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Submissions from 2021

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The mouse Gene Expression Database (GXD): 2021 update., Richard M. Baldarelli, Constance M. Smith, Jacqueline H. Finger, Terry F. Hayamizu, Ingeborg J. McCright, Jingxia Xu, David R. Shaw, Jonathan S Beal, Olin Blodgett, Jeff Campbell, Lori E. Corbani, Pete J. Frost, Sharon C Giannatto, Dave Miers, James A. Kadin, Joel E Richardson, and Martin Ringwald

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Mouse Genome Database (MGD): Knowledgebase for mouse-human comparative biology., Judith A. Blake, Richard M. Baldarelli, James A. Kadin, Joel E Richardson, Cynthia Smith, Carol J Bult, and Mouse Genome Database Group

Deep Learning-Based Segmentation and Quantification in Experimental Kidney Histopathology., Nassim Bouteldja, Barbara M Klinkhammer, Roman D Bülow, Patrick Droste, Simon W Otten, Saskia Freifrau von Stillfried, Julia Moellmann, Susan Sheehan, Ron Korstanje, Sylvia Menzel, Peter Bankhead, Matthias Mietsch, Charis Drummer, Michael Lehrke, Rafael Kramann, Jürgen Floege, Peter Boor, and Dorit Merhof

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Aberrant type 1 immunity drives susceptibility to mucosal fungal infections., Timothy J Break, Vasileios Oikonomou, Nicolas Dutzan, Jigar V Desai, Marc Swidergall, Tilo Freiwald, Daniel Chauss, Oliver J Harrison, Julie Alejo, Drake W Williams, Stefania Pittaluga, Chyi-Chia R Lee, Nicolas Bouladoux, Muthulekha Swamydas, Kevin W Hoffman, Teresa Greenwell-Wild, Vincent M Bruno, Lindsey B Rosen, Wint Lwin, Andy Renteria, Sergio M Pontejo, John P Shannon, Ian A Myles, Peter Olbrich, Elise M N Ferré, Monica Schmitt, Daniel Martin, Daniel L Barber, Norma V Solis, Luigi D Notarangelo, David V. Serreze, Mitsuru Matsumoto, Heather D Hickman, Philip M Murphy, Mark S Anderson, Jean K Lim, Steven M Holland, Scott G Filler, Behdad Afzali, Yasmine Belkaid, Niki M Moutsopoulos, and Michail S Lionakis

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Rasa3 regulates stage-specific cell cycle progression in murine erythropoiesis., Elena C Brindley, Julien Papoin, Lauren Kennedy, Ray F. Robledo, Steven L. Ciciotte, Theodosia A Kalfa, Luanne L. Peters, and Lionel Blanc

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Accelerating functional gene discovery in osteoarthritis., Natalie C Butterfield, Katherine F Curry, Julia Steinberg, Hannah Dewhurst, Davide Komla-Ebri, Naila S Mannan, Anne-Tounsia Adoum, Victoria D Leitch, John G Logan, Julian A Waung, Elena Ghirardello, Lorraine Southam, Scott E Youlten, J Mark Wilkinson, Elizabeth A McAninch, Valerie E Vancollie, Fiona Kussy, Jacqueline K White, Christopher J Lelliott, David J Adams, Richard Jacques, Antonio C Bianco, Alan Boyde, Eleftheria Zeggini, Peter I Croucher, Graham R Williams, and J H Duncan Bassett

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Hyperglycemia cooperates with Tet2 heterozygosity to induce leukemia driven by proinflammatory cytokine-induced lncRNA Morrbid., Zhigang Cai, Xiaoyu Lu, Chi Zhang, Sai Nelanuthala, Fabiola Aguilera, Abigail Hadley, Baskar Ramdas, Fang Fang, Kenneth Nephew, Jonathan J Kotzin, Adam Williams, Jorge Henao-Mejia, Laura Haneline, and Reuben Kapur

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epihet for intra-tumoral epigenetic heterogeneity analysis and visualization., Xiaowen Chen, Haitham Ashoor, Ryan Musich, Jiahui Wang, Mingsheng Zhang, Chao Zhang, Mingyang Lu, and Sheng Li

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iCSDB: an integrated database of CRISPR screens., Ahyoung Choi, Insu Jang, Heewon Han, Min-Seo Kim, Jinhyuk Choi, Jieun Lee, Sung-Yup Cho, Yukyung Jun, Charles Lee, Jaesang Kim, Byungwook Lee, and Sanghyuk Lee

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The Gene Ontology resource: enriching a GOld mine., Gene Ontology Consortium, Judith A. Blake, Mary E. Dolan, Harold J. Drabkin, and David P. Hill

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The genetic basis of inter-individual variation in recovery from traumatic brain injury., Daniel Cortes and Martin Pera

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SARS-CoV-2 specific antibody and neutralization assays reveal the wide range of the humoral immune response to virus., Mikail Dogan, Lina Kozhaya, Lindsey Placek, Courtney Gunter, Mesut Yigit, Rachel Hardy, Matthew Plassmeyer, Paige Coatney, Kimberleigh Lillard, Zaheer Bukhari, Michael Kleinberg, Chelsea Hayes, Moshe Arditi, Ellen Klapper, Noah Merin, Bruce Tsan-Tang Liang, Raavi Gupta, Oral Alpan, and Derya Unutmaz

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A Translational Model for Venous Thromboembolism: MicroRNA Expression in Hibernating Black Bears., Amanda Fazzalari, Giacomo Basadonna, Alper Kucukural, Kahraman Tanriverdi, Milka Koupenova, Natalie Pozzi, Jahnavi Kakuturu, Ann-Kristin U Friedrich, Ron Korstanje, Nicholas Fowler, Jerrold L Belant, Dean E Beyer, Marjory B Brooks, Eric W Dickson, Meghan Blackwood, Chris Mueller, J Alexander Palesty, Jane E Freedman, and Mitchell A Cahan

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Differences in cancer patients' and clinicians' preferences for disclosure of uncertain genomic tumor testing results., Anny T Fenton, Eric C Anderson, Elizabeth Scharnetzki, Kate Reed, Emily A Edelman, Andrey Antov, Jens Rueter, Paul K J Han, and MCGI Working Group

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A validated integrated clinical and molecular glioblastoma long-term survival-predictive nomogram., Sherise D Ferguson, Tiffany R Hodges, Nazanin K Majd, Kristin Alfaro-Munoz, Wajd N Al-Holou, Dima Suki, John F de Groot, Gregory N Fuller, Lee Xue, Miao Li, Carmen Jacobs, Ganesh Rao, Rivka R Colen, Joanne Xiu, Roel G W Verhaak, David Spetzler, Mustafa Khasraw, Raymond Sawaya, James P Long, and Amy B Heimberger

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Type 2 MI induced by a single high dose of isoproterenol in C57BL/6J mice triggers a persistent adaptive immune response against the heart., Elvira Forte, Mona Panahi, Nicoleta Baxan, Fu Siong Ng, Joseph J Boyle, Jane Branca, Olivia Bedard, Muneer G. Hasham, Lindsay Benson, Sian E Harding, Nadia Rosenthal, and Susanne Sattler

Very low mutation burden is a feature of inflamed recurrent glioblastomas responsive to cancer immunotherapy., Matthias Gromeier, Michael C Brown, Gao Zhang, Xiang Lin, Yeqing Chen, Zhi Wei, Nike Beaubier, Hai Yan, Yiping He, Annick Desjardins, James E Herndon, Frederick S Varn, Roel G W Verhaak, Junfei Zhao, Dani P Bolognesi, Allan H Friedman, Henry S Friedman, Frances McSherry, Andrea M Muscat, Eric S Lipp, Smita K Nair, Mustafa Khasraw, Katherine B Peters, Dina Randazzo, John H Sampson, Roger E McLendon, Darell D Bigner, and David M Ashley

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An in vivo screen of noncoding loci reveals that Daedalus is a gatekeeper of an Ikaros-dependent checkpoint during haematopoiesis., Christian C D Harman, Will Bailis, Jun Zhao, Louisa Hill, Rihao Qu, Ruaidhrí P Jackson, Justin A Shyer, Holly R Steach, Yuval Kluger, Loyal A Goff, John L Rinn, Adam Williams, Jorge Henao-Mejia, and Richard A Flavell

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Development of a Novel Orthotopic Gastric Cancer Mouse Model., Wonyoung Kang, Leigh Maher, Michael Michaud, Seong-Woo Bae, Seongyeong Kim, Hye Seung Lee, Seock-Ah Im, Han-Kwang Yang, and Charles Lee

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High-throughput measurement of fibroblast rhythms reveals genetic heritability of circadian phenotypes in diversity outbred mice and their founder strains., Sam-Moon Kim, Chelsea A Vadnie, Vivek M. Philip, Leona H. Gagnon, Kodavali V Chowdari, Elissa J Chesler, Colleen A McClung, and Ryan W Logan

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Genomic profile of metastatic breast cancer patient-derived xenografts established using percutaneous biopsy., Seongyeong Kim, Dongjin Shin, Ahrum Min, Minjung Kim, Deukchae Na, Han-Byeol Lee, Han Suk Ryu, Yaewon Yang, Go-Un Woo, Kyung-Hun Lee, Dae-Won Lee, Tae-Yong Kim, Charles Lee, Seock-Ah Im, and Jong-Il Kim

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The Human Phenotype Ontology in 2021., Sebastian Köhler, Michael Gargano, Nicolas Matentzoglu, Leigh Carmody, David Lewis-Smith, Nicole A Vasilevsky, Daniel Danis, Ganna Balagura, Gareth Baynam, Amy M Brower, Tiffany J Callahan, Christopher G Chute, Johanna L Est, Peter D Galer, Shiva Ganesan, Matthias Griese, Matthias Haimel, Julia Pazmandi, Marc Hanauer, Nomi L Harris, Michael J Hartnett, Maximilian Hastreiter, Fabian Hauck, Yongqun He, Tim Jeske, Hugh Kearney, Gerhard Kindle, Christoph Klein, Katrin Knoflach, Roland Krause, David Lagorce, Julie A McMurry, Jillian A Miller, Monica C Munoz-Torres, Rebecca L Peters, Christina K Rapp, Ana M Rath, Shahmir A Rind, Avi Z Rosenberg, Michael M Segal, Markus G Seidel, Damian Smedley, Tomer Talmy, Yarlalu Thomas, Samuel A Wiafe, Julie Xian, Zafer Yüksel, Ingo Helbig, Christopher J Mungall, Melissa A Haendel, and Peter N Robinson

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Impaired prenatal motor axon development necessitates early therapeutic intervention in severe SMA., Lingling Kong, David O Valdivia, Christian M Simon, Cera W Hassinan, Nicolas Delestrée, Daniel M Ramos, Jae Hong Park, Celeste M Pilato, Xixi Xu, Melissa Crowder, Chloe C Grzyb, Zachary A King, Marco Petrillo, Kathryn J Swoboda, Crystal Davis, Cathleen Lutz, Alexander H Stephan, Xin Zhao, Marla Weetall, Nikolai A Naryshkin, Thomas O Crawford, George Z Mentis, and Charlotte J Sumner

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Challenges in Developing a Human Model System for Skin Microbiome Research., Peter J Larson, Derrick Chong, Elizabeth Fleming, and Julia Oh

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Targeting antioxidant enzymes enhances the therapeutic efficacy of the BCL-X, Yumi Oh, Hae Rim Jung, Seoyeon Min, Jinjoo Kang, Dongjun Jang, Seungjae Shin, Jiwon Kim, Sang Eun Lee, Chang Ohk Sung, Won-Suk Lee, Charles Lee, Eui Man Jeong, and Sung-Yup Cho

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A modular master regulator landscape controls cancer transcriptional identity., Evan O Paull, Alvaro Aytes, Sunny J Jones, Prem S Subramaniam, Federico M Giorgi, Eugene F Douglass, Somnath Tagore, Brennan Chu, Alessandro Vasciaveo, Siyuan Zheng, Roel G W Verhaak, Cory Abate-Shen, Mariano J Alvarez, and Andrea Califano

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KG-COVID-19: A Framework to Produce Customized Knowledge Graphs for COVID-19 Response., Justin T Reese, Deepak Unni, Tiffany J Callahan, Luca Cappelletti, Vida Ravanmehr, Seth Carbon, Kent A Shefchek, Benjamin M Good, James P Balhoff, Tommaso Fontana, Hannah Blau, Nicolas Matentzoglu, Nomi L Harris, Monica C Munoz-Torres, Melissa A Haendel, Peter N Robinson, Marcin P Joachimiak, and Christopher J Mungall

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Interpretation of psychiatric genome-wide association studies with multispecies heterogeneous functional genomic data integration., Timothy Reynolds, Emma C Johnson, Spencer B Huggett, Jason A. Bubier, Rohan H C Palmer, Arpana Agrawal, Erich J Baker, and Elissa J Chesler

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A CRISPR-Cas9-engineered mouse model for GPI-anchor deficiency mirrors human phenotypes and exhibits hippocampal synaptic dysfunctions., Miguel Rodríguez de Los Santos, Marion Rivalan, Friederike S David, Alexander Stumpf, Julika Pitsch, Despina Tsortouktzidis, Laura Moreno Velasquez, Anne Voigt, Karl Schilling, Daniele Mattei, Melissa Long, Guido Vogt, Alexej Knaus, Björn Fischer-Zirnsak, Lars Wittler, Bernd Timmermann, Peter N Robinson, Denise Horn, Stefan Mundlos, Uwe Kornak, Albert J Becker, Dietmar Schmitz, York Winter, and Peter M Krawitz

Hair follicle dystrophy in a litter of domestic cats resembling lanceolate hair mutant mice., Ana Rostaher, Sonya Bettenay, Lisa Specht, Kathleen A Silva, Lesley S Bechtold, Jiang Chen, Monir Majzoub, Ralf S Mueller, and John P Sundberg

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Challenges to making an egg., Richard M Schultz and John J. Eppig

EWSR1 affects PRDM9-dependent histone 3 methylation and provides a link between recombination hotspots and the chromosome axis protein REC8., Hui Tian, Timothy Billings, and Petko M. Petkov

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Single cell sequencing reveals endothelial plasticity with transient mesenchymal activation after myocardial infarction., Lukas S Tombor, David John, Simone F Glaser, Guillermo Luxán, Elvira Forte, Milena B Furtado, Nadia Rosenthal, Nina Baumgarten, Marcel H Schulz, Janina Wittig, Eva-Maria Rogg, Yosif Manavski, Ariane Fischer, Marion Muhly-Reinholz, Kathrin Klee, Mario Looso, Carmen Selignow, Till Acker, Sofia-Iris Bibli, Ingrid Fleming, Ralph Patrick, Richard P Harvey, Wesley T Abplanalp, and Stefanie Dimmeler

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MEK inhibition reprograms CD8 + T lymphocytes into memory stem cells with potent antitumor effects, Vivek Verma, Nazli Jafarzadeh, Shannon Boi, Subhadip Kundu, Zhinuo Jiang, Yiping Fan, Jose Lopez, Rahul Nandre, Peng Zeng, Fatmah Alolaqi, Shamim Ahmad, Pankaj Gaur, Simon T Barry, Viia E Valge-Archer, Paul D Smith, Jacques Banchereau, Mikayel Mkrtichyan, Benjamin Youngblood, Paulo C Rodriguez, Seema Gupta, and Samir N Khleif

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Translational animal models for Alzheimer's disease: An Alzheimer's Association Business Consortium Think Tank., Michael P Vitek, Joseph A Araujo, Michael Fossel, Barry D Greenberg, Gareth R Howell, Stacey J Sukoff Rizzo, Nicholas T Seyfried, Andrea J Tenner, Paul R Territo, Manfred Windisch, Lisa J Bain, April Ross, Maria C Carrillo, Bruce T Lamb, and Rebecca M Edelmayer

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PD-1 Blockade Aggravates Epstein-Barr Virus + Post-Transplant Lymphoproliferative Disorder in Humanized Mice Resulting in Central Nervous System Involvement and CD4 + T Cell Dysregulations., Valery Volk, Sebastian J Theobald, Simon Danisch, Sahamoddin Khailaie, Maja Kalbarczyk, Andreas Schneider, Julia Bialek-Waldmann, Nicole Krönke, Yun Deng, Britta Eiz-Vesper, Anna Christina Dragon, Constantin von Kaisenberg, Stefan Lienenklaus, Andre Bleich, James Keck, Michael Meyer-Hermann, Frank Klawonn, Wolfgang Hammerschmidt, Henri-Jacques Delecluse, Christian Münz, Friedrich Feuerhake, and Renata Stripecke

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Similar risk of hepatocellular carcinoma during long-term entecavir or tenofovir therapy in Caucasian patients with chronic hepatitis B., Zhili Wen, Yuliang Feng, and Xiaohua Yan

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Conservation of copy number profiles during engraftment and passaging of patient-derived cancer xenografts., Xing Yi Woo, Jessica Giordano, Anuj Srivastava, Zi-Ming Zhao, Michael W Lloyd, Roebi de Bruijn, Yun-Suhk Suh, Rajesh Patidar, Li Chen, Sandra Scherer, Matthew H Bailey, Chieh-Hsiang Yang, Emilio Cortes-Sanchez, Yuanxin Xi, Jing Wang, Jayamanna Wickramasinghe, Andrew V Kossenkov, Vito W Rebecca, Hua Sun, R Jay Mashl, Sherri R Davies, Ryan Jeon, Christian Frech, Jelena Randjelovic, Jacqueline Rosains, Francesco Galimi, Andrea Bertotti, Adam Lafferty, Alice C O'Farrell, Elodie Modave, Diether Lambrechts, Petra Ter Brugge, Violeta Serra, Elisabetta Marangoni, Rania El Botty, Hyunsoo Kim, Jong-Il Kim, Han-Kwang Yang, Charles Lee, Dennis A Dean, Brandi Davis-Dusenbery, Yvonne A Evrard, James H Doroshow, Alana L Welm, Bryan E Welm, Michael T Lewis, Bingliang Fang, Jack A Roth, Funda Meric-Bernstam, Meenhard Herlyn, Michael A Davies, Li Ding, Shunqiang Li, Ramaswamy Govindan, Claudio Isella, Jeffrey A Moscow, Livio Trusolino, Annette T Byrne, Jos Jonkers, Carol J Bult, Enzo Medico, Jeffrey Chuang, PDXNET Consortium, and EurOPDX Consortium