Search Results - "Peter, A T"

Mercury 4.0: from visualization to analysis, design and prediction by Macrae, Clare F., Sovago, Ioana, Cottrell, Simon J., Galek, Peter T. A., McCabe, Patrick, Pidcock, Elna, Platings, Michael, Shields, Greg P., Stevens, Joanna S., Towler, Matthew, Wood, Peter A.

“…The program Mercury, developed at the Cambridge Crystallographic Data Centre, was originally designed primarily as a crystal structure visualization tool. Over…”
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Benchmarking deep learning splice prediction tools using functional splice assays by Riepe, Tabea V., Khan, Mubeen, Roosing, Susanne, Cremers, Frans P. M., 't Hoen, Peter A. C.

“…Hereditary disorders are frequently caused by genetic variants that affect pre‐messenger RNA splicing. Though genetic variants in the canonical splice motifs…”
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Full-length mRNA sequencing uncovers a widespread coupling between transcription initiation and mRNA processing by Anvar, Seyed Yahya, Allard, Guy, Tseng, Elizabeth, Sheynkman, Gloria M, de Klerk, Eleonora, Vermaat, Martijn, Yin, Raymund H, Johansson, Hans E, Ariyurek, Yavuz, den Dunnen, Johan T, Turner, Stephen W, 't Hoen, Peter A C

“…The multifaceted control of gene expression requires tight coordination of regulatory mechanisms at transcriptional and post-transcriptional level. Here, we…”
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Endosomal and Phagosomal SNAREs by Dingjan, Ilse, Linders, Peter T A, Verboogen, Danielle R J, Revelo, Natalia H, Ter Beest, Martin, van den Bogaart, Geert

“…The soluble N-ethylmaleimide-sensitive factor attachment protein receptor (SNARE) protein family is of vital importance for organelle communication. The…”
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Timing and localization of human dystrophin isoform expression provide insights into the cognitive phenotype of Duchenne muscular dystrophy by Doorenweerd, Nathalie, Mahfouz, Ahmed, van Putten, Maaike, Kaliyaperumal, Rajaram, t’ Hoen, Peter A. C., Hendriksen, Jos G. M., Aartsma-Rus, Annemieke M., Verschuuren, Jan J. G. M., Niks, Erik H., Reinders, Marcel J. T., Kan, Hermien E., Lelieveldt, Boudewijn P. F.

“…Duchenne muscular dystrophy (DMD) is a muscular dystrophy with high incidence of learning and behavioural problems and is associated with neurodevelopmental…”
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Fluorescence Lifetime Imaging of pH along the Secretory Pathway by Linders, Peter T. A, Ioannidis, Melina, ter Beest, Martin, van den Bogaart, Geert

“…Many cellular processes are dependent on correct pH levels, and this is especially important for the secretory pathway. Defects in pH homeostasis in distinct…”
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Anhydrous Proton Conduction Through a Chemically Robust Electrolyte Enabling a High‐Temperature Non‐Precious Metal Catalyzed Fuel Cell by Zou, Junyan, Zhao, Yu, Mollart, Catherine, Peach, Michael J G, Fayon, Pierre, Heasman, Patrick, Fletcher, Peter A T J, Xu, Jinchang, Liang, Wanli, Trewin, Abbie, Ben, Teng

“…Fuel cells offer great promise for portable electricity generation, but their use is currently limited by their low durability, excessive operating…”
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Congenital disorder of glycosylation caused by starting site-specific variant in syntaxin-5 by Linders, Peter T. A., Gerretsen, Eveline C. F., Ashikov, Angel, Vals, Mari-Anne, de Boer, Rinse, Revelo, Natalia H., Arts, Richard, Baerenfaenger, Melissa, Zijlstra, Fokje, Huijben, Karin, Raymond, Kimiyo, Muru, Kai, Fjodorova, Olga, Pajusalu, Sander, Õunap, Katrin, ter Beest, Martin, Lefeber, Dirk, van den Bogaart, Geert

“…The SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) protein syntaxin-5 (Stx5) is essential for Golgi transport. In humans, the…”
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Will the Digital Mass Filter Be the Next High-Resolution High-Mass Analyzer? by Reilly, Peter T. A, Chakravorty, Sumeet, Bailey, Conner F, Obe, Fatima O, Huntley, Adam P

“…Mass filter operation in higher stability zones is known to provide better resolution. Unfortunately, for sine driven instruments, higher stability zone…”
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Rare disease research workflow using multilayer networks elucidates the molecular determinants of severity in Congenital Myasthenic Syndromes by Núñez-Carpintero, Iker, Rigau, Maria, Bosio, Mattia, O’Connor, Emily, Spendiff, Sally, Azuma, Yoshiteru, Topf, Ana, Thompson, Rachel, ’t Hoen, Peter A. C., Chamova, Teodora, Tournev, Ivailo, Guergueltcheva, Velina, Laurie, Steven, Beltran, Sergi, Capella-Gutiérrez, Salvador, Cirillo, Davide, Lochmüller, Hanns, Valencia, Alfonso

“…Exploring the molecular basis of disease severity in rare disease scenarios is a challenging task provided the limitations on data availability. Causative…”
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Sugary Logistics Gone Wrong: Membrane Trafficking and Congenital Disorders of Glycosylation by Linders, Peter T A, Peters, Ella, Ter Beest, Martin, Lefeber, Dirk J, van den Bogaart, Geert

“…Glycosylation is an important post-translational modification for both intracellular and secreted proteins. For glycosylation to occur, cargo must be…”
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Digital Mass Analysis in a Linear Ion Trap without Auxiliary Waveforms by Reece, Margaret E, Huntley, Adam P, Moon, Ashley M, Reilly, Peter T. A

“…Mass analysis in a linear ion trap is traditionally performed using resonant ejection induced by auxiliary waveforms. For sinusoidally driven ion traps without…”
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Implementing Digital-Waveform Technology for Extended m/z Range Operation on a Native Dual-Quadrupole FT-IM-Orbitrap Mass Spectrometer by McCabe, Jacob W, Jones, Benjamin J, Walker, Thomas E, Schrader, Robert L, Huntley, Adam P, Lyu, Jixing, Hoffman, Nathan M, Anderson, Gordon A, Reilly, Peter T. A, Laganowsky, Arthur, Wysocki, Vicki H, Russell, David H

“…Here, we describe a digital-waveform dual-quadrupole mass spectrometer that enhances the performance of our drift tube FT-IMS high-resolution Orbitrap mass…”
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Gateways to the FANTOM5 promoter level mammalian expression atlas by Lizio, Marina, Harshbarger, Jayson, Shimoji, Hisashi, Severin, Jessica, Kasukawa, Takeya, Sahin, Serkan, Abugessaisa, Imad, Fukuda, Shiro, Hori, Fumi, Ishikawa-Kato, Sachi, Mungall, Christopher J, Arner, Erik, Baillie, J Kenneth, Bertin, Nicolas, Bono, Hidemasa, de Hoon, Michiel, Diehl, Alexander D, Dimont, Emmanuel, Freeman, Tom C, Fujieda, Kaori, Hide, Winston, Kaliyaperumal, Rajaram, Katayama, Toshiaki, Lassmann, Timo, Meehan, Terrence F, Nishikata, Koro, Ono, Hiromasa, Rehli, Michael, Sandelin, Albin, Schultes, Erik A, 't Hoen, Peter A C, Tatum, Zuotian, Thompson, Mark, Toyoda, Tetsuro, Wright, Derek W, Daub, Carsten O, Itoh, Masayoshi, Carninci, Piero, Hayashizaki, Yoshihide, Forrest, Alistair R R, Kawaji, Hideya

“…The FANTOM5 project investigates transcription initiation activities in more than 1,000 human and mouse primary cells, cell lines and tissues using CAGE. Based…”
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Drug Repositioning through Systematic Mining of Gene Coexpression Networks in Cancer by Ivliev, Alexander E, 't Hoen, Peter A C, Borisevich, Dmitrii, Nikolsky, Yuri, Sergeeva, Marina G

“…Gene coexpression network analysis is a powerful "data-driven" approach essential for understanding cancer biology and mechanisms of tumor development. Yet,…”
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Increasing phenotypic annotation improves the diagnostic rate of exome sequencing in a rare neuromuscular disorder by Thompson, Rachel, Papakonstantinou Ntalis, Anastasios, Beltran, Sergi, Töpf, Ana, Paula Estephan, Eduardo, Polavarapu, Kiran, ’t Hoen, Peter A. C., Missier, Paolo, Lochmüller, Hanns

“…Phenotype‐based filtering and prioritization contribute to the interpretation of genetic variants detected in exome sequencing. However, it is currently…”
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Integrative analysis of multi-omics data reveals importance of collagen and the PI3K AKT signalling pathway in CAKUT by Bayjanov, Jumamurat R., Doornbos, Cenna, Ozisik, Ozan, Shin, Woosub, Queralt-Rosinach, Núria, Wijnbergen, Daphne, Saulnier-Blache, Jean-Sébastien, Schanstra, Joost P., Buffin-Meyer, Bénédicte, Klein, Julie, Fernández, José M., Kaliyaperumal, Rajaram, Baudot, Anaïs, ’t Hoen, Peter A. C., Ehrhart, Friederike

“…Congenital Anomalies of the Kidney and Urinary Tract (CAKUT) is the leading cause of childhood chronic kidney failure and a significant cause of chronic kidney…”
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Human Monocyte-Derived Dendritic Cells Produce Millimolar Concentrations of ROS in Phagosomes Per Second by Paardekooper, Laurent M, Dingjan, Ilse, Linders, Peter T A, Staal, Alexander H J, Cristescu, Simona M, Verberk, Wilco C E P, van den Bogaart, Geert

“…Neutrophils kill ingested pathogens by the so-called oxidative burst, where reactive oxygen species (ROS) are produced in the lumen of phagosomes at very high…”
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The effects of low levels of dystrophin on mouse muscle function and pathology by van Putten, Maaike, Hulsker, Margriet, Nadarajah, Vishna Devi, van Heiningen, Sandra H, van Huizen, Ella, van Iterson, Maarten, Admiraal, Peter, Messemaker, Tobias, den Dunnen, Johan T, 't Hoen, Peter A C, Aartsma-Rus, Annemieke

“…Duchenne muscular dystrophy (DMD) is a severe progressive muscular disorder caused by reading frame disrupting mutations in the DMD gene, preventing the…”
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Oxidized phagosomal NOX2 complex is replenished from lysosomes by Dingjan, Ilse, Linders, Peter T A, van den Bekerom, Luuk, Baranov, Maksim V, Halder, Partho, Ter Beest, Martin, van den Bogaart, Geert

“…In dendritic cells, the NADPH oxidase 2 complex (NOX2) is recruited to the phagosomal membrane during antigen uptake. NOX2 produces reactive oxygen species…”
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