherme Viteri, Justin Cook, Solomon I. Shorser, Gary D. Bader, Emek Demir, Chris Sander, Robin Haw, Guanming Wu, Lincoln Stein, Henning Hermjakob, Peter D’Eustachio - Nucleic Acids Research, Nucleic Acids Res. 2021 cited by 2,542
- Pan-cancer analysis of whole genomes
Authors: Lauri A. Aaltonen, Federico Abascal, Adam Abeshouse, Hiroyuki Aburatani, David J. Adams, Nishant Agrawal, Keun Soo Ahn, Sung-Min Ahn, Hiroshi Aikata, Rehan Akbani, Kadir C. Akdemir, Hikmat Al‐Ahmadie, Sultan T. Al‐Sedairy, Fátima Al‐Shahrour, Malik Alawi, Monique Albert, Kenneth Aldape, Ludmil B. Alexandrov, Adrian Ally, Kathryn Alsop, Eva G. Álvarez, Fernanda Amary, Samirkumar B. Amin, Brice Aminou, Ole Ammerpohl, Matthew J. Anderson, Yeng Ang, Davide Antonello, Pavana Anur, Samuel Aparício, Elizabeth L. Appelbaum, Yasuhito Arai, Axel Aretz, Koji Arihiro, Shun‐ichi Ariizumi, Joshua Armenia, Laurent Arnould, L. Sylvia, Yassen Assenov, Gurnit Atwal, Sietse Aukema, J. Todd Auman, Miriam R. R. Aure, Philip Awadalla, Marta Aymerich, Gary D. Bader, Adrian Baez‐Ortega, Matthew H. Bailey, Peter J. Bailey, Miruna Balasundaram, Saianand Balu, Pratiti Bandopadhayay, Rosamonde E. Banks, Stefano Barbi, Andrew P. Barbour, Jonathan Barenboim, Jill S. Barnholtz‐Sloan, Hugh Barr, Elisabet Barrera, John G. Bartlett, Javier Bartolomé, Claudio Bassi, Oliver F. Bathe, Daniel Baumhoer, Prashant Bavi, Stephen B. Baylin, Wojciech Bażant, Duncan Beardsmore, Timothy A. Beck, Sam Behjati, Andreas Behren, Beifang Niu, Cindy Bell, Sergi Beltrán, Christopher C. Benz, Andrew Berchuck, Anke K. Bergmann, Erik N. Bergstrom, Benjamin P. Berman, Daniel M. Berney, Stephan H. Bernhart, Rameen Beroukhim, Mario Berríos, Samantha Bersani, Johanna Bertl, Miguel Betancourt, Vinayak Bhandari, Shriram G. Bhosle, Andrew V. Biankin, Matthias Bieg, Darell D. Bigner, Hans Binder, Ewan Birney, Michael J. Birrer, Nidhan K. Biswas, Bodil Bjerkehagen, Tom Bodenheimer, Lori Boice, Giada Bonizzato, Johann S. de Bono and 1,224 more - Nature 2020 cited by 3,335
- An automated method for finding molecular complexes in large protein interaction networks
Authors: Gary D. Bader, Christopher W. V. Hogue - BMC Bioinformatics, BMC Bioinform. 2003 cited by 6,293
- The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function
Authors: David Warde-Farley, Sylva L. Donaldson, Ovi Comes, Khalid Zuberi, Rashad Badrawi, Pauline Chao, Max Franz, Chris Grouios, Farzana Kazi, Christian Tannus Lopes, Anson Maitland, Sara Mostafavi, Jason Montojo, Quentin Shao, George Wright, Gary D. Bader, Quaid Morris - Nucleic Acids Research, Nucleic Acids Res. 2010 cited by 5,113
- Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations
Authors: Sonya A. MacParland, Jeff C. Liu, Xue‐Zhong Ma, Brendan T. Innes, Agata Bartczak, Blair K. Gage, Justin Manuel, Nicholas Khuu, Juan Echeverri, Ivan Linares, Rahul Gupta, Michael Cheng, Lewis Liu, Damra Camat, Sai Chung, Rebecca K. Seliga, Zigong Shao, Elizabeth Lee, Shinichiro Ogawa, Mina Ogawa, Michael D. Wilson, Jason E. Fish, Markus Selzner, Anand Ghanekar, David Grant, Paul D. Greig, Gonzalo Sapisochín, Nazia Selzner, Neil Winegarden, Oyedele Adeyi, Gordon Keller, Gary D. Bader, Ian D. McGilvray - Nature Communications 2018 cited by 1,620
- Pathway enrichment analysis and visualization of omics data using g:Profiler, GSEA, Cytoscape and EnrichmentMap
Authors: Jüri Reimand, Ruth Isserlin, Véronique Voisin, Mike Kucera, Christian Tannus-Lopes, Asha Rostamianfar, Lina Wadi, Mona Meyer, J. D. Wong, Changjiang Xu, Daniele Merico, Gary D. Bader - Nature Protocols 2019 cited by 2,143
- A reference map of the human binary protein interactome
Authors: Katja Luck, Dae-Kyum Kim, Luke Lambourne, Kerstin Spirohn, Bridget E. Begg, Wenting Bian, Ruth Brignall, Tiziana Cafarelli, Francisco J. Campos-Laborie, Benoît Charloteaux, Dong-Sic Choi, Atina G. Coté, Meaghan Daley, Steven Deimling, Alice Desbuleux, Amélie Dricot, Marinella Gebbia, Madeleine F. Hardy, Nishka Kishore, Jennifer J. Knapp, István A. Kovács, Irma Lemmens, Miles W. Mee, Joseph C. Mellor, Carl Pollis, Carles Pons, Aaron D. Richardson, Sadie Schlabach, Bridget Teeking, Anupama Yadav, Mariana Babor, Dawit Balcha, Omer Basha, Christian Bowman-Colin, Suet-Feung Chin, Soon-gang Choi, Claudia Colabella, Georges Coppin, Cassandra D'Amata, David De Ridder, Steffi De Rouck, Miquel Duran-Frigola, Hanane Ennajdaoui, Florian Goebels, Liana Goehring, Anjali Gopal, Ghazal Haddad, Elodie Hatchi, Mohamed Helmy, Yves Jacob, Yoseph Kassa, Serena Landini, Roujia Li, Natascha van Lieshout, Andrew MacWilliams, Dylan Markey, Joseph N. Paulson, Sudharshan Rangarajan, John Rasla, Ashyad Rayhan, Thomas Rolland, Adriana San-Miguel, Yun Shen, Dayag Sheykhkarimli, Gloria M. Sheynkman, Eyal Simonovsky, Murat Tasan, Alexander Tejeda, Vincent Tropepe, Jean-Claude Twizere, Yang Wang, Robert J. Weatheritt, Jochen Weile, Yu Xia, Xinping Yang, Esti Yeger Lotem, Quan Zhong, Patrick Aloy, Gary D. Bader, Javier De Las Rivas, Suzanne Gaudet, Tong Hao, Janusz Rak, Jan Tavernier, David E. Hill, Marc Vidal, Frederick P. Roth, Michael A. Calderwood - Nature, Nat. 2020 cited by 1,346
- Single-cell transcriptomic profiling of the aging mouse brain
Authors: Methodios Ximerakis, Scott Lipnick, Brendan T. Innes, Sean Simmons, Xian Adiconis, Danielle Dionne, Brittany A. Mayweather, Lan Nguyễn, Zachary Niziolek, Ceren Ozek, Vincent L. Butty, Ruth Isserlin, Sean M. Buchanan, Stuart S. Levine, Aviv Regev, Gary D. Bader, Joshua Z. Levin, Lee L. Rubin - Nature Neuroscience 2019 cited by 784
- Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation
Authors: Daniele Merico, Ruth Isserlin, Oliver Stueker, Andrew Emili, Gary D. Bader - PLoS ONE 2010 cited by 2,441
- GeneMANIA update 2018
Authors: Max Franz, Harold Rodriguez, Christian Tannus Lopes, Khalid Zuberi, Jason Montojo, Gary D. Bader, Quaid Morris - Nucleic Acids Research, Nucleic Acids Res. 2018 cited by 1,435
- International network of cancer genome projects
Authors: Jennifer L. Jennings, Thomas J. Hudson, Arek Kasprzyk, John D. McPherson, Paul C. Boutros, Lakshmi Muthuswamy, B. F. Francis Ouellette, Lincoln D. Stein, Fabien Calvo, Iiro Eerola, Daniela S. Gerhard, Alan F. Guttmacher, Mark S. Guyer, Saravanamuttu Gnaneshan, Jennifer L. Jennings, David Kerr, Peter Klatt, Patrik Kolar, Michelle Sam, David P. Lane, Frank Laplace, Warwick Anderson, Gerd Nettekoven, Brad Ozenberger, Daniela S. Gerhard, T. S. Rao, Jacques Remacle, Carolyn C. Compton, Tatsuhiro Shibata, Karl W. Hasel, Joseph G. Vockley, Koichi Watanabe, Huanming Yang, M.M.F. Yuen, T. S. Rao, Martin Bobrow, Anne Cambon‐Thomsen, Lynn G. Dressler, Iris Pauporté, Yann Joly, Patrik Kolar, Jacques Remacle, Pilar Nicolás, Michael Parker, Emmanuelle Rial‐Sebbag, Carlos M. Romeo-Casabona, Laura Lyman Rodriguez, Susan Wallace, Georgia L. Wiesner, Nikolajs Zeps, Jun Kusuda, Tohru Masui, Christian Chabannon, Youyong Lu, Bruno Clément, Feng Chen, Françoise Degos, Xiaofang Xing, Peter Geary, D. Neil Hayes, Thomas J. Hudson, Amber L. Johns, Yasushi Totoki, Hidewaki Nakagawa, Michael R. Stratton, Miguel Á. Piris, Rajiv Sarin, Aldo Scarpa, Zemin Ning, Marc J. van de Vijver, P. Andrew Futreal, Hiroyuki Aburatani, Mónica Bayés, Sancha Martin, Koichi Watanabe, Xavier Estivill, Guangwu Guo, Sean M. Grimmond, Qibin Li, Martin Hirst, Honglong Wu, Shancen Zhao, Marco A. Marra, John D. McPherson, Hidewaki Nakagawa, Zemin Ning, Geng Tian, Yijun Ruan, Yann Joly, Susan Wallace, Bartha M. Knoppers, Harold Swerdlow, Victor E. Velculescu, Emmanuelle Rial-Sebbag, Lynn G. Dressler, Liu Yang, Pilar Nicolás, Gary D. Bader, Paul C. Boutros, Georgia L. Wiesner and 156 more - Nature 2010 cited by 2,428
- A draft map of the human proteome
Authors: Min‐Sik Kim, Sneha M. Pinto, Derese Getnet, Raja Sekhar Nirujogi, Srikanth S. Manda, Raghothama Chaerkady, Anil K. Madugundu, Dhanashree Kelkar, Ruth Isserlin, Shobhit Jain, Joji Kurian Thomas, Babylakshmi Muthusamy, Pamela Leal, Praveen Kumar, Nandini A. Sahasrabuddhe, Lavanya Balakrishnan, Jayshree Advani, Bijesh George, Santosh Renuse, Lakshmi Dhevi N. Selvan, Arun H. Patil, Vishalakshi Nanjappa, Aneesha Radhakrishnan, Samarjeet Prasad, Tejaswini Subbannayya, Rajesh Raju, Manish Kumar, Sreelakshmi K. Sreenivasamurthy, Arivusudar Marimuthu, Gajanan Sathe, Sandip Chavan, Keshava K. Datta, Yashwanth Subbannayya, Apeksha Sahu, Soujanya D. Yelamanchi, Savita Jayaram, Pavithra Rajagopalan, Jyoti Sharma, Krishna R. Murthy, Nazia Syed, Renu Goel, Aafaque Ahmad Khan, Sartaj Ahmad, Gourav Dey, Keshav Mudgal, Aditi Chatterjee, Tai‐Chung Huang, Jun Zhong, Xinyan Wu, Patrick G. Shaw, Donald Freed, Muhammad Saddiq Zahari, Kanchan K. Mukherjee, Subramanian Shankar, Anita Mahadevan, Henry Lam, Chris J. Mitchell, Susarla Krishna Shankar, Parthasarathy Satishchandra, John T. Schroeder, Ravi Sirdeshmukh, Anirban Maitra, Steven D. Leach, Charles G. Drake, Marc K. Halushka, Thottethodi Subrahmanya Keshava Prasad, Ralph H. Hruban, Candace L. Kerr, Gary D. Bader, Christine A. Iacobuzio–Donahue, Harsha Gowda, Akhilesh Pandey - Nature 2014 cited by 2,311
- Functional genomic landscape of cancer-intrinsic evasion of killing by T cells
Authors: Keith A. Lawson, Cristovão M. Sousa, Xiaoyu Zhang, Eiru Kim, Rummy Akthar, Joseph J. Caumanns, Yuxi Yao, Nicholas Mikolajewicz, Catherine Ross, Kevin R. Brown, Abdelrahman Abou Zid, Zi Peng Fan, Shirley Hui, Jordan A. Krall, Donald M. Simons, Chloe J. Slater, Víctor R. De Jesús, Lujia Tang, Richa Singh, Joshua E. Goldford, Sarah L. Fordyce Martin, Qian Huang, Elizabeth Francis, Andrea Habsid, Ryan Climie, David Tieu, Jiarun Wei, Li Ren, Amy H.Y. Tong, Michael Aregger, Katherine Chan, Hong Han, Xiaowei Wang, Patricia Mero, John H. Brumell, Antonio Finelli, Laurie Ailles, Gary D. Bader, Gromoslaw A. Smolen, Gillian A. Kingsbury, Traver Hart, Charles Kung, Jason Moffat - Nature 2020 cited by 479
- The multimodality cell segmentation challenge: toward universal solutions
Authors: Jun Ma, Ronald Xie, Shamini Ayyadhury, Cheng Ge, Anubha Gupta, Ritu Gupta, Song Gu, Yao Zhang, Gihun Lee, Joonkee Kim, Wei Lou, Haofeng Li, Eric Upschulte, Timo Dickscheid, José Guilherme de Almeida, Yixin Wang, Lin Han, Xin Yang, Marco Labagnara, Vojislav Gligorovski, Maxime Scheder, Sahand Jamal Rahi, Carly Kempster, Alice Y. Pollitt, Léon Espinosa, Tâm Mignot, Jan Moritz Middeke, Jan‐Niklas Eckardt, Wangkai Li, Zhaoyang Li, Xiaochen Cai, Bizhe Bai, Noah F. Greenwald, David Van Valen, Erin Weisbart, Beth A. Cimini, T. Cheung, Oscar Brück, Gary D. Bader, Bo Wang - Nature Methods 2024 cited by 142
- A clinically applicable integrative molecular classification of meningiomas
Authors: Farshad Nassiri, Jeff Liu, Vikas Patil, Yasin Mamatjan, Justin Z. Wang, Rupert Hugh-White, Andrew Macklin, Shahbaz Khan, Olivia Singh, Shirin Karimi, Rosario I. Corona, Lydia Liu, Caroline Y. Chen, Ankur Chakravarthy, Qingxia Wei, Bharati Mehani, Suganth Suppiah, Andrew Gao, Adriana M Workewych, Ghazaleh Tabatabai, Paul C. Boutros, Gary D. Bader, Daniel D. De Carvalho, Thomas Kislinger, Kenneth Aldape, Gelareh Zadeh - Nature 2021 cited by 456
- Single‐Cell, Single‐Nucleus, and Spatial RNA Sequencing of the Human Liver Identifies Cholangiocyte and Mesenchymal Heterogeneity
Authors: Tallulah Andrews, Jawairia Atif, Jeff C. Liu, Cátia T. Perciani, Xue‐Zhong Ma, Cornelia Thoeni, Michal Slyper, Gökçen Eraslan, Åsa Segerstolpe, Justin Manuel, Sai Chung, Erin Winter, Iulia Cirlan, Nicholas Khuu, Sandra E. Fischer, Orit Rozenblatt‐Rosen, Aviv Regev, Ian D. McGilvray, Gary D. Bader, Sonya A. MacParland - Hepatology Communications 2021 cited by 281
- Intertumoral Heterogeneity within Medulloblastoma Subgroups
Authors: Florence M.G. Cavalli, Marc Remke, Ladislav Rampášek, John Peacock, David Shih, Betty Luu, Livia Garzia, Jonathon Torchia, Carolina Nör, A. Sorana Morrissy, Sameer Agnihotri, Yuan Thompson, Claudia M. Kuzan-Fischer, Hamza Farooq, Keren Isaev, Craig Daniels, Byung-Kyu Cho, Seung‐Ki Kim, Kyu‐Chang Wang, Ji Yeoun Lee, Wiesława Grajkowska, Marta Perek‐Polnik, Alexandre Vasiljevic, Cécile Faure‐Conter, Anne Jouvet, Caterina Giannini, Amulya A. Nageswara Rao, Kay Ka Wai Li, Ho‐Keung Ng, Charles G. Eberhart, Ian F. Pollack, Ronald L. Hamilton, G. Yancey Gillespie, James M. Olson, Sarah Leary, William A. Weiss, Bolesław Lach, Lola B. Chambless, Reid C. Thompson, Michael K. Cooper, Rajeev Vibhakar, Péter Hauser, Marie‐Lise C. van Veelen, Johan M. Kros, Pim J. French, Young Seob Shin, Toshihiro Kumabe, Enrique López‐Aguilar, Karel Zitterbart, Jaroslav Štěrba, Gaetano Finocchiaro, Maura Massimino, Erwin G. Van Meir, Satoru Osuka, Tomoko Shofuda, Álmos Klekner, Massimo Zollo, Jeffrey R. Leonard, Joshua B. Rubin, Nada Jabado, Steffen Albrecht, Jaume Mora, Timothy Van Meter, Shin Jung, Andrew S. Moore, Andrew R. Hallahan, Jennifer A. Chan, Daniela Pretti da Cunha Tirapelli, Carlos Gilberto Carlotti, Maryam Fouladi, José Pimentel, Cláudia C. Faria, Ali G. Saad, Luca Massimi, Linda M. Liau, Helen Wheeler, Hideo Nakamura, Samer K. Elbabaa, Mario Pérezpeña-Díazconti, Fernando Chico Ponce de León, Shenandoah Robinson, Michal Zápotocký, Álvaro Lassaletta, Annie Huang, Cynthia Hawkins, Uri Tabori, Éric Bouffet, Ute Bartels, Peter B. Dirks, James T. Rutka, Gary D. Bader, Jüri Reimand, Anna Goldenberg, Vijay Ramaswamy, Michael D. Taylor - Cancer Cell 2017 cited by 1,255
- Gradient of Developmental and Injury Response transcriptional states defines functional vulnerabilities underpinning glioblastoma heterogeneity
Authors: Laura M. Richards, Owen Whitley, Graham MacLeod, Florence M.G. Cavalli, Fiona J. Coutinho, Julia E. Jaramillo, N. Svergun, Mazdak Riverin, Danielle Croucher, Michelle Kushida, Kenny Yu, Paul Guilhamon, Naghmeh Rastegar, Moloud Ahmadi, Jasmine K. Bhatti, Danielle Bozek, Naijin Li, Lilian Lee, Clare Che, Erika Luis, Nicole I. Park, Zhiyu Xu, Troy Ketela, Richard A. Moore, Marco A. Marra, Julian Spears, Michael D. Cusimano, Sunit Das, Mark Bernstein, Benjamin Haibe‐Kains, Mathieu Lupien, H. Artee Luchman, Samuel Weiss, Stéphane Angers, Peter B. Dirks, Gary D. Bader, Trevor J. Pugh - Nature Cancer 2021 cited by 328
- Analyses of non-coding somatic drivers in 2,658 cancer whole genomes
Authors: Esther Rheinbay, Morten Muhlig Nielsen, Federico Abascal, Jeremiah A. Wala, Ofer Shapira, Grace Tiao, Henrik Hornshøj, Julian M. Hess, Randi Istrup Juul, Ziao Lin, Lars Feuerbach, Radhakrishnan Sabarinathan, Tobias Madsen, Jaegil Kim, Loris Mularoni, Shimin Shuai, Andrés Lanzós, Carl Herrmann, Yosef E. Maruvka, Ciyue Shen, Samirkumar B. Amin, Pratiti Bandopadhayay, Johanna Bertl, Keith A. Boroevich, John Busanovich, Joana Carlevaro-Fita, Dimple Chakravarty, Calvin Wing Yiu Chan, David Craft, Priyanka Dhingra, Klev Diamanti, Nuno A. Fonseca, Abel González-Pérez, Qianyun Guo, Mark P. Hamilton, Nicholas J. Haradhvala, Hong Chen, Keren Isaev, Todd A. Johnson, Malene Juul, André Kahles, Abdullah Kahraman, Young-Wook Kim, Jan Komorowski, Kiran Kumar, Sushant Kumar, Donghoon Lee, Kjong-Van Lehmann, Yilong Li, Eric Minwei Liu, Lucas Lochovsky, Keunchil Park, Oriol Pich, Nicola D. Roberts, Gordon Saksena, Steven E. Schumacher, Nikos Sidiropoulos, Lina Sieverling, Nasa Sinnott-Armstrong, Chip Stewart, David Tamborero, José M. C. Tubío, Husen M. Umer, Liis Uusküla-Reimand, Claes Wadelius, Lina Wadi, Xiaotong Yao, Cheng‐Zhong Zhang, Jing Zhang, James E. Haber, Asger Hobolth, Marcin Imieliński, Manolis Kellis, Michael S. Lawrence, Christian von Mering, Hidewaki Nakagawa, Benjamin J. Raphael, Mark A. Rubin, Chris Sander, Lincoln D. Stein, Joshua M. Stuart, Tatsuhiko Tsunoda, David A. Wheeler, Rory Johnson, Jüri Reimand, Mark Gerstein, Ekta Khurana, Peter J. Campbell, Núria López-Bigas, PCAWG Drivers and Functional Interpretation Working Group, Federico Abascal, Samirkumar B. Amin, Gary D. Bader, Pratiti Bandopadhayay, Jonathan Barenboim, Rameen Beroukhim, Johanna Bertl, Keith A. Boroevich, Søren Brunak, Peter J. Campbell and 1,521 more - Nature, Nat. 2020 cited by 671
- Comprehensive molecular characterization of mitochondrial genomes in human cancers
Authors: Yuan Yuan, Young Seok Ju, Young-Wook Kim, Jun Li, Yumeng Wang, Sung-Soo Yoon, Yang Yang, Iñigo Martincorena, Chad J. Creighton, John N. Weinstein, Yanxun Xu, Leng Han, Hyung‐Lae Kim, Hidewaki Nakagawa, Keunchil Park, Peter J. Campbell, Han Liang, Lauri A. Aaltonen, Federico Abascal, Adam Abeshouse, Hiroyuki Aburatani, David J. Adams, Nishant Agrawal, Keun Soo Ahn, Sung-Min Ahn, Hiroshi Aikata, Rehan Akbani, Kadir C. Akdemir, Hikmat Al‐Ahmadie, Sultan T. Al‐Sedairy, Fátima Al‐Shahrour, Malik Alawi, Monique Albert, Kenneth Aldape, Ludmil B. Alexandrov, Adrian Ally, Kathryn Alsop, Eva G. Álvarez, Fernanda Amary, Samirkumar B. Amin, Brice Aminou, Ole Ammerpohl, Matthew J. Anderson, Yeng Ang, Davide Antonello, Pavana Anur, Samuel Aparício, Elizabeth L. Appelbaum, Yasuhito Arai, Axel Aretz, Koji Arihiro, Shun‐ichi Ariizumi, Joshua Armenia, Laurent Arnould, L. Sylvia, Yassen Assenov, Gurnit Atwal, Sietse Aukema, J. Todd Auman, Miriam R. R. Aure, Philip Awadalla, Marta Aymerich, Gary D. Bader, Adrian Baez‐Ortega, Matthew H. Bailey, Peter J. Bailey, Miruna Balasundaram, Saianand Balu, Pratiti Bandopadhayay, Rosamonde E. Banks, Stefano Barbi, Andrew P. Barbour, Jonathan Barenboim, Jill S. Barnholtz‐Sloan, Hugh Barr, Elisabet Barrera, John Bartlett, Javier Bartolomé, Claudio Bassi, Oliver F. Bathe, Daniel Baumhoer, Prashant Bavi, Stephen B. Baylin, Wojciech Bażant, Duncan Beardsmore, Timothy A. Beck, Sam Behjati, Andreas Behren, Beifang Niu, Cindy Bell, Sergi Beltrán, Christopher C. Benz, Andrew Berchuck, Anke Bergmann, Erik N. Bergstrom, Benjamin P. Berman, Daniel M. Berney, Stephan H. Bernhart, Rameen Beroukhim, Mario Berríos and 1,241 more - Nature Genetics 2020 cited by 515
- Integration of biological networks and gene expression data using Cytoscape
Authors: Melissa Cline, Michael Smoot, Ethan Cerami, Allan Kuchinsky, Nerius Landys, Christopher T. Workman, Rowan H. Christmas, Iliana Avila-Campilo, Michael Creech, Benjamin Groß, Kristina Hanspers, Ruth Isserlin, Ryan Kelley, Sarah Killcoyne, Samad Lotia, Steven Maere, John H. Morris, Keiichiro Ono, Vuk Pavlovic, Alexander R. Pico, Aditya Vailaya, Pengliang Wang, Annette Adler, Bruce R. Conklin, Leroy Hood, Martin Kuiper, Chris Sander, Ilya Schmulevich, Benno Schwikowski, Guy Warner, Trey Ideker, Gary D. Bader - Nature Protocols 2007 cited by 2,574
- Cytoscape.js 2023 update: a graph theory library for visualization and analysis
Authors: Max Franz, Christian Lopes, Dylan Fong, Mike Kucera, Manfred Cheung, Metin Can Siper, Gerardo Huck, Dong Yue, Onur Sumer, Gary D. Bader - Bioinformatics, Bioinform. 2023 cited by 165
- Tracing the origins of relapse in acute myeloid leukaemia to stem cells
Authors: Liran I. Shlush, Amanda Mitchell, Lawrence E. Heisler, Sagi Abelson, Stanley Ng, Aaron C. Trotman-Grant, Jessie J.F. Medeiros, Abilasha Rao‐Bhatia, Ivana Jaciw-Zurakowsky, René Marke, Jessica McLeod, Monica Doedens, Gary D. Bader, Véronique Voisin, Changjiang Xu, John D. McPherson, Thomas J. Hudson, Jean Wang, Mark D. Minden, John E. Dick - Nature 2017 cited by 593
- Single-cell, single-nucleus, and spatial transcriptomics characterization of the immunological landscape in the healthy and PSC human liver
Authors: Tallulah Andrews, Diana Nakib, Cátia T. Perciani, Xue Zhong, Lewis Liu, Erin Winter, Damra Camat, Sai Chung, Patricia Lumanto, Justin Manuel, Shantel Mangroo, Bettina E. Hansen, Bal Arpinder, Cornelia Thoeni, Blayne A. Sayed, Jordan J. Feld, Adam J. Gehring, Aliya Gulamhusein, Gideon M. Hirschfield, Amanda Ricciuto, Gary D. Bader, Ian D. McGilvray, Sonya A. MacParland - Journal of Hepatology 2024 cited by 159
