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Submissions from 2019

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The Global State of the Genetic Counseling Profession., MaryAnn Abacan, Lamia Alsubaie, Kristine Barlow-Stewart, Beppy Caanen, Christophe Cordier, Eliza Courtney, Emeline Davoine, Janice Edwards, Niby J Elackatt, Kate Gardiner, Yue Guan, Lian-Hua Huang, Charlotta Ingvoldstad Malmgren, Sahil Kejriwal, Hyon J Kim, Deborah Lambert, Paulina Araceli Lantigua-Cruz, Juliana M H Lee, Marianne Lodahl, Åshild Lunde, Shelley Macaulay, Ivan Macciocca, Sonia Margarit, Anna Middleton, Ramona Moldovan, Joanne Ngeow, Alexandra J Obregon-Tito, Kelly E Ormond, Milena Paneque, Karen Powell, Kunal Sanghavi, Diana Scotcher, Jenna Scott, Clara Serra Juhé, Shiri Shkedi-Rafid, Tina-Marié Wessels, Sook-Yee Yoon, and Catherine Wicklund

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A computational method to aid the design and analysis of single cell RNA-seq experiments for cell type identification., Douglas Abrams, Parveen Kumar, Radha Krishna Murthy Karuturi, and Joshy George

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Clinical Data: Sources and Types, Regulatory Constraints, Applications., Stanley C Ahalt, Christopher G Chute, Karamarie Fecho, Gustavo Glusman, Jennifer Hadlock, Casey Overby Taylor, Emily R Pfaff, Peter N Robinson, Harold Solbrig, Casey Ta, Nicholas Tatonetti, and Chunhua Weng

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Debutant iOS app and gene-disease complexities in clinical genomics and precision medicine., Zeeshan Ahmed, Saman Zeeshan, Ruoyun Xiong, and Bruce T Liang

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C57BL/6 Substrain Differences in Pharmacological Effects after Acute and Repeated Nicotine Administration., Lois S Akinola, Bryan Mckiver, Wisam Toma, Andy Z X Zhu, Rachel F Tyndale, Vivek Kumar, and M Imad Damaj

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Quantitative evaluation of ontology design patterns for combining pathology and anatomy ontologies., Sarah M Alghamdi, Beth A. Sundberg, John P Sundberg, Paul N Schofield, and Robert Hoehndorf

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Humanized immune system mouse models: progress, challenges and opportunities., Todd M Allen, Michael A Brehm, Sandra Bridges, Stacy Ferguson, Priti Kumar, Oleg Mirochnitchenko, Karolina Palucka, Roberta Pelanda, Brigitte Sanders-Beer, Leonard D. Shultz, Lishan Su, and Mercy PrabhuDas

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Rapid growth is a dominant predictor of hepcidin suppression and declining ferritin in Gambian infants., Andrew E Armitage, Schadrac C Agbla, Modupeh Betts, Ebrima A Sise, Momodou W Jallow, Ellen Sambou, Bakary Darboe, Archibald Worwui, George M. Weinstock, Martin Antonio, Sant-Rayn Pasricha, Andrew M Prentice, Hal Drakesmith, Momodou K Darboe, and Brenda Anna Kwambana-Adams

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Effects of IGF-1 isoforms on muscle growth and sarcopenia., Francesca Ascenzi, Laura Barberi, Gabriella Dobrowolny, Aline Villa Nova Bacurau, Carmine Nicoletti, Emanuele Rizzuto, Nadia Rosenthal, Bianca Maria Scicchitano, and Antonio Musarò

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Annotation of gene product function from high-throughput studies using the Gene Ontology., Helen Attrill, Pascale Gaudet, Rachael P Huntley, Ruth C Lovering, Stacia R Engel, Sylvain Poux, Kimberly M Van Auken, George Georghiou, Marcus C Chibucos, Tanya Z Berardini, Valerie Wood, Harold J. Drabkin, Petra Fey, Penelope Garmiri, Midori A Harris, Tony Sawford, Leonore Reiser, Rebecca Tauber, Sabrina Toro, and Gene Ontology Consortium

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Cyfip1 Haploinsufficiency Increases Compulsive-Like Behavior and Modulates Palatable Food Intake in Mice: Dependence on Cyfip2 Genetic Background, Parent-of Origin, and Sex., Richard K Babbs, Jacob A Beierle, Qiu T Ruan, Julia C Kelliher, Melanie M Chen, Ashley X Feng, Stacey L Kirkpatrick, Fabiola A Benitez, Fred A Rodriguez, Johanne J Pierre, Jeya Anandakumar, Vivek Kumar, Megan K Mulligan, and Camron D Bryant

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Tissue-Specific Trans Regulation of the Mouse Epigenome., Christopher L. Baker, Michael Walker, Seda Arat, Guruprasad Ananda, Pavlina Petkova, Natalie Powers, Hui Tian, Catrina Spruce, Bo Ji, Dylan Rausch, Kwangbom Choi, Petko M. Petkov, Gregory W. Carter, and Kenneth Paigen

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The lung microbiome, vitamin D, and the tuberculous granuloma: A balance triangle., María Elvira Balcells, Noemí Yokobori, Bo-Young Hong, John Corbett, and Jorge Cervantes

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Characterization of acute TLR-7 agonist-induced hemorrhagic myocarditis in mice by multiparametric quantitative cardiac magnetic resonance imaging., Nicoleta Baxan, Angelos Papanikolaou, Isabelle Salles-Crawley, Amrit Lota, Rasheda Chowdhury, Olivier Dubois, Jane Branca, Muneer G. Hasham, Nadia Rosenthal, Sanjay K Prasad, Lan Zhao, Sian E Harding, and Susanne Sattler

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Toward a comprehensive view of cancer immune responsiveness: a synopsis from the SITC workshop., Davide Bedognetti, Michele Ceccarelli, Lorenzo Galluzzi, Rongze Lu, Karolina Palucka, Josue Samayoa, Stefani Spranger, Sarah Warren, Kwok-Kin Wong, Elad Ziv, Diego Chowell, Lisa M Coussens, Daniel D De Carvalho, David G DeNardo, Jérôme Galon, Howard L Kaufman, Tomas Kirchhoff, Michael T Lotze, Jason J Luke, Andy J Minn, Katerina Politi, Leonard D. Shultz, Richard Simon, Vésteinn Thórsson, Joanne B Weidhaas, Maria Libera Ascierto, Paolo Antonio Ascierto, James M Barnes, Valentin Barsan, Praveen K Bommareddy, Adrian Bot, Sarah E Church, Gennaro Ciliberto, Andrea De Maria, Dobrin Draganov, Winson S Ho, Heather M McGee, Anne Monette, Joseph F Murphy, Paola Nisticò, Wungki Park, Maulik Patel, Michael Quigley, Laszlo Radvanyi, Harry Raftopoulos, Nils-Petter Rudqvist, Alexandra Snyder, Randy F Sweis, Sara Valpione, Lisa H Butterfield, Mary L Disis, Bernard A Fox, Alessandra Cesano, and Francesco M Marincola

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Symbiotic organs shaped by distinct modes of genome evolution in cephalopods., Mahdi Belcaid, Giorgio Casaburi, Sarah J McAnulty, Hannah Schmidbaur, Andrea M Suria, Silvia Moriano-Gutierrez, M Sabrina Pankey, Todd H Oakley, Natacha Kremer, Eric J Koch, Andrew J Collins, Hoan Nguyen, Sai H Lek, Irina Goncharenko-Foster, Patrick Minx, Erica Sodergren Weinstock, George M. Weinstock, Daniel S Rokhsar, Margaret McFall-Ngai, Oleg Simakov, Jamie S Foster, and Spencer V Nyholm

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Probabilistic modeling of personalized drug combinations from integrated chemical screen and molecular data in sarcoma., Noah E Berlow, Rishi Rikhi, Mathew Geltzeiler, Jinu Abraham, Matthew N Svalina, Lara E Davis, Erin Wise, Maria Mancini, Jonathan Noujaim, Atiya Mansoor, Michael J Quist, Kevin L Matlock, Martin W Goros, Brian S Hernandez, Yee C Doung, Khin Thway, Tomohide Tsukahara, Jun Nishio, Elaine T Huang, Susan Airhart, Carol J Bult, Regina Gandour-Edwards, Robert G Maki, Robin L Jones, Joel E Michalek, Milan Milovancev, Souparno Ghosh, Ranadip Pal, and Charles Keller

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Mapping the Global Chromatin Connectivity Network for Sox2 Function in Neural Stem Cell Maintenance., Jessica A Bertolini, Rebecca Favaro, Yanfen Zhu, Miriam Pagin, Chew Yee Ngan, Chee-Hong Wong, Harianto Tjong, Marit W Vermunt, Ben Martynoga, Cristiana Barone, Jessica Mariani, Marcos Julián Cardozo, Noemi Tabanera, Federico Zambelli, Sara Mercurio, Sergio Ottolenghi, Paul Robson, Menno P Creyghton, Paola Bovolenta, Giulio Pavesi, Francois Guillemot, Silvia K Nicolis, and Chia-Lin Wei

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Preclinical rationale for entinostat in embryonal rhabdomyosarcoma., Narendra Bharathy, Noah E Berlow, Eric Wang, Jinu Abraham, Teagan P Settelmeyer, Jody E Hooper, Matthew N Svalina, Zia Bajwa, Martin W Goros, Brian S Hernandez, Johannes E Wolff, Ranadip Pal, Angela M Davies, Arya Ashok, Darnell Bushby, Maria Mancini, Christopher Noakes, Neal C Goodwin, Peter Ordentlich, James G. Keck, Douglas S Hawkins, Erin R Rudzinski, Atiya Mansoor, Theodore J Perkins, Christopher R Vakoc, Joel E Michalek, and Charles Keller

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Prdm9 and Meiotic Cohesin Proteins Cooperatively Promote DNA Double-Strand Break Formation in Mammalian Spermatocytes., Tanmoy Bhattacharyya, Michael Walker, Natalie Powers, Catherine Brunton, Alexander D Fine, Petko M. Petkov, and Mary Ann Handel

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An integrative systems approach identifies novel candidates in Marfan syndrome-related pathophysiology., Raghu Bhushan, Lukas Altinbas, Marten Jäger, Marcin Zaradzki, Daniel Lehmann, Bernd Timmermann, Nicholas P Clayton, Yunxiang Zhu, Klaus Kallenbach, Georgios Kararigas, and Peter N Robinson

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Testing Pleiotropy vs. Separate QTL in Multiparental Populations., Frederick J Boehm, Elissa J Chesler, Brian S Yandell, and Karl W Broman

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Lack of acute xenogeneic graft- versus-host disease, but retention of T-cell function following engraftment of human peripheral blood mononuclear cells in NSG mice deficient in MHC class I and II expression., Michael A Brehm, Laurie L Kenney, Michael V. Wiles, Benjamin E. Low, Roland M Tisch, Lisa M. Burzenski, Christian Mueller, Dale L Greiner, and Leonard D. Shultz

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R/qtl2: Software for Mapping Quantitative Trait Loci with High-Dimensional Data and Multiparent Populations., Karl W Broman, Daniel M Gatti, Petr Simecek, Nicholas A Furlotte, Pjotr Prins, Śaunak Sen, Brian S Yandell, and Gary Churchill

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Cleaning Genotype Data from Diversity Outbred Mice., Karl W Broman, Daniel M. Gatti, Karen L. Svenson, Śaunak Sen, and Gary Churchill

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Curating gene sets: challenges and opportunities for integrative analysis., Jason A. Bubier, David P. Hill, Gaurab Mukherjee, Timothy Reynolds, Erich J Baker, Alexander Berger, Jake Emerson, Judith A. Blake, and Elissa J Chesler

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Integration of heterogeneous functional genomics data in gerontology research to find genes and pathway underlying aging across species., Jason A. Bubier, George L Sutphin, Timothy J Reynolds, Ron Korstanje, Axis Fuksman-Kumpa, Erich J Baker, Michael A Langston, and Elissa J Chesler

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Meox2 Haploinsufficiency Accelerates Axonal Degeneration in DBA/2J Glaucoma., Rebecca A Buchanan, Kate E Foley, Keating W. Pepper, Alaina M Reagan, Kelly J Keezer, Amanda A Hewes, Cory A Diemler, Christoph Preuss, Ileana Soto, Simon W M John, and Gareth R Howell

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Mouse Genome Database (MGD) 2019., Carol J Bult, Judith A. Blake, Cynthia Smith, James A. Kadin, Joel E Richardson, and Mouse Genome Database Group

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A CD4+ T cell population expanded in lupus blood provides B cell help through interleukin-10 and succinate., Simone Caielli, Diogo Troggian Veiga, Preetha Balasubramanian, Shruti Athale, Bojana Domic, Elise Murat, Romain Banchereau, Zhaohui Xu, Manjari Chandra, Cheng-Han Chung, Lynnette Walters, Jeanine Baisch, Tracey Wright, Marilynn Punaro, Lorien Nassi, Katie Stewart, Julie Fuller, Duygu Ucar, Hideki Ueno, Joseph Zhou, Jacques Banchereau, and Virginia Pascual

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Sarcomere-Directed Calcium Reporters in Cardiomyocytes., Stuart G Campbell, Yibing Qyang, and J Travis Hinson

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p53 Is a Master Regulator of Proteostasis in SMARCB1-Deficient Malignant Rhabdoid Tumors., Alessandro Carugo, Rosalba Minelli, Luigi Sapio, Melinda Soeung, Federica Carbone, Frederick S Robinson, James Tepper, Ziheng Chen, Sara Lovisa, Maria Svelto, Samirkumar B Amin, Sanjana Srinivasan, Edoardo Del Poggetto, Sara Loponte, Francesca Puca, Prasenjit Dey, Gabriel G Malouf, Xiaoping Su, Liren Li, Dolores Lopez-Terrada, Dinesh Rakheja, Alexander J Lazar, George J Netto, Priya Rao, Alessandro Sgambato, Anirban Maitra, Durga N Tripathi, Cheryl L Walker, Jose A Karam, Timothy P Heffernan, Andrea Viale, Charles W M Roberts, Pavlos Msaouel, Nizar M Tannir, Giulio F Draetta, and Giannicola Genovese

Proliferative Typhlocolitis With Multinucleated Giant Cells: A Nonspecific Enteropathy in Immunodeficient Sentinel Mice., Kerriann M Casey, Amanda L Johnson, Melea N Hunrath, Jenelle K Fraser, Nicole C McCowan, Katherine Wasson, Rosalinda A. Doty, Stephen M Griffey, and Denise M Imai

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Mutations in DNA repair genes are associated with increased neoantigen burden and a distinct immunophenotype in lung squamous cell carcinoma., Young Kwang Chae, Jonathan F Anker, Michael S Oh, Preeti Bais, Sandeep Namburi, Sarita Agte, Francis J Giles, and Jeffrey H Chuang

Clinical and Immunological Implications of Frameshift Mutations in Lung Cancer., Young Kwang Chae, Pedro Viveiros, Gilberto Lopes, Bhoomika Sukhadia, Muhammad Mubbashir Sheikh, Diana Saravia, Vaia Florou, Ethan S Sokol, Garrett M Frampton, Zachary R Chalmers, Siraj M Ali, Jeffrey S Ross, Sangmin Chang, Si Wang, Lauren Chiec, Ashkon Rahbari, Nisha Mohindra, Victoria Villaflor, Sang Ha Shin, Michael Oh, Jonathan Anker, Lee Chun Park, Victor G Wang, Jeffrey Chuang, and Wungki Park

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Multi-platform discovery of haplotype-resolved structural variation in human genomes., Mark J P Chaisson, Ashley D Sanders, Xuefang Zhao, Ankit Malhotra, David Porubsky, Tobias Rausch, Eugene J Gardner, Oscar L Rodriguez, Li Guo, Ryan L Collins, Xian Fan, Jia Wen, Robert E Handsaker, Susan Fairley, Zev N Kronenberg, Xiangmeng Kong, Fereydoun Hormozdiari, Dillon Lee, Aaron M Wenger, Alex R Hastie, Danny Antaki, Thomas Anantharaman, Peter A Audano, Harrison Brand, Stuart Cantsilieris, Han Cao, Eliza Cerveira, Chong Chen, Xintong Chen, Chen-Shan Chin, Zechen Chong, Nelson T Chuang, Christine C Lambert, Deanna M Church, Laura Clarke, Andrew Farrell, Joey Flores, Timur Galeev, David U Gorkin, Madhusudan Gujral, Victor Guryev, William Haynes Heaton, Jonas Korlach, Sushant Kumar, Jee Young Kwon, Ernest T Lam, Jong Eun Lee, Joyce Lee, Wan-Ping Lee, Sau Peng Lee, Shantao Li, Patrick Marks, Karine Viaud-Martinez, Sascha Meiers, Katherine M Munson, Fabio C P Navarro, Bradley J Nelson, Conor Nodzak, Amina Noor, Sofia Kyriazopoulou-Panagiotopoulou, Andy W C Pang, Yunjiang Qiu, Gabriel Rosanio, Mallory Ryan, Adrian Stütz, Diana C J Spierings, Alistair Ward, AnneMarie E Welch, Ming Xiao, Wei Xu, Chengsheng Zhang, Qihui Zhu, Xiangqun Zheng-Bradley, Ernesto Lowy, Sergei Yakneen, Steven McCarroll, Goo Jun, Li Ding, Chong Lek Koh, Bing Ren, Paul Flicek, Ken Chen, Mark B Gerstein, Pui-Yan Kwok, Peter M Lansdorp, Gabor T Marth, Jonathan Sebat, Xinghua Shi, Ali Bashir, Kai Ye, Scott E Devine, Michael E Talkowski, Ryan E Mills, Tobias Marschall, Jan O Korbel, Evan E Eichler, and Charles Lee

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Update on the human and mouse lipocalin (LCN) gene family, including evidence the mouse Mup cluster is result of an "evolutionary bloom"., Georgia Charkoftaki, Yewei Wang, Monica McAndrews, Elspeth A Bruford, David C Thompson, Vasilis Vasiliou, and Daniel W Nebert

Liriodendron genome sheds light on angiosperm phylogeny and species-pair differentiation., Jinhui Chen, Zhaodong Hao, Xuanmin Guang, Chenxi Zhao, Pengkai Wang, Liangjiao Xue, Qihui Zhu, Linfeng Yang, Yu Sheng, Yanwei Zhou, Haibin Xu, Hongqing Xie, Xiaofei Long, Jin Zhang, Zhangrong Wang, Mingming Shi, Ye Lu, Siqin Liu, Lanhua Guan, Qianhua Zhu, Liming Yang, Song Ge, Tielong Cheng, Thomas Laux, Qiang Gao, Ye Peng, Na Liu, Sihai Yang, and Jisen Shi

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LISA: Accurate reconstruction of cell trajectory and pseudo-time for massive single cell RNA-seq data., Yang Chen, Yuping Zhang, and Zhengqing Ouyang

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HSP90 Inhibitor, NVP-AUY922, Improves Myelination in Vitro and Supports the Maintenance of Myelinated Axons in Neuropathic Mice., Vinita G Chittoor-Vinod, Hannah Bazick, Adrian G Todd, Darin Falk, Kathryn H Morelli, Robert W. Burgess, Thomas C Foster, and Lucia Notterpek

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Unstable Genome and Transcriptome Dynamics during Tumor Metastasis Contribute to Therapeutic Heterogeneity in Colorectal Cancers., Sung-Yup Cho, Jeesoo Chae, Deukchae Na, Wonyoung Kang, Ahra Lee, Seoyeon Min, Jinjoo Kang, Boram Choi, Jieun Lee, Chang Ohk Sung, Jeffrey Chuang, Charles Lee, Won-Suk Lee, Hansoo Park, and Jong-Il Kim

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A Contraction Stress Model of Hypertrophic Cardiomyopathy due to Sarcomere Mutations., Rachel Cohn, Ketan Thakar, Andre Lowe, Feria A Ladha, Anthony M Pettinato, Robert Romano, Emily Meredith, Yu-Sheng Chen, Katherine Atamanuk, Bryan D Huey, and J Travis Hinson

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The Gene Ontology Resource: 20 years and still GOing strong., Gene Ontology Consortium

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PDX Finder: A portal for patient-derived tumor xenograft model discovery., Nathalie Conte, Jeremy C Mason, Csaba Halmagyi, Steven Neuhauser, Abayomi Mosaku, Galabina Yordanova, Aikaterini Chatzipli, Dale A. Begley, Debra M Krupke, Helen Parkinson, Terrence F Meehan, and Carol J Bult

Hyaline Arteriolosclerosis in 30 Strains of Aged Inbred Mice., Timothy K Cooper, Kathleen A Silva, Victoria E. Kennedy, Sarah Alghamdi, Robert Hoehndorf, Beth A. Sundberg, Paul N Schofield, and John P Sundberg

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Photoreceptor degeneration in a new Cacna1f mutant mouse model., Xufeng Dai, Shiyi Pang, Jieping Wang, Bernard FitzMaurice, Jijing Pang, and Bo Chang

Evaluating heating methods for mice., Jasmine Delany, Michelle Creamer-Hente, Daniel Vanbuskirk, Mingshan Cheng, and Kyle Draheim

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Single-Molecule Real-Time (SMRT) Full-Length RNA-Sequencing Reveals Novel and Distinct mRNA Isoforms in Human Bone Marrow Cell Subpopulations., Anne DeslattesMays, Marcel Schmidt, Garrett Graham, Elizabeth Tseng, Primo Baybayan, Robert Sebra, Miloslav Sanda, Jean-Baptiste Mazarati, Anna Riegel, and Anton Wellstein

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Integrated Analysis of Clinical and Microbiome Risk Factors Associated with the Development of Oral Candidiasis during Cancer Chemotherapy., Patricia I Diaz, Bo-Young Hong, Amanda K Dupuy, Linda Choquette, Angela Thompson, Andrew L Salner, Peter K Schauer, Upendra Hegde, Joseph A Burleson, Linda D Strausbaugh, Douglas E Peterson, and Anna Dongari-Bagtzoglou

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Visual Discrimination, Serial Reversal, and Extinction Learning in the, Price E. Dickson and Guy Mittleman

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Systems genetics of sensation seeking., Price E. Dickson, Tyler A Roy, Kathryn A. McNaughton, Troy Wilcox, Padam Kumar, and Elissa J Chesler

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Significant Strain Variation in the Mutation Spectra of Inbred Laboratory Mice., Beth L Dumont

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Regulation of intrinsic excitability: Roles for learning and memory, aging and Alzheimer's disease, and genetic diversity., Amy R Dunn and Catherine Kaczorowski

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Gene-by-environment interactions in Alzheimer's disease and Parkinson's disease., Amy R Dunn, Kristen M S O'Connell, and Catherine C Kaczorowski

An update on risk assessment for familial and hereditary colorectal cancer., Emily A Edelman and Kate Reed

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B-Lymphocyte Phenotype Determines T-Lymphocyte Subset Differentiation in Autoimmune Diabetes., Leire Egia-Mendikute, Berta Arpa, Estela Rosell-Mases, Marta Corral-Pujol, Jorge Carrascal, Jorge Carrillo, Conchi Mora, Harry Chapman, Anaïs Panosa, Marta Vives-Pi, Thomas Stratmann, David V. Serreze, and Joan Verdaguer

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Cross-Species Single-Cell Analysis of Pancreatic Ductal Adenocarcinoma Reveals Antigen-Presenting Cancer-Associated Fibroblasts., Ela Elyada, Mohan Bolisetty, Pasquale Laise, William F Flynn, Elise T Courtois, Richard A Burkhart, Jonathan A Teinor, Pascal Belleau, Giulia Biffi, Matthew S Lucito, Santhosh Sivajothi, Todd D Armstrong, Dannielle D Engle, Kenneth H Yu, Yuan Hao, Christopher L Wolfgang, Youngkyu Park, Jonathan Preall, Elizabeth M Jaffee, Andrea Califano, Paul Robson, and David A Tuveson

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Toward Regeneration of the Heart: Bioengineering Strategies for Immunomodulation., Arianna Ferrini, Molly M Stevens, Susanne Sattler, and Nadia Rosenthal

Uncoupling of transcriptomic and cytological differentiation in mouse spermatocytes with impaired meiosis., Alexander D Fine, Robyn L Ball, Yasuhiro Fujiwara, Mary Ann Handel, and Gregory W. Carter

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Mitotic chromosome alignment ensures mitotic fidelity by promoting interchromosomal compaction during anaphase., Cindy L Fonseca, Heidi L H Malaby, Leslie A Sepaniac, Whitney Martin, Candice Byers, Anne M Czechanski, Dana Messinger, Mary Tang, Ryoma Ohi, Laura G Reinholdt, and Jason Stumpff

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Combined congenic mapping and nuclease-based gene targeting for studying allele-specific effects of Tnfrsf9 within the Idd9.3 autoimmune diabetes locus., Matthew H Forsberg, Bardees Foda, David V. Serreze, and Yi-Guang Chen

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Human Anti-HIV-1 gp120 Monoclonal Antibodies with Neutralizing Activity Cloned from Humanized Mice Infected with HIV-1., Melissa A Gawron, Mark Duval, Claudia Carbone, Smita Jaiswal, Aaron Wallace, Joseph C Martin, Ann Dauphin, Michael A Brehm, Dale L Greiner, Leonard D. Shultz, Jeremy Luban, and Lisa A Cavacini

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Robust mouse tracking in complex environments using neural networks., Brian Q Geuther, Sean P Deats, Kai J Fox, Stephen A Murray, Robert E Braun, Jacqueline K White, Elissa J Chesler, Cathleen Lutz, and Vivek Kumar

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Ultra-long Read Sequencing for Whole Genomic DNA Analysis., Liang Gong, Chee-Hong Wong, Jennifer Idol, Chew Yee Ngan, and Chia-Lin Wei

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Large-scale discovery of mouse transgenic integration sites reveals frequent structural variation and insertional mutagenesis., Leslie O Goodwin, Erik Splinter, Tiffany Leidy-Davis, Rachel Urban, Hao He, Robert E Braun, Elissa J Chesler, Vivek Kumar, Max van Min, Juliet Ndukum, Vivek M. Philip, Laura G Reinholdt, Karen L. Svenson, Jacqueline K White, Michael Sasner, Cathleen Lutz, and Stephen A. Murray

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ROBO4 variants predispose individuals to bicuspid aortic valve and thoracic aortic aneurysm., Russell A Gould, Hamza Aziz, Courtney E Woods, Manuel Alejandro Seman-Senderos, Elizabeth Sparks, Christoph Preuss, Florian Wünnemann, Djahida Bedja, Cassandra R Moats, Sarah A McClymont, Rebecca Rose, Nara Sobreira, Hua Ling, Gretchen MacCarrick, Ajay Anand Kumar, Ilse Luyckx, Elyssa Cannaerts, Aline Verstraeten, Hanna M Björk, Ann-Cathrin Lehsau, Vinod Jaskula-Ranga, Henrik Lauridsen, Asad A Shah, Christopher L Bennett, Patrick T Ellinor, Honghuang Lin, Eric M Isselbacher, Christian Lacks Lino Cardenas, Jonathan T Butcher, G Chad Hughes, Mark E Lindsay, Luc Mertens, Anders Franco-Cereceda, Judith M A Verhagen, Marja Wessels, Salah A Mohamed, Per Eriksson, Seema Mital, Lut Van Laer, Bart L Loeys, Gregor Andelfinger, Andrew S McCallion, and Harry C Dietz

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Identification of a T follicular helper cell subset that drives anaphylactic IgE., Uthaman Gowthaman, Jennifer S Chen, Biyan Zhang, William F Flynn, Yisi Lu, Wenzhi Song, Julie Joseph, Jake A Gertie, Lan Xu, Magalie A Collet, Jessica D S Grassmann, Tregony Simoneau, David Chiang, M Cecilia Berin, Joseph E Craft, Jason S Weinstein, Adam Williams, and Stephanie C Eisenbarth

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Exercise prevents obesity-induced cognitive decline and white matter damage in mice., Leah C. Graham, Weronika Grabowska, Yoona Chun, Shannon L Risacher, Vivek M. Philip, Andrew J Saykin, Alzheimer's Disease Neuroimaging Initiative, Stacey J Sukoff Rizzo, and Gareth R Howell

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Identification of a novel gene regulating amygdala-mediated fear extinction., Ozge Gunduz-Cinar, Emma Brockway, Lauren Lederle, Troy Wilcox, Lindsay R Halladay, Ying Ding, Hyunjung Oh, Erica F Busch, Katie Kaugars, Shaun Flynn, Aaron Limoges, Olena Bukalo, Kathryn P MacPherson, Sophie Masneuf, Courtney Pinard, Etienne Sibille, Elissa J Chesler, and Andrew Holmes

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Drug safety Africa: An overview of safety pharmacology & toxicology in South Africa., Brian D Guth, Anne F Grobler, Kendall S Frazier, Andrea Greiter-Wilke, Danuta Herzyk, Tertius A Hough, Asrar Ali Khan, Michael Markert, James D Smith, Karen L. Svenson, Sara Wells, and Michael K Pugsley

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Early-life DNA methylation profiles are indicative of age-related transcriptome changes., Niran Hadad, Dustin R Masser, Laura Blanco-Berdugo, David R Stanford, and Willard M Freeman

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GOPHER: Generator Of Probes for capture Hi-C Experiments at high Resolution., Peter Hansen, Salaheddine Ali, Hannah Blau, Daniel Danis, Jochen Hecht, Uwe Kornak, Darío G Lupiáñez, Stefan Mundlos, Robin Steinhaus, and Peter N Robinson

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Computational Processing and Quality Control of Hi-C, Capture Hi-C and Capture-C Data., Peter Hansen, Michael Gargano, Jochen Hecht, Jonas Ibn-Salem, Guy Karlebach, Johannes T Roehr, and Peter N Robinson

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Fibronectin-conjugated thermoresponsive nanobridges generate three dimensional human pluripotent stem cell cultures for differentiation towards the neural lineages., Linda Harkness, Xiaoli Chen, Zhongfan Jia, Anthony M Davies, Michael Monteiro, Peter Gray, and Martin Pera

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Acarbose improves health and lifespan in aging HET3 mice., David E Harrison, Randy Strong, Silvestre Alavez, Clinton M Astle, John DiGiovanni, Elizabeth Fernandez, Kevin Flurkey, Michael Garratt, Jonathan A L Gelfond, Martin A Javors, Moshe Levi, Gordon J Lithgow, Francesca Macchiarini, James F Nelson, Stacey J Sukoff Rizzo, Thomas J Slaga, Timothy M Stearns, John Erby Wilkinson, and Richard A Miller

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PlantSimLab - a modeling and simulation web tool for plant biologists., S Ha, E Dimitrova, S Hoops, D Altarawy, M Ansariola, D Deb, J Glazebrook, R Hillmer, H Shahin, F Katagiri, J McDowell, M Megraw, J Setubal, B M Tyler, and Reinhard Laubenbacher

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Chemotherapy-induced oral mucositis is associated with detrimental bacterial dysbiosis., Bo-Young Hong, Takanori Sobue, Linda Choquette, Amanda K Dupuy, Angela Thompson, Joseph A Burleson, Andrew L Salner, Peter K Schauer, Pujan Joshi, Evan Fox, Dong-Guk Shin, George M. Weinstock, Linda D Strausbaugh, Anna Dongari-Bagtzoglou, Douglas E Peterson, and Patricia I Diaz

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Longitudinal profiling of human blood transcriptome in healthy and lupus pregnancy., Seunghee Hong, Romain Banchereau, Bat-Sheva L Maslow, Marta M Guerra, Jacob Cardenas, Jeanine Baisch, D Ware Branch, T Flint Porter, Allen Sawitzke, Carl A Laskin, Jill P Buyon, Joan Merrill, Lisa R Sammaritano, Michelle Petri, Elizabeth Gatewood, Alma-Martina Cepika, Marina Ohouo, Gerlinde Obermoser, Esperanza Anguiano, Tae Whan Kim, John Nulsen, Djamel Nehar-Belaid, Derek Blankenship, Jacob Turner, Jacques Banchereau, Jane E Salmon, and Virginia Pascual

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ENU-induced mutant allele of Dnah1, ferf1, causes abnormal sperm behavior and fertilization failure in mice., Jianjun Hu, Carl Lessard, Charles J Longstaff, Marilyn J. O'Brien, Kristina Palmer, Laura G Reinholdt, John J. Eppig, John Schimenti, and Mary Ann Handel

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miR-181a/b downregulation exerts a protective action on mitochondrial disease models., Alessia Indrieri, Sabrina Carrella, Alessia Romano, Alessandra Spaziano, Elena Marrocco, Erika Fernandez-Vizarra, Sara Barbato, Mariateresa Pizzo, Yulia Ezhova, Francesca M Golia, Ludovica Ciampi, Roberta Tammaro, Jorge Henao-Mejia, Adam Williams, Richard A Flavell, Elvira De Leonibus, Massimo Zeviani, Enrico M Surace, Sandro Banfi, and Brunella Franco

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Intrinsic planar polarity mechanisms influence the position-dependent regulation of synapse properties in inner hair cells., Philippe Jean, Özge Demet Özçete, Basile Tarchini, and Tobias Moser

Testing the gene expression classification of the EMT spectrum., Dongya Jia, Jason T George, Satyendra C Tripathi, Deepali L Kundnani, Mingyang Lu, Samir M Hanash, José N Onuchic, Mohit Kumar Jolly, and Herbert Levine

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Elucidating cancer metabolic plasticity by coupling gene regulation with metabolic pathways., Dongya Jia, Mingyang Lu, Kwang Hwa Jung, Jun Hyoung Park, Linglin Yu, José N Onuchic, Benny Abraham Kaipparettu, and Herbert Levine

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An effective biomedical document classification scheme in support of biocuration: addressing class imbalance., Xiangying Jiang, Martin Ringwald, Judith A. Blake, Cecilia Arighi, Gongbo Zhang, and Hagit Shatkay

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Genome-wide Analysis of Salmonella enterica serovar Typhi in Humanized Mice Reveals Key Virulence Features., Joyce E Karlinsey, Taylor A Stepien, Matthew Mayho, Larissa A Singletary, Lacey K Bingham-Ramos, Michael A Brehm, Dale L Greiner, Leonard D. Shultz, Larry A Gallagher, Matt Bawn, Robert A Kingsley, Stephen J Libby, and Ferric C Fang

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Increased interactions and engulfment of dendrites by microglia precede Purkinje cell degeneration in a mouse model of Niemann Pick Type-C., Larisa Kavetsky, Kayla K Green, Bridget R Boyle, Fawad A K Yousufzai, Zachary M Padron, Sierra E Melli, Victoria L Kuhnel, Harriet M. Jackson, Rosa E Blanco, Gareth R Howell, and Ileana Soto

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Gene loci associated with insulin secretion in islets from non-diabetic mice., Mark P Keller, Mary E Rabaglia, Kathryn L Schueler, Donnie S Stapleton, Daniel M Gatti, Matthew J Vincent, Kelly A Mitok, Ziyue Wang, Takanao Ishimura, Shane P Simonett, Christopher H Emfinger, Rahul Das, Tim Beck, Christina Kendziorski, Karl W Broman, Brian S Yandell, Gary A Churchill, and Alan D Attie

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Genetic determinants of gut microbiota composition and bile acid profiles in mice., Julia H Kemis, Vanessa Linke, Kelsey L Barrett, Frederick J Boehm, Lindsay L Traeger, Mark P Keller, Mary E Rabaglia, Kathryn L Schueler, Donald S Stapleton, Daniel M Gatti, Gary A Churchill, Daniel Amador-Noguez, Jason D Russell, Brian S Yandell, Karl W Broman, Joshua J Coon, Alan D Attie, and Federico E Rey

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Identification of a tumor-specific allo-HLA-restricted γδTCR., G J J Kierkels, W Scheper, A D Meringa, I Johanna, D X Beringer, A Janssen, M Schiffler, T Aarts-Riemens, L Kramer, T Straetemans, S Heijhuurs, J H W Leusen, E San José, K Fuchs, M Griffioen, J H Falkenburg, L Bongiovanni, A de Bruin, D Vargas-Diaz, M Altelaar, A J R Heck, Leonard D. Shultz, F Ishikawa, M I Nishimura, Z Sebestyén, and J Kuball

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Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources., Sebastian Köhler, Leigh Carmody, Nicole Vasilevsky, Julius O B Jacobsen, Daniel Danis, Jean-Philippe Gourdine, Michael Gargano, Nomi L Harris, Nicolas Matentzoglu, Julie A McMurry, David Osumi-Sutherland, Valentina Cipriani, James P Balhoff, Tom Conlin, Hannah Blau, Gareth Baynam, Richard Palmer, Dylan Gratian, Hugh Dawkins, Michael Segal, Anna C Jansen, Ahmed Muaz, Willie H Chang, Jenna Bergerson, Stanley J F Laulederkind, Zafer Yüksel, Sergi Beltran, Alexandra F Freeman, Panagiotis I Sergouniotis, Daniel Durkin, Andrea L Storm, Marc Hanauer, Michael Brudno, Susan M. Bello, Murat Sincan, Kayli Rageth, Matthew T Wheeler, Renske Oegema, Halima Lourghi, Maria G Della Rocca, Rachel Thompson, Francisco Castellanos, James Priest, Charlotte Cunningham-Rundles, Ayushi Hegde, Ruth C Lovering, Catherine Hajek, Annie Olry, Luigi Notarangelo, Morgan Similuk, Xingmin A Zhang, David Gómez-Andrés, Hanns Lochmüller, Hélène Dollfus, Sergio Rosenzweig, Shruti Marwaha, Ana Rath, Kathleen Sullivan, Cynthia Smith, Joshua D Milner, Dorothée Leroux, Cornelius F Boerkoel, Amy Klion, Melody C Carter, Tudor Groza, Damian Smedley, Melissa A Haendel, Chris Mungall, and Peter N Robinson

Encoding Clinical Data with the Human Phenotype Ontology for Computational Differential Diagnostics., Sebastian Köhler, N Christine Øien, Orion J Buske, Tudor Groza, Julius O B Jacobsen, Craig McNamara, Nicole Vasilevsky, Leigh Carmody, J P Gourdine, Michael Gargano, Julie A McMurry, Daniel Danis, Christopher J Mungall, Damian Smedley, Melissa Haendel, and Peter N Robinson

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A mathematical model of combined CD8 T cell costimulation by 4-1BB (CD137) and OX40 (CD134) receptors., Anna Konstorum, Anthony T Vella, Adam J Adler, and Reinhard C Laubenbacher

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The long noncoding RNA Morrbid regulates CD8 T cells in response to viral infection., Jonathan J Kotzin, Fany Iseka, Jasmine Wright, Megha G Basavappa, Megan L Clark, Mohammed-Alkhatim Ali, Mohamed S Abdel-Hakeem, Tanner F Robertson, Walter K Mowel, Leonel Joannas, Vanessa D Neal, Sean P Spencer, Camille M Syrett, Montserrat C Anguera, Adam Williams, E John Wherry, and Jorge Henao-Mejia

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Editorial: Long Non-coding RNAs and Immunity., Grace J Kwon, Jorge Henao-Mejia, and Adam Williams

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Multiomic Profiling Identifies cis-Regulatory Networks Underlying Human Pancreatic β Cell Identity and Function., Nathan Lawlor, Eladio J Marquez, Peter Orchard, Narisu Narisu, Muhammad Saad Shamim, Asa Thibodeau, Arushi Varshney, Romy Kursawe, Michael R Erdos, Matt Kanke, Huiya Gu, Evgenia Pak, Amalia Dutra, Sheikh Russell, Xingwang Li, Emaly Piecuch, Oscar Junhong Luo, Peter S Chines, Christian Fuchbserger, NIH Intramural Sequencing Center, Praveen Sethupathy, Aviva Presser Aiden, Yijun Ruan, Erez Lieberman Aiden, Francis S Collins, Duygu Ucar, Stephen C J Parker, and Michael L. Stitzel

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(Epi)genomic heterogeneity of pancreatic islet function and failure in type 2 diabetes., Nathan Lawlor and Michael L. Stitzel

Opinion: Greater diversity is needed in human genomic data., Charles Lee

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Structure and function of the immune system in the spleen., Steven M Lewis, Adam Williams, and Stephanie C Eisenbarth

Development and validation of a novel 29-plex Y-STR typing system for forensic application., Min Li, Wei Zhou, Yilun Zhang, Lei Huang, Xinjie Wang, Jun Wu, Meng Meng, Hongran Wang, Chengtao Li, and Yingnan Bian

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PRAS: Predicting functional targets of RNA binding proteins based on CLIP-seq peaks., Jianan Lin, Yuping Zhang, Wayne N Frankel, and Zhengqing Ouyang