Content Posted in 2022
3D patient-derived tumor models to recapitulate pediatric brain tumors In Vitro., Min D Tang-Schomer, Harshpreet Chandok, Wei-Biao Wu, Ching C Lau, Markus J Bookland, and Joshy George
A Bayesian model selection approach to mediation analysis., Wesley L Crouse, Gregory R Keele, Madeleine S Gastonguay, Gary Churchill, and William Valdar
Abdominal Computed Tomography Imaging Findings in Hospitalized COVID-19 Patients: A Year-Long Experience and Associations Revealed by Explainable Artificial Intelligence., Alice Scarabelli, Massimo Zilocchi, Elena Casiraghi, Pierangelo Fasani, Guido Giovanni Plensich, Andrea Alessandro Esposito, Elvira Stellato, Alessandro Petrini, Justin Reese, Peter N Robinson, Giorgio Valentini, and Gianpaolo Carrafiello
A bipartite element with allele-specific functions safeguards DNA methylation imprints at the Dlk1-Dio3 locus., Boaz E Aronson, Laurianne Scourzic, Veevek Shah, Emily Swanzey, Andreas Kloetgen, Alexander Polyzos, Abhishek Sinha, Annabel Azziz, Inbal Caspi, Jiexi Li, Bobbie Pelham-Webb, Rachel A Glenn, Thomas Vierbuchen, Hynek Wichterle, Aristotelis Tsirigos, Meelad M Dawlaty, Matthias Stadtfeld, and Effie Apostolou
A comprehensive long-read isoform analysis platform and sequencing resource for breast cancer., Diogo Troggian Veiga, Alex V Nesta, Yuqi Zhao, Anne Deslattes Mays, Richie Huynh, Robert J Rossi, Te-Chia Wu, Karolina Palucka, Olga Anczuków, Christine R Beck, and Jacques Banchereau
A cross-species interaction with a symbiotic commensal enables cell-density-dependent growth and in vivo virulence of an oral pathogen., Anilei Hoare, Hui Wang, Archana Meethil, Loreto Abusleme, Bo-Young Hong, Niki M Moutsopoulos, Philip D Marsh, George Hajishengallis, and Patricia I Diaz
Adult mouse fibroblasts retain organ-specific transcriptomic identity., Elvira Forte, Mirana Ramialison, Hieu T Nim, Madison Mara, Jacky Y Li, Rachel Cohn, Sandra Daigle, Sarah Boyd, Edouard G Stanley, Andrew G Elefanty, J Travis Hinson, Mauro W Costa, Nadia Rosenthal, and Milena B Furtado
Advancing Physiology with Expanded Multi-Omics., Mingyu Liang, Allen W Cowley, Andrew S Greene, Aron M Geurts, Pengyuan Liu, Yong Liu, and Sridhar Rao
Age and diet shape the genetic architecture of body weight in diversity outbred mice., Kevin M Wright, Andrew Deighan, Andrea Di Francesco, Adam Freund, Vladimir Jojic, Gary Churchill, and Anil Raj
A human breast cancer-derived xenograft and organoid platform for drug discovery and precision oncology., Katrin P Guillen, Maihi Fujita, Andrew J Butterfield, Sandra D Scherer, Matthew H Bailey, Zhengtao Chu, Yoko S DeRose, Ling Zhao, Emilio Cortes-Sanchez, Chieh-Hsiang Yang, Jennifer Toner, Guoying Wang, Yi Qiao, Xiaomeng Huang, Jeffery A Greenland, Jeffery M Vahrenkamp, David H Lum, Rachel E Factor, Edward W Nelson, Cindy B Matsen, Jane M Poretta, Regina Rosenthal, Anna C Beck, Saundra S Buys, Christos Vaklavas, John H Ward, Randy L Jensen, Kevin B Jones, Zheqi Li, Steffi Oesterreich, Lacey E Dobrolecki, Satya S Pathi, Xing Yi Woo, Kristofer C Berrett, Mark E Wadsworth, Jeffrey H Chuang, Michael T Lewis, Gabor T Marth, Jason Gertz, Katherine E Varley, Bryan E Welm, and Alana L Welm
Airpart: interpretable statistical models for analyzing allelic imbalance in single-cell datasets., Wancen Mu, Hirak Sarkar, Avi Srivastava, Kwangbom Choi, Rob Patro, and Michael I Love
Allopregnanolone Improves Locomotor Activity and Arousal in the Aged CGG Knock-in Mouse Model of Fragile X-Associated Tremor/Ataxia Syndrome., Jared J Schwartzer, Dolores Garcia-Arocena, Amanda Jamal, Ali Izadi, Rob Willemsen, and Robert F Berman
Alterations in subgingival microbiota during full-fixed appliance orthodontic treatment-A prospective study., Isaac Chen, Jennifer Chung, Raven Vella, George M. Weinstock, Yanjiao Zhou, and Andrew H Jheon
A MT-TL1 variant identified by whole exome sequencing in an individual with intellectual disability, epilepsy, and spastic tetraparesis., Elke de Boer, Charlotte W Ockeloen, Leslie Matalonga, Rita Horvath, Richard J Rodenburg, Marieke J H Coenen, Mirian Janssen, Dylan Henssen, Christian Gilissen, Wouter Steyaert, Ida Paramonov, Aurélien Trimouille, Tjitske Kleefstra, Alain Verloes, Lisenka E L M Vissers, Solve-RD Consortium, and Peter N Robinson
Analysis of Salmonella Typhi Pathogenesis in a Humanized Mouse Model., Taylor A Stepien, Stephen J Libby, Joyce E Karlinsey, Michael A Brehm, Dale L Greiner, Leonard D. Shultz, Thea Brabb, and Ferric C Fang
An Artifact in Intracellular Cytokine Staining for Studying T Cell Responses and Its Alleviation., Zheng Gong, Qing Li, Jiayuan Shi, and Guangwen Ren
A Need for More Molecular Profiling in Brain Metastases., Erica Shen, Amanda E D Van Swearingen, Meghan J Price, Ketan Bulsara, Roel G W Verhaak, César Baëta, Brice D Painter, Zachary J Reitman, April K S Salama, Jeffrey M Clarke, Carey K Anders, Peter E Fecci, C Rory Goodwin, and Kyle M Walsh
An Integrated Approach to Studying Rare Neuromuscular Diseases Using Animal and Human Cell-Based Models., Timothy J Hines, Cathleen Lutz, Stephen A. Murray, and Robert W. Burgess
Annotated expression and activity data for murine recombinase alleles and transgenes: the CrePortal resource., Michelle N Perry, Constance M. Smith, Hiroaki Onda, Martin Ringwald, Stephen A. Murray, and Cynthia L Smith
A novel CD4+ CTL subtype characterized by chemotaxis and inflammation is involved in the pathogenesis of Graves' orbitopathy., Yue Wang, Ziyi Chen, Tingjie Wang, Hui Guo, Yufeng Liu, Ningxin Dang, Shiqian Hu, Liping Wu, Chengsheng Zhang, Kai Ye, and Bingyin Shi
A novel clinically relevant graft-versus-leukemia model in humanized mice., Bei Jia, Chenchen Zhao, Michael Bayerl, Hiroko Shike, David F Claxton, W Christopher Ehmann, Shin Mineishi, Todd D Schell, Pan Zheng, Yi Zhang, Leonard D. Shultz, K Sandeep Prabhu, Robert F Paulson, and Hong Zheng
Antibody Responses to SARS-CoV-2 After Infection or Vaccination in Children and Young Adults With Inflammatory Bowel Disease., Joelynn Dailey, Lina Kozhaya, Mikail Dogan, Dena Hopkins, Blaine Lapin, Katherine Herbst, Michael Brimacombe, Kristen Grandonico, Fatih Karabacak, John Schreiber, Bruce Tsan-Liang Liang, Juan C Salazar, Derya Unutmaz, and Jeffrey S Hyams
APOE ε4 and exercise interact in a sex-specific manner to modulate dementia risk factors, Kate E Foley, Cory A Diemler, Amanda A Hewes, Dylan Garceau, Michael Sasner, and Gareth R Howell
A research agenda to support the development and implementation of genomics-based clinical informatics tools and resources., Ken Wiley, Laura Findley, Madison Goldrich, Tejinder K Rakhra-Burris, Ana Stevens, Pamela Williams, Carol J Bult, Rex Chisholm, Patricia Deverka, Geoffrey S Ginsburg, Eric D Green, Gail Jarvik, George A Mensah, Erin Ramos, Mary V Relling, Dan M Roden, Robb Rowley, Gil Alterovitz, Samuel Aronson, Lisa Bastarache, James J Cimino, Erin L Crowgey, Guilherme Del Fiol, Robert R Freimuth, Mark A Hoffman, Janina Jeff, Kevin Johnson, Kensaku Kawamoto, Subha Madhavan, Eneida A Mendonca, Lucila Ohno-Machado, Siddharth Pratap, Casey Overby Taylor, Marylyn D Ritchie, Nephi Walton, Chunhua Weng, Teresa Zayas-Cabán, Teri A Manolio, and Marc S Williams
A Simple Standard for Sharing Ontological Mappings (SSSOM)., Nicolas Matentzoglu, James P Balhoff, Susan M. Bello, Chris Bizon, Matthew Brush, Tiffany J Callahan, Christopher G Chute, William D Duncan, Chris T Evelo, Davera Gabriel, John Graybeal, Alasdair Gray, Benjamin M Gyori, Melissa Haendel, Henriette Harmse, Nomi L Harris, Ian Harrow, Harshad B Hegde, Amelia L Hoyt, Charles T Hoyt, Dazhi Jiao, Ernesto Jiménez-Ruiz, Simon Jupp, Hyeongsik Kim, Sebastian Koehler, Thomas Liener, Qinqin Long, James Malone, James A McLaughlin, Julie A McMurry, Sierra Moxon, Monica C Munoz-Torres, David Osumi-Sutherland, James A Overton, Bjoern Peters, Tim Putman, Núria Queralt-Rosinach, Kent Shefchek, Harold Solbrig, Anne Thessen, Tania Tudorache, Nicole Vasilevsky, Alex H Wagner, and Christopher J Mungall
A Splicing Mutation in Slc4a5 Results in Retinal Detachment and Retinal Pigment Epithelium Dysfunction, Gayle B. Collin, Lanying Shi, Minzhong Yu, Nurten Akturk, Jeremy R. Charette, Lillian F Hyde, Sonia M Weatherly, Martin Pera, Juergen K. Naggert, Neal S Peachey, Patsy M. Nishina, and Mark P. Krebs
Association of gut microbiota and environment in children with AD, comparison of three cohorts of children., Kylie Jungles, Thi Dong Binh Tran, Maresa Botha, Heather E Rasmussen, Victoria Teixeira-Reis, Erica Sodergren, Claudia Gray, Nonhlanhla Lunjani, Carol Hlela, Wisdom Basera, Lelani Hobane, Alexandra Watkins, Phillip Engen, Avumile Mankahla, Ben Gaunt, Heidi Facey-Thomas, Alan Landay, George M. Weinstock, Ali Keshavarzian, Michael E Levin, and Mahboobeh Mahdavinia
A Study of Causal Inference and its Implications in Kinship Correction, Kelsey Robertson
Atypical is the new norm, for B cells and the rest of us., Adam Williams and Stephanie C Eisenbarth
A Universal Drug Based Approach to Treating Dominant Forms of Charcot-Marie-Tooth Disease, Fahad Nabi
Auriculocondylar syndrome 2 results from the dominant-negative action of PLCB4 variants., Stanley M Kanai, Caleb Heffner, Timothy C Cox, Michael L Cunningham, Francisco A Perez, Aaron M Bauer, Philip Reigan, Cristan Carter, Stephen A. Murray, and David E Clouthier
Betacoronavirus-specific alternate splicing., Guy Karlebach, Bruce Aronow, Stephen B Baylin, Daniel Butler, Jonathan Foox, Shawn Levy, Cem Meydan, Christopher Mozsary, Amanda M Saravia-Butler, Deanne M Taylor, Eve Wurtele, Christopher E Mason, Afshin Beheshti, and Peter N Robinson
Brain Research Special Issue on CMT, Editorial., Robert W. Burgess and Mario A Saporta
Bronchial epithelium epithelial-mesenchymal plasticity forms aberrant basaloid-like cells in vitro., Dinesh B Uthaya Kumar, Efthymios Motakis, Marina Yurieva, Vivek Kohar, Jan Martinek, Te-Chia Wu, Johad Khoury, Jessica D S Grassmann, Mingyang Lu, Karolina Palucka, Naftali Kaminski, Jonathan L Koff, and Adam Williams
Cardiac cellularity is dependent upon biological sex and is regulated by gonadal hormones., Galen T Squiers, Michael A McLellan, Alexei Ilinykh, Jane Branca, Nadia Rosenthal, and Alexander R Pinto
CCR5: The Receptor That Unlocks the Door for HIV Entry into Cells., Derya Unutmaz
CDC20 regulates sensitivity to chemotherapy and radiation in glioblastoma stem cells., Diane D Mao, Ryan T Cleary, Amit D Gujar, Tatenda Mahlokozera, and Albert H Kim
Cell origin-dependent cooperativity of mutant Dnmt3a and Npm1 in clonal hematopoiesis and myeloid malignancy., Jennifer M SanMiguel, Elizabeth Eudy, Matthew A Loberg, Linde A Miles, Timothy M Stearns, Jayna J Mistry, Michael J Rauh, Ross L Levine, and Jennifer J. Trowbridge
Central nervous system immune interactome is a function of cancer lineage, tumor microenvironment, and STAT3 expression., Hinda Najem, Martina Ott, Cynthia Kassab, Arvind Rao, Ganesh Rao, Anantha Marisetty, Adam M Sonabend, Craig Horbinski, Roel G W Verhaak, Anand Shankar, Santhoshi N Krishnan, Frederick S Varn, Víctor A Arrieta, Pravesh Gupta, Sherise D Ferguson, Jason T Huse, Gregory N Fuller, James P Long, Daniel E Winkowski, Ben A Freiberg, Charles David James, Leonidas C Platanias, Maciej S Lesniak, Jared K Burks, and Amy B Heimberger
Characterization of CFH and the Alternate Complement Pathway in Models for Age Related Macular Degeneration, Hagen (Joki) Wallace
Characterization of maternal behavior in CS7BL/6J and DBA12J inbred mouse strains, Pura Arroyo Morales
Characterization of single nucleotide polymorphisms for a forward genetics approach using genetic crosses in C57BL/6 and BALB/c substrains of mice., Ikuo Miura, Yoshiaki Kikkawa, Shumpei P Yasuda, Akiko Shinogi, Daiki Usuda, Vivek Kumar, Joseph S Takahashi, Masaru Tamura, Hiroshi Masuya, and Shigeharu Wakana
Characterizing genetic control of the 2C state in pluripotent stem cells, Elizabeth Ruark
Circulating CD34+ cells of primary myelofibrosis patients contribute to myeloid-dominant hematopoiesis and bone marrow fibrosis in immunodeficient mice., Noriyuki Saito, Takuji Yamauchi, Noriaki Kawano, Rintaro Ono, Shuro Yoshida, Toshihiro Miyamoto, Tomohiko Kamimura, Leonard D. Shultz, Yoriko Saito, Katsuto Takenaka, Kazuya Shimoda, Mine Harada, Koichi Akashi, and Fumihiko Ishikawa
c-MYC-USP49-BAG2 axis promotes proliferation and chemoresistance of colorectal cancer cells in vitro., Rongfu Tu, Wenqian Kang, Ye Kang, Ziyi Chen, Peng Zhang, Xiaofan Xiong, Junpeng Ma, Run-Lei Du, and Chengsheng Zhang
Combining genomic and epidemiological data to compare the transmissibility of SARS-CoV-2 variants Alpha and Iota., Mary E Petrone, Jessica E Rothman, Mallery I Breban, Isabel M Ott, Alexis Russell, Erica Lasek-Nesselquist, Hamada Badr, Kevin Kelly, Gregory Omerza, Nicholas Renzette, Anne E Watkins, Chaney C Kalinich, Tara Alpert, Anderson F Brito, Rebecca Earnest, Irina R Tikhonova, Christopher Castaldi, John P Kelly, Matthew Shudt, Jonathan Plitnick, Erasmus Schneider, Steven Murphy, Caleb Neal, Eva Laszlo, Ahmad Altajar, Claire Pearson, Anthony Muyombwe, Randy Downing, Jafar Razeq, Linda Niccolai, Madeline S Wilson, Margaret L Anderson, Jianhui Wang, Chen Liu, Pei Hui, Shrikant Mane, Bradford P Taylor, William P Hanage, Marie L Landry, David R Peaper, Kaya Bilguvar, Joseph R Fauver, Chantal B F Vogels, Lauren M Gardner, Virginia E Pitzer, Kirsten St George, Mark D Adams, and Nathan D Grubaugh
Common Genetic Variants Contribute to Risk of Transposition of the Great Arteries., Doris Škorić-Milosavljević, Rafik Tadros, Fernanda M Bosada, Federico Tessadori, Jan Hendrik van Weerd, Odilia I Woudstra, Fleur V Y Tjong, Najim Lahrouchi, Fanny Bajolle, Heather J Cordell, A J Agopian, Gillian M Blue, Daniela Q C M Barge-Schaapveld, Marc Gewillig, Christoph Preuss, Elisabeth M Lodder, Phil Barnett, Aho Ilgun, Leander Beekman, Karel van Duijvenboden, Regina Bokenkamp, Martina Müller-Nurasyid, Hubert W Vliegen, Thelma C Konings, Joost P van Melle, Arie P J van Dijk, Roland R J van Kimmenade, Jolien W Roos-Hesselink, Gertjan T Sieswerda, Folkert Meijboom, Hashim Abdul-Khaliq, Felix Berger, Sven Dittrich, Marc-Phillip Hitz, Julia Moosmann, Frank-Thomas Riede, Stephan Schubert, Pilar Galan, Mark Lathrop, Hans M Munter, Ammar Al-Chalabi, Christopher E Shaw, Pamela J Shaw, Karen E Morrison, Jan H Veldink, Leonard H van den Berg, Sylvia Evans, Marcelo A Nobrega, Ivy Aneas, Milena Radivojkov-Blagojević, Thomas Meitinger, Erwin Oechslin, Tapas Mondal, Lynn Bergin, John F Smythe, Luis Altamirano-Diaz, Jane Lougheed, Berto J Bouma, Marie-A Chaix, Jennie Kline, Anne S Bassett, Gregor Andelfinger, Roel L F van der Palen, Patrice Bouvagnet, Sally-Ann B Clur, Jeroen Breckpot, Wilhelmina S Kerstjens-Frederikse, David S Winlaw, Ulrike M M Bauer, Seema Mital, Elizabeth Goldmuntz, Bernard Keavney, Damien Bonnet, Barbara J Mulder, Michael W T Tanck, Jeroen Bakkers, Vincent M Christoffels, Cornelis J Boogerd, Alex V Postma, and Connie R Bezzina
Comparative Analysis of cos+T Cell Function and Immunometabolism in Hybrid Cross Models, Amey Maley
Comparative transmissibility of SARS-CoV-2 variants Delta and Alpha in New England, USA., Rebecca Earnest, Rockib Uddin, Nicholas Matluk, Nicholas Renzette, Sarah E Turbett, Katherine J Siddle, Christine Loreth, Gordon Adams, Christopher H Tomkins-Tinch, Mary E Petrone, Jessica E Rothman, Mallery I Breban, Robert Tobias Koch, Kendall Billig, Joseph R Fauver, Chantal B F Vogels, Kaya Bilguvar, Bony De Kumar, Marie L Landry, David R Peaper, Kevin Kelly, Greg Omerza, Heather Grieser, Sim Meak, John Martha, Hannah B Dewey, Susan Kales, Daniel Berenzy, Kristin Carpenter-Azevedo, Ewa King, Richard C Huard, Vlad Novitsky, Mark Howison, Josephine Darpolor, Akarsh Manne, Rami Kantor, Sandra C Smole, Catherine M Brown, Timelia Fink, Andrew S Lang, Glen R Gallagher, Virginia E Pitzer, Pardis C Sabeti, Stacey Gabriel, Bronwyn L MacInnis, New England Variant Investigation Team, Ryan Tewhey, Mark D Adams, Daniel J Park, Jacob E Lemieux, and Nathan D Grubaugh
Complexities of Comparative Genomics and the Cardiac Fibrillation Phenotype, Cailey Mitchell
Comprehensive Analysis of Alternative Splicing in Gastric Cancer Identifies Epithelial-Mesenchymal Transition Subtypes Associated with Survival., Yukyung Jun, Yun-Suhk Suh, SungHee Park, Jieun Lee, Jong-Il Kim, Sanghyuk Lee, Wan-Ping Lee, Olga Anczuków, Han-Kwang Yang, and Charles Lee
Conference report: Biocuration 2021 Virtual Conference., Federica Quaglia, Rama Balakrishnan, Susan M. Bello, and Nicole Vasilevsky
Consensus Recommendation for Mouse Models of Ocular Hypertension to Study Aqueous Humor Outflow and Its Mechanisms., Colleen M McDowell, Krishnakumar Kizhatil, Michael H Elliott, Darryl R Overby, Joseph van Batenburg-Sherwood, J Cameron Millar, Markus H Kuehn, Gulab Zode, Ted S Acott, Michael G Anderson, Sanjoy K Bhattacharya, Jacques A Bertrand, Terete Borras, Diane E Bovenkamp, Lin Cheng, John Danias, Michael Lucio De Ieso, Yiqin Du, Jennifer A Faralli, Rudolf Fuchshofer, Preethi S Ganapathy, Haiyan Gong, Samuel Herberg, Humberto Hernandez, Peter Humphries, Simon W M John, Paul L Kaufman, Kate E Keller, Mary J Kelley, Ruth A Kelly, David Krizaj, Ajay Kumar, Brian C Leonard, Raquel L Lieberman, Paloma Liton, Yutao Liu, Katy C Liu, Navita N Lopez, Weiming Mao, Timur Mavlyutov, Fiona McDonnell, Gillian J McLellan, Philip Mzyk, Andrews Nartey, Louis R Pasquale, Gaurang C Patel, Padmanabhan P Pattabiraman, Donna M Peters, Vijaykrishna Raghunathan, Ponugoti Vasantha Rao, Naga Rayana, Urmimala Raychaudhuri, Ester Reina-Torres, Ruiyi Ren, Douglas Rhee, Uttio Roy Chowdhury, John R Samples, E Griffen Samples, Najam Sharif, Joel S Schuman, Val C Sheffield, Cooper H Stevenson, Avinash Soundararajan, Preeti Subramanian, Chenna Kesavulu Sugali, Yang Sun, Carol B Toris, Karen Y Torrejon, Amir Vahabikashi, Janice A Vranka, Ting Wang, Colin E Willoughby, Chen Xin, Hongmin Yun, Hao F Zhang, Michael P Fautsch, Ernst R Tamm, Abbot F Clark, C Ross Ethier, and W Daniel Stamer
Construction of Computational Pipeline to Analyze Differences in Gene Expression in Inbred Mouse Strains, Maria Flores
Construction of logic gates exploiting resonance phenomena in nonlinear systems., K Murali, S Rajasekar, Manaoj V Aravind, Vivek Kohar, W L Ditto, and Sudeshna Sinha
CoRE-ATAC: A deep learning model for the functional classification of regulatory elements from single cell and bulk ATAC-seq data., Asa Thibodeau, Shubham Khetan, Alper Eroglu, Ryan Tewhey, Michael L. Stitzel, and Duygu Ucar
Corneal Changes and Strategies to Improve Survival of Hypomorphic Collagen VII-Deficient Mice for the Study of Ocular Dystrophic Epidermolysis Bullosa., Vicki M Chen, Karrie Southwell, Erin Huynh, Stefanie Gavett, Lauren Richey, and Michael Esmail
CRISPR-mediated multiplexed live cell imaging of nonrepetitive genomic loci with one guide RNA per locus., Patricia A Clow, Menghan Du, Nathaniel L. Jillette, Aziz Taghbalout, Jacqueline J Zhu, and Albert Cheng
Curation and expansion of Human Phenotype Ontology for defined groups of inborn errors of immunity., Matthias Haimel, Julia Pazmandi, Raúl Jiménez Heredia, Jasmin Dmytrus, Sevgi Köstel Bal, Samaneh Zoghi, Paul van Daele, Tracy A Briggs, Carine Wouters, Brigitte Bader-Meunier, Florence A Aeschlimann, Roberta Caorsi, Despina Eleftheriou, Esther Hoppenreijs, Elisabeth Salzer, Shahrzad Bakhtiar, Beata Derfalvi, Francesco Saettini, Maaike A A Kusters, Reem Elfeky, Johannes Trück, Jacques G Rivière, Mirjam van der Burg, Marco Gattorno, Markus G Seidel, Siobhan Burns, Klaus Warnatz, Fabian Hauck, Paul Brogan, Kimberly C Gilmour, Catharina Schuetz, Anna Simon, Christoph Bock, Sophie Hambleton, Esther de Vries, Peter N Robinson, Marielle van Gijn, and Kaan Boztug
Cytokines That Serve as Embryokines in Cattle., Alan D Ealy, Savannah L Speckhart, and Lydia K Wooldridge
Deep learning features encode interpretable morphologies within histological images., Ali Foroughi Pour, Brian S White, Jonghanne Park, Todd B Sheridan, and Jeffrey H Chuang
Deep learning modeling m6A deposition reveals the importance of downstream cis-element sequences., Zhiyuan Luo, Jiacheng Zhang, Jingyi Fei, and Shengdong Ke
Deep learning trained on hematoxylin and eosin tumor region of Interest predicts HER2 status and trastuzumab treatment response in HER2+ breast cancer., Saman Farahmand, Aileen I Fernandez, Fahad Shabbir Ahmed, David L Rimm, Jeffrey H Chuang, Emily Reisenbichler, and Kourosh Zarringhalam
Deep phenotyping: symptom annotation made simple with SAMS., Robin Steinhaus, Sebastian Proft, Evelyn Seelow, Tobias Schalau, Peter N Robinson, and Dominik Seelow
Deficiency in Lyst function leads to accumulation of secreted proteases and reduced retinal adhesion., Xiaojie Ji, Lihong Zhao, Ankita Umapathy, Bernie Fitzmaurice, Jieping Wang, David S Williams, Bo Chang, Juergen K. Naggert, and Patsy M. Nishina
Deletion of Gdf15 Reduces ER Stress-induced Beta-cell Apoptosis and Diabetes., Guanlan Xu, Junqin Chen, SeongHo Jo, Truman B Grayson, Sasanka Ramanadham, Akio Koizumi, Emily L Germain-Lee, Se-Jin Lee, and Anath Shalev
Dendritic Cell Differentiation from Human Induced Pluripotent Stem Cells: Challenges and Progress., Nélio A J Oliveira and Handan Sevim
Derivation of extra-embryonic and intra-embryonic macrophage lineages from human pluripotent stem cells., Andrea L Bredemeyer, Junedh M Amrute, Andrew L Koenig, Rachel A Idol, Li He, Stephanie A Luff, Carissa Dege, Jamison M Leid, Joel D Schilling, J Travis Hinson, Mary C Dinauer, Christopher M Sturgeon, and Kory J Lavine
Development of R pipeline to predict causal variants underlying expression quantitative trait loci., Stephanie Hoyt
Differential Regulation of Mouse Hippocampal Gene Expression Sex Differences by Chromosomal Content and Gonadal Sex., Sarah R Ocañas, Victor A Ansere, Kyla B Tooley, Niran Hadad, Ana J Chucair-Elliott, David R Stanford, Shannon Rice, Benjamin Wronowski, Kevin D Pham, Jessica M Hoffman, Steven N Austad, Michael B Stout, and Willard M Freeman
Discovering Signatures of Balancing Selection in Wild Mouse Species, Shaheer Rizwan
Disease Progression in Children with Perinatal HIV Correlates with Increased PD-1+ CD8 T Cells that Coexpress Multiple Immune Checkpoints., Janki Tailor, Julia Foldi, Matthew Generoso, Bret McCarty, Aparna Alankar, Max Kilberg, Mussa Mwamzuka, Fatma Marshed, Aabid Ahmed, Mengling Liu, William Borkowsky, Derya Unutmaz, and Alka Khaitan
Distinct miRNAs associated with various clinical presentations of SARS-CoV-2 infection., Qiqi Zeng, Xin Qi, Junpeng Ma, Fang Hu, Xiaorui Wang, Hongyu Qin, Mengyang Li, Shaoxin Huang, Yong Yang, Yixin Li, Han Bai, Meng Jiang, Doudou Ren, Ye Kang, Yang Zhao, Xiaobei Chen, Xi Ding, Di Ye, Yankui Wang, Jianguo Jiang, Dong Li, Xi Chen, Ke Hu, Binghong Zhang, Bingyin Shi, and Chengsheng Zhang
Distinct toll-like receptor signaling in the salamander response to tissue damage., Ryan J Debuque, Sergej Nowoshilow, Katya E Chan, Nadia Rosenthal, and James W Godwin
DTi2Vec: Drug-target interaction prediction using network embedding and ensemble learning., Maha A Thafar, Rawan S Olayan, Somayah Albaradei, Vladimir B Bajic, Takashi Gojobori, Magbubah Essack, and Xin Gao
Editorial: Fibrosis and Inflammation in Tissue Pathophysiology., Isotta Chimenti, Susanne Sattler, Gonzalo Del Monte-Nieto, and Elvira Forte
Editorial: Pediatric Microbiome in Health and Disease: Recent Advances., Amy Y Pan, George M. Weinstock, and Jill L Maron
Effects of paternal high-fat diet and maternal rearing environment on the gut microbiota and behavior., Austin C Korgan, Christine L Foxx, Heraa Hashmi, Saydie A Sago, Christopher E Stamper, Jared D Heinze, Elizabeth O'Leary, Jillian L King, Tara S Perrot, Christopher A Lowry, and Ian C G Weaver
Efficient targeted transgenesis of large donor DNA into multiple mouse genetic backgrounds using bacteriophage Bxb1 integrase., Benjamin E. Low, Vishnu Hosur, Simon Lesbirel, and Michael V. Wiles
Ensuring best practice in genomics education and evaluation: reporting item standards for education and its evaluation in genomics (RISE2 Genomics)., Amy Nisselle, Monika Janinski, Melissa Martyn, Belinda McClaren, Nadia Kaunein, Kristine Barlow-Stewart, Andrea Belcher, John A Bernat, Stephanie Best, Michelle Bishop, June C Carroll, Martina Cornel, Vajira H W Dissanayake, Agnes Dodds, Kate Dunlop, Gunjan Garg, Russell Gear, Debra Graves, Ken Knight, Bruce Korf, Dhavendra Kumar, Mercy Laurino, Alan Ma, Jane Maguire, Andrew Mallett, Maria McCarthy, Alison McEwen, Nicola Mulder, Chirag Patel, Catherine Quinlan, Kate Reed, Erin Rooney Riggs, Ingrid Sinnerbrink, Anne Slavotinek, Vijayaprakash Suppiah, Bronwyn Terrill, Edward S Tobias, Emma Tonkin, Steve Trumble, Tina-Marie Wessels, Sylvia Metcalfe, Helen Jordan, and Clara Gaff
Epigenetic Inheritance At The Agouti Locus in Mine, Chelsea Schroeder
Epistemic Beliefs: Relationship to Future Expectancies and Quality of Life in Cancer Patients., Paul K J Han, Elizabeth Scharnetzki, Eric Anderson, John DiPalazzo, Tania D Strout, Caitlin Gutheil, F Lee Lucas, Emily A Edelman, and Jens Rueter
Evaluating Differences in the Growth of Triple-Negative Breast Cancer on Different Genetic Backgrounds, Roberto J. Rodriguez Cartagena
Expanding homogeneous culture of human primordial germ cell-like cells maintaining germline features without serum or feeder layers., Mutsumi Kobayashi, Misato Kobayashi, Junko Odajima, Keiko Shioda, Young Sun Hwang, Kotaro Sasaki, Pranam Chatterjee, Christian Kramme, Richie E Kohman, George M Church, Amanda R Loehr, Robert S Weiss, Harald Jüppner, Joanna J Gell, Ching C Lau, and Toshi Shioda
Exploring mechanisms of protein influence on calcium oxalate kidney stone formation., Garrett K Berger, Jessica Eisenhauer, Andrew Vallejos, Brian Hoffmann, and Jeffrey A Wesson
FABIAN-variant: predicting the effects of DNA variants on transcription factor binding., Robin Steinhaus, Peter N Robinson, and Dominik Seelow
FOS Rescues Neuronal Differentiation of Sox2-Deleted Neural Stem Cells by Genome-Wide Regulation of Common SOX2 and AP1(FOS-JUN) Target Genes., Miriam Pagin, Mattias Pernebrink, Mattia Pitasi, Federica Malighetti, Chew Yee Ngan, Sergio Ottolenghi, Giulio Pavesi, Claudio Cantù, and Silvia K Nicolis
Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads., David Porubsky, Peter Ebert, Peter A Audano, Mitchell R Vollger, William T Harvey, Pierre Marijon, Jana Ebler, Katherine M Munson, Melanie Sorensen, Arvis Sulovari, Marina Haukness, Maryam Ghareghani, Human Genome Structural Variation Consortium, Peter M Lansdorp, Benedict Paten, Scott E Devine, Ashley D Sanders, Charles Lee, Mark J P Chaisson, Jan O Korbel, Evan E Eichler, and Tobias Marschall
Functional elements of the cis-regulatory lincRNA-p21., Lauren Winkler, Maria Jimenez, Joshua T Zimmer, Adam Williams, Matthew D Simon, and Nadya Dimitrova
Functional impact of a germline RET mutation in alveolar rhabdomyosarcoma., Noah E Berlow, Kenneth A Crawford, Carol J Bult, Christopher Noakes, Ido Sloma, Erin R Rudzinski, and Charles Keller
Functional replacement of myostatin with GDF-11 in the germline of mice., Se-Jin Lee, Adam Lehar, Renata Rydzik, Daniel W Youngstrom, Shalender Bhasin, Yewei Liu, and Emily L Germain-Lee
GA4GH: International policies and standards for data sharing across genomic research and healthcare., Heidi L Rehm, Angela J H Page, Lindsay Smith, Jeremy B Adams, Gil Alterovitz, Lawrence J Babb, Maxmillian P Barkley, Michael Baudis, Michael J S Beauvais, Tim Beck, Jacques S Beckmann, Sergi Beltran, David Bernick, Alexander Bernier, James K Bonfield, Tiffany F Boughtwood, Guillaume Bourque, Sarion R Bowers, Anthony J Brookes, Michael Brudno, Matthew H Brush, David Bujold, Tony Burdett, Orion J Buske, Moran N Cabili, Daniel L Cameron, Robert J Carroll, Esmeralda Casas-Silva, Debyani Chakravarty, Bimal P Chaudhari, Shu Hui Chen, J Michael Cherry, Justina Chung, Melissa Cline, Hayley L Clissold, Robert M Cook-Deegan, Mélanie Courtot, Fiona Cunningham, Miro Cupak, Robert M Davies, Danielle Denisko, Megan J Doerr, Lena I Dolman, Edward S Dove, L Jonathan Dursi, Stephanie O M Dyke, James A Eddy, Karen Eilbeck, Kyle P Ellrott, Susan Fairley, Khalid A Fakhro, Helen V Firth, Michael S Fitzsimons, Marc Fiume, Paul Flicek, Ian M Fore, Mallory A Freeberg, Robert R Freimuth, Lauren A Fromont, Jonathan Fuerth, Clara L Gaff, Weiniu Gan, Elena M Ghanaim, David Glazer, Robert C Green, Malachi Griffith, Obi L Griffith, Robert L Grossman, Tudor Groza, Jaime M Guidry Auvil, Roderic Guigó, Dipayan Gupta, Melissa A Haendel, Ada Hamosh, David P Hansen, Reece K Hart, Dean Mitchell Hartley, David Haussler, Rachele M Hendricks-Sturrup, Calvin W L Ho, Ashley E Hobb, Michael M Hoffman, Oliver M Hofmann, Petr Holub, Jacob Shujui Hsu, Jean-Pierre Hubaux, Sarah E Hunt, Ammar Husami, Julius O Jacobsen, Saumya S Jamuar, Elizabeth L Janes, Francis Jeanson, Aina Jené, Amber L Johns, Yann Joly, Steven J M Jones, Alexander Kanitz, Kazuto Kato, Thomas M Keane, Kristina Kekesi-Lafrance, Jerome Kelleher, Giselle Kerry, Seik-Soon Khor, Bartha M Knoppers, Melissa A Konopko, Kenjiro Kosaki, Martin Kuba, Jonathan Lawson, Rasko Leinonen, Stephanie Li, Michael F Lin, Mikael Linden, Xianglin Liu, Isuru Udara Liyanage, Javier Lopez, Anneke M Lucassen, Michael Lukowski, Alice L Mann, John Marshall, Michele Mattioni, Alejandro Metke-Jimenez, Anna Middleton, Richard J Milne, Fruzsina Molnár-Gábor, Nicola Mulder, Monica C Munoz-Torres, Rishi Nag, Hidewaki Nakagawa, Jamal Nasir, Arcadi Navarro, Tristan H Nelson, Ania Niewielska, Amy Nisselle, Jeffrey Niu, Tommi H Nyrönen, Brian D O'Connor, Sabine Oesterle, Soichi Ogishima, Vivian Ota Wang, Laura A D Paglione, Emilio Palumbo, Helen E Parkinson, Anthony A Philippakis, Angel D Pizarro, Andreas Prlic, Jordi Rambla, Augusto Rendon, Renee A Rider, Peter N Robinson, Kurt W Rodarmer, Laura Lyman Rodriguez, Alan F Rubin, Manuel Rueda, Gregory A Rushton, Rosalyn S Ryan, Gary I Saunders, Helen Schuilenburg, Torsten Schwede, Serena Scollen, Alexander Senf, Nathan C Sheffield, Neerjah Skantharajah, Albert V Smith, Heidi J Sofia, Dylan Spalding, Amanda B Spurdle, Zornitza Stark, Lincoln D Stein, Makoto Suematsu, Patrick Tan, Jonathan A Tedds, Alastair A Thomson, Adrian Thorogood, Timothy L Tickle, Katsushi Tokunaga, Juha Törnroos, David Torrents, Sean Upchurch, Alfonso Valencia, Roman Valls Guimera, Jessica Vamathevan, Susheel Varma, Danya F Vears, Coby Viner, Craig Voisin, Alex H Wagner, Susan E Wallace, Brian P Walsh, Marc S Williams, Eva C Winkler, Barbara J Wold, Grant M Wood, J Patrick Woolley, Chisato Yamasaki, Andrew D Yates, Christina K Yung, Lyndon J Zass, Ksenia Zaytseva, Junjun Zhang, Peter Goodhand, Kathryn North, and Ewan Birney
Gene Circuit Explorer (GeneEx): an interactive web-app for visualizing, simulating and analyzing gene regulatory circuits., Vivek Kohar, Danya Gordin, Ataur Katebi, Herbert Levine, José N Onuchic, and Mingyang Lu
Gene Expression in the Hippocampus of Diversity Outbred Mice Reveals Differences Between Sexes, Meredith Mayer
Generation and basic characterization of a gene-trap knockout mouse model of Scn2a with a substantial reduction of voltage-gated sodium channel Na, Muriel Eaton, Jingliang Zhang, Zhixiong Ma, Anthony C Park, Emma Lietzke, Chloé M Romero, Yushuang Liu, Emily R Coleman, Xiaoling Chen, Tiange Xiao, Zhefu Que, Shirong Lai, Jiaxiang Wu, Ji Hea Lee, Sophia Palant, Huynhvi P Nguyen, Zhuo Huang, William C Skarnes, Wendy A Koss, and Yang Yang
Genes identified in rodent studies of alcohol intake are enriched for heritability of human substance use., Spencer B Huggett, Emma C Johnson, Alexander S Hatoum, Dongbing Lai, Jenani Srijeyanthan, Jason A. Bubier, Elissa J Chesler, Arpana Agrawal, Abraham A Palmer, Howard J Edenberg, and Rohan H C Palmer
Genetic control of the pluripotency epigenome determines differentiation bias in mouse embryonic stem cells., Candice Byers, Catrina Spruce, Haley J Fortin, Ellen I Hartig, Anne M Czechanski, Steven C. Munger, Laura G Reinholdt, Daniel A Skelly, and Christopher L. Baker
Genetic Interaction between Mfrp and Adipor1 Mutations Affect Retinal Disease Phenotypes, Navdeep Gogna, Sonia Weatherly, Fuxin Zhao, Gayle B. Collin, Jai Pinkney, Lisa Stone, Juergen K. Naggert, Gregory W. Carter, and Patsy M. Nishina
Genetic resiliency associated with dominant lethal TPM1 mutation causing atrial septal defect with high heritability, Polakit Teekakirikul, Wenjuan Zhu, Xinxiu Xu, Cullen B Young, Tuantuan Tan, Amanda M Smith, Chengdong Wang, Kevin A Peterson, George C Gabriel, Sebastian Ho, Yi Sheng, Anne Moreau de Bellaing, Daniel A Sonnenberg, Jiuann-Huey Lin, Elisavet Fotiou, Gennadiy Tenin, Michael X Wang, Yijen L Wu, Timothy Feinstein, William Devine, Honglan Gou, Abha S Bais, Benjamin J Glennon, Maliha Zahid, Timothy C Wong, Ferhaan Ahmad, Michael J Rynkiewicz, William J Lehman, Bernard Keavney, Tero-Pekka Alastalo, Mary-Louise Freckmann, Kyle Orwig, Stephen A Murray, Stephanie M Ware, Hui Zhao, Brian Feingold, and Cecilia W Lo
Genome-wide association mapping of ethanol sensitivity in the Diversity Outbred mouse population., Clarissa C Parker, Vivek M. Philip, Daniel M. Gatti, Steven Kasparek, Andrew M Kreuzman, Lauren Kuffler, Benjamin Mansky, Sophie Masneuf, Kayvon Sharif, Erica Sluys, Dominik Taterra, Walter M Taylor, Mary Thomas, Oksana Polesskaya, Abraham A Palmer, Andrew Holmes, and Elissa J Chesler
Genome-wide transcript and protein analysis highlights the role of protein homeostasis in the aging mouse heart., Isabela Gerdes Gyuricza, Joel M Chick, Gregory R Keele, Andrew Deighan, Steven C. Munger, Ron Korstanje, Steven P Gygi, and Gary Churchill
Genome-wide variant calling in reanalysis of exome sequencing data uncovered a pathogenic TUBB3 variant., Elke de Boer, Burcu Yaldiz, Anne-Sophie Denommé-Pichon, Leslie Matalonga, Steve Laurie, Solve-RD SNV-indel working group, Daniel Danis, Peter N Robinson, and Solve-RD-DITF ITHACA
Genomic and epigenomic BRCA alterations predict adaptive resistance and response to platinum-based therapy in patients with triple-negative breast and ovarian carcinomas, Francesca Menghi, Kalyan Banda, Pooja A Kumar, Robert Straub, Lacey Dobrolecki, Isabel V Rodriguez, Susan E Yost, Harshpreet Chandok, Marc R Radke, George Somlo, Yuan Yuan, Michael T Lewis, Elizabeth M Swisher, and Edison T Liu
Genomic heterogeneity underlies multidrug resistance in Pseudomonas aeruginosa: A population-level analysis beyond susceptibility testing., Laura J Rojas, Mohamad Yasmin, Jacquelynn Benjamino, Steven M Marshall, Kailynn J DeRonde, Nikhil P Krishnan, Federico Perez, Andrew A Colin, Monica Cardenas, Octavio Martinez, Armando Pérez-Cardona, Daniel D Rhoads, Michael R Jacobs, John J LiPuma, Michael W Konstan, Alejandro J Vila, Andrea Smania, Andrew R Mack, Jacob G Scott, Mark D Adams, Lilian M Abbo, and Robert A Bonomo
Genomic medicine year in review: 2021., Teri A Manolio, Carol J Bult, Rex L Chisholm, Patricia A Deverka, Geoffrey S Ginsburg, Madison Goldrich, Gail P Jarvik, George A Mensah, Erin M Ramos, Mary V Relling, Dan M Roden, Robb Rowley, Marc S Williams, and Eric D Green
Glioma progression is shaped by genetic evolution and microenvironment interactions., Frederick S Varn, Kevin C Johnson, Jan Martinek, Jason T Huse, MacLean P Nasrallah, Pieter Wesseling, Lee A D Cooper, Tathiane M Malta, Taylor E Wade, Thais S Sabedot, Daniel Brat, Peter V Gould, Adelheid Wöehrer, Kenneth Aldape, Azzam Ismail, Santhosh Sivajothi, Floris P Barthel, Hoon Kim, Emre Kocakavuk, Nazia Ahmed, Kieron White, Indrani Datta, Hyo-Eun Moon, Steven Pollock, Christine Goldfarb, Ga-Hyun Lee, Luciano Garofano, Kevin J Anderson, Djamel Nehar-Belaid, Jill S Barnholtz-Sloan, Spyridon Bakas, Annette T Byrne, Fulvio D'Angelo, Hui K Gan, Mustafa Khasraw, Simona Migliozzi, D Ryan Ormond, Sun Ha Paek, Erwin G Van Meir, Annemiek M E Walenkamp, Colin Watts, Tobias Weiss, Michael Weller, Karolina Palucka, Lucy F Stead, Laila M Poisson, Houtan Noushmehr, Antonio Iavarone, and Roel G W Verhaak
Glucose metabolic profiles evaluated by PET associated with molecular characteristic landscape of gastric cancer., Seong-Woo Bae, Felix Berlth, Kyoung-Yun Jeong, Ji-Hyeon Park, Jong-Ho Choi, Shin-Hoo Park, Yun-Suhk Suh, Seong-Ho Kong, Do-Joong Park, Hyuk-Joon Lee, Charles Lee, Jong-Il Kim, Hyewon Youn, Hongyoon Choi, Gi Jeong Cheon, Keon Wook Kang, and Han-Kwang Yang
Harmonizing model organism data in the Alliance of Genome Resources., Alliance of Genome Resources Consortium, Anna V. Anagnostopoulos, Susan M. Bello, Judith A. Blake, Olin Blodgett, Carol J. Bult, Karen R. Christie, Mary E. Dolan, Paul Hale, James A. Kadin, Monica S. McAndrews, Howie Motenko, David R. Shaw, Constance M. Smith, Cynthia L. Smith, Monika Tomczuk, and Laurens G. Wilming
Harnessing tipping points for logic operations, K Murali, Sudeshna Sinha, Vivek Kohar, and William L Ditto
HEMDAG: a family of modular and scalable hierarchical ensemble methods to improve Gene Ontology term prediction., Marco Notaro, Marco Frasca, Alessandro Petrini, Jessica Gliozzo, Elena Casiraghi, Peter N Robinson, and Giorgio Valentini
High-throughput visual assessment of sleep stages in mice using machine learning., Brian Q Geuther, Mandy Chen, Raymond J Galante, Owen Han, Jie Lian, Joshy George, Allan I Pack, and Vivek Kumar
Hippocampal and thalamic afferents form distinct synaptic microcircuits in the mouse infralimbic frontal cortex., Kourtney Graham, Nelson Spruston, and Erik B Bloss
Hippocampal Neuronal Activation during Learning and Memory Processes, Andrea M.C. Mirow
Homeostasis and Defense at the Surface of the Eye. The Conjunctival Microbiota., Arnulfo Garza, Giancarlo Diaz, Marah Hamdan, Akaanksh Shetty, Bo-Young Hong, and Jorge Cervantes
Identification of Arhgef12 and Prkci as genetic modifiers of retinal dysplasia in the Crb1rd8 mouse model., Sonia M Weatherly, Gayle B. Collin, Jeremy R. Charette, Lisa Stone, Nattaya Damkham, Lillian F Hyde, James G Peterson, Wanda L. Hicks, Gregory W. Carter, Juergen K. Naggert, Mark P. Krebs, and Patsy M. Nishina
Identification of quantitative trait loci for survival in the mutant dynactin p150Glued mouse model of motor neuron disease., Guillermo M Alexander, Terry D Heiman-Patterson, Frank Bearoff, Roger B Sher, Laura Hennessy, Shannon Terek, Nicole Caccavo, Gregory A Cox, Vivek M. Philip, and Elizabeth A Blankenhorn
Identifying genetic determinants of inflammatory pain in mice using a large-scale gene-targeted screen., Janine M Wotton, Emma Peterson, Ann M Flenniken, Rasneer S Bains, Surabi Veeraragavan, Lynette R Bower, Jason A. Bubier, Marc Parisien, Alexandr Bezginov, Hamed Haselimashhadi, Jeremy Mason, Michayla A Moore, Michelle E Stewart, Dave A Clary, Daniel J Delbarre, Laura C. Anderson, Abigail D'Souza, Leslie Goodwin, Mark E Harrison, Ziyue Huang, Matthew Mckay, Dawei Qu, Luis Santos, Subhiksha Srinivasan, Rachel Urban, Igor Vukobradovic, Christopher S Ward, Amelia M Willett, Robert E Braun, Steve D M Brown, Mary E Dickinson, Jason D Heaney, Vivek Kumar, K C Kent Lloyd, Ann-Marie Mallon, Colin McKerlie, Stephen A. Murray, Lauryl M J Nutter, Helen Parkinson, John R Seavitt, Sara Wells, Rodney C Samaco, Elissa J Chesler, Damian Smedley, Luda Diatchenko, Kyle M Baumbauer, Erin E Young, Robert P Bonin, Silvia Mandillo, and Jacqueline K White
Immune dysregulation in SHARPIN-deficient mice is dependent on CYLD-mediated cell death., Rosalind L Ang, Mark Chan, Diana Legarda, John P Sundberg, Shao-Cong Sun, Virginia L Gillespie, Nicholas Chun, Peter S Heeger, Huabao Xiong, Sergio A Lira, and Adrian T Ting
Improving mouse models for the study of Alzheimer's disease., Alaina M Reagan, Kristen D. Onos, Sarah E Heuer, Michael Sasner, and Gareth R Howell
Independent and Interactive Effects of Genetic Background and Sex on Tissue Metabolomes of Adipose, Skeletal Muscle, and Liver in Mice., Ann E Wells, William T Barrington, Stephen Dearth, Nikhil Milind, Gregory W. Carter, David W Threadgill, Shawn R Campagna, and Brynn H Voy
Independent DSG4 frameshift variants in cats with hair shaft dystrophy., Sarah Kiener, Ana Rostaher, Silvia Rüfenacht, Vidhya Jagannathan, John P Sundberg, Monika Welle, and Tosso Leeb
Inhibition of mitochondrial complex I reverses NOTCH1-driven metabolic reprogramming in T-cell acute lymphoblastic leukemia., Natalia Baran, Alessia Lodi, Yogesh Dhungana, Shelley Herbrich, Meghan Collins, Shannon Sweeney, Renu Pandey, Anna Skwarska, Shraddha Patel, Mathieu Tremblay, Vinitha Mary Kuruvilla, Antonio Cavazos, Mecit Kaplan, Marc O Warmoes, Diogo Troggian Veiga, Ken Furudate, Shanti Rojas-Sutterin, Andre Haman, Yves Gareau, Anne Marinier, Helen Ma, Karine Harutyunyan, May Daher, Luciana Melo Garcia, Gheath Al-Atrash, Sujan Piya, Vivian Ruvolo, Wentao Yang, Sriram Saravanan Shanmugavelandy, Ningping Feng, Jason Gay, Di Du, Jun J Yang, Fieke W Hoff, Marcin Kaminski, Katarzyna Tomczak, R Eric Davis, Daniel Herranz, Adolfo Ferrando, Elias J Jabbour, M Emilia Di Francesco, David T Teachey, Terzah M Horton, Steven Kornblau, Katayoun Rezvani, Guy Sauvageau, Mihai Gagea, Michael Andreeff, Koichi Takahashi, Joseph R Marszalek, Philip L Lorenzi, Jiyang Yu, Stefano Tiziani, Trang Hoang, and Marina Konopleva
Interchromosomal interaction of homologous Stat92E alleles regulates transcriptional switch during stem-cell differentiation., Matthew Antel, Romir Raj, Madona Y G Masoud, Ziwei Pan, Sheng Li, Barbara G Mellone, and Mayu Inaba
Intermittent fasting and caloric restriction interact with genetics to shape physiological health in mice., Guozhu Zhang, Andrew Deighan, Anil Raj, Laura Robinson, Hannah J Donato, Gaven Garland, Mackenzie Leland, Baby Martin-McNulty, Ganesh A Kolumam, Johannes Riegler, Adam Freund, Kevin M Wright, and Gary A Churchill
Investigation of oral, gastric, and duodenal microbiota in patients with upper gastrointestinal symptoms., Jorge Cervantes, Majd Michael, Bo-Young Hong, Aden Springer, Hua Guo, Burgandy Mendoza, Mingtao Zeng, Olof Sundin, and Richard McCallum
In Vivo Lentiviral Gene Delivery of HLA-DR and Vaccination of Humanized Mice for Improving the Human T and B Cell Immune Reconstitution., Suresh Kumar, Johannes Koenig, Andreas Schneider, Fredrik Wermeling, Sanjaykumar Boddul, Sebastian J Theobald, Miriam Vollmer, Doreen Kloos, Nico Lachmann, Frank Klawonn, Stefan Lienenklaus, Steven R Talbot, André Bleich, Nadine Wenzel, Constantin von Kaisenberg, James G. Keck, and Renata Stripecke
Life-long dietary restrictions have negligible or damaging effects on late-life cognitive performance: A key role for genetics in outcomes., Andrew R Ouellette, Niran Hadad, Andrew Deighan, Laura Robinson, Kristen M S O'Connell, Adam Freund, Gary Churchill, and Catherine Kaczorowski
Live-Cell Imaging Shows Uneven Segregation of Extrachromosomal DNA Elements and Transcriptionally Active Extrachromosomal DNA Hubs in Cancer., Eunhee Yi, Amit D Gujar, Molly Guthrie, Hoon Kim, Dacheng Zhao, Kevin C Johnson, Samirkumar B Amin, Megan L Costa, Qianru Yu, Sunit Das, Nathaniel L. Jillette, Patricia A Clow, Albert W Cheng, and Roel G W Verhaak
Long non-coding RNAs and their targets as potential biomarkers in breast cancer., Maryam Khalid, Rehan Zafar Paracha, Maryum Nisar, Sumaira Malik, Salma Tariq, Iqra Arshad, Amnah Siddiqa, Zamir Hussain, Jamil Ahmad, and Amjad Ali
Long noncoding RNA ZFP36L2-AS functions as a metabolic modulator to regulate muscle development., Bolin Cai, Manting Ma, Jing Zhang, Shaofen Kong, Zhen Zhou, Zhenhui Li, Bahareldin Ali Abdalla, Haiping Xu, Xiquan Zhang, Raman Akinyanju Lawal, and Qinghua Nie
Loss-of-function mutation in Pcsk1 increases serum APOA1 level and LCAT activity in mice., Aleksandra Aljakna Khan, Nakyung Kim, Ron Korstanje, and Seungbum Choi
LUMOS - Low and Intermediate Grade Glioma Umbrella Study of Molecular Guided TherapieS at relapse: Protocol for a pilot study, Benjamin Y Kong, Hao-Wen Sim, Anna K Nowak, Sonia Yip, Elizabeth H Barnes, Bryan W Day, Michael E Buckland, Roel G W Verhaak, Terrance Johns, Cleo Robinson, and et al
m6A mRNA modifications containing alternative exons are dynamically regulated in neurological development, Lily Charpentier
Macrophages in dermatology: pathogenic roles and targeted therapeutics., Drew Kuraitis, Nadia Rosenthal, Erin Boh, and Elizabeth McBurney
Measuring cardiomyocyte cell-cycle activity and proliferation in the age of heart regeneration., John Auchampach, Lu Han, Guo N Huang, Bernhard Kühn, John W Lough, Caitlin C O'Meara, Alexander Y Payumo, Nadia Rosenthal, Henry M Sucov, Katherine E Yutzey, and Michaela Patterson
Metagenomics and chemotherapy-induced nausea: A roadmap for future research., Sylvia L Crowder, Aasha I Hoogland, Taylor L Welniak, Elizabeth A LaFranchise, Kristen M Carpenter, Daneng Li, Daniel M Rotroff, Arshiya Mariam, Christine M Pierce, Stacy M Fischer, Anita Y Kinney, Thi Dong Binh Tran, Farzaneh Rastegari, Donna L Berry, Martine Extermann, Richard D Kim, Danielle B Tometich, Jane C Figueiredo, Jameel Muzaffar, Shahla Bari, Kea Turner, George M. Weinstock, and Heather S L Jim
Microbial signatures of health, gingivitis, and periodontitis., Loreto Abusleme, Anilei Hoare, Bo-Young Hong, and Patricia I Diaz
Misexpression of genes lacking CpG islands drives degenerative changes during aging., Jun-Yeong Lee, Ian Davis, Elliot H H Youth, Jonghwan Kim, Gary Churchill, James R Fahey, Ron Korstanje, and Samuel Beck
Modeling the Interaction of Genetic Background and DYRKlA during Neurogenesis among Collaborative Cross Founder ESC-Derived Cerebral Organoids, Alyssa Edwards
Modeling transcription factor interaction in biochemically grounded gene regulatory networks, Jainil Shah
Molecular genetic mechanisms of dilated cardiomyopathy., John Travis Hinson
Molecular mechanisms of Kat6b in the differentiation of HSCs, Maximo A. Kesselhaut
Morphological and Biochemical Effects of a Mntation in an AMD Candidate Gene on RPE Cells, Julia Katherine Mills Alice Fiori
Mortality Prediction Analysis among COVID-19 Inpatients Using Clinical Variables and Deep Learning Chest Radiography Imaging Features., Xuan V Nguyen, Engin Dikici, Sema Candemir, Robyn L Ball, and Luciano M Prevedello
Mouse Genome Informatics (MGI): latest news from MGD and GXD., Martin Ringwald, Joel E Richardson, Richard M. Baldarelli, Judith A. Blake, James A. Kadin, Cynthia Smith, and Carol J Bult
Mouse mutagenesis and phenotyping to generate models of development and disease., Thomas Gridley and Stephen A. Murray
Multiple genome viewer (MGV): a new tool for visualization and comparison of multiple annotated genomes., Joel E Richardson, Richard M. Baldarelli, and Carol J Bult
Multi-Polygenic Analysis of Nicotine Dependence in Individuals of European Ancestry., Victoria A Risner, Chelsie E Benca-Bachman, Lauren Bertin, Alicia K Smith, Jaakko Kaprio, John E McGeary, Elissa J Chesler, Valerie S Knopik, Naomi P Friedman, and Rohan H C Palmer
Multi-scale phase separation by explosive percolation with single-chromatin loop resolution., Kaustav Sengupta, Michał Denkiewicz, Mateusz Chiliński, Teresa Szczepińska, Ayatullah Faruk Mollah, Sevastianos Korsak, Raissa D'Souza, Yijun Ruan, and Dariusz Plewczynski
Multiwalled carbon nanotubes co-delivering sorafenib and epidermal growth factor receptor siRNA enhanced tumor-suppressing effect on liver cancer., Zhili Wen, Yuliang Feng, Youwen Hu, Lingyan Lian, Hongyan Huang, Li Guo, Shanwen Chen, Qian Yang, Moran Zhang, Lijun Wan, Kedong Xu, Degejirifu, and Xiaohua Yan
Murine Model for Measuring Effects of Humanized-Dosing of Antibiotics on the Gut Microbiome., Shana Leopold, Kamilia Abdelraouf, David P Nicolau, Hanako Agresta, Jethro Johnson, Kathleen Teter, Wm Michael Dunne, David Broadwell, Alex van Belkum, Lisa M Schechter, Erica J Sodergren, and George M. Weinstock
MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses., Jay Devine, Marta Vidal-García, Wei Liu, Amanda Neves, Lucas D Lo Vercio, Rebecca M Green, Heather A Richbourg, Marta Marchini, Colton M Unger, Audrey C Nickle, Bethany Radford, Nathan M Young, Paula N Gonzalez, Robert E Schuler, Alejandro Bugacov, Campbell Rolian, Christopher J Percival, Trevor Williams, Lee Niswander, Anne L Calof, Arthur D Lander, Axel Visel, Frank R Jirik, James M Cheverud, Ophir D Klein, Ramon Y Birnbaum, Amy E Merrill, Rebecca R Ackermann, Daniel Graf, Myriam Hemberger, Wendy Dean, Nils D Forkert, Stephen A. Murray, Henrik Westerberg, Ralph S Marcucio, and Benedikt Hallgrímsson
Network-based prediction of novel genes for congenital diaphragmatic hernia (CDH), Angelina Guerra
Network Topology of Biological Aging and Geroscience-Guided Approaches to COVID-19., Alan Landay, Jenna Bartley, Dishary Banerjee, Geneva Hargis, Laura Haynes, Ali Keshavarzian, Chia-Ling Kuo, Oh Sung Kwon, Sheng Li, Shuzhao Li, Julia Oh, Ibrahim Tarik Ozbolat, Duygu Ucar, Ming Xu, Xudong Yao, Derya Unutmaz, and George A Kuchel
Nfkbid Overexpression in Nonobese Diabetic Mice Elicits Complete Type 1 Diabetes Resistance in Part Associated with Enhanced Thymic Deletion of Pathogenic CD8 T Cells and Increased Numbers and Activity of Regulatory T Cells., Jennifer R Dwyer, Jeremy Racine, Harold D Chapman, Anna Quinlan, Maximiliano Presa, Grace Stafford, Ingo Schmitz, and David V. Serreze
Novel App knock-in mouse model shows key features of amyloid pathology and reveals profound metabolic dysregulation of microglia., Dan Xia, Steve Lianoglou, Thomas Sandmann, Meredith Calvert, Jung H Suh, Elliot Thomsen, Jason Dugas, Michelle E Pizzo, Sarah L DeVos, Timothy K Earr, Chia-Ching Lin, Sonnet Davis, Connie Ha, Amy Wing-Sze Leung, Hoang Nguyen, Roni Chau, Ernie Yulyaningsih, Isabel Lopez, Hilda Solanoy, Shababa T Masoud, Chun-Chi Liang, Karin Lin, Giuseppe Astarita, Nathalie Khoury, Joy Yu Zuchero, Robert G Thorne, Kevin Shen, Stephanie Miller, Jorge J Palop, Dylan Garceau, Michael Sasner, Jennifer D Whitesell, Julie A Harris, Selina Hummel, Johannes Gnörich, Karin Wind, Lea Kunze, Artem Zatcepin, Matthias Brendel, Michael Willem, Christian Haass, Daniel Barnett, Till S Zimmer, Anna G Orr, Kimberly Scearce-Levie, Joseph W Lewcock, Gilbert Di Paolo, and Pascal E Sanchez
NSAID use and clinical outcomes in COVID-19 patients: a 38-center retrospective cohort study., Justin T Reese, Ben D Coleman, Lauren Chan, Hannah Blau, Tiffany J Callahan, Luca Cappelletti, Tommaso Fontana, Katie R Bradwell, Nomi L Harris, Elena Casiraghi, Giorgio Valentini, Guy Karlebach, Rachel Deer, Julie A McMurry, Melissa A Haendel, Christopher G Chute, Emily Pfaff, Richard Moffitt, Heidi Spratt, Jasvinder A Singh, Christopher J Mungall, Andrew E Williams, and Peter N Robinson
Nuclear pore protein NUP210 depletion suppresses metastasis through heterochromatin-mediated disruption of tumor cell mechanical response., Ruhul Amin, Anjali Shukla, Jacqueline Jufen Zhu, Sohyoung Kim, Ping Wang, Simon Zhongyuan Tian, Andy D Tran, Debasish Paul, Steven D Cappell, Sandra Burkett, Huaitian Liu, Maxwell P Lee, Michael J Kruhlak, Jennifer E Dwyer, R Mark Simpson, Gordon L Hager, Yijun Ruan, and Kent W Hunter
Nucleic Acid-Sensing and Interferon-Inducible Pathways Show Differential Methylation in MZ Twins Discordant for Lupus and Overexpression in Independent Lupus Samples: Implications for Pathogenic Mechanism and Drug Targeting., Miranda C Marion, Paula S Ramos, Prathyusha Bachali, Adam C Labonte, Kip D Zimmerman, Hannah C Ainsworth, Sarah E Heuer, Robert D Robl, Michelle D Catalina, Jennifer A Kelly, Timothy D Howard, Peter E Lipsky, Amrie C Grammer, and Carl D Langefeld
Open Problems in Extracellular RNA Data Analysis: Insights From an ERCC Online Workshop., Roger P Alexander, Robert R Kitchen, Juan Pablo Tosar, Matthew Roth, Pieter Mestdagh, Klaas E A Max, Joel Rozowsky, Karolina Elżbieta Kaczor-Urbanowicz, Justin Chang, Leonora Balaj, Bojan Losic, Eric L Van Nostrand, Emily LaPlante, Bogdan Mateescu, Brian S White, Rongshan Yu, Aleksander Milosavljevic, Gustavo Stolovitzky, and Ryan M Spengler
Optimization of subcellular protein tracking in hair cells, Anna Kasper
Oral anaphylaxis to peanut in a mouse model is associated with gut permeability but not with Tlr4 or Dock8 mutations., Jake A Gertie, Biyan Zhang, Elise G Liu, Laura R Hoyt, Xiangyun Yin, Lan Xu, Lauren L Long, Arielle Soldatenko, Uthaman Gowthaman, Adam Williams, and Stephanie C Eisenbarth
p53-mediated neurodegeneration in the absence of the nuclear protein Akirin2., Stacey L Peek, Peter J Bosch, Ethan Bahl, Brianna J Iverson, Mrutyunjaya Parida, Preeti Bais, J Robert Manak, Jacob J Michaelson, Robert W. Burgess, and Joshua A Weiner
PDXNet portal: patient-derived Xenograft model, data, workflow and tool discovery., Soner Koc, Michael W Lloyd, Jeffrey W Grover, Nan Xiao, Sara Seepo, Sai Lakshmi Subramanian, Manisha Ray, Christian Frech, John DiGiovanna, Phillip Webster, Steven Neuhauser, Anuj Srivastava, Xing Yi Woo, Brian J Sanderson, Brian White, Paul Lott, Lacey E Dobrolecki, Heidi Dowst, PDX Consortium, Yvonne A Evrard, Tiffany A Wallace, Jeffrey A Moscow, James H Doroshow, Nicholas Mitsiades, Salma Kaochar, Chong-Xian Pan, Moon S Chen, Luis Carvajal-Carmona, Alana L Welm, Bryan E Welm, Michael T Lewis, Ramaswamy Govindan, Li Ding, Shunqiang Li, Meenhard Herlyn, Michael A Davies, Jack Roth, Funda Meric-Bernstam, Peter N Robinson, Carol J Bult, Brandi Davis-Dusenbery, Dennis A Dean, and Jeffrey H Chuang
Perspectives on Cognitive Phenotypes and Models of Vascular Disease., Selen C Muratoglu, Marc F Charette, Zorina S Galis, Adam S Greenstein, Alan Daugherty, Anne Joutel, Beth A Kozel, Donna M Wilcock, Emily C Collins, Farzaneh A Sorond, Gareth R Howell, Hyacinth I Hyacinth, Kent K C Lloyd, Kurt R Stenmark, Manfred Boehm, Mark L Kahn, Roderick Corriveau, Sara Wells, Timothy J Bussey, Stacey J Sukoff Rizzo, and M Luisa Iruela-Arispe
PhenoRerank: A re-ranking model for phenotypic concept recognition pre-trained on human phenotype ontology., Shankai Yan, Ling Luo, Po-Ting Lai, Daniel Veltri, Andrew J Oler, Sandhya Xirasagar, Rajarshi Ghosh, Morgan Similuk, Peter N Robinson, and Zhiyong Lu
PhenoTagger: A Hybrid Method for Phenotype Concept Recognition using Human Phenotype Ontology., Ling Luo, Shankai Yan, Po-Ting Lai, Daniel Veltri, Andrew Oler, Sandhya Xirasagar, Rajarshi Ghosh, Morgan Similuk, Peter N Robinson, and Zhiyong Lu
Phenotype-driven approaches to enhance variant prioritization and diagnosis of rare disease., Julius O B Jacobsen, Catherine Kelly, Valentina Cipriani, Genomics England Research Consortium, Christopher J Mungall, Justin Reese, Daniel Danis, Peter N Robinson, and Damian Smedley
Plcg2M28L Interacts With High Fat/High Sugar Diet to Accelerate Alzheimer's Disease-Relevant Phenotypes in Mice., Adrian L Oblak, Kevin P Kotredes, Ravi S Pandey, Alaina M Reagan, Cynthia Ingraham, Bridget Perkins, Christopher Lloyd, Deborah Baker, Peter B Lin, Disha M Soni, Andy P Tsai, Scott A Persohn, Amanda A Bedwell, Kierra Eldridge, Rachael Speedy, Jill A Meyer, Johnathan S Peters, Lucas L Figueiredo, Michael Sasner, Paul R Territo, Stacey J Sukoff Rizzo, Gregory W. Carter, Bruce T Lamb, and Gareth R Howell
Pluripotent cell states and unexpected fates., Martin Pera
Prediction performance of linear models and gradient boosting machine on complex phenotypes in outbred mice., Bruno C Perez, Marco C A M Bink, Karen L. Svenson, Gary Churchill, and Mario P L Calus
Prioritization of autoimmune disease-associated genetic variants that perturb regulatory element activity in T cells., Kousuke Mouri, Michael H Guo, Carl G de Boer, Michelle M Lissner, Ingrid A Harten, Gregory A Newby, Hannah A DeBerg, Winona F Platt, Matteo Gentili, David R Liu, Daniel J Campbell, Nir Hacohen, Ryan Tewhey, and John P Ray
Programmable RNA-Guided Large DNA Transgenesis by CRISPR/Cas9 and Site-Specific Integrase Bxb1., Vishnu Hosur, Benjamin E. Low, and Michael V. Wiles
Progress towards completing the mutant mouse null resource., Kevin A Peterson and Stephen A. Murray
Prophylactic evaluation of verubecestat on disease- and symptom-modifying effects in 5XFAD mice., Adrian L Oblak, Zackary A Cope, Sara K Quinney, Ravi S Pandey, Carla Biesdorf, Andi R Masters, Kristen D. Onos, Leslie Haynes, Kelly J Keezer, Jill A Meyer, Jonathan S Peters, Scott A Persohn, Amanda A Bedwell, Kierra Eldridge, Rachael Speedy, Gabriela Little, Sean-Paul Williams, Brenda Noarbe, Andre Obenaus, Michael Sasner, Gareth R Howell, Gregory W. Carter, Harriet M. Jackson, Bruce T Lamb, Paul R Territo, and Stacey J Sukoff Rizzo
Providing a Helping Hand: Metabolic Regulation of T Follicular Helper Cells and Their Association With Disease., Colleen L Mayberry, Natalie A Logan, John J Wilson, and Chih-Hao Chang
Reading Frame Repair of TTN Truncation Variants Restores Titin Quantity and Functions, Robert Romano, Shahnaz Ghahremani, Talia Zimmerman, Nicholas Legere, Ketan Thakar, Feria A Ladha, Anthony M Pettinato, and J Travis Hinson
Recurrent inversion polymorphisms in humans associate with genetic instability and genomic disorders., David Porubsky, Wolfram Höps, Hufsah Ashraf, PingHsun Hsieh, Bernardo Rodriguez-Martin, Feyza Yilmaz, Jana Ebler, Pille Hallast, Flavia Angela Maria Maggiolini, William T Harvey, Barbara Henning, Peter A Audano, David S Gordon, Peter Ebert, Patrick Hasenfeld, Eva Benito, Qihui Zhu, Charles Lee, Francesca Antonacci, Matthias Steinrücken, Christine R Beck, Ashley D Sanders, Tobias Marschall, Evan E Eichler, and Jan O Korbel
Regulated dicing of pre-mir-144 via reshaping of its terminal loop., Renfu Shang, Dmitry A Kretov, Scott I Adamson, Thomas Treiber, Nora Treiber, Jeffrey Vedanayagam, Jeffrey H Chuang, Gunter Meister, Daniel Cifuentes, and Eric C Lai
Response by Forte and Sattler to Letter Regarding Article, "Cross-Priming Dendritic Cells Exacerbate Immunopathology After Ischemic Tissue Damage in the Heart"., Elvira Forte and Susanne Sattler
Risk of new-onset psychiatric sequelae of COVID-19 in the early and late post-acute phase., Ben D Coleman, Elena Casiraghi, Hannah Blau, Lauren Chan, Melissa A Haendel, Bryan Laraway, Tiffany J Callahan, Rachel R Deer, Kenneth J Wilkins, Justin Reese, and Peter N Robinson
RNA-seq Analysis of Sex Differences in the Striatum Cocaine Response of NOD Mice, Violet Kimble
RNA-Seq for the detection of gene fusions in solid tumors: development and validation of the JAX FusionSeq™ 2.0 assay., Daniel Bergeron, Harshpreet Chandok, Qian Nie, Matthew Prego, Melissa Soucy, Kevin Kelly, Guruprasad Ananda, Andrew N Hesse, and Honey V Reddi
SAGED-MM: Web Application for the Comprehensive Analysis of Mouse Models, Joshua Mincer
Selective elimination of pluripotent stem cells by PIKfyve specific inhibitors., Arup R Chakraborty, Alex Vassilev, Sushil K Jaiswal, Constandina E O'Connell, John F Ahrens, Barbara S Mallon, Martin Pera, and Melvin L DePamphilis
Serum cell-free DNA epigenetic biomarkers aid glioma diagnostics and monitoring., Kevin C Johnson and Roel G W Verhaak
Sex differences in the genetic architecture of cognitive resilience to Alzheimer's disease., Jaclyn M Eissman, Logan Dumitrescu, Emily R Mahoney, Alexandra N Smith, Shubhabrata Mukherjee, Michael L Lee, Phoebe Scollard, Seo Eun Choi, William S Bush, Corinne D Engelman, Qiongshi Lu, David W Fardo, Emily H Trittschuh, Jesse Mez, Catherine C Kaczorowski, Hector Hernandez Saucedo, Keith F Widaman, Rachel F Buckley, Michael J Properzi, Elizabeth C Mormino, Hyun Sik Yang, Theresa M Harrison, Trey Hedden, Kwangsik Nho, Shea J Andrews, Douglas Tommet, Niran Hadad, R Elizabeth Sanders, Douglas M Ruderfer, Katherine A Gifford, Xiaoyuan Zhong, Neha S Raghavan, Badri N Vardarajan, Margaret A Pericak-Vance, Lindsay A Farrer, Li San Wang, Carlos Cruchaga, Gerard D Schellenberg, Nancy J Cox, Jonathan L Haines, C Dirk Keene, Andrew J Saykin, Eric B Larson, Reisa A Sperling, Richard Mayeux, Michael L Cuccaro, David A Bennett, Julie A Schneider, Paul K Crane, Angela L Jefferson, and Timothy J Hohman
Single-cell analysis of endometriosis reveals a coordinated transcriptional programme driving immunotolerance and angiogenesis across eutopic and ectopic tissues., Yuliana Tan, William F Flynn, Santhosh Sivajothi, Diane Luo, Suleyman B Bozal, Monica Davé, Anthony A Luciano, Paul Robson, Danielle E Luciano, and Elise T Courtois
Single-cell analysis of human glioma and immune cells identifies S100A4 as an immunotherapy target., Nourhan Abdelfattah, Parveen Kumar, Caiyi Wang, Jia-Shiun Leu, William F Flynn, Ruli Gao, David S Baskin, Kumar Pichumani, Omkar B Ijare, Stephanie L Wood, Suzanne Z Powell, David L Haviland, Brittany C Parker Kerrigan, Frederick F Lang, Sujit S Prabhu, Kristin M Huntoon, Wen Jiang, Betty Y S Kim, Joshy George, and Kyuson Yun
Single-cell multi-omics reveals dyssynchrony of the innate and adaptive immune system in progressive COVID-19., Avraham Unterman, Tomokazu S Sumida, Nima Nouri, Xiting Yan, Amy Y Zhao, Victor Gasque, Jonas C Schupp, Hiromitsu Asashima, Yunqing Liu, Carlos Cosme, Wenxuan Deng, Ming Chen, Micha Sam Brickman Raredon, Kenneth B Hoehn, Guilin Wang, Zuoheng Wang, Giuseppe DeIuliis, Neal G Ravindra, Ningshan Li, Christopher Castaldi, Patrick Wong, John Fournier, Santos Bermejo, Lokesh Sharma, Arnau Casanovas-Massana, Chantal B F Vogels, Anne L Wyllie, Nathan D Grubaugh, Anthony Melillo, Hailong Meng, Yan Stein, Maksym Minasyan, Subhasis Mohanty, William E Ruff, Inessa Cohen, Khadir Raddassi, Laura E Niklason, Albert I Ko, Ruth R Montgomery, Shelli F Farhadian, Akiko Iwasaki, Albert C Shaw, David van Dijk, Hongyu Zhao, Steven H Kleinstein, David A Hafler, Naftali Kaminski, and Charles S Dela Cruz
Single-cell transcriptome analysis defines mesenchymal stromal cells in the mouse incisor dental pulp., Dashzeveg Bayarsaihan, Badam Enkhmandakh, Anushree Vijaykumar, Paul Robson, and Mina Mina
Solve-RD: systematic pan-European data sharing and collaborative analysis to solve rare diseases., Birte Zurek, Kornelia Ellwanger, Lisenka E L M Vissers, Rebecca Schüle, Matthis Synofzik, Ana Töpf, Richarda M de Voer, Steven Laurie, Leslie Matalonga, Christian Gilissen, Stephan Ossowski, Peter A C 't Hoen, Antonio Vitobello, Julia M Schulze-Hentrich, Olaf Riess, Han G Brunner, Anthony J Brookes, Ana Rath, Gisèle Bonne, Gulcin Gumus, Alain Verloes, Nicoline Hoogerbrugge, Teresinha Evangelista, Tina Harmuth, Morris Swertz, Dylan Spalding, Alexander Hoischen, Sergi Beltran, Holm Graessner, and Peter N Robinson
Solving patients with rare diseases through programmatic reanalysis of genome-phenome data., Leslie Matalonga, Carles Hernández-Ferrer, Davide Piscia, Rebecca Schüle, Matthis Synofzik, Ana Töpf, Lisenka E L M Vissers, Richarda de Voer, Raul Tonda, Steven Laurie, Marcos Fernandez-Callejo, Daniel Picó, Carles Garcia-Linares, Anastasios Papakonstantinou, Alberto Corvó, Ricky Joshi, Hector Diez, Ivo Gut, Alexander Hoischen, Holm Graessner, Sergi Beltran, Solve-RD Consortia, and Peter N Robinson
Solving unsolved rare neurological diseases-a Solve-RD viewpoint., Rebecca Schüle, Dagmar Timmann, Corrie E Erasmus, Jennifer Reichbauer, Melanie Wayand, Bart van de Warrenburg, Ludger Schöls, Carlo Wilke, Andrea Bevot, Stephan Zuchner, Sergi Beltran, Steven Laurie, Leslie Matalonga, Holm Graessner, Matthis Synofzik, Solve-RD Consortium, and Peter N Robinson
Spatial concordance of DNA methylation classification in diffuse glioma., Niels Verburg, Floris P Barthel, Kevin J Anderson, Kevin C Johnson, Thomas Koopman, Maqsood M Yaqub, Otto S Hoekstra, Adriaan A Lammertsma, Frederik Barkhof, Petra J W Pouwels, Jaap C Reijneveld, Annemieke J M Rozemuller, Jeroen A M Beliën, Ronald Boellaard, Michael D Taylor, Sunit Das, Joseph F Costello, William Peter Vandertop, Pieter Wesseling, Philip C de Witt Hamer, and Roel G W Verhaak
Spatiotemporal dynamics of clonal selection and diversification in normal endometrial epithelium., Manako Yamaguchi, Hirofumi Nakaoka, Kazuaki Suda, Kosuke Yoshihara, Tatsuya Ishiguro, Nozomi Yachida, Kyota Saito, Haruka Ueda, Kentaro Sugino, Yutaro Mori, Kaoru Yamawaki, Ryo Tamura, Sundaramoorthy Revathidevi, Teiichi Motoyama, Kazuki Tainaka, Roel G W Verhaak, Ituro Inoue, and Takayuki Enomoto
Standards for the classification of pathogenicity of somatic variants in cancer (oncogenicity): Joint recommendations of Clinical Genome Resource (ClinGen), Cancer Genomics Consortium (CGC), and Variant Interpretation for Cancer Consortium (VICC)., Peter Horak, Malachi Griffith, Arpad M Danos, Beth A Pitel, Subha Madhavan, Xuelu Liu, Cynthia Chow, Heather Williams, Leigh Carmody, Lisa Barrow-Laing, Damian Rieke, Simon Kreutzfeldt, Albrecht Stenzinger, David Tamborero, Manuela Benary, Padma Sheila Rajagopal, Cristiane M Ida, Harry Lesmana, Laveniya Satgunaseelan, Jason D Merker, Michael Y Tolstorukov, Paulo Vidal Campregher, Jeremy L Warner, Shruti Rao, Maya Natesan, Haolin Shen, Jeffrey Venstrom, Somak Roy, Kayoko Tao, Rashmi Kanagal-Shamanna, Xinjie Xu, Deborah I Ritter, Kym Pagel, Kilannin Krysiak, Adrian Dubuc, Yassmine M Akkari, Xuan Shirley Li, Jennifer Lee, Ian King, Gordana Raca, Alex H Wagner, Marylin M Li, Sharon E Plon, Shashikant Kulkarni, Obi L Griffith, Debyani Chakravarty, and Dmitriy Sonkin
State of Residency: Microbial Strain Diversity in the Skin., Heidi H Kong and Julia Oh
Stride-level analysis of mouse open field behavior using deep-learning-based pose estimation., Keith Sheppard, Justin Gardin, Gautam S Sabnis, Asaf Peer, Megan Darrell, Sean P Deats, Brian Q Geuther, Cathleen Lutz, and Vivek Kumar
Studying extrachromosomal DNA with the ecTag method., Eunhee Yi
Summer Student Report 2019, Blanca Perez
Super-resolution visualization of chromatin loop folding in human lymphoblastoid cells using interferometric photoactivated localization microscopy., Zofia Parteka-Tojek, Jacqueline Jufen Zhu, Byoungkoo Lee, Karolina Jodkowska, Ping Wang, Jesse Aaron, Teng-Leong Chew, Krzysztof Banecki, Dariusz Plewczynski, and Yijun Ruan
Supervised learning with word embeddings derived from PubMed captures latent knowledge about protein kinases and cancer., Vida Ravanmehr, Hannah Blau, Luca Cappelletti, Tommaso Fontana, Leigh Carmody, Ben D Coleman, Joshy George, Justin Reese, Marcin Joachimiak, Giovanni Bocci, Peter Hansen, Carol J Bult, Jens Rueter, Elena Casiraghi, Giorgio Valentini, Christopher Mungall, Tudor I Oprea, and Peter N Robinson
SvAnna: efficient and accurate pathogenicity prediction of coding and regulatory structural variants in long-read genome sequencing., Daniel Danis, Julius O B Jacobsen, Parithi Balachandran, Qihui Zhu, Feyza Yilmaz, Justin Reese, Matthias Haimel, Gholson J Lyon, Ingo Helbig, Christopher J Mungall, Christine R Beck, Charles Lee, Damian Smedley, and Peter N Robinson
Sylvatic Canine Morbillivirus in Captive Panthera Highlights Viral Promiscuity and the Need for Better Prevention Strategies, Mainity Batista Linhares, Herbert E Whiteley, Jonathan P Samuelson, Shih Hsuan Hsiao, Adam W Stern, Ian T Sprandel, Patrick J Roady, David Coleman, Rebecca Rizzo, S Fred Froderman, and Karen A Terio
Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows., Kim A Lagerborg, Erica Normandin, Matthew R Bauer, Gordon Adams, Katherine Figueroa, Christine Loreth, Adrianne Gladden-Young, Bennett M Shaw, Leah R Pearlman, Daniel Berenzy, Hannah B Dewey, Susan Kales, Sabrina T Dobbins, Erica S Shenoy, David Hooper, Virginia M Pierce, Kimon C Zachary, Daniel J Park, Bronwyn L MacInnis, Ryan Tewhey, Jacob E Lemieux, Pardis C Sabeti, Steven K Reilly, and Katherine J Siddle
Systematic reconstruction of cellular trajectories across mouse embryogenesis., Chengxiang Qiu, Junyue Cao, Beth K Martin, Tony Li, Ian C Welsh, Sanjay Srivatsan, Xingfan Huang, Diego Calderon, William Stafford Noble, Christine M Disteche, Stephen A. Murray, Malte Spielmann, Cecilia B Moens, Cole Trapnell, and Jay Shendure
TALE.Sense: A Versatile DNA Sensor Platform for Live Mammalian Cells., Aziz Taghbalout, Nathaniel L. Jillette, and Albert W Cheng
Targeting p21Cip1 highly expressing cells in adipose tissue alleviates insulin resistance in obesity, Lichao Wang, Binsheng Wang, Nathan S Gasek, Yueying Zhou, Rachel L Cohn, Dominique E Martin, Wulin Zuo, William F Flynn, Chun Guo, Evan R Jellison, Taewan Kim, Larissa G P Langhi Prata, Allyson K Palmer, Ming Li, Christina L Inman, Lauren S Barber, Iman M A Al-Naggar, Yanjiao Zhou, Wenqiang Du, Kshitiz, George A Kuchel, Alexander Meves, Tamar Tchkonia, James L Kirkland, Paul Robson, and Ming Xu
The AGE Presents Introduction to Geroscience video lecture series., Alessandro Bitto, Mitchell B Lee, Cristal M Hill, Ron Korstanje, and Matt Kaeberlein
The APOEε3/ε4 Genotype Drives Distinct Gene Signatures in the Cortex of Young Mice, Kate E Foley, Amanda A Hewes, Dylan Garceau, Kevin P Kotredes, Gregory W. Carter, Michael Sasner, and Gareth R Howell
The Clinical Variant Analysis Tool: Analyzing the evidence supporting reported genomic variation in clinical practice., Hui-Lin Chin, Nour Gazzaz, Stephanie Huynh, Iulia Handra, Lynn Warnock, Ashley Moller-Hansen, Pierre Boerkoel, Julius O B Jacobsen, Christèle du Souich, Nan Zhang, Kent Shefchek, Leah M Prentice, Nicole Washington, Melissa Haendel, Linlea Armstrong, Lorne Clarke, Wenhui Laura Li, Damian Smedley, Peter N Robinson, and Cornelius F Boerkoel
The Effects of Obesity and Genetic Diversity on Adipose TissueAssociated Macrophages, Alan Baez
The emerging role of deubiquitylating enzymes as therapeutic targets in cancer metabolism., Rongfu Tu, Junpeng Ma, Peng Zhang, Ye Kang, Xiaofan Xiong, Junsheng Zhu, Miao Li, and Chengsheng Zhang
The EurOPDX Data Portal: an open platform for patient-derived cancer xenograft data sharing and visualization., Zdenka Dudová, Nathalie Conte, Jeremy Mason, Dalibor Stuchlík, Radim Peša, Csaba Halmagyi, Zinaida Perova, Abayomi Mosaku, Ross Thorne, Alex Follette, Ľuboslav Pivarč, Radim Šašinka, Muhammad Usman, Steven Neuhauser, Dale A. Begley, Debra M Krupke, Massimiliano Frassà, Alessandro Fiori, Riccardo Corsi, Luca Vezzadini, Claudio Isella, Andrea Bertotti, Carol J Bult, Helen Parkinson, Enzo Medico, Terrence Meehan, and Aleš Křenek
The Exacerbation of Vascular Dysfunction with High-Fat Diet in a Novel Mouse Model of Mixed Dementia, Addie Finch
The GA4GH Phenopacket schema defines a computable representation of clinical data., Julius O B Jacobsen, Michael Baudis, Gareth S Baynam, Jacques S Beckmann, Sergi Beltran, Orion J Buske, Tiffany J Callahan, Christopher G Chute, Mélanie Courtot, Daniel Danis, Olivier Elemento, Andrea Essenwanger, Robert R Freimuth, Michael Gargano, Tudor Groza, Ada Hamosh, Nomi L Harris, Rajaram Kaliyaperumal, Kevin C Kent Lloyd, Aly Khalifa, Peter M Krawitz, Sebastian Köhler, Brian J Laraway, Heikki Lehväslaiho, Leslie Matalonga, Julie A McMurry, Alejandro Metke-Jimenez, Christopher J Mungall, Monica C Munoz-Torres, Soichi Ogishima, Anastasios Papakonstantinou, Davide Piscia, Nikolas Pontikos, Núria Queralt-Rosinach, Marco Roos, Julian Sass, Paul N Schofield, Dominik Seelow, Anastasios Siapos, Damian Smedley, Lindsay D Smith, Robin Steinhaus, Jagadish Chandrabose Sundaramurthi, Emilia M Swietlik, Sylvia Thun, Nicole A Vasilevsky, Alex H Wagner, Jeremy L Warner, Claus Weiland, GAGH Phenopacket Modeling Consortium, Melissa A Haendel, and Peter N Robinson
The GBA1 D409V mutation exacerbates synuclein pathology to differing extents in two alpha-synuclein models., Nicole K Polinski, Terina N Martinez, Sylvie Ramboz, Michael Sasner, Mark Herberth, Robert Switzer, Syed O Ahmad, Lee J Pelligrino, Sean W Clark, Jacob N Marcus, Sean M Smith, Kuldip D Dave, and Mark A Frasier
The Human Disease Ontology 2022 update., Lynn M Schriml, James B Munro, Mike Schor, Dustin Olley, Carrie McCracken, Victor Felix, J Allen Baron, Rebecca Jackson, Susan M. Bello, Cynthia Bearer, Richard Lichenstein, Katharine Bisordi, Nicole Campion Dialo, Michelle Giglio, and Carol Greene
The hyperpolarization-activated, cyclic nucleotide-gated channel resides on myocytes in mouse bladders and contributes to adrenergic-induced detrusor relaxation., Fouad Lemtiri-Chlieh, Dylan Baker, Iman M Al-Naggar, Ramalakshmi Ramasamy, George A Kuchel, Eric S Levine, Paul Robson, and Phillip P Smith
The impact of genetic background on mouse models of kidney disease., Rei Bufi and Ron Korstanje
The Jackson Laboratory For Genomic Medicine : celebrating five years of discovery, The Jackson Laboratory
The Jackson Laboratory Nathan Shock Center: impact of genetic diversity on aging., Ron Korstanje, Luanne L. Peters, Laura Robinson, Stephen D Krasinski, and Gary Churchill
The microbiome: From description to function in endocrine and metabolic research, Jethro S Johnson and George M. Weinstock
The Mutant Mouse Resource and Research Center (MMRRC): the NIH-supported National Public Repository and Distribution Archive of Mutant Mouse Models in the USA., James Amos-Landgraf, Craig Franklin, Virginia Godfrey, Franziska Grieder, Kristin Grimsrud, Ian Korf, Cathleen Lutz, Terry Magnuson, Oleg Mirochnitchenko, Samit Patel, Laura G Reinholdt, and K C Kent Lloyd
Therapeutic implications of activating noncanonical PIK3CA mutations in head and neck squamous cell carcinoma., Nan Jin, Bhumsuk Keam, Janice Cho, Michelle J Lee, Hye Ryun Kim, Hayarpi Torosyan, Natalia Jura, Patrick Ks Ng, Gordon B Mills, Hua Li, Yan Zeng, Zohar Barbash, Gabi Tarcic, Hyunseok Kang, Julie E Bauman, Mi-Ok Kim, Nathan K VanLandingham, Danielle L Swaney, Nevan J Krogan, Daniel E Johnson, and Jennifer R Grandis
The RD-Connect Genome-Phenome Analysis Platform: Accelerating diagnosis, research, and gene discovery for rare diseases., Steven Laurie, Davide Piscia, Leslie Matalonga, Alberto Corvó, Marcos Fernández-Callejo, Carles Garcia-Linares, Carles Hernandez-Ferrer, Cristina Luengo, Inés Martínez, Anastasios Papakonstantinou, Daniel Picó-Amador, Joan Protasio, Rachel Thompson, Raul Tonda, Mònica Bayés, Gemma Bullich, Jordi Camps-Puchadas, Ida Paramonov, Jean-Rémi Trotta, Angel Alonso, Marcella Attimonelli, Christophe Béroud, Virginie Bros-Facer, Orion J Buske, Andrés Cañada-Pallarés, José M Fernández, Mats G Hansson, Rita Horvath, Julius O B Jacobsen, Rajaram Kaliyaperumal, Séverine Lair-Préterre, Luana Licata, Pedro Lopes, Estrella López-Martín, Deborah Mascalzoni, Lucia Monaco, Luis A Pérez-Jurado, Manuel Posada de la Paz, Jordi Rambla, Ana Rath, Olaf Riess, Peter N Robinson, David Salgado, Damian Smedley, Dylan Spalding, Peter A C 't Hoen, Ana Töpf, Irina Zaharieva, Holm Graessner, Ivo G Gut, Hanns Lochmüller, and Sergi Beltran
The X chromosome from telomere to telomere: key achievements and future opportunities., Edith Heard, Alexander D Johnson, Jan O Korbel, Charles Lee, Michael P Snyder, and David Sturgill
Three decades of the Human Genome Organization., Charles Lee, Stylianos E Antonarakis, Ada Hamosh, and John Burn
Tissue origin of cytotoxic natural killer cells dictates their differential roles in mouse digit tip regeneration and progenitor cell survival., Nadjib Dastagir, Zachery Beal, and James W Godwin
Transcriptional control of retinal ganglion cell death after axonal injury., Stephanie B Syc-Mazurek, Hongtian Stanley Yang, Olivia J Marola, Gareth R Howell, and Richard T Libby
Transcriptional profiling of macrophages in situ in metastatic melanoma reveals localization-dependent phenotypes and function., Jan Martinek, Jianan Lin, Kyung In Kim, Victor G Wang, Te-Chia Wu, Michael Chiorazzi, Hannah Boruchov, Ananya Gulati, Shamreethaa Seeniraj, Lili Sun, Florentina Marches, Paul Robson, Anthony Rongvaux, Richard A Flavell, Joshy George, Jeffrey Chuang, Jacques Banchereau, and Karolina Palucka
Transcriptomic profiling of Paulownia elongata in response to heat stress., Neerja Katiyar, Niveditha Ramadoss, Dinesh Gupta, Suman B Pakala, Kerry Cooper, and Chhandak Basu
Translational approaches to understanding resilience to Alzheimer's disease., Sarah M Neuner, Maria Telpoukhovskaia, Vilas Menon, Kristen M S O'Connell, Timothy J Hohman, and Catherine Kaczorowski
UNBIASED, K-MER BASED ANALYSIS OF DIFFERENTIALLY PRESENT REPETITIVE ELEMENTS BETWEEN MOUSE SPECIES, Caleigh Charlebois
Use of Bioinformatics Tools to Identify Novel Genes Contributing to Lung Cancer Development, Jonathan Judd
User testing of a diagnostic decision support system with machine-assisted chart review to facilitate clinical genomic diagnosis., Alanna Kulchak Rahm, Nephi A Walton, Lynn K Feldman, Conner Jenkins, Troy Jenkins, Thomas N Person, Joeseph Peterson, Jonathon C Reynolds, Peter N Robinson, Makenzie A Woltz, Marc S Williams, and Michael M Segal
Using a Massively-Parallel Reporter Assay to Evaluate Synthetic Enhancer Sequences Acting with Cell Type Specificity, Natalia Fuentes
Using Deep Learning Neural Networks to Quantify Mouse Gait and Patterns of Social Interaction, Megan Darrell
Vascular derived endothelin receptor A controls endothelin-induced retinal ganglion cell death., Olivia J Marola, Gareth R Howell, and Richard T Libby
Victor McKusick and his short course., Charles Wray, Gregory A. Cox, and David Valle
Voluntary workplace genomic testing: wellness benefit or Pandora's box?, Kunal Sanghavi, Betty Cohn, Anya E R Prince, W Gregory Feero, Kerry A Ryan, Kayte Spector-Bagdady, Wendy R Uhlmann, Charles Lee, J Scott Roberts, and Debra J H Mathews