Search Results - "Ian Smith, A"

iFeature: a Python package and web server for features extraction and selection from protein and peptide sequences by Chen, Zhen, Zhao, Pei, Li, Fuyi, Leier, André, Marquez-Lago, Tatiana T, Wang, Yanan, Webb, Geoffrey I, Smith, A Ian, Daly, Roger J, Chou, Kuo-Chen, Song, Jiangning

“…Abstract Summary Structural and physiochemical descriptors extracted from sequence data have been widely used to represent sequences and predict structural,…”
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A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction by Mei, Shutao, Li, Fuyi, Leier, André, Marquez-Lago, Tatiana T, Giam, Kailin, Croft, Nathan P, Akutsu, Tatsuya, Smith, A Ian, Li, Jian, Rossjohn, Jamie, Purcell, Anthony W, Song, Jiangning

“…Abstract Human leukocyte antigen class I (HLA-I) molecules are encoded by major histocompatibility complex (MHC) class I loci in humans. The binding and…”
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iLearn: an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data by Chen, Zhen, Zhao, Pei, Li, Fuyi, Marquez-Lago, Tatiana T, Leier, André, Revote, Jerico, Zhu, Yan, Powell, David R, Akutsu, Tatsuya, Webb, Geoffrey I, Chou, Kuo-Chen, Smith, A Ian, Daly, Roger J, Li, Jian, Song, Jiangning

“…Abstract With the explosive growth of biological sequences generated in the post-genomic era, one of the most challenging problems in bioinformatics and…”
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DeepCleave: a deep learning predictor for caspase and matrix metalloprotease substrates and cleavage sites by Li, Fuyi, Chen, Jinxiang, Leier, André, Marquez-Lago, Tatiana, Liu, Quanzhong, Wang, Yanze, Revote, Jerico, Smith, A Ian, Akutsu, Tatsuya, Webb, Geoffrey I, Kurgan, Lukasz, Song, Jiangning

“…Abstract Motivation Proteases are enzymes that cleave target substrate proteins by catalyzing the hydrolysis of peptide bonds between specific amino acids…”
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Live fast, die young: Accelerated growth, mortality, and turnover in street trees by Smith, Ian A, Dearborn, Victoria K, Hutyra, Lucy R

“…Municipalities are embracing greening initiatives as a key strategy for improving urban sustainability and combatting the environmental impacts of expansive…”
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Quokka: a comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome by Li, Fuyi, Li, Chen, Marquez-Lago, Tatiana T, Leier, André, Akutsu, Tatsuya, Purcell, Anthony W, Ian Smith, A, Lithgow, Trevor, Daly, Roger J, Song, Jiangning, Chou, Kuo-Chen

“…Abstract Motivation Kinase-regulated phosphorylation is a ubiquitous type of post-translational modification (PTM) in both eukaryotic and prokaryotic cells…”
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Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods by Li, Fuyi, Wang, Yanan, Li, Chen, Marquez-Lago, Tatiana T, Leier, André, Rawlings, Neil D, Haffari, Gholamreza, Revote, Jerico, Akutsu, Tatsuya, Chou, Kuo-Chen, Purcell, Anthony W, Pike, Robert N, Webb, Geoffrey I, Ian Smith, A, Lithgow, Trevor, Daly, Roger J, Whisstock, James C, Song, Jiangning

“…Abstract The roles of proteolytic cleavage have been intensively investigated and discussed during the past two decades. This irreversible chemical process has…”
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PeNGaRoo, a combined gradient boosting and ensemble learning framework for predicting non-classical secreted proteins by Zhang, Yanju, Yu, Sha, Xie, Ruopeng, Li, Jiahui, Leier, André, Marquez-Lago, Tatiana T, Akutsu, Tatsuya, Smith, A Ian, Ge, Zongyuan, Wang, Jiawei, Lithgow, Trevor, Song, Jiangning

“…Abstract Motivation Gram-positive bacteria have developed secretion systems to transport proteins across their cell wall, a process that plays an important…”
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Urbanization and fragmentation mediate temperate forest carbon cycle response to climate by Reinmann, Andrew B, Smith, Ian A, Thompson, Jonathan R, Hutyra, Lucy R

“…Forest fragmentation is ubiquitous across urban and rural areas. While there is mounting evidence that forest fragmentation alters the terrestrial carbon…”
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Piecing together the fragments: elucidating edge effects on forest carbon dynamics by Smith, Ian A, Hutyra, Lucy R, Reinmann, Andrew B, Marrs, Julia K, Thompson, Jonathan R

“…Forest fragmentation is pervasive throughout the world's forests, impacting growing conditions and carbon (C) dynamics through edge effects that produce…”
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Procleave: Predicting Protease-specific Substrate Cleavage Sites by Combining Sequence and Structural Information by Li, Fuyi, Leier, Andre, Liu, Quanzhong, Wang, Yanan, Xiang, Dongxu, Akutsu, Tatsuya, Webb, Geoffrey I., Smith, A. Ian, Marquez-Lago, Tatiana, Li, Jian, Song, Jiangning

“…Proteases are enzymes that cleave and hydrolyse the peptide bonds between two specific amino acid residues of target substrate proteins. Protease-controlled…”
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A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction by Li, Menglu, Wang, Yanan, Li, Fuyi, Zhao, Yun, Liu, Mengya, Zhang, Sijia, Bin, Yannan, Smith, A. Ian, Webb, Geoffrey I., Li, Jian, Song, Jiangning, Xia, Junfeng

“…Multi-drug resistance (MDR) has become one of the greatest threats to human health worldwide, and novel treatment methods of infections caused by MDR bacteria…”
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The X-ray Crystal Structure of Full-Length Human Plasminogen by Law, Ruby H.P., Caradoc-Davies, Tom, Cowieson, Nathan, Horvath, Anita J., Quek, Adam J., Encarnacao, Joanna Amarante, Steer, David, Cowan, Angus, Zhang, Qingwei, Lu, Bernadine G.C., Pike, Robert N., Smith, A. Ian, Coughlin, Paul B., Whisstock, James C.

“…Plasminogen is the proenzyme precursor of the primary fibrinolytic protease plasmin. Circulating plasminogen, which comprises a Pan-apple (PAp) domain, five…”
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Common Fold Mediates Vertebrate Defense and Bacterial Attack by Rosado, Carlos J, Buckle, Ashley M, Law, Ruby H.P, Butcher, Rebecca E, Kan, Wan-Ting, Bird, Catherina H, Ung, Kheng, Browne, Kylie A, Baran, Katherine, Bashtannyk-Puhalovich, Tanya A, Faux, Noel G, Wong, Wilson, Porter, Corrine J, Pike, Robert N, Ellisdon, Andrew M, Pearce, Mary C, Bottomley, Stephen P, Emsley, Jonas, Smith, A. Ian, Rossjohn, Jamie, Hartland, Elizabeth L, Voskoboinik, Ilia, Trapani, Joseph A, Bird, Phillip I, Dunstone, Michelle A, Whisstock, James C

“…Proteins containing membrane attack complex/perforin (MACPF) domains play important roles in vertebrate immunity, embryonic development, and neural-cell…”
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Upregulation of hepatic angiotensin-converting enzyme 2 (ACE2) and angiotensin-(1–7) levels in experimental biliary fibrosis by Herath, Chandana B, Warner, Fiona J, Lubel, John S, Dean, Rachael G, Jia, Zhiyuan, Lew, Rebecca A, Smith, A. Ian, Burrell, Louise M, Angus, Peter W

“…Background/Aims Angiotensin-converting enzyme 2 (ACE2), its product, angiotensin-(1–7) and its receptor, Mas, may moderate the adverse effects of angiotensin…”
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The Clinical and Economic Costs of Delirium After Surgical Resection for Esophageal Malignancy by Markar, Sheraz R, Smith, Ian A, Karthikesalingam, Alan, Low, Donald E

“…OBJECTIVE:The aim of this study was to identify preoperative risk factors and postoperative consequences that are associated with the occurrence of delirium…”
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Letter by Rajapakse et al Regarding Article, “Combined Angiotensin Receptor Antagonism and Neprilysin Inhibition” by Rajapakse, Niwanthi W, Kuruppu, Sanjaya, Ian Smith, A

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Clinical and Pharmacological Investigation of Myotoxicity in Sri Lankan Russell's Viper (Daboia russelii) Envenoming by Silva, Anjana, Johnston, Christopher, Kuruppu, Sanjaya, Kneisz, Daniela, Maduwage, Kalana, Kleifeld, Oded, Smith, A Ian, Siribaddana, Sisira, Buckley, Nicholas A, Hodgson, Wayne C, Isbister, Geoffrey K

“…Sri Lankan Russell's viper (Daboia russelii) envenoming is reported to cause myotoxicity and neurotoxicity, which are different to the effects of envenoming by…”
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The NEAT Domain-Containing Proteins of Clostridium perfringens Bind Heme by Choo, Jocelyn M, Cheung, Jackie K, Wisniewski, Jessica A, Steer, David L, Bulach, Dieter M, Hiscox, Thomas J, Chakravorty, Anjana, Smith, A Ian, Gell, David A, Rood, Julian I, Awad, Milena M

“…The ability of a pathogenic bacterium to scavenge iron from its host is important for its growth and survival during an infection. Our studies on C…”
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Myocardial infarction increases ACE2 expression in rat and humans by Burrell, Louise M., Risvanis, John, Kubota, Eiji, Dean, Rachael G., MacDonald, Peter S., Lu, Sai, Tikellis, Christos, Grant, Sharon L., Lew, Rebecca A., Smith, A. Ian, Cooper, Mark E., Johnston, Colin I.

“…Aims Angiotensin converting enzyme (ACE) 2 catalyses the cleavage of angiotensin (Ang) I to Ang 1‐9 and of Ang II to Ang 1‐7. ACE2 deficiency impairs cardiac…”
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