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14 results on '"Strugnell, Tod"'

1. The antigenic landscape of human influenza N2 neuraminidases from 2009 until 2017

Author

Catani, João Paulo Portela, primary, Smet, Anouk, additional, Ysenbaert, Tine, additional, Vuylsteke, Marnik, additional, Bottu, Guy, additional, Mathys, Janick, additional, Botzki, Alexander, additional, Cortes-Garcia, Guadalupe, additional, Strugnell, Tod, additional, Gomila, Raul, additional, Hamberger, John, additional, Catalan, John, additional, Ustyugova, Irina V, additional, Farrell, Timothy, additional, Stegalkina, Svetlana, additional, Ray, Satyajit, additional, LaRue, Lauren, additional, Saelens, Xavier, additional, and Vogel, Thorsten U, additional

Published
2024
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2. Author response: The antigenic landscape of human influenza N2 neuraminidases from 2009 until 2017

Author

Catani, João Paulo Portela, primary, Smet, Anouk, additional, Ysenbaert, Tine, additional, Vuylsteke, Marnik, additional, Bottu, Guy, additional, Mathys, Janick, additional, Botzki, Alexander, additional, Cortes-Garcia, Guadalupe, additional, Strugnell, Tod, additional, Gomila, Raul, additional, Hamberger, John, additional, Catalan, John, additional, Ustyugova, Irina V, additional, Farrell, Timothy, additional, Stegalkina, Svetlana, additional, Ray, Satyajit, additional, LaRue, Lauren, additional, Saelens, Xavier, additional, and Vogel, Thorsten U, additional

Published
2024
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4. The antigenic landscape of human influenza N2 neuraminidases from 2009 until 2017

Author

Portela Catani, João Paulo, primary, Smet, Anouk, additional, Ysenbaert, Tine, additional, Vuylsteke, Marnik, additional, Bottu, Guy, additional, Mathys, Janick, additional, Botzki, Alexander, additional, Cortes-Garcia, Guadalupe, additional, Strugnell, Tod, additional, Gomila, Raul, additional, Hamberger, John, additional, Catalan, John, additional, Ustyugova, Irina V., additional, Farrell, Timothy, additional, Stegalkina, Svetlana, additional, Ray, Satyajit, additional, LaRue, Lauren, additional, Saelens, Xavier, additional, and Vogel, Thorsten U., additional

Published
2023
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6. Corrigendum to “A computationally designed H5 antigen shows immunological breadth of coverage and protects against drifting avian strains” [Vaccine 37 (2019) 2369–2376]

Author

Ross, Ted M., primary, DiNapoli, Joshua, additional, Giel-Moloney, Maryann, additional, Bloom, Chalise E., additional, Bertran, Kateri, additional, Balzli, Charles, additional, Strugnell, Tod, additional, Oomen, Raymond P., additional, Sá e Silva, Mariana, additional, Mebatsion, Teshome, additional, Bublot, Michel, additional, Swayne, David E., additional, and Kleanthous, Harry, additional

Published
2019
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7. A computationally designed H5 antigen shows immunological breadth of coverage and protects against drifting avian strains

Author

Ross, Ted M., primary, DiNapoli, Joshua, additional, Giel-Moloney, Maryann, additional, Bloom, Chalise E., additional, Bertran, Kateri, additional, Balzli, Charles, additional, Strugnell, Tod, additional, Sá e Silva, Mariana, additional, Mebatsion, Teshome, additional, Bublot, Michel, additional, Swayne, David E., additional, and Kleanthous, Harry, additional

Published
2019
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8. Design and Characterization of a Computationally Optimized Broadly Reactive Hemagglutinin Vaccine for H1N1 Influenza Viruses

Author

Carter, Donald M., primary, Darby, Christopher A., additional, Lefoley, Bradford C., additional, Crevar, Corey J., additional, Alefantis, Timothy, additional, Oomen, Raymond, additional, Anderson, Stephen F., additional, Strugnell, Tod, additional, Cortés-Garcia, Guadalupe, additional, Vogel, Thorsten U., additional, Parrington, Mark, additional, Kleanthous, Harold, additional, and Ross, Ted M., additional

Published
2016
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11. In SituDetection of Messenger RNA Using Digoxigenin-Labeled Oligonucleotides and Rolling Circle Amplification

Author

Zhou, Yi, Calciano, Margaret, Hamann, Stefan, Leamon, J.H., Strugnell, Tod, Christian, Matthew W., and Lizardi, Paul M.

Abstract

The detection of specific RNA molecules in situis routinely performed using haptenated probes, which are detected by either enzymatic amplification or direct fluorescence. A drawback of fluorescence labeling has been the reduced sensitivity relative to that of methods that use enzymes as signal generators. Reliable fluorescence detection methods often require the use of multiple oligonucleotide probes for each gene target. Here, we demonstrate that single haptenated DNA probes specific for actin mRNA may be detected in situusing antibody-coupled rolling circle amplification (immuno-RCA). This fluorescence-based detection method offers remarkable sensitivity due to the use of signal amplification and yet retains the ability to count hybridization signals as discrete objects. We demonstrate the detection of actin-specific immuno-RCA signals in the cytoplasm and use 3D image deconvolution of multiple zaxis sections to show that there are hundreds of signals per cell. With some modifications, this method may be adaptable to the simultaneous detection of several RNA species, including low-copy-number mRNA.

Published
2001
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12. Effects of cyclin A2 noncoding regions on reporter gene translation during early development of <TOGGLE>Xenopus laevis</TOGGLE>

Author

Strugnell, Tod D. and Browder, Leon W.

Abstract

The repression of translation of Xenopus cyclin A2 transcripts during early development was examined by analyzing the effects of cyclin A2 noncoding regions using a CAT reporter system. On their own, the 5' and 3' UTRs (untranslated regions) were unable to inhibit reporter translation until approximately the time of the midblastula transition. Transcripts containing the 3' UTR were polyadenylated after fertilization and the midblastula transition. When both noncoding regions flanked a CAT reporter gene, translation was repressed at all stages of development examined in spite of their polyadenylation after fertilization. From these data, we conclude that the 5' and 3' UTRs interact synergistically to prevent translation during early development and that the poly(A) tail is insufficient to promote their translation. Dev. Genet. 21:134–145, 1997. © 1997 Wiley-Liss, Inc.

Published
1997
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13. CodonBert large language model for mRNA vaccines.

Author

Li S, Moayedpour S, Li R, Bailey M, Riahi S, Kogler-Anele L, Miladi M, Miner J, Pertuy F, Zheng D, Wang J, Balsubramani A, Tran K, Zacharia M, Wu M, Gu X, Clinton R, Asquith C, Skaleski J, Boeglin L, Chivukula S, Dias A, Strugnell T, Montoya FU, Agarwal V, Bar-Joseph Z, and Jager S

Abstract

mRNA-based vaccines and therapeutics are gaining popularity and usage across a wide range of conditions. One of the critical issues when designing such mRNAs is sequence optimization. Even small proteins or peptides can be encoded by an enormously large number of mRNAs. The actual mRNA sequence can have a large impact on several properties including expression, stability, immunogenicity, and more. To enable the selection of an optimal sequence, we developed CodonBERT, a large language model (LLM) for mRNAs. Unlike prior models, CodonBERT uses codons as inputs which enables it to learn better representations. CodonBERT was trained using more than 10 million mRNA sequences from a diverse set of organisms. The resulting model captures important biological concepts. CodonBERT can also be extended to perform prediction tasks for various mRNA properties. CodonBERT outperforms previous mRNA prediction methods including on a new flu vaccine dataset., (Published by Cold Spring Harbor Laboratory Press.)

Published
2024
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