TMC-GCID Publications

Found 49 results
2024
Lewis MA, Patil K, Ettayebi K, Estes MK, Atmar RL, Ramani S. Divergent responses of human intestinal organoid monolayers using commercial in vitro cytotoxicity assays. PLoS One. 2024 ;19(6):e0304526.
Joshi CS, Salazar AM, Wang C, Ligon MM, Chappidi RR, Fashemi BE, et al.. D-Mannose reduces cellular senescence and NLRP3/GasderminD/IL-1β-driven pyroptotic uroepithelial cell shedding in the murine bladder. Dev Cell. 2024 ;59(1):33-47.e5.
Henke D, Piedra F-A, Avadhanula V, Doddapaneni H, Muzny DM, Menon VK, et al.. Examining intra-host genetic variation of RSV by short read high-throughput sequencing. bioRxiv. 2024 ;.
Adeniyi-Ipadeola GO, Hankins JD, Kambal A, Zeng X-L, Patil K, Poplaski V, et al.. Infant and adult human intestinal enteroids are morphologically and functionally distinct. mBio. 2024 ;15(8):e0131624.
Dylus D, Altenhoff A, Majidian S, Sedlazeck FJ, Dessimoz C. Inference of phylogenetic trees directly from raw sequencing reads using Read2Tree. Nat Biotechnol. 2024 ;42(1):139-147.
Avadhanula V, Agustinho DPaiva, Menon VKumar, Chemaly RF, Shah DP, Qin X, et al.. Inter and intra-host diversity of RSV in hematopoietic stem cell transplant adults with normal and delayed viral clearance. Virus Evol. 2024 ;10(1):vead086.
Ramani S, Cregeen SJJavornik, Surathu A, Neill FH, Muzny DM, Doddapaneni H, et al.. INTRA- AND INTER-HOST EVOLUTION OF HUMAN NOROVIRUS IN HEALTHY ADULTS. bioRxiv. 2024 ;.
Aloisio GM, Nagaraj D, Murray AM, Schultz EM, McBride T, Aideyan L, et al.. Pediatric human nose organoids demonstrate greater susceptibility, epithelial responses, and cytotoxicity than adults during RSV infection. bioRxiv. 2024 ;.
Xing Y, Clark JR, Chang JD, Zulk JJ, Chirman DM, Piedra F-A, et al.. Progress toward a vaccine for extraintestinal pathogenic (ExPEC) II: efficacy of a toxin-autotransporter dual antigen approach. Infect Immun. 2024 ;92(5):e0044023.
Chappell CL, Hoffman KL, Lorenzi PL, Tan L, Petrosino J, Gibbs R, et al.. Tryptophan Metabolites And Their Predicted Microbial Sources In Fecal Samples From Healthy Individuals. bioRxiv. 2024 ;.
Qiu L, Chirman D, Clark JR, Xing Y, Santos HHernandez, Vaughan EE, et al.. Vaccines against extraintestinal pathogenic (ExPEC): progress and challenges. Gut Microbes. 2024 ;16(1):2359691.
2023
Xing Y, Clark JR, Chang JD, Chirman DM, Green S, Zulk JJ, et al.. Broad protective vaccination against systemic Escherichia coli with autotransporter antigens. PLoS Pathog. 2023 ;19(2):e1011082.
B Ayyar V, Ettayebi K, Salmen W, Karandikar UC, Neill FH, Tenge VR, et al.. CLIC and membrane wound repair pathways enable pandemic norovirus entry and infection. Nat Commun. 2023 ;14(1):1148.
Carter H, Clark J, Carlin LG, Vaughan E, Rajan A, Olvera A, et al.. Functional Genomics of Gastrointestinal Isolated from Patients with Cancer and Diarrhea. bioRxiv. 2023 ;.
Majidian S, Agustinho DPaiva, Chin C-S, Sedlazeck FJ, Mahmoud M. Genomic variant benchmark: if you cannot measure it, you cannot improve it. Genome Biol. 2023 ;24(1):221.
Avadhanula V, Creighton C, Ferlic-Stark L, Sucgang R, Zhang Y, Nagaraj D, et al.. Longitudinal host transcriptional responses to SARS-CoV-2 infection in adults with extremely high viral load. Res Sq. 2023 ;.
Su L, Huang W, Neill FH, Estes MK, Atmar RL, Palzkill T. Mapping human norovirus antigens during infection reveals the breadth of the humoral immune response. NPJ Vaccines. 2023 ;8(1):87.
Poplaski V, Sawyer F, Blutt SE. THE SMALL INTESTINAL MICROBIOME: VIBING WITH INTESTINAL STEM CELLS. Microbiota Host. 2023 ;1(1).
Lewis MA, Cortés-Penfield NW, Ettayebi K, Patil K, Kaur G, Neill FH, et al.. Standardization of an antiviral pipeline for human norovirus in human intestinal enteroids demonstrates nitazoxanide has no to weak antiviral activity. Antimicrob Agents Chemother. 2023 ;67(10):e0063623.
Lewis MA, Cortés-Penfield NW, Ettayebi K, Patil K, Kaur G, Neill FH, et al.. A Standardized Antiviral Pipeline for Human Norovirus in Human Intestinal Enteroids Demonstrates No Antiviral Activity of Nitazoxanide. bioRxiv. 2023 ;.
Tisza M, Cregeen SJavornik, Avadhanula V, Zhang P, Ayvaz T, Feliz K, et al.. Wastewater sequencing reveals community and variant dynamics of the collective human virome. Nat Commun. 2023 ;14(1):6878.
2022
Menon VK, Okhuysen PC, Chappell CL, Mahmoud M, Mahmoud M, Meng Q, et al.. Fully resolved assembly of Cryptosporidium parvum. Gigascience. 2022 ;11.
DiNardo AR, Gandhi T, Heyckendorf J, Grimm SL, Rajapakshe K, Nishiguchi T, et al.. Gene expression signatures identify biologically and clinically distinct tuberculosis endotypes. Eur Respir J. 2022 ;60(3).
Lin S-C, Haga K, Zeng X-L, Estes MK. Generation of CRISPR-Cas9-mediated genetic knockout human intestinal tissue-derived enteroid lines by lentivirus transduction and single-cell cloning. Nat Protoc. 2022 ;17(4):1004-1027.
Martins FH, Rajan A, Carter HE, Baniasadi HR, Maresso AW, Sperandio V. Interactions between Enterohemorrhagic Escherichia coli (EHEC) and Gut Commensals at the Interface of Human Colonoids. mBio. 2022 ;13(3):e0132122.