Search Results - "Rigden, Daniel J."

High‐accuracy protein structure prediction in CASP14 by Pereira, Joana, Simpkin, Adam J., Hartmann, Marcus D., Rigden, Daniel J., Keegan, Ronan M., Lupas, Andrei N.

“…The application of state‐of‐the‐art deep‐learning approaches to the protein modeling problem has expanded the “high‐accuracy” category in CASP14 to encompass…”
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DirectRMDB: a database of post-transcriptional RNA modifications unveiled from direct RNA sequencing technology by Zhang, Yuxin, Jiang, Jie, Ma, Jiongming, Wei, Zhen, Wang, Yue, Song, Bowen, Meng, Jia, Jia, Guifang, de Magalhães, João Pedro, Rigden, Daniel J, Hang, Daiyun, Chen, Kunqi

“…With advanced technologies to map RNA modifications, our understanding of them has been revolutionized, and they are seen to be far more widespread and…”
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Deubiquitylases from genes to organism by Clague, Michael J, Barsukov, Igor, Coulson, Judy M, Liu, Han, Rigden, Daniel J, Urbé, Sylvie

“…Ubiquitylation is a major posttranslational modification that controls most complex aspects of cell physiology. It is reversed through the action of a large…”
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The histidine phosphatase superfamily: structure and function by Rigden, Daniel J

“…The histidine phosphatase superfamily is a large functionally diverse group of proteins. They share a conserved catalytic core centred on a histidine which…”
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The 2021 Nucleic Acids Research database issue and the online molecular biology database collection by Rigden, Daniel J, Fernández, Xosé M

“…Abstract The 2021 Nucleic Acids Research database Issue contains 189 papers spanning a wide range of biological fields and investigation. It includes 89 papers…”
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The 2018 Nucleic Acids Research database issue and the online molecular biology database collection by Rigden, Daniel J, Fernández, Xosé M

“…Abstract The 2018 Nucleic Acids Research Database Issue contains 181 papers spanning molecular biology. Among them, 82 are new and 84 are updates describing…”
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The industrial melanism mutation in British peppered moths is a transposable element by Hof, Arjen E. van’t, Campagne, Pascal, Rigden, Daniel J., Yung, Carl J., Lingley, Jessica, Quail, Michael A., Hall, Neil, Darby, Alistair C., Saccheri, Ilik J.

“…The mutation responsible for the black carbonaria morph of the peppered moth is identified as a transposable element within the cortex gene. The look of…”
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Attention-based multi-label neural networks for integrated prediction and interpretation of twelve widely occurring RNA modifications by Song, Zitao, Huang, Daiyun, Song, Bowen, Chen, Kunqi, Song, Yiyou, Liu, Gang, Su, Jionglong, Magalhães, João Pedro de, Rigden, Daniel J., Meng, Jia

“…Recent studies suggest that epi-transcriptome regulation via post-transcriptional RNA modifications is vital for all RNA types. Precise identification of RNA…”
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The 26th annual Nucleic Acids Research database issue and Molecular Biology Database Collection by Rigden, Daniel J, Fernández, Xosé M

“…Abstract The 2019 Nucleic Acids Research (NAR) Database Issue contains 168 papers spanning molecular biology. Among them, 64 are new and another 92 are updates…”
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Family-wide characterization of the DENN domain Rab GDP-GTP exchange factors by Yoshimura, Shin-ichiro, Gerondopoulos, Andreas, Linford, Andrea, Rigden, Daniel J, Barr, Francis A

“…A key requirement for Rab function in membrane trafficking is site-specific activation by GDP-GTP exchange factors (GEFs), but the majority of the 63 human…”
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Genomic determinants of sporulation in Bacilli and Clostridia: towards the minimal set of sporulation-specific genes by Galperin, Michael Y., Mekhedov, Sergei L., Puigbo, Pere, Smirnov, Sergey, Wolf, Yuri I., Rigden, Daniel J.

“…Summary Three classes of low‐G+C Gram‐positive bacteria (Firmicutes), Bacilli, Clostridia and Negativicutes, include numerous members that are capable of…”
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Mammalian Atg18 (WIPI2) localizes to omegasome-anchored phagophores and positively regulates LC3 lipidation by Polson, Hannah E.J., de Lartigue, Jane, Rigden, Daniel J., Reedijk, Marco, Urbé, Sylvie, Clague, Michael J., Tooze, Sharon A.

“…Autophagosome formation is a complex process that begins with the nucleation of a pre-autophagosomal structure (PAS) that expands into a phagophore or…”
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Evaluating caveolin interactions: do proteins interact with the caveolin scaffolding domain through a widespread aromatic residue-rich motif? by Byrne, Dominic P, Dart, Caroline, Rigden, Daniel J

“…Caveolins are coat proteins of caveolae, small flask-shaped pits of the plasma membranes of most cells. Aside from roles in caveolae formation, caveolins…”
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Rab14 and Its Exchange Factor FAM116 Link Endocytic Recycling and Adherens Junction Stability in Migrating Cells by Linford, Andrea, Yoshimura, Shin-ichiro, Bastos, Ricardo Nunes, Langemeyer, Lars, Gerondopoulos, Andreas, Rigden, Daniel J., Barr, Francis A.

“…Rab GTPases define the vesicle trafficking pathways underpinning cell polarization and migration. Here, we find that Rab4, Rab11, and Rab14 and the candidate…”
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Structural advances on titin: towards an atomic understanding of multi-domain functions in myofilament mechanics and scaffolding by Zacharchenko, Thomas, von Castelmur, Eleonore, Rigden, Daniel J, Mayans, Olga

“…Titin is a gigantic filamentous protein of the muscle sarcomere that plays roles in myofibril mechanics and homoeostasis. 3D-structures of multi-domain…”
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Genome-wide transcriptional analyses in Anopheles mosquitoes reveal an unexpected association between salivary gland gene expression and insecticide resistance by Isaacs, Alison T, Mawejje, Henry D, Tomlinson, Sean, Rigden, Daniel J, Donnelly, Martin J

“…To combat malaria transmission, the Ugandan government has embarked upon an ambitious programme of indoor residual spraying (IRS) with a carbamate class…”
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Systematic survey of deubiquitinase localization identifies USP21 as a regulator of centrosome- and microtubule-associated functions by Urbé, Sylvie, Liu, Han, Hayes, Sebastian D, Heride, Claire, Rigden, Daniel J, Clague, Michael J

“…Ubiquitination is a reversible modification that influences a broad range of physiological processes. There are approximately 90 deubiquitinases (DUBs) encoded…”
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Structural insights into pink-eyed dilution protein (Oca2) by Mesdaghi, Shahram, Murphy, David L, Simpkin, Adam J, Rigden, Daniel J

“…Recent innovations in computational structural biology have opened an opportunity to revise our current understanding of the structure and function of…”
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The heparin-binding proteome in normal pancreas and murine experimental acute pancreatitis by Nunes, Quentin M, Su, Dunhao, Brownridge, Philip J, Simpson, Deborah M, Sun, Changye, Li, Yong, Bui, Thao P, Zhang, Xiaoying, Huang, Wei, Rigden, Daniel J, Beynon, Robert J, Sutton, Robert, Fernig, David G

“…Acute pancreatitis (AP) is acute inflammation of the pancreas, mainly caused by gallstones and alcohol, driven by changes in communication between cells…”
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m6A-TSHub: Unveiling the Context-specific m6A Methylation and m6A-affecting Mutations in 23 Human Tissues by Song, Bowen, Huang, Daiyun, Zhang, Yuxin, Wei, Zhen, Su, Jionglong, Pedro de Magalhães, João, Rigden, Daniel J., Meng, Jia, Chen, Kunqi

“…As the most pervasive epigenetic marker present on mRNAs and long non-coding RNAs (lncRNAs), N 6 -methyladenosine (m 6 A) RNA methylation has been shown to…”
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