Research output per year
Research output per year
Research output
- 1 - 50 out of 82 results
Search results
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2024
A genetic locus in the gut microbe Bacteroides thetaiotaomicron encodes activities consistent with mucin-O-glycoprotein processing and plays a critical role in N-acetylgalactosamine metabolism
Ndeh, D. A. (Lead / Corresponding author), Nakjang, S., Kwiatkowski, K. J., Koropatkin, N. M., Hirt, R. P. (Lead / Corresponding author) & Bolam, D. N. (Lead / Corresponding author), 2 Feb 2024, BioRxiv, 35 p.Research output: Working paper/Preprint › Preprint
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Cholesterol biosynthesis inhibition synergizes with AKT inhibitors in triple-negative breast cancer
Hillis, A. L. (Lead / Corresponding author), Martin, T. D., Manchester, H. E., Hogstrom, J. M., Zhang, N., Lecky, E., Kozlova, N., Persky, N. S., Root, D. E., Brown, M., Cichowski, K., Elledge, S. J., Muranen, T., Fruman, D. A., Barry, S. T., Clohessy, J. G., Madsen, R. R. & Toker, A. (Lead / Corresponding author), 16 Jan 2024, BioRxiv, p. 1-47, 47 p.Research output: Working paper/Preprint › Preprint
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Heme binding causes structural rearrangements in HRI to inhibit activation via autophosphorylation
Kanta, S., Vinciauskaite, V., Neill, G., Muqit, M. M. K. & Masson, G. R. (Lead / Corresponding author), 14 Aug 2024, BioRxiv.Research output: Working paper/Preprint › Preprint
File22 Downloads (Pure) -
Leucine Rich Repeat Kinase 2 is not required for lysozyme expression in intestinal Paneth cells
Tasegian, A., Dikovskaya, D., Scott, M., Helps, T., Meus, T., McLean, M. H. & Swamy, M., 8 Mar 2024, BioRxiv.Research output: Working paper/Preprint › Preprint
File11 Downloads (Pure) -
Paradoxical Activation of GCN2 by ATP-competitive inhibitors via allosteric activation and autophosphorylation
Neill, G., Vinciauskaite, V., Paul, M., Gilley, R., Cook, S. J. & Masson, G. (Lead / Corresponding author), 15 Aug 2024, BioRxiv, 24 p.Research output: Working paper/Preprint › Preprint
File62 Downloads (Pure) -
PROSER1 Modulates DNA Demethylation through Dual Mechanisms to Prevent Syndromic Developmental Malformations
Fleming, A., Knatko, E. V., Li, X., Zoch, A., Heckhausen, Z., Stransky, S., Brenes Murillo, A., Sidoli, S., Hajkova, P., O'Carroll, D. & Rasmussen, K. (Lead / Corresponding author), 2 Aug 2024, BioRxiv, 34 p.Research output: Working paper/Preprint › Preprint
File12 Downloads (Pure) -
Quinoxaline-Based Anti-Schistosomal Compounds Have Potent Anti-Malarial Activity
Rawat, M., Padalino, G., Yeo, T., Brancale, A., Fidock, D. A., Hoffmann, K. F. & Lee, M. C. S. (Lead / Corresponding author), 24 Apr 2024, BioRxiv, 24 p.Research output: Working paper/Preprint › Preprint
Open AccessFile10 Downloads (Pure) -
Regulation of Leucine-Rich Repeat Kinase 2 by inflammation and IL-4
Dikovskaya, D., Pemberton, R., Taylor, M., Tasegian, A., Zeneviciute, K., Sammler, E. M., Howden, A. J. M., Alessi, D. R. & Swamy, M., 2 May 2024, BioRxiv, 34 p.Research output: Working paper/Preprint › Preprint
File13 Downloads (Pure) -
SIGNAL-seq: Multimodal Single-cell Inter- and Intra-cellular Signalling Analysis
Opzoomer, J. W., O'Sullivan, R., Sufi, J., Madsen, R., Qin, X., Basiarz, E. & Tape, C. J. (Lead / Corresponding author), 11 Mar 2024, BioRxiv, p. 1-21, 21 p.Research output: Working paper/Preprint › Preprint
File19 Downloads (Pure) -
Ten “Cheat Codes” for Measuring Oxidative Stress in Humans
Cobley, J. (Lead / Corresponding author), Margaritelis, N. V., Chatzinikolaou, P. N., Nikolaidis, M. G. & Davison, G. W., 12 May 2024, Preprints.org, 44 p.Research output: Working paper/Preprint › Preprint
Open AccessFile20 Downloads (Pure) -
2023
An Atypical E3 Ligase Module in UBR4 Mediates Destabilization of N-degron Substrates
Barnsby-Greer, L., Mabbitt, P., Dery, M.-A., Squair, D., Wood, N., Lange, S. & Virdee, S., 9 May 2023, BioRxiv.Research output: Working paper/Preprint › Preprint
Open AccessFile31 Downloads (Pure) -
A unified approach to evolutionary conservation and population constraint in protein domains highlights structural features and pathogenic sites
MacGowan, S. A., Madeira, F., Britto-Borges, T. & Barton, G. J., 13 Jul 2023, Research Square, 53 p.Research output: Working paper/Preprint › Preprint
Open Access -
Classification of likely functional state for ligand binding sites identified from fragment screening
Utgés, J. S., MacGowan, S. A., Ives, C. M. & Barton, G. J., 24 Jul 2023, Research Square.Research output: Working paper/Preprint › Preprint
Open Access -
Comprehensive approach to study branched ubiquitin chains reveals roles for K48-K63 branches in VCP/p97-related processes
Lange, S., McFarland, M., Lamoliatte, F., Kwasna, D., Shen, L., Wallace, I., Cole, I., Armstrong, L., Knebel, A., Johnson, C., De Cesare, V. & Kulathu, Y., 10 Jan 2023, BioRxiv, 31 p.Research output: Working paper/Preprint › Preprint
File83 Downloads (Pure) -
Conformational preferences of inosine and its methyl derivatives: Comparison of the AMBER derived force field parameters and reparameterization of the glycosidic torsion parameters
Dutta, N., Deb, I., Sarzynska, J. & Lahiri, A. (Lead / Corresponding author), 20 Jan 2023, Research Square, 24 p.Research output: Working paper/Preprint › Preprint
Open Access -
Development of a Human iPSC-Derived Placental Barrier-On-Chip Model
Lermant, A., Rabussier, G., Lanz, H. L., Davidson, L., Porter, I. M. & Murdoch, C. E. (Lead / Corresponding author), 30 Jan 2023, Cell Press, (ISCIENCE-D-23-00286).Research output: Working paper/Preprint › Preprint
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Discovery and characterization of non-canonical E2 conjugating enzymes
Rehman, S. A. A., Di Nisio, E., Cazzaniga, C., Antico, O., Knebel, A., Johnson, C., Lamoliatte, F., Negri, R., Muqit, M. & De Cesare, V. (Lead / Corresponding author), 5 Mar 2023, BioRxiv, 40 p.Research output: Working paper/Preprint › Preprint
Open AccessFile39 Downloads (Pure) -
Ethanolaminephosphate cytidyltransferase is essential for survival, lipid homeostasis and stress tolerance in Leishmania major
Basu, S., Pawlowic, M., Hsu, F.-F., Thomas, G. & Zhang, K. (Lead / Corresponding author), 11 Jan 2023, Cold Spring Harbor Laboratory: BioRxiv, 66 p.Research output: Working paper/Preprint › Preprint
Open AccessFile53 Downloads (Pure) -
Exploring the sequence-function space of microbial fucosidases
Gascuena, A. M., Wu, H., Owen, D., Hernando, P. J., Monaco, S., Penner, M., Gall, G. L., Gardner, R., Ndeh, D., Urbanowicz, P., Spencer, D. I. R., Walsh, M., Angulo, J. & Juge, N., 28 Jul 2023, Research Square.Research output: Working paper/Preprint › Preprint
Open AccessFile33 Downloads (Pure) -
Genetic screening identifies integrated stress response kinase HRI (EIF2AK1) as a negative regulator of PINK1 and mitophagy signalling
Singh, P. K., Volpi, I., Agarwal, S., Wilhelm, L. P., Becchi, G., Macartney, T., Toth, R., Rousseau, A., Masson, G. R., Ganley, I. G. & Muqit, M. M. K., 22 Mar 2023, BioRxiv, 37 p.Research output: Working paper/Preprint › Preprint
File138 Downloads (Pure) -
How robust is the ligand binding transition state?
Bose, S., Lotz, S. D., Deb, I., Shuck, M., Lee, K. S. S. & Dickson, A. (Lead / Corresponding author), 14 Aug 2023, Cambridge: ChemRxiv, 36 p.Research output: Working paper/Preprint › Preprint
Open Access -
Mechanism of human PINK1 activation at the TOM complex by reconstitution
Raimi, O. G., Ojha, H., Ehses, K., Dederer, V., Lange, S. M., Polo Rivera, C., Deegan, T. D., Chen, Y., Wightman, M., Toth, R., Labib, K. P. M., Mathea, S., Ranson, N., Fernández-Busnadiego, R. & Muqit, M. M. K. (Lead / Corresponding author), 23 Dec 2023, BioRxiv, 35 p.Research output: Working paper/Preprint › Preprint
File36 Downloads (Pure) -
Oncogenic PIK3CA corrupts growth factor signaling specificity
Madsen, R. R. (Lead / Corresponding author), Le Marois, A., Mruk, O., Voliotis, M., Yin, S., Sufi, J., Qin, X., Zhao, S. J., Gorczynska, J., Morelli, D., Davidson, L., Sahai, E., Korolchuk, V. I., Tape, C. J. & Vanhaesebroeck, B., 26 Dec 2023, BioRxiv, p. 1-50, 50 p.Research output: Working paper/Preprint › Preprint
Open AccessFile33 Downloads (Pure) -
Predicting nearest neighbor free energies of modified RNA with LIE: Results for pseudouridine and N1-methylpseudouridine within RNA duplexes
Dutta, N., Sarzynska, J., Deb, I. & Lahiri, A. (Lead / Corresponding author), 17 Aug 2023, Cambridge: ChemRxiv, 10 p.Research output: Working paper/Preprint › Preprint
Open Access -
Proteomic and functional comparison between human induced and embryonic stem cells
Brenes Murillo, A., Griesser, E., Sinclair, L., Davidson, L., Prescott, A., Singh, F., Hogg, E., Espejo-Serrano, C., Jiang, H., Yoshikawa, H., Platani, M., Swedlow, J., Findlay, G., Cantrell, D. & Lamond, A. (Lead / Corresponding author), 19 Aug 2023, BioRxiv, 34 p.Research output: Working paper/Preprint › Preprint
Open AccessFile90 Downloads (Pure) -
Regulation of Human PINK1 ubiquitin kinase by Serine167, Serine228 and Cysteine412 phosphorylation.
Waddell, A. D., Ojha, H., Agarwal, S., Clarke, C. J., Terriente-Felix, A., Zhou, H., Kakade, P., Knebel, A., Shaw, A. M., Gourlay, R., Varghese, J., Filipe Soares, R., Toth, R., Macartney, T., Eyers, P., Morrice, N., Bayliss, R., Whitworth, A. J., Eyers, C. E. (Lead / Corresponding author) & Muqit, M. (Lead / Corresponding author), 1 Apr 2023, BioRxiv, 41 p.Research output: Working paper/Preprint › Preprint
File16 Downloads (Pure) -
Rewiring of the TCR signalosome in natural intestinal Intraepithelial T lymphocytes drives non-deletional tolerance
Watt, H. J., Chawla, A. S., Lamoliatte, F., Pryde, S., Knatko, E., Rasmussen, K. D., Bending, D. & Swamy, M. (Lead / Corresponding author), 3 Sept 2023, BioRxiv, 39 p.Research output: Working paper/Preprint › Preprint
Open AccessFile32 Downloads (Pure) -
Sex chromosome dominance in a UV sexual system
Vigneau, J., Martinho, C., Godfroy, O., Zheng, M., Haas, F. B., Borg, M. & Coelho, S. (Lead / Corresponding author), 28 Dec 2023, BioRxiv, p. 1-31, 31 p.Research output: Working paper/Preprint › Preprint
File20 Downloads (Pure) -
Structural and thermodynamic consequences of base pairs containing pseudouridine and N1-methylpseudouridine in RNA duplexes
Dutta, N., Deb, I., Sarzynska, J. & Lahiri, A. (Lead / Corresponding author), 22 Mar 2023, BioRxiv, 34 p.Research output: Working paper/Preprint › Preprint
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U6 snRNA m6A modification is required for accurate and efficient cis- and trans-splicing of C. elegans mRNAs
Shen, A., Hencel, K., Parker, M. T., Scott, R., Skukan, R., Adesina, A. S., Metheringham, C., Miska, E. A., Nam, Y., Haerty, W., Simpson, G. & Akay, A. (Lead / Corresponding author), 16 Sept 2023, BioRxiv, 55 p.Research output: Working paper/Preprint › Preprint
Open AccessFile36 Downloads (Pure) -
2022
A co-operative knock-on mechanism underpins Ca2+-selective cation permeation in TRPV channels
Ives, C. M., Thomson, N. J. & Zachariae, U. (Lead / Corresponding author), 3 Apr 2022, BioRxiv, 22 p.Research output: Working paper/Preprint › Preprint
Open AccessFile62 Downloads (Pure) -
A mitochondrial blood-based patient stratification candidate biomarker for Parkinson’s disease
Fox BioNet Investigators, Qi, R., Sammler, E., Gonzalez-Hunt, C. P., Pena, N., Rouanet, J. P., Goodson, S., Fuzatti, M., Blandini, F., Erickson, K. I., Weinstein, A. M., Padmanabhan, S., Tonelli, F., Alessi, D., Shiva, S. & Sanders, L. H., 9 Feb 2022, BioRxiv.Research output: Working paper/Preprint › Preprint
Open AccessFile71 Downloads (Pure) -
Barley root exudates collection and primary metabolite profiling
Escudero-Martinez, C., Foito, A., Kapadia, R., Aprile, A. & Bulgarelli, D., 17 Jun 2022, Research Square, p. 1-12, 12 p.Research output: Working paper/Preprint › Preprint
Open Access -
Cell-autonomous immune dysfunction driven by disrupted autophagy in C9orf72-ALS iPSC-derived microglia contributes to neurodegeneration
Banerjee, P., Mehta, A., Nirujogi, R., Cooper, J., James, O. G., Nanda, J., Longden, J., Burr, K., Salzinger, A., Paza, E., Newton, J., Story, D., Pal, S., Smith, C., Alessi, D., Selvaraj, B. T., Priller, J. & Chandran, S., 12 May 2022, BioRxiv.Research output: Working paper/Preprint › Preprint
Open AccessFile68 Downloads (Pure) -
Cell overgrowth during G1 arrest triggers an osmotic stress response and chronic p38 activation to promote cell cycle exit
Crozier, L., Foy, R., Adib, R., Badonyi, M., Kar, A., Holt, J. A., Wilson, R., Regnault, C., Whitfield, P., Marsh, J. A., Saurin, A. (Lead / Corresponding author), Barr, A. R. (Lead / Corresponding author) & Ly, T. (Lead / Corresponding author), 8 Sept 2022, Cold Spring Harbour Laboratory: BioRxiv, 26 p.Research output: Working paper/Preprint › Preprint
Open AccessFile66 Downloads (Pure) -
Cyclin A and Cks1 promote kinase consensus switching to non-proline directed CDK1 phosphorylation
al-Rawi, A., Korolchuk, S., Endicott, J. & Ly, T. (Lead / Corresponding author), 24 May 2022, Cold Spring Harbour Laboratory: BioRxiv.Research output: Working paper/Preprint › Preprint
Open AccessFile42 Downloads (Pure) -
Elaboration of a MALDI-TOF Mass Spectrometry-based Assay of Parkin Activity and High-Throughput screening platform for Parkin Activators
Traynor, R., Moran, J., Stevens, M., Knebel, A., Behrouz, B., Merchant, K., Hastie, J., Davies, P., Muqit, M. & De Cesare, V., 4 Mar 2022, BioRxiv, 22 p.Research output: Working paper/Preprint › Preprint
Open Access -
Experiences with managing data parallel computational workflows for High-throughput Fragment Molecular Orbital (FMO) Calculations
Wannipurage, D., Deb, I., Abeysinghe, E., Pamidighantam, S., Marru, S., Pierce, M. & Frank, A. T., 28 Jan 2022, arXiv, 5 p.Research output: Working paper/Preprint › Preprint
Open Access -
Human ATG3 contains a non-canonical LIR motif crucial for its enzymatic activity in autophagy
Farnung, J., Muhar, M., Liang, J. R., Tolmachova, K. A., Benoit, R. M., Corn, J. E. & Bode, J. W. (Lead / Corresponding author), 2 Aug 2022, BioRxiv, 23 p.Research output: Working paper/Preprint › Preprint
Open Access -
Hypoxia shapes the immune landscape in lung injury promoting inflammation persistence
Mirchandani, A. S. (Lead / Corresponding author), Jenkins, S. J., Bain, C. C., Lawson, H., Coelho, P., Murphy, F., Griffith, D., Zhang, A., Sanchez-Garcia, M. A., Reyes, L., Morrison, T., Arienti, S., Sadiku, P., Watts, E. R., Dickinson, R. S., Clark, S., Ly, T., Lewis, D., Kelly, V. & Spanos, C. & 21 others, , 12 Mar 2022, Cold Spring Harbour Laboratory: BioRxiv, 53 p.Research output: Working paper/Preprint › Preprint
Open AccessFile42 Downloads (Pure) -
Identification of putative reader proteins of 5-methylcytosine and its derivatives in Caenorhabditis elegans RNA
Navarro, I. C., Man Suen, K., Bensaddek, D., Tanpure, A., Lamond, A., Balasubramanian, S. & Miska, E. A. (Lead / Corresponding author), 25 Jan 2022, (Submitted) BioRxiv, p. 1-23, 23 p.Research output: Working paper/Preprint › Preprint
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Mitochondrial bioenergetic dysfunction and cryptic splicing of stathmin-2 are neuropathological markers of disease duration in sporadic amyotrophic lateral sclerosis
Mehta, A. R. (Lead / Corresponding author), McDade, K., Newton, J., Ruepp, M.-D., Pal, S., Chandran, S., Smith, C. & Selvaraj, B. T. (Lead / Corresponding author), 2022, medRxiv, 14 p.Research output: Working paper/Preprint › Preprint
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N1-Methylpseudouridine and pseudouridine modifications modulate mRNA decoding during translation
Monroe, J. G., Mitchell, L., Deb, I., Roy, B., Frank, A. T. & Koutmou, K. (Lead / Corresponding author), 14 Jun 2022, BioRxiv, 10 p.Research output: Working paper/Preprint › Preprint
Open Access -
Structural basis of human LRRK2 membrane recruitment and activation
Zhu, H., Tonelli, F., Alessi, D. & Sun, J., 26 Apr 2022, BioRxiv.Research output: Working paper/Preprint › Preprint
Open AccessFile72 Downloads (Pure) -
The adenomatous polyposis coli protein 30 years on
Abbott, J. & Nathke, I., 15 Nov 2022, BioRxiv, p. 1-21, 21 p.Research output: Working paper/Preprint › Preprint
Open Access -
The ribosome-associated chaperone Zuo1 controls translation upon TORC1 inhibition
Black, A., Williams, T., Zhou, H. & Rousseau, A. (Lead / Corresponding author), 10 Dec 2022, Cold Spring Harbor Laboratory: BioRxiv, 33 p.Research output: Working paper/Preprint › Preprint
Open AccessFile92 Downloads (Pure) -
The SARS-CoV-2 envelope (E) protein forms a calcium-and voltage-activated calcium channel
Antonides, L. H., Hurst, Q. W., Ives, C. M., Ramberg, K., Ostrovitas, N., Scanlan, E., Caffrey, M., Pitt, S. J. (Lead / Corresponding author) & Zachariae, U. (Lead / Corresponding author), 11 Oct 2022, BioRxiv, 18 p.Research output: Working paper/Preprint › Preprint
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2021
A mechanistic switch from selective transporter to an ion channel impairs the filamentation signalling capability of ammonium transceptors in yeast
Williamson, G., Brito, A. S., Bizior, A., Tamburrino, G., Mirandela, G. D., Harris, T., Hoskisson, P. A., Zachariae, U., Marini, A. M. (Lead / Corresponding author), Boeckstaens, M. (Lead / Corresponding author) & Javelle, A. (Lead / Corresponding author), 25 Aug 2021, BioRxiv, 38 p.Research output: Working paper/Preprint › Preprint
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A mechanochemical model recapitulates distinct vertebrate gastrulation modes
Serra, M. (Lead / Corresponding author), Nájera, G. S., Chuai, M., Spandan, V., Weijer, C. J. & Mahadevan, L. (Lead / Corresponding author), 5 Oct 2021, BioRxiv, 24 p.Research output: Working paper/Preprint › Preprint
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Ankyrin repeats in context with human population variation
Utgés, J. S., Tsenkov, M. I., Dietrich, N. J. M., MacGowan, S. A. & Barton, G. J. (Lead / Corresponding author), 30 May 2021, BioRxiv, 26 p.Research output: Working paper/Preprint › Preprint
Open AccessFile63 Downloads (Pure)