TB
Tom Brown
Nucleic Acid ConformationDNAOligonucleotidesDNA Repairnanoparticlesclick chemistrycs.LGNucleic Acidsphysics.soc-phcell biology
On Valency
published · living versionsW_63ueycek·v1 · currentpublished
Discovering Language Model Behaviors with Model-Written Evaluations
with Ethan Perez, Sam Ringer, Kamilė Lukošiūtė, Karina Nguyen +58
1 version
Preprints & journals
252 papers in the corpus · 1983–2026A versatile strategy for oligonucleotide functionalization via on-support phosphitylation.42486949 · Dasgupta, Ayan, Golojuch, Sebastian, Xiao, Li et al.2026 · 0 citationsNature chemistry. 2026;18(10):1747-1754
Non-enzymatic conversion of RNA sequence information into DNA by squaramide ligation for accurate RNA quantification.42156547 · Taemaitree, Lapatrada, Burba, Friedrich, Harvey, Nina et al.2026 · 0 citationsCommunications chemistry. 2026;9(1)
5'-Palmitate Lipid and Internal LNA-Piperidyl Triesters Enhance the RNA Affinity and Activity of Splice-Switching Oligonucleotides.42262891 · Dhara, Debashis, Brown, Tom2026 · 0 citationsJournal of the American Chemical Society. 2026;148(24):25198-25209
Molecular basis for CSB stimulation of the SNM1A DNA repair nuclease.41333433 · Roddan, Rebecca, Schaich, Matthew A, Nathan, William J et al.2025 · 0 citationsResearch square. 2025
Unraveling single-molecule reactions via multiplexed in-situ DNA sequencing10.1101/2025.11.27.690701v1 · Hazra, J. P., Andrews, R., Turner, P. et al.2025 · 2 citationsbioRxiv
Biophysical and biological properties of splice-switching oligonucleotides and click conjugates containing LNA-phosphothiotriester linkages.41277693 · Dhara, Debashis, Hill, Alyssa C, Ramesh, Abinaya et al.2025 · 5 citationsNucleic acids research. 2025;53(21)
Enzymatic Synthesis of Modified RNA Containing 5-Methyl- or 5-Ethylpyrimidines or Substituted 7-Deazapurines and Influence of the Modifications on Stability, Translation, and CRISPR-Cas9 Cleavage.41194386 · Sanchez-Quirante, Tania, Kužmová, Erika, Riopedre-Fernandez, Miguel et al.2025 · 4 citationsACS chemical biology. 2025;20(11):2755-2767
Synthesis, Biological Activity, and Molecular Dynamics Simulations of LNA-Charge Neutral Linkages for Enhanced Splice-Switching Antisense Oligonucleotides.40977082 · Kennett, Alice, Lie, Lillian, Flerin, Martin et al.2025 · 4 citationsAngewandte Chemie (International ed. in English). 2025;64(46):e202511386
Offshore power and hydrogen networks for Europe's North Sea2404.09721v1 · Philipp Glaum, Fabian Neumann, Tom Brown2024 · 37 citationsarXiv
Enhancing cap-independent translation of linear mRNA.41102175 · Golojuch, Sebastian, Largey, Brendan, El-Sagheer, Afaf H et al.2025 · 5 citationsNature communications. 2025;16(1):9205
Molecular basis for CSB stimulation of the SNM1A DNA repair nuclease10.1101/2024.09.05.611390v2 · Roddan, R., Schaich, M. A., Nathan, W. J. et al.2024 · 2 citationsbioRxiv
New Approach to Assembling Nucleic Acid Dendrons on a Solid Phase.40833369 · Chik, Gerald J, El-Sagheer, Afaf H, Brown, Tom2025 · 1 citationOrganic letters. 2025;27(34):9500-9505
Shifting burdens: How delayed decarbonisation of road transport affects other sectoral emission reductions2502.02809v1 · Elisabeth Zeyen, Sina Kalweit, Marta Victoria et al.2025 · 18 citationsarXiv
Hierarchical Coordination of Polymerase Theta and RAD51 Resolves Clustered Replication Fork Collapse10.1101/2025.07.02.662846v1 · Smith, C., Simpson, D. A., Guerra, P. et al.2025 · 3 citationsbioRxiv
Stable end-sealed DNA as robust nano-rulers for in vivo single-molecule fluorescence.30155088 · Plochowietz, A, El-Sagheer, A H, Brown, T et al.2025 · 7 citationsChemical science. 2016;7(7):4418-4422
Squaramide-Based 5'-Phosphate Replacements Bind to the DNA Repair Exonuclease SNM1A.31414040 · Dürr, Eva-Maria, Doherty, William, Lee, Sook Y et al.2025 · 24 citationsChemistrySelect. 2018;3(45):12824-12829
An 111In-labelled bis-ruthenium(ii) dipyridophenazine theranostic complex: mismatch DNA binding and selective radiotoxicity towards MMR-deficient cancer cells.33815738 · Gill, Martin R, Walker, Michael G, Able, Sarah et al.2025 · 18 citationsChemical science. 2020;11(33):8936-8944
Single-cell RNA-sequence analysis of human bone marrow reveals new targets for isolation of skeletal stem cells using spherical nucleic acids.37216034 · Matthews, Elloise Z, Lanham, Stuart, White, Kate et al.2025 · 4 citationsJournal of tissue engineering. 2023;14:20417314231169375
Modular and automated synthesis of oligonucleotide-small molecule conjugates for cathepsin B mediated traceless release of payloads.39092443 · Jin, Cheng, Li, Siqi, Vallis, Katherine A et al.2025 · 5 citationsRSC chemical biology. 2024;5(8):738-744
Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences.39819888 · Sun, Jianfeng, Philpott, Martin, Loi, Danson et al.2025 · 6 citationsCommunications biology. 2025;8(1):67
Correction: Import options for chemical energy carriers from renewable sources to Germany.39854445 · Hampp, Johannes, Düren, Michael, Brown, Tom2025 · 0 citationsPloS one. 2025;20(1):e0314578
Spatio-temporal load shifting for truly clean computing2405.00036v1 · Iegor Riepin, Tom Brown, Victor Zavala2024 · 46 citationsAdv. Appl. Energy 17 (2025) 100202
Synthesis, Biophysical and Biological Evaluation of Splice-Switching Oligonucleotides with Multiple LNA-Phosphothiotriester Backbones.39401255 · Dhara, Debashis, Hill, Alyssa C, Ramesh, Abinaya et al.2024 · 25 citationsJournal of the American Chemical Society. 2024;146(43):29773-29781
Structural basis for activity switching in polymerases determining the fate of let-7 pre-miRNAs.39054354 · Yi, Gangshun, Ye, Mingda, Carrique, Loic et al.2024 · 5 citationsNature structural & molecular biology. 2024;31(9):1426-1438
A SARS-Cov-2 sensor based on upconversion nanoparticles and graphene oxide.35799935 · Alexaki, Konstantina, Kyriazi, Maria Eleni, Greening, Joshua et al.2024 · 17 citationsRSC advances. 2022;12(29):18445-18449
Deoxyribonucleic Acid Encoded and Size-Defined π-Stacking of Perylene Diimides.34936763 · Gorman, Jeffrey, Orsborne, Sarah R E, Sridhar, Akshay et al.2024 · 40 citationsJournal of the American Chemical Society. 2022;144(1):368-376
An Investigation into the Resistance of Spherical Nucleic Acids against DNA Enzymatic Degradation.35001632 · Kyriazi, Maria-Eleni, El-Sagheer, Afaf H, Medintz, Igor L et al.2024 · 22 citationsBioconjugate chemistry. 2022;33(1):219-225
Synthesis and Properties of Oligonucleotides Containing LNA-Sulfamate and Sulfamide Backbone Linkages.38717429 · Zengin Kurt, Belma, Dhara, Debashis, El-Sagheer, Afaf H et al.2024 · 8 citationsOrganic letters. 2024;26(19):4137-4141
Anchor-Enhanced Bead Design for Reduced Oligonucleotide Synthesis Errors in Single-cell sequencing10.1101/2024.04.08.587145v2 · Sun, J., Philpott, M., Loi, D. et al.2024 · 2 citationsbioRxiv
Enzyme-free synthesis of cyclic single-stranded DNA constructs containing a single triazole, amide or phosphoramidate backbone linkage and their use as templates for rolling circle amplification and nanoflower formation.30542561 · Chen, Jinfeng, Baker, Ysobel R, Brown, Asha et al.2024 · 42 citationsChemical science. 2018;9(42):8110-8120
Focused Screening Identifies Different Sensitivities of Human TET Oxygenases to the Oncometabolite 2-Hydroxyglutarate.38294854 · Belle, Roman, Saraç, Hilal, Salah, Eidarus et al.2024 · 11 citationsJournal of medicinal chemistry. 2024;67(6):4525-4540
DNA Structural Changes Induced by Intermolecular Triple Helix Formation.32010842 · Sayoh, Ibrahim, Rusling, David A, Brown, Tom et al.2024 · 4 citationsACS omega. 2020;5(3):1679-1687
Shining Light on CRISPR Gene Editing.32490179 · Taemaitree, Lapatrada, Brown, Tom2024 · 7 citationsACS central science. 2020;6(5):616-618
Engineering Enzyme-Cleavable Oligonucleotides by Automated Solid-Phase Incorporation of Cathepsin B Sensitive Dipeptide Linkers.38505643 · Jin, Cheng, Ei-Sagheer, Afaf H, Li, Siqi et al.2024 · 4 citationsAngewandte Chemie (Weinheim an der Bergstrasse, Germany). 2022;134(13):e202114016
Thiazole orange-carboplatin triplex-forming oligonucleotide (TFO) combination probes enhance targeted DNA crosslinking.38389892 · Hennessy, Joseph, Klimkowski, Piotr, Singleton, Daniel et al.2024 · 9 citationsRSC medicinal chemistry. 2024;15(2):485-491
Strain discrimination of Yersinia pestis using a SERS-based electrochemically driven melting curve analysis of variable number tandem repeat sequences.29449917 · Papadopoulou, E, Gale, N, Goodchild, S A et al.2023 · 13 citationsChemical science. 2015;6(3):1846-1852
Fluorogenic thiazole orange TOTFO probes stabilise parallel DNA triplexes at pH 7 and above.30393529 · Walsh, Sarah, El-Sagheer, Afaf Helmy, Brown, Tom2023 · 37 citationsChemical science. 2018;9(39):7681-7687
Photogeneration of Spin Quintet Triplet-Triplet Excitations in DNA-Assembled Pentacene Stacks.36825550 · Orsborne, Sarah R E, Gorman, Jeffrey, Weiss, Leah R et al.2023 · 28 citationsJournal of the American Chemical Society. 2023;145(9):5431-5438
Two-Step Validation Approach for Tools To Study the DNA Repair Enzyme SNM1A.36917742 · Fay, Ellen M, Newton, Ailish, Berney, Mark et al.2023 · 5 citationsChembiochem : a European journal of chemical biology. 2023;24(13):e202200756
Offshore Wind Integration in the North Sea: The Benefits of an Offshore Grid and Floating Wind2305.01996v2 · Philipp Glaum, Fabian Neumann, Tom Brown2023 · 16 citationsarXiv
Correction to "Photogeneration of Spin Quintet Triplet-Triplet Excitations in DNA-Assembled Pentacene Stacks".37000182 · Orsborne, Sarah R E, Gorman, Jeffrey, Weiss, Leah R et al.2023 · 0 citationsJournal of the American Chemical Society. 2023;145(14):8271
Discovering Language Model Behaviors with Model-Written Evaluations2212.09251v1 · Ethan Perez, Sam Ringer, Kamil\.e Lukosi\=ut\.e et al.2022 · 224 citationsarXivon Valency
Nobel Prize 2022 to Sharpless, Meldal, Bertozzi Click Chemistry - molecular lego.36341577 · Brown, Tom, Nordén, Bengt2022 · 10 citationsQuarterly reviews of biophysics. 2022;55:e13
Language Models (Mostly) Know What They Know2207.05221v4 · Saurav Kadavath, Tom Conerly, Amanda Askell et al.2022 · 169 citationsarXivon Valency
A new phosphoramidite enables orthogonal double labelling to form combination oligonucleotide probes.36314563 · Bai, Chunsen, Klimkowski, Piotr, Jin, Cheng et al.2022 · 5 citationsOrganic & biomolecular chemistry. 2022;20(44):8618-8622
Disease-associated mutations in WDR34 lead to diverse impacts on the assembly and function of dynein-2.36268591 · Shak, Caroline, Vuolo, Laura, Uddin, Borhan et al.2022 · 9 citationsJournal of cell science. 2023;136(5)
Predictability and Surprise in Large Generative Models2202.07785v2 · Deep Ganguli, Danny Hernandez, Liane Lovitt et al.2022 · 204 citationsarXiv
In-context Learning and Induction Heads2209.11895v1 · Catherine Olsson, Nelson Elhage, Neel Nanda et al.2022 · 87 citationsarXivon Valency
Disease-associated mutations in WDR34 lead to diverse impacts on the assembly and function of dynein-2.10.1101/2022.03.31.486414v2 · Shak, C., Vuolo, L., Uddin, B. et al.2022 · 9 citationsbioRxiv
Covalently attached intercalators restore duplex stability and splice-switching activity to triazole-modified oligonucleotides.35755188 · Dysko, Anna, Baker, Ysobel R, McClorey, Graham et al.2022 · 5 citationsRSC chemical biology. 2022;3(6):765-772
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