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G

Gary D. Bader

University of Toronto

125H-index
693Paper Count
10.3WCitation Count
Published Papers 187
Publication Date
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FLASH-MM: fast and scalable single-cell differential expression analysis using linear mixed-effects models
errNature Communications
IF15.7
err2026-02-05
err0
errOAAI
errChangjiang Xu; Delaram Pouyabahar; Veronique Voisin; Hamed Heydari; Gary D. Bader
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errSave
Tutorial: annotation of animal genomes
errNature Protocols
IF16
err2026-01-28
err0
PREAI
errZoe A. Clarke; Dustin J. Sokolowski; Ciaran K. Byles-Ho; Ruth Isserlin; Michael D. Wilson; Jared T. Simpson; Gary D. Bader
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errSave
Glioblastoma stem cells show transcriptionally correlated spatial organization
errCommunications Biology
IF5.1
err2026-01-23
err0
errOAAI
errShamini Ayyadhury; Patty Sachamitr; Michelle M. Kushida; Nicole I. Park; Fiona J. Coutinho; Owen Whitley; Panagiotis Prinos; Cheryl H. Arrowsmith; Peter B. Dirks; Trevor J. Pugh; Gary D. Bader
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A single-cell atlas of the woodchuck liver reveals cellular programs conserved in human HBV infection
errJournal of Hepatology
IF33
err2026-01-22
err0
PREAI
errZoe A. Clarke; Jawairia Atif; Xinle Wang; Lewis Y. Liu; Lawrence Wood; Damra Camat; Yijia Liu; Ariya Shiwram; Sharon J. Hyduk; Sai Chung; Xue-Zhong Ma; Justin Manuel; Si Lok; Timothy N.H. Lau; Cornelia Thoeni; Tomasz I. Michalak; Ian D. McGilvray; Gary D. Bader; Sonya A. MacParland
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errSave
Identification of CDC25 as a Common Therapeutic Target for Triple-Negative Breast Cancer
errCell Reports
IF6.9
err2025-11-04
err0
errOAAI
errJeff C. Liu; Letizia Granieri; Mariusz Shrestha; Dong-Yu Wang; Ioulia Vorobieva; Elizabeth A. Rubie; Rob Jones; YoungJun Ju; Giovanna Pellecchia; Zhe Jiang; Carlo A. Palmerini; Yaacov Ben-David; Sean E. Egan; James R. Woodgett; Gary D. Bader; Alessandro Datti; Eldad Zacksenhaus
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errSave
Cell networks in the mouse liver during partial hepatectomy
errStem Cell Reports
IF5.1
err2025-10-23
err0
errOAAI
errBin Li; Daniel Rodrigo-Torres; Carl Pelz; Brendan Innes; Pamela Canaday; Sunghee Chai; Peter Zandstra; Gary D. Bader; Markus Grompe
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errSave
Author Correction: Towards a reference cell atlas of liver diversity over the human lifespan
errNature Reviews Gastroenterology & Hepatology
IF51
err2025-10-23
err0
errOAAI
errSarah A. Taylor; Gary D. Bader; Sonya MacParland; Alan C. Mullen; Tallulah Andrews; Alex G. Cuenca; Ramanuj DasGupta; Adam J. Gehring; Dominic Grün; Martin Guilliams; Aliya Gulamhusein; Neil C. Henderson; Gideon Hirschfield; Stacey S. Huppert; Shalev Itzkovitz; Z. Gordon Jiang; Georg M. Lauer; Ian McGilvray; Krupa R. Mysore; Carlos J. Pirola; Gerald Quon; Mohammad Rahbari; Aviv Regev; Amanda Ricciuto; Charlotte L. Scott; Ankur Sharma; Silvia Sookoian; Michele M. Tana; Sarah A. Teichmann; Ludovic Vallier; Ioannis S. Vlachos; Bruce Wang; Mei Zhen
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Towards a reference cell atlas of liver diversity over the human lifespan
errNature Reviews Gastroenterology & Hepatology
IF51
err2025-10-13
err0
PREAI
errSarah A. Taylor; Gary D. Bader; Sonya MacParland; Alan C. Mullen; Tallulah Andrews; Alex G. Cuenca; Ramanuj DasGupta; Adam J. Gehring; Dominic Grün; Martin Guilliams; Aliya Gulamhusein; Neil C. Henderson; Gideon Hirschfield; Stacey S. Huppert; Shalev Itzkovitz; Z. Gordon Jiang; Georg M. Lauer; Ian McGilvray; Krupa R. Mysore; Carlos J. Pirola; Gerald Quon; Mohammad Rahbari; Aviv Regev; Amanda Ricciuto; Charlotte L. Scott; Ankur Sharma; Silvia Sookoian; Michelle M. Tana; Sarah A. Teichmann; Ludovic Vallier; Ioannis S. Vlachos; Bruce Wang; Mei Zhen
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errSave
Single-cell atlas of human pediatric liver reveals age-related hepatic gene signatures
errHepatology Communications
IF4.6
err2025-10-07
err0
errOAAI
errEdgar, Rachel D.; Nakib, Diana; Camat, Damra; Chung, Sai; Lumanto, Patricia; Atif, Jawairia; Perciani, Catia T.; Ma, Xue-Zhong; Thoeni, Cornelia; Selvakumaran, Nilosa; Manuel, Justin; Sayed, Blayne; Huysentruyt, Koen; Ricciuto, Amanda; McGilvray, Ian; Avitzur, Yaron; Bader, Gary D.; MacParland, Sonya A.
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errSave
Integrative multi-omic characterization of the immune landscape in renal cell carcinoma
errONCOLOGIST
IF4.2
err2025-10-01
err0
errOAAI
errPfeil, Jennifer; Hui, Shirley; Stueckmann, Daniel; Zhang, Xiaoyu; Martin, Lisa; Gorman, Jennifer; Chen, Eddy; Afiuni, Somi; Meens, Jalna; Komisarenko, Maria; Chevrier, Stephane; Sivapatham, Sujana; Szusz, Julia; Liu, Zhihui; Prendiville, Susan; Ailles, Laurie; Jonsson, Philip; Davis, Fred; Penaranda, Cristina; Newton, Ryan; Stransky, Nicolas; Bielecki, Piotr; Smolen, Gromek; Haider, Masoom; Bodenmiller, Bernd; Crome, Sarah; Bader, Gary; Finelli, Anthony; Jackson, Hartland; Lawson, Keith
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errSave
Single-nucleus transcriptome atlas of orbitofrontal cortex in ALS with a deep learning-based decoding of alternative polyadenylation mechanisms
errCell Genomics
IF9
err2025-09-17
err0
errOAAI
errPaul M. McKeever; Aiden M. Sababi; Raghav Sharma; Zhiyu Xu; Shangxi Xiao; Philip McGoldrick; Troy Ketela; Christine Sato; Danielle Moreno; Naomi Visanji; Gabor G. Kovacs; Julia Keith; Lorne Zinman; Ekaterina Rogaeva; Hani Goodarzi; Gary D. Bader; Janice Robertson
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errSave
Claudin-1 is a mediator and therapeutic target in primary sclerosing cholangitis
errJournal of Hepatology
IF33
err2025-08-20
err0
PREAI
errFabio Del Zompo; Emilie Crouchet; Tessa Ostyn; Zeina Nehme; Mélissa Messé; Frank Jühling; Romain Désert; Angelica T. Vieira; Julien Moehlin; Diana Nakib; Tallulah Andrews; Catia Perciani; Sai Chung; Gary D. Bader; Ian McGilvray; Chiara Caime; Miki Scaravaglio; Marco Carbone; Pietro Invernizzi; Sheraz Yaqub
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errSave
Cytoscape Web: bringing network biology to the browser
errNUCLEIC ACIDS RESEARCH
IF13.1
err2025-05-01
err0
errOAAI
errOno, Keiichiro; Fong, Dylan; Gao, Chengzhan; Churas, Christopher; Pillich, Rudolf; Lenkiewicz, Joanna; Pratt, Dexter; Pico, Alexander R.; Hanspers, Kristina; Xin, Yihang; Morris, John; Kucera, Mike; Franz, Max; Lopes, Christian; Bader, Gary; Ideker, Trey
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errSave
PRMT5 promotes full-length HTT expression by repressing multiple proximal intronic polyadenylation sites
errNUCLEIC ACIDS RESEARCH
IF13.1
err2025-04-30
err0
errOAAI
errYadav, Manisha; AlQazzaz, Mona A.; Ciamponi, Felipe E.; Ho, Jolene C.; Maron, Maxim, I; Sababi, Aiden M.; MacLeod, Graham; Ahmadi, Moloud; Bullivant, Garrett; Tano, Vincent; Langley, Sarah R.; Sanchez-Osuna, Maria; Sachamitr, Patty; Kushida, Michelle; Bardile, Costanza Ferrari; Pouladi, Mahmoud A.; Kurtz, Rebecca; Richards, Laura; Pugh, Trevor; Tyers, Mike; Angers, Stephane; Dirks, Peter B.; Bader, Gary D.; Truant, Ray; Massirer, Katlin B.; Barsyte-Lovejoy, Dalia; Shechter, David; Harding, Rachel J.; Arrowsmith, Cheryl H.; Prinos, Panagiotis
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A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients
errGENOME BIOLOGY
IF9.4
err2025-03-14
err2
errOAAI
errPita-Juarez, Yered; Karagkouni, Dimitra; Kalavros, Nikolaos; Melms, Johannes C.; Niezen, Sebastian; Delorey, Toni M.; Essene, Adam L.; Brook, Olga R.; Pant, Deepti; Skelton-Badlani, Disha; Naderi, Pourya; Huang, Pinzhu; Pan, Liuliu; Hether, Tyler; Andrews, Tallulah S.; Ziegler, Carly G. K.; Reeves, Jason; Myloserdnyy, Andriy; Chen, Rachel; Nam, Andy; Phelan, Stefan; Liang, Yan; Gregory, Mark; He, Shanshan; Patrick, Michael; Rane, Tushar; Wardhani, Aster; Amin, Amit Dipak; Biermann, Jana; Hibshoosh, Hanina; Veregge, Molly; Kramer, Zachary; Jacobs, Christopher; Yalcin, Yusuf; Phillips, Devan; Slyper, Michal; Subramanian, Ayshwarya; Ashenberg, Orr; Bloom-Ackermann, Zohar; Tran, Victoria M.; Gomez, James; Sturm, Alexander; Zhang, Shuting; Fleming, Stephen J.; Warren, Sarah; Beechem, Joseph; Hung, Deborah; Babadi, Mehrtash; Padera Jr, Robert F.; Macparland, Sonya A.; Bader, Gary D.; Imad, Nasser; Solomon, Isaac H.; Miller, Eric; Riedel, Stefan; Porter, Caroline B. M.; Villani, Alexandra-Chloe; Tsai, Linus T. -Y.; Hide, Winston; Szabo, Gyongyi; Hecht, Jonathan; Rozenblatt-Rosen, Orit; Shalek, Alex K.; Izar, Benjamin; Popov, Yury V.; Jiang, Z. Gordon; Vlachos, Ioannis S.
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Approaches to identify scenarios for data science implementations within healthcare settings: recommendations based on experiences at multiple academic institutions
errFRONTIERS IN DIGITAL HEALTH
IF3.8
err2025-03-14
err0
errOAAI
errSung, Lillian; Brudno, Michael; Caesar, Michael C. W.; Verma, Amol A.; Buchsbaum, Brad; Retnakaran, Ravi; Giannakeas, Vasily; Kushki, Azadeh; Bader, Gary D.; Lasthiotakis, Helen; Mamdani, Muhammad; Strug, Lisa
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Single-cell transcriptome analysis reveals CD34 as a marker of human sinoatrial node pacemaker cardiomyocytes
errNATURE COMMUNICATIONS
IF15.7
err2024-11-27
err0
errOAAI
errLim, Amos A.; Pouyabahar, Delaram; Ashraf, Mishal; Huang, Kate; Lohbihler, Michelle; Murareanu, Brandon M.; Chang, Matthew L.; Kwan, Maggie; Alibhai, Faisal J.; Tran, Thinh; Mazine, Amine; Laflamme, Michael A.; Bader, Gary D.; Laksman, Zachary; Protze, Stephanie
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The Exportin, CSE1L, Regulates Ribosome Biogenesis and Is a Selective Dependency in Childhood and Young Adult Acute Myeloid Leukemia
errBLOOD
IF23.1
err2024-11-05
err0
PREAI
errEgan, Grace; Kumar, Amit; Voisin, Veronique; Hurren, Rose; Chegini, Ali; Ling, Dakai; Thomas, Geethu Emily; Yan, Youngran; Feng, Yue; Bansal, Suraj; Zeng, Andy G. X.; Arruda, Andrea; Dick, John Edgar; Bader, Gary D.; Minden, Mark D.; Schimmer, Aaron D.
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errSave
Fatecode enables cell fate regulator prediction using classification-supervised autoencoder perturbation
errCELL REPORTS METHODS
IF4.5
err2024-07-01
err0
errOAAI
errSadria, Mehrshad; Layton, Anita; Goyal, Sidhartha; Bader, Gary D.
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Drugst.One - a plug-and-play solution for online systems medicine and network-based drug repurposing
errNUCLEIC ACIDS RESEARCH
IF13.1
err2024-05-23
err4
errOAAI
errMaier, Andreas; Hartung, Michael; Abovsky, Mark; Adamowicz, Klaudia; Bader, Gary D.; Baier, Sylvie; Blumenthal, David B.; Chen, Jing; Elkjaer, Maria L.; Garcia-Hernandez, Carlos; Helmy, Mohamed; Hoffmann, Markus; Jurisica, Igor; Kotlyar, Max; Lazareva, Olga; Levi, Hagai; List, Markus; Lobentanzer, Sebastian; Loscalzo, Joseph; Malod-Dognin, Noel; Manz, Quirin; Matschinske, Julian; Mee, Miles; Oubounyt, Mhaned; Pastrello, Chiara; Pico, Alexander R.; Pillich, Rudolf T.; Poschenrieder, Julian M.; Pratt, Dexter; Przulj, Natasa; Sadegh, Sepideh; Saez-Rodriguez, Julio; Sarkar, Suryadipto; Shaked, Gideon; Shamir, Ron; Trummer, Nico; Turhan, Ugur; Wang, Rui-Sheng; Zolotareva, Olga; Baumbach, Jan
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Research Directions

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Co-authors
Cooperation Journals
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Walter C. Willett
H-index: 313 · Papers: 2.7K
J
JoAnn E. Manson
H-index: 255 · Papers: 2.7K
C
Chris Sander
H-index: 191 · Papers: 849
M
Marco A. Marra
H-index: 190 · Papers: 1.3K
S
Steven J.M. Jones
H-index: 189 · Papers: 1.3K
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