Submissions from 2023
A TRANSCRIPTOMIC APPRECIATION OF CHILDHOOD MENINGOCOCCAL AND POLYMICROBIAL SEPSIS FROM A PRO-INFLAMMATORY AND TRAJECTORIAL PERSPECTIVE, A ROLE FOR VASCULAR ENDOTHELIAL GROWTH FACTOR A AND B MODULATION?, Asrar Rashid, Berit S Brusletto, Feras Al-Obeidat, Mohammed Toufiq, Govind Benakatti, Joe Brierley, Zainab A Malik, Zain Hussain, Hoda Alkhazaimi, Javed Sharief, Raziya Kadwa, Amrita Sarpal, Damien Chaussabel, Rayaz A Malik, Nasir Quraishi, Praveen Khilnani, Syed A Zaki, Rashid Nadeem, Guftar Shaikh, Ahmed Al-Dubai, Wael Hafez, and Amir Hussain
A genetic locus complements resistance to Bordetella pertussis-induced histamine sensitization., Abbas Raza, Sean A Diehl, Dimitry N Krementsov, Laure K Case, Dawei Li, Jason Kost, Robyn L Ball, Elissa J Chesler, Vivek M. Philip, Rui Huang, Yan Chen, Runlin Ma, Anna L Tyler, J Matthew Mahoney, Elizabeth P Blankenhorn, and Cory Teuscher
Generalisable long COVID subtypes: findings from the NIH N3C and RECOVER programmes., Justin T Reese, Hannah Blau, Elena Casiraghi, Timothy Bergquist, Johanna J Loomba, Tiffany J Callahan, Bryan Laraway, Corneliu Antonescu, Ben D Coleman, Michael Gargano, Kenneth J Wilkins, Luca Cappelletti, Tommaso Fontana, Nariman Ammar, Blessy Antony, T M Murali, J Harry Caufield, Guy Karlebach, Julie A McMurry, Andrew Williams, Richard Moffitt, Jineta Banerjee, Anthony E Solomonides, Hannah Davis, Kristin Kostka, Giorgio Valentini, David Sahner, Christopher G Chute, Charisse Madlock-Brown, Melissa A Haendel, and Peter N Robinson
Pten inhibition dedifferentiates long-distance axon-regenerating intrinsically photosensitive retinal ganglion cells and upregulates mitochondria-associated Dynlt1a and Lars2., Bruce A Rheaume, Jian Xing, Agnieszka Lukomska, William C Theune, Ashiti Damania, Greg Sjogren, and Ephraim F Trakhtenberg
Diversification of the ruminant skull along an evolutionary line of least resistance., Daniel P Rhoda, Annat Haber, and Kenneth D Angielczyk
Mechanical Washing Prevents Transmission of Bacterial, Viral, and Protozoal Murine Pathogens from Cages., Amanda C Ritter, Rodolfo J Ricart Arbona, Anthony J Mourino, Michael B Palillo, Mert Aydin, James R Fahey, and Neil S Lipman
An ethical framework for human embryology with embryo models., Nicolas C Rivron, Alfonso Martinez Arias, Martin Pera, Naomi Moris, and Hafez Ismaili M'hamdi
Genetically diverse mouse models of SARS-CoV-2 infection reproduce clinical variation in type I interferon and cytokine responses in COVID-19., Shelly J Robertson, Olivia Bedard, Kristin L McNally, Carl Shaia, Chad S Clancy, Matthew Lewis, Rebecca M Broeckel, Abhilash I Chiramel, Jeffrey G Shannon, Gail L Sturdevant, Rebecca Rosenke, Sarah L Anzick, Elvira Forte, Christoph Preuss, Candice N Baker, Jeffrey M. Harder, Catherine Brunton, Steven C. Munger, Daniel P Bruno, Justin B Lack, Jacqueline M Leung, Amirhossein Shamsaddini, Paul Gardina, Daniel E Sturdevant, Jian Sun, Craig Martens, Steven M Holland, Nadia Rosenthal, and Sonja M Best
An integrated tumor, immune and microbiome atlas of colon cancer., Jessica Roelands, Peter J K Kuppen, Eiman I Ahmed, Raghvendra Mall, Tariq Masoodi, Parul Singh, Gianni Monaco, Christophe Raynaud, Noel F C C de Miranda, Luigi Ferraro, Tatiana C Carneiro-Lobo, Najeeb Syed, Arun Rawat, Amany Awad, Julie Decock, William Mifsud, Lance D Miller, Shimaa Sherif, Mahmoud G Mohamed, Darawan Rinchai, Marc Van den Eynde, Rosalyn W Sayaman, Elad Ziv, Francois Bertucci, Mahir Abdulla Petkar, Stephan Lorenz, Lisa Sara Mathew, Kun Wang, Selvasankar Murugesan, Damien Chaussabel, Alexander L Vahrmeijer, Ena Wang, Anna Ceccarelli, Khalid A Fakhro, Gabriele Zoppoli, Alberto Ballestrero, Rob A E M Tollenaar, Francesco M Marincola, Jérôme Galon, Souhaila Al Khodor, Michele Ceccarelli, Wouter Hendrickx, and Davide Bedognetti
Bridging mouse and human anatomies; a knowledge-based approach to comparative anatomy for disease model phenotyping., Jesús Ruberte, Paul N Schofield, John P Sundberg, Alfonso Rodriguez-Baeza, Ana Carretero, and Colin McKerlie
Deep learning image analysis quantifies tumor heterogeneity and identifies microsatellite instability in colon cancer., Jill C Rubinstein, Ali Foroughi Pour, Jie Zhou, Todd B Sheridan, Brian S White, and Jeffrey Chuang
The Maine Cancer Genomics Initiative: Implementing a Community Cancer Genomics Program Across an Entire Rural State., Jens Rueter, Eric C Anderson, Leah C. Graham, Andrey Antov, Petra Helbig, Lory Gaitor, Jennifer Bourne, Emily A Edelman, Kate Reed, Honey V Reddi, Susan Mockus, John DiPalazzo, Christine Lu-Emerson, Roger Inhorn, Sarah J Sinclair, Christian A Thomas, Philip L Brooks, Karen Rasmussen, Paul Han, Edison Liu, and MCGI Working Group
Generation of glucocorticoid-producing cells derived from human pluripotent stem cells., Gerard Ruiz-Babot, Ariane Eceiza, Fernando Abollo-Jiménez, Maria Malyukov, Diana L Carlone, Kleiton Borges, Alexandra Rodrigues Da Costa, Shamma Qarin, Takuya Matsumoto, Ryuji Morizane, William C Skarnes, Barbara Ludwig, Paul J Chapple, Leonardo Guasti, Helen L Storr, Stefan R Bornstein, and David T Breault
Carbamoylated Erythropoietin-Induced Cerebral Blood Perfusion and Vascular Gene Regulation., Jayanarayanan Sadanandan, Monica Sathyanesan, Yutong Liu, Neeraj K Tiwari, and Samuel S Newton
Effects of Probiotics on Colitis-Induced Exacerbation of Alzheimer's Disease in, Bijayani Sahu, Lauren M Johnson, Mona Sohrabi, Anastasia A Usatii, Rachel M J Craig, Joshua B Kaelberer, Sathiya Priya Chandrasekaran, Harpreet Kaur, Suba Nookala, and Colin K Combs
Assessment of the Glycan-Binding Profile of Pseudomonas aeruginosa PAO1., Hector Sanchez, George A O'Toole, and Brent Berwin
Clonal hematopoiesis, aging and Alzheimer's disease., Pablo Sánchez Vela, Jennifer J. Trowbridge, and Ross L Levine
Efficacy of futibatinib, an irreversible fibroblast growth factor receptor inhibitor, in FGFR-altered breast cancer., Turcin Saridogan, Argun Akcakanat, Ming Zhao, Kurt W Evans, Erkan Yuca, Stephen Scott, Bryce P Kirby, Xiaofeng Zheng, Min Jin Ha, Huiqin Chen, Patrick Ks Ng, Timothy P DiPeri, Gordon B Mills, Jordi Rodon Ahnert, Senthil Damodaran, and Funda Meric-Bernstam
Meeting report of the annual workshop on Principles and Techniques for Improving Preclinical to Clinical Translation in Alzheimer's Disease research., Michael Sasner, Paul R Territo, and Stacey J Sukoff Rizzo
Cry1 expression during postnatal development is critical for the establishment of normal circadian period, Aaron E Schirmer, Vivek Kumar, Andrew Schook, Eun Joo Song, Michael S Marshall, and Joseph S Takahashi
Priorities to Promote Participant Engagement in the Participant Engagement and Cancer Genome Sequencing (PE-CGS) Network., Anne Lr Schuster, Norah L Crossnohere, Melinda Bachini, Cindy K Blair, John D Carpten, Elizabeth B Claus, Graham A Colditz, Li Ding, Bettina F Drake, Ryan C Fields, Katherine A Janeway, Bethany M Kwan, Heinz-Josef Lenz, Qin Ma, Shiraz I Mishra, Electra D Paskett, Timothy R Rebbeck, Charité Ricker, Mariana C Stern, Andrew L Sussman, Jessica C Tiner, Jeffrey M Trent, Roel G W Verhaak, Nikhil Wagle, Cheryl Willman, and John Fp Bridges
The impact of vitamin D on cancer: A mini review., Gerbenn Seraphin, Sandra Rieger, Martin Hewison, Enrico Capobianco, and Thomas S Lisse
Cytokine release syndrome and cancer immunotherapies - historical challenges and promising futures., Deep Shah, Brian Soper, and Lindsay S. Shopland
DNA methylation provides diagnostic value for meningioma recurrence in clinical practice., Erica Shen, Nathan K Leclair, Kristi Herlth, Melissa Soucy, Nicholas Renzette, Xinming Zhuo, Kevin Kelly, Greg Omerza, Hilary Onyiuke, Ian McNeill, Leo Wolansky, Kevin Becker, Lei Li, Qian Wu, and Ketan R Bulsara
Metabolic Responses of Normal Rat Kidneys to a High Salt Intake., Satoshi Shimada, Brian Hoffmann, Chun Yang, Theresa Kurth, Andrew S Greene, Mingyu Liang, Ranjan K Dash, and Allen W Cowley
A pilot metabolomic study of drug interaction with the immune response to seasonal influenza vaccination., Amnah Siddiqa, Yating Wang, Maheshwor Thapa, Dominique E Martin, Andreia N Cadar, Jenna M Bartley, and Shuzhao Li
NUTMEG: A randomized phase II study of nivolumab and temozolomide versus temozolomide alone in newly diagnosed older patients with glioblastoma., Hao-Wen Sim, Luke Wachsmuth, Elizabeth H Barnes, Sonia Yip, Eng-Siew Koh, Merryn Hall, Ross Jennens, David M Ashley, Roel G W Verhaak, Amy B Heimberger, Mark A Rosenthal, Elizabeth J Hovey, Benjamin M Ellingson, Annette Tognela, Hui K Gan, Helen Wheeler, Michael Back, Kerrie L McDonald, Anne Long, Katharine Cuff, Stephen Begbie, Craig Gedye, Anna Mislang, Hien Le, Margaret O Johnson, Benjamin Y Kong, John R Simes, Zarnie Lwin, and Mustafa Khasraw
Canagliflozin retards age-related lesions in heart, kidney, liver, and adrenal gland in genetically heterogenous male mice., Jessica M Snyder, Kerriann M Casey, Andrzej Galecki, David E Harrison, Hashan Jayarathne, Navasuja Kumar, Francesca Macchiarini, Nadia Rosenthal, Marianna Sadagurski, Adam B Salmon, Randy Strong, Richard A Miller, and Warren Ladiges
Development of a solubility parameter calculation-based method as a complementary tool to traditional techniques for indoor dust microplastic determination and risk assessment., Shanjun Song, Limei Cai, Yuhui Liu, Zijuan Peng, Chunyu Liu, Hui Jiao, Penghui Li, Qian Liu, Miao Yu, Tao Zhou, Qinghe Zhang, Henner Hollert, Xingchen Zhao, and Guibin Jiang
Loss of circSRY reduces γH2AX level in germ cells and impairs mouse spermatogenesis., Yanze Song, Min Chen, Yingfan Zhang, Jiayi Li, Bowen Liu, Na Li, Min Chen, Miaomiao Qiao, Nan Wang, Yuanwei Cao, Shan Lu, Jian Chen, Wen Sun, Fei Gao, and Haoyi Wang
New mouse models with hypomorphic SUMF1 variants mimic attenuated forms of multiple sulfatase deficiency., Nicolina Cristina Sorrentino, Maximiliano Presa, Sergio Attanasio, Vincenzo Cacace, Martina Sofia, Aamir Zuberi, Jennifer L Ryan, Somdatta Ray, Igor Petkovic, Karthikeyan Radhakrishnan, Lars Schlotawa, Andrea Ballabio, Cathleen Lutz, and Nicola Brunetti-Pierri
Seven naturally variant loci serve as genetic modifiers of Lamc2jeb induced non-Herlitz junctional Epidermolysis Bullosa in mice., Thomas J. Sproule, Vivek M. Philip, Nabig A Chaudhry, Derry C. Roopenian, and John P Sundberg
Functional analysis of Collagen 17a1: A genetic modifier of junctional epidermolysis bullosa in mice., Thomas J. Sproule, Robert Y Wilpan, Benjamin E. Low, Kathleen A Silva, Deepak Reyon, J Keith Joung, Michael V. Wiles, Derry C. Roopenian, and John P Sundberg
Dystonin modifiers of junctional epidermolysis bullosa and models of epidermolysis bullosa simplex without dystonia musculorum., Thomas J. Sproule, Robert Y Wilpan, John J Wilson, Benjamin E. Low, Yudai Kabata, Tatsuo Ushiki, Riichiro Abe, Michael V. Wiles, Derry C. Roopenian, and John P Sundberg
Skin Extracellular Matrix Breakdown Following Paclitaxel Therapy in Patients with Chemotherapy-Induced Peripheral Neuropathy., Nathan P Staff, Sybil C Hrstka, Surendra Dasari, Enrico Capobianco, and Sandra Rieger
The Ontology of Biological Attributes (OBA)-computational traits for the life sciences., Ray Stefancsik, James P Balhoff, Meghan A Balk, Robyn L Ball, Susan M. Bello, Anita R Caron, Elissa J Chesler, Vinicius de Souza, Sarah Gehrke, Melissa Haendel, Laura W Harris, Nomi L Harris, Arwa Ibrahim, Sebastian Koehler, Nicolas Matentzoglu, Julie A McMurry, Christopher J Mungall, Monica C Munoz-Torres, Tim Putman, Peter N Robinson, Damian Smedley, Elliot Sollis, Anne E Thessen, Nicole Vasilevsky, David O Walton, and David Osumi-Sutherland
The effects of pathogenic and likely pathogenic variants for inherited hemostasis disorders in 140 214 UK Biobank participants., Luca Stefanucci, Janine Collins, Matthew C Sims, Inigo Barrio-Hernandez, Luanluan Sun, Oliver S Burren, Livia Perfetto, Isobel Bender, Tiffany J Callahan, Kathryn Fleming, Jose A Guerrero, Henning Hermjakob, Maria J Martin, James Stephenson, Kalpana Paneerselvam, Slavé Petrovski, Pablo Porras, Peter N Robinson, Quanli Wang, Xavier Watkins, Mattia Frontini, Roman A Laskowski, Pedro Beltrao, Emanuele Di Angelantonio, Keith Gomez, Mike Laffan, Willem H Ouwehand, Andrew D Mumford, Kathleen Freson, Keren Carss, Kate Downes, Nick Gleadall, Karyn Megy, Elspeth Bruford, and Dragana Vuckovic
A Unique Role for Protocadherin γC3 in Promoting Dendrite Arborization through an Axin1-Dependent Mechanism., David M Steffen, Camille M Hanes, Kar Men Mah, Paula Valiño Ramos, Peter J Bosch, Dalton C Hinz, Jason J Radley, Robert W. Burgess, Andrew M Garrett, and Joshua A Weiner
Bridging the rodent to human translational gap: Marmosets as model systems for the study of Alzheimer's disease., Stacey J Sukoff Rizzo, Gregg Homanics, David J Schaeffer, Lauren Schaeffer, Jung Eun Park, Julia Oluoch, Tingting Zhang, Annat Haber, Nicholas T Seyfried, Benedict Paten, Anna Greenwood, Takeshi Murai, Sang Ho Choi, Hasi Huhe, Julia Kofler, Peter L Strick, Gregory W. Carter, and Afonso C Silva
Phenotyping mice with skin, hair, or nail abnormalities: A systematic approach and methodologies from simple to complex., John P Sundberg and Robert H Rice
The Role of FAS Receptor Methylation in Osteosarcoma Metastasis., Jiayi M Sun, Wing-Yuk Chow, Gufeng Xu, M John Hicks, Manjula Nakka, Jianhe Shen, Patrick Ks Ng, Aaron M Taylor, Alexander Yu, Jason E Farrar, Donald A Barkauskas, Richard Gorlick, Jaime M Guidry Auvil, Daniela Gerhard, Paul Meltzer, Rudy Guerra, Tsz-Kwong Man, Ching C Lau, and On Behalf Of The Target Osteosarcoma Consortium
Two new mouse models of Gjb1-associated Charcot-Marie-Tooth disease type 1X., A L D Tadenev, C L Hatton, B Pattavina, T Mullins, Robert Schneider, Laurent P. Bogdanik, and Robert W. Burgess
A universal method for generating knockout mice in multiple genetic backgrounds using zygote electroporation., Tomohiro Tamari, Yoshihisa Ikeda, Kento Morimoto, Keiko Kobayashi, Saori Mizuno-Iijima, Shinya Ayabe, Akihiro Kuno, Seiya Mizuno, and Atsushi Yoshiki
Human Patient-Derived Brain Tumor Models to Recapitulate Ependymoma Tumor Vasculature., Min D Tang-Schomer, Markus J Bookland, Jack E Sargent, and Taylor N Jackvony
Whole Genome Resequencing Reveals Genetic Diversity and Selection Signatures of Ethiopian Indigenous Cattle Adapted to Local Environments, Endashaw Terefe, Gurja Belay, Abdulfatai Tijjani, Jianlin Han, and Oliver Hanotte
Temporal Progression of Aortic Valve Pathogenesis in a Mouse Model of Osteogenesis Imperfecta., Kaitlyn Thatcher, Carol R Mattern, Daniel Chaparro, Veronica Goveas, Michael R McDermott, Jessica Fulton, Joshua D Hutcheson, Brian Hoffmann, and Joy Lincoln
Early radial positional information in the cochlea is optimized by a precise linear BMP gradient and enhanced by SOX2., Matthew J Thompson, Caryl A Young, Vidhya Munnamalai, and David M Umulis
Harnessing large language models (LLMs) for candidate gene prioritization and selection., Mohammed Toufiq, Darawan Rinchai, Eleonore Bettacchioli, Basirudeen Syed Ahamed Kabeer, Taushif Khan, Bishesh Subba, Olivia White, Marina Yurieva, Joshy George, Noemie Jourde-Chiche, Laurent Chiche, Karolina Palucka, and Damien Chaussabel
The microbial community dynamics of cocaine sensitization in two behaviorally divergent strains of collaborative cross mice., Thi Dong Binh Tran, Christian Monroy Hernandez, Hoan Nguyen, Susan Wright, Center for Systems Neurogenetics of Addiction, Lisa M Tarantino, Elissa J Chesler, George M. Weinstock, Yanjiao Zhou, and Jason A. Bubier
A structural variant at ASIP associated with the darkness of hair coat is found in multiple zebu cattle populations., Beatriz Batista Trigo, Natália Fonseca Alves, Marco Milanesi, José Fernando Garcia, Endashaw Terefe, Olivier Hanotte, Abdulfatai Tijjani, and Yuri Tani Utsunomiya
Editorial: Physiology in extreme conditions: Adaptations and unexpected reactions, Volume II., Maria G Trivella, Enrico Capobianco, and Antonio L'Abbate
Variation in histone configurations correlates with gene expression across nine inbred strains of mice., Anna L. Tyler, Catrina Spruce, Romy Kursawe, Annat Haber, Robyn L Ball, Wendy A Pitman, Alexander D Fine, Narayanan Raghupathy, Michael Walker, Vivek M. Philip, Christopher L. Baker, J Matthew Mahoney, Gary Churchill, Jennifer J. Trowbridge, Michael L. Stitzel, Kenneth Paigen, Petko M. Petkov, and Gregory W. Carter
The promises of large language models for protein design and modeling., Giorgio Valentini, Dario Malchiodi, Jessica Gliozzo, Marco Mesiti, Mauricio Soto-Gomez, Alberto Cabri, Justin Reese, Elena Casiraghi, and Peter N Robinson
Longitudinal characteristics of T2-FLAIR mismatch in IDH-mutant astrocytomas: Relation to grade, histopathology, and overall survival in the GLASS-NL cohort., Karin A van Garderen, Wies R Vallentgoed, Anna Lavrova, Johanna M Niers, Wendy W J de Leng, Youri Hoogstrate, Iris de Heer, Bauke Ylstra, Erik van Dijk, Stefan Klein, Kaspar Draaisma, Pierre A J T Robe, Roel G W Verhaak, Bart A Westerman, Pim J French, Martin J van den Bent, Mathilde C M Kouwenhoven, Johan M Kros, Pieter Wesseling, and Marion Smits
Post-exertional malaise among people with long COVID compared to myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS)., Suzanne D Vernon, Megan Hartle, Karen Sullivan, Jennifer Bell, Saeed Abbaszadeh, Derya Unutmaz, and Lucinda Bateman
Microbiome modulates immunotherapy response in cutaneous squamous cell carcinoma, Anita Y Voigt, Andrew Walter, Timothy Young, John P Graham, Bruna M. Batista Bittencourt, Alvero de Mingo Pulido, Karol Prieto, Kenneth Y. Tsai, John P Sundberg, and Julia Oh
Genetic risk converges on regulatory networks mediating early type 2 diabetes., John T Walker, Diane C Saunders, Vivek Rai, Hung-Hsin Chen, Peter Orchard, Chunhua Dai, Yasminye D Pettway, Alexander L Hopkirk, Conrad V Reihsmann, Yicheng Tao, Simin Fan, Shristi Shrestha, Arushi Varshney, Lauren E Petty, Jordan J Wright, Christa Ventresca, Samir Agarwala, Radhika Aramandla, Greg Poffenberger, Regina Jenkins, Shaojun Mei, Nathaniel J Hart, Sharon Phillips, Hakmook Kang, Dale L Greiner, Leonard D. Shultz, Rita Bottino, Jie Liu, Jennifer E Below, The HPAP Consortium, Stephen C J Parker, Alvin C Powers, and Marcela Brissova
Modulation of RNA splicing enhances response to BCL2 inhibition in leukemia., Eric Wang, Jose Mario Bello Pineda, Won Jun Kim, Sisi Chen, Jessie Bourcier, Maximilian Stahl, Simon J Hogg, Jan Phillipp Bewersdorf, Cuijuan Han, Michael E Singer, Daniel Cui, Caroline E Erickson, Steven M Tittley, Alexander V Penson, Katherine Knorr, Robert F Stanley, Jahan Rahman, Gnana Krishnamoorthy, James A Fagin, Emily Creger, Elizabeth McMillan, Chi-Ching Mak, Matthew Jarvis, Carine Bossard, Darrin M Beaupre, Robert K Bradley, and Omar Abdel-Wahab
TMEM161B modulates radial glial scaffolding in neocortical development., Lu Wang, Caleb Heffner, Keng Ioi Vong, Chelsea Barrows, Yoo-Jin Ha, Sangmoon Lee, Pablo Lara-Gonzalez, Ishani Jhamb, Dennis Van Der Meer, Robert Loughnan, Nadine Parker, David Sievert, Swapnil Mittal, Mahmoud Y Issa, Ole A Andreassen, Anders Dale, William B Dobyns, Maha S Zaki, Stephen A Murray, and Joseph G Gleeson
Rate of tau propagation is a heritable disease trait in genetically diverse mouse strains., Lindsay A Welikovitch, Simon Dujardin, Amy R Dunn, Analiese R Fernandes, Anita Khasnavis, Lori B Chibnik, Catherine Kaczorowski, and Bradley T Hyman
Identification, validation and biological characterisation of novel glioblastoma tumour microenvironment subtypes: implications for precision immunotherapy., K White, K Connor, M Meylan, A Bougoüin, M Salvucci, F Bielle, A C O'Farrell, K Sweeney, L Weng, G Bergers, P Dicker, D M Ashley, E S Lipp, J T Low, J Zhao, P Wen, R Prins, M Verreault, A Idbaih, A Biswas, J H M Prehn, D Lambrechts, I Arijs, F Lodi, G Dilcan, M Lamfers, S Leenstra, F Fabro, I Ntafoulis, J M Kros, J Cryan, F Brett, E Quissac, A Beausang, S MacNally, P O'Halloran, J Clerkin, O Bacon, A Kremer, R T Chi Yen, Frederick S Varn, Roel G W Verhaak, C Sautès-Fridman, W H Fridman, and A T Byrne
Age-related changes to adipose tissue and peripheral neuropathy in genetically diverse HET3 mice differ by sex and are not mitigated by rapamycin longevity treatment., Jake W Willows, Morganne Robinson, Zahra Alshahal, Samantha K Morrison, Gargi Mishra, Harrison Cyr, Magdalena Blaszkiewicz, Gilian Gunsch, Sabrina DiPietro, Emma Paradie, Benjamin Tero, Anne Harrington, Larisa Ryzhova, Lucy Liaw, Peter C. Reifsnyder, David E Harrison, and Kristy L Townsend
Glucose oxidation-dependent survival of activated B cells provides a putative novel therapeutic target for lupus treatment., John J Wilson, Jian Wei, Andrea R Daamen, John D Sears, Elaine Bechtel, Colleen L Mayberry, Grace Stafford, Lesley S Bechtold, Amrie C Grammer, Peter E Lipsky, Derry C. Roopenian, and Chih-Hao Chang
3D-bioprinting of patient-derived cardiac tissue models for studying congenital heart disease., Jayne T Wolfe, Wei He, Min-Su Kim, Huan-Ling Liang, Akankshya Shradhanjali, Hilda Jurkiewicz, Bonnie P Freudinger, Andrew S Greene, John F LaDisa, Lobat Tayebi, Michael E Mitchell, Aoy Tomita-Mitchell, and Brandon J Tefft
Misregulation of mitochondria-lysosome contact dynamics in Charcot-Marie-Tooth Type 2B disease Rab7 mutant sensory peripheral neurons, Yvette C. Wong, Nirupa D. Jayaraj, Tayler B. Belton, George C. Shum, Hannah E. Ball, Dongjun Ren, Abby Tadenev, Dimitri Krainc, Robert W. Burgess, and Daniela M. Menichella
Rapid Evolution of the Fine-scale Recombination Landscape in Wild House Mouse (Mus musculus) Populations., Lydia K Wooldridge and Beth L Dumont
SEESAW: detecting isoform-level allelic imbalance accounting for inferential uncertainty., Euphy Y Wu, Noor P Singh, Kwangbom Choi, Mohsen Zakeri, Matthew J Vincent, Gary Churchill, Cheryl L Ackert-Bicknell, Rob Patro, and Michael I Love
Combining the Tyrosine Kinase Inhibitor Cabozantinib and the mTORC1/2 Inhibitor Sapanisertib Blocks ERK Pathway Activity and Suppresses Tumor Growth in Renal Cell Carcinoma., Yige Wu, Siqi Chen, Xiaolu Yang, Kazuhito Sato, Preet Lal, Yuefan Wang, Andrew T Shinkle, Michael C Wendl, Tina M Primeau, Yanyan Zhao, Alanna Gould, Hua Sun, Jacqueline L Mudd, Jeremy Hoog, R Jay Mashl, Matthew A Wyczalkowski, Chia-Kuei Mo, Ruiyang Liu, John M Herndon, Sherri R Davies, Di Liu, Xi Ding, Yvonne A Evrard, Bryan E Welm, David Lum, Mei Yee Koh, Alana L Welm, Jeffrey Chuang, Jeffrey A Moscow, Funda Meric-Bernstam, Ramaswamy Govindan, Shunqiang Li, James Hsieh, Ryan C Fields, Kian-Huat Lim, Cynthia X Ma, Hui Zhang, Li Ding, and Feng Chen
Epigenetic and transcriptomic characterization reveals progression markers and essential pathways in clear cell renal cell carcinoma., Yige Wu, Nadezhda V Terekhanova, Wagma Caravan, Nataly Naser Al Deen, Preet Lal, Siqi Chen, Chia-Kuei Mo, Song Cao, Yize Li, Alla Karpova, Ruiyang Liu, Yanyan Zhao, Andrew Shinkle, Ilya Strunilin, Cody Weimholt, Kazuhito Sato, Lijun Yao, Mamatha Serasanambati, Xiaolu Yang, Matthew Wyczalkowski, Houxiang Zhu, Daniel Cui Zhou, Reyka G Jayasinghe, Daniel Mendez, Michael C Wendl, David Clark, Chelsea Newton, Yijun Ruan, Melissa A Reimers, Russell K Pachynski, Chris Kinsinger, Scott Jewell, Daniel W Chan, Hui Zhang, Aadel A Chaudhuri, Milan G Chheda, Benjamin D Humphreys, Mehdi Mesri, Henry Rodriguez, James J Hsieh, Li Ding, and Feng Chen
Robust enhancer-gene regulation identified by single-cell transcriptomes and epigenomes., Fangming Xie, Ethan J Armand, Zizhen Yao, Hanqing Liu, Anna Bartlett, M Margarita Behrens, Yang Eric Li, Jacinta D Lucero, Chongyuan Luo, Joseph R Nery, Antonio Pinto-Duarte, Olivier B Poirion, Sebastian Preissl, Angeline C Rivkin, Bosiljka Tasic, Hongkui Zeng, Bing Ren, Joseph R Ecker, and Eran A Mukamel
Multi-'omics of gut microbiome-host interactions in short- and long-term myalgic encephalomyelitis/chronic fatigue syndrome patients., Ruoyun Xiong, Courtney Gunter, Elizabeth Fleming, Suzanne D Vernon, Lucinda Bateman, Derya Unutmaz, and Julia Oh
The functional and evolutionary impacts of human-specific deletions in conserved elements., James R Xue, Ava Mackay-Smith, Kousuke Mouri, Meilin Fernandez Garcia, Michael X Dong, Jared F Akers, Mark Noble, Xue Li, Zoonomia Consortium, Kerstin Lindblad-Toh, Elinor K Karlsson, James P Noonan, Terence D Capellini, Kristen J Brennand, Ryan Tewhey, Pardis C Sabeti, and Steven K Reilly
Chromophore supply modulates cone function and survival in retinitis pigmentosa mouse models., Yunlu Xue, Xiaomei Sun, Sean K Wang, Gayle B. Collin, Vladimir J Kefalov, and Constance L Cepko
Characterization of huntingtin interactomes and their dynamic responses in living cells by proximity proteomics., Hongyuan Xu, Johanna Bensalel, Sunil Raju, Enrico Capobianco, Michael L Lu, and Jianning Wei
Pkhd1, Chaozhe Yang, Naoe Harafuji, Ljubica Caldovic, Weiying Yu, Ravindra Boddu, Surajit Bhattacharya, Hayk Barseghyan, Heather Gordish-Dressman, Oded Foreman, Zsuzsa Bebok, Eva M Eicher, and Lisa M Guay-Woodford
Simultaneous evaluation of treatment efficacy and toxicity for bispecific T-cell engager therapeutics in a humanized mouse model., Jiwon Yang, Jing Jiao, Kyle Draheim, Guoxiang Yang, Hongyuan Yang, Li-Chin Yao, Leonard D. Shultz, Dale L Greiner, Deepa Rajagopal, Sandrine Vessillier, Curtis C Maier, Sunish Mohanan, Danying Cai, Mingshan Cheng, Michael A Brehm, and James G. Keck
Sex Differences in Immune System Aging and Responsiveness to Vaccination., Steven Yanicke and Duygu Ucar
Deletion of Vβ3, Cheng Ye, Sadie A Clements, Weihong Gu, Aron M Geurts, Clayton E Mathews, David V. Serreze, Yi-Guang Chen, and John P Driver
Driver Mutations Dictate the Immunologic Landscape and Response to Checkpoint Immunotherapy of Glioblastoma., Alan T Yeo, Rushil Shah, Konstantinos Aliazis, Rinku Pal, Tuoye Xu, Piyan Zhang, Shruti Rawal, Christopher M Rose, Frederick S Varn, Vicky A Appleman, Joon Yoon, Hemant Varma, Steven P Gygi, Roel G W Verhaak, Vassiliki A Boussiotis, and Al Charest
Long-term effects of canagliflozin treatment on the skeleton of aged UM-HET3 mice., Gozde Yildirim, Edmara T P Bergamo, Sher Bahadur Poudel, Ryan R Ruff, Manisha Dixit, Bin Hu, Dindo Q Mijares, Lukasz Witek, Carolyn Chlebek, David E Harrison, Randy Strong, Richard A Miller, Warren Ladiges, Timothy G Bromage, Clifford J Rosen, and Shoshana Yakar
High level of complexity and global diversity of the 3q29 locus revealed by optical mapping and long-read sequencing., Feyza Yilmaz, Umamaheswaran Gurusamy, Trenell J Mosley, Pille Hallast, Kwondo Kim, Yulia Mostovoy, Ryan H Purcell, Tamim H Shaikh, Michael E Zwick, Pui-Yan Kwok, Charles Lee, and Jennifer G Mulle
The Fungal Microbiome of the Upper Airway Is Associated With Future Loss of Asthma Control and Exacerbation Among Children With Asthma., Hanshu Yuan, Zhongmao Liu, Jinhong Dong, Leonard B Bacharier, Daniel Jackson, David Mauger, Homer Boushey, Mario Castro, Juliana Durack, Yvonne J Huang, Robert F Lemanske, Gregory A Storch, George M. Weinstock, Kristine Wylie, Ronina Covar, Anne M Fitzpatrick, Wanda Phipatanakul, Rachel G Robison, Avraham Beigelman, and Yanjiao Zhou
An integrative approach for exploring the nature of fibroepithelial neoplasms., Jihui Yun, Woohang Heo, Eun-Shin Lee, Deukchae Na, Wonyoung Kang, Jinjoo Kang, Jeesoo Chae, Dakyung Lee, Woochan Lee, Jinha Hwang, Tae-Kyung Yoo, Bok Sil Hong, Hye-Youn Son, Dong-Young Noh, Charles Lee, Hyeong-Gon Moon, and Jong-Il Kim
Sample multiplexing-based targeted pathway proteomics with real-time analytics reveals the impact of genetic variation on protein expression., Qing Yu, Xinyue Liu, Mark P Keller, Jose Navarrete-Perea, Tian Zhang, Sipei Fu, Laura P Vaites, Steven R Shuken, Ernst Schmid, Gregory R Keele, Jiaming Li, Edward L Huttlin, Edrees H Rashan, Judith Simcox, Gary Churchill, Devin K Schweppe, Alan D Attie, Joao A Paulo, and Steven P Gygi
Translocation and metabolism of tricresyl phosphate in rice and microbiome system: Isomer-specific processes and overlooked metabolites., Yuanyuan Yu, Jiahui Huang, Ling Jin, Miao Yu, Xiaolong Yu, Xifen Zhu, Jianteng Sun, and Lizhong Zhu
Biotransformation of Organophosphate Esters by Rice and Rhizosphere Microbiome: Multiple Metabolic Pathways, Mechanism, and Toxicity Assessment., Yuanyuan Yu, Xiaolong Yu, Dongqing Zhang, Ling Jin, Jiahui Huang, Xifen Zhu, Jianteng Sun, Miao Yu, and Lizhong Zhu
Genetic mapping of microbial and host traits reveals production of immunomodulatory lipids by Akkermansia muciniphila in the murine gut., Qijun Zhang, Vanessa Linke, Katherine A Overmyer, Lindsay L Traeger, Kazuyuki Kasahara, Ian J Miller, Daniel E Manson, Thomas J Polaske, Robert L Kerby, Julia H Kemis, Edna A Trujillo, Thiru R Reddy, Jason D Russell, Kathryn L Schueler, Donald S Stapleton, Mary E Rabaglia, Marcus Seldin, Daniel M Gatti, Gregory R Keele, Duy T Pham, Joseph P Gerdt, Eugenio I Vivas, Aldons J Lusis, Mark P Keller, Gary Churchill, Helen E Blackwell, Karl W Broman, Alan D Attie, Joshua J Coon, and Federico E Rey
Multi-omics analysis identifies drivers of protein phosphorylation., Tian Zhang, Gregory R Keele, Isabela Gerdes Gyuricza, Matthew J Vincent, Catherine Brunton, Timothy A Bell, Pablo Hock, Ginger D Shaw, Steven C. Munger, Fernando Pardo-Manuel de Villena, Martin T Ferris, Joao A Paulo, Steven P Gygi, and Gary Churchill
GARP on hepatic stellate cells is essential for the development of liver fibrosis, Xiaolong Zhang, Pankaj Sharma, Patrick Maschmeyer, Yu Hu, Mumeng Lou, Jessica Kim, Hodaka Fujii, Derya Unutmaz, Robert F. Schwabe, and Florian Winau
Vitamin D and microRNAs, Hengguang Zhao, Marianela Forcellati, Damien Buschittari, John E. Heckel, Christopher J. Machado, Sri Ramulu N Pullagura, and Thomas S. Lisse
Perfluorooctanesulfonic Acid and Perfluorooctanoic Acid Promote Migration of Three-Dimensional Colorectal Cancer Spheroids., Jie Zheng, Boshi Sun, Domenica Berardi, Lingeng Lu, Hong Yan, Shujian Zheng, Oladimeji Aladelokun, Yangzhouyun Xie, Yujun Cai, Krystal J Godri Pollitt, Sajid A Khan, and Caroline H Johnson
Integrative deep learning analysis improves colon adenocarcinoma patient stratification at risk for mortality., Jie Zhou, Ali Foroughi Pour, Hany Deirawan, Fayez Daaboul, Thazin Nwe Aung, Rafic Beydoun, Fahad Shabbir Ahmed, and Jeffrey Chuang
Skin microbiome attributes associate with biophysical skin ageing., Wei Zhou, Elizabeth Fleming, Guylaine Legendre, Lauriane Roux, Julie Latreille, Gaëlle Gendronneau, Sandra Forestier, and Julia Oh
On the dependent recognition of some long zinc finger proteins., Zheng Zuo, Timothy Billings, Michael Walker, Petko M. Petkov, Polly M Fordyce, and Gary D Stormo
Submissions from 2022
Behavioral phenotypes revealed during reversal learning are linked with novel genetic loci in diversity outbred mice., Jared R Bagley, Lauren S Bailey, Leona H. Gagnon, Hao He, Vivek M. Philip, Laura G Reinholdt, Lisa M Tarantino, Elissa J Chesler, and James D Jentsch
The Mouse Online: Open Mouse Biology and Pathology Data Resources for Biomedical Research, Dale A. Begley, Paul N. Schofield, and John P Sundberg
Overview of triple negative breast cancer prognostic signatures in the context of data science-driven clinico-genomics research., Enrico Capobianco
Sex-specific role of myostatin signaling in neonatal muscle growth, denervation atrophy, and neuromuscular contractures., Marianne E Emmert, Parul Aggarwal, Kritton Shay-Winkler, Se-Jin Lee, Qingnian Goh, and Roger Cornwall
3D-Epigenomic Regulation of Gene Transcription in Hepatocellular Carcinoma., Yuliang Feng, Ping Wang, Liuyang Cai, Meixiao Zhan, Fan He, Jiahui Wang, Yong Li, Eva Gega, Wei Zhang, Wei Zhao, Yongjie Xin, Xudong Chen, Yijun Ruan, and Ligong Lu
Cancer stem cells, not bulk tumor cells, determine mechanisms of resistance to SMO inhibitors., Joshy George, Yaohui Chen, Nourhan Abdelfattah, Keiko Yamamoto, Thomas D Gallup, Scott I Adamson, Brad Rybinski, Anuj Srivastava, Parveen Kumar, Min Gyu Lee, David S Baskin, Wen Jiang, Jong Min Choi, William Flavahan, Jeffrey Chuang, Betty Ys Kim, Jiaqiong Xu, Sung Yun Jung, and Kyuson Yun