21,537 results on '"Simon G."'
Search Results
202. Accelerated epigenetic age is associated with whole-brain functional connectivity and impaired cognitive performance in older adults
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Graves, Andrew J., Danoff, Joshua S., Kim, Minah, Brindley, Samantha R., Skyberg, Amalia M., Giamberardino, Stephanie N., Lynch, Morgan E., Straka, Brenda C., Lillard, Travis S., Gregory, Simon G., Connelly, Jessica J., and Morris, James P.
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- 2024
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203. Spatial transcriptomics reveals segregation of tumor cell states in glioblastoma and marked immunosuppression within the perinecrotic niche
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Liu, Mengyi, Ji, Zhicheng, Jain, Vaibhav, Smith, Vanessa L., Hocke, Emily, Patel, Anoop P., McLendon, Roger E., Ashley, David M., Gregory, Simon G., and López, Giselle Y.
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- 2024
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204. Distribution of infectious and parasitic agents among three sentinel bee species across European agricultural landscapes
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Babin, Aurélie, Schurr, Frank, Delannoy, Sabine, Fach, Patrick, Huyen Ton Nu Nguyet, Minh, Bougeard, Stéphanie, de Miranda, Joachim R., Rundlöf, Maj, Wintermantel, Dimitry, Albrecht, Matthias, Attridge, Eleanor, Bottero, Irene, Cini, Elena, Costa, Cecilia, De la Rúa, Pilar, Di Prisco, Gennaro, Dominik, Christophe, Dzul, Daniel, Hodge, Simon, Klein, Alexandra-Maria, Knapp, Jessica, Knauer, Anina C., Mänd, Marika, Martínez-López, Vicente, Medrzycki, Piotr, Pereira-Peixoto, Maria Helena, Potts, Simon G., Raimets, Risto, Schweiger, Oliver, Senapathi, Deepa, Serrano, José, Stout, Jane C., Tamburini, Giovanni, Brown, Mark J. F., Laurent, Marion, Rivière, Marie-Pierre, Chauzat, Marie-Pierre, and Dubois, Eric
- Published
- 2024
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205. Host genotype, soil composition, and geo-climatic factors shape the fonio seed microbiome
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Tabassum, Naheed, Ahmed, Hanin Ibrahim, Parween, Sabiha, Sheikh, Arsheed H., Saad, Maged M., Krattinger, Simon G., and Hirt, Heribert
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- 2024
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206. Genome-wide association analysis identifies novel loci for chronotype in 100,420 individuals from the UK Biobank
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Jacqueline M. Lane, Irma Vlasac, Simon G. Anderson, Simon D. Kyle, William G. Dixon, David A. Bechtold, Shubhroz Gill, Max A. Little, Annemarie Luik, Andrew Loudon, Richard Emsley, Frank A. J. L. Scheer, Deborah A. Lawlor, Susan Redline, David W. Ray, Martin K. Rutter, and Richa Saxena
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Science - Abstract
Here, Richa Saxena and colleagues perform a genome-wide association study (GWAS) of self-reported morningness/eveningness preference in the UKBiobank cohort, and identify new genetic loci that contribute to a person's chronotype.
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- 2016
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207. Multimodal stimulus coding by a gustatory sensory neuron in Drosophila larvae
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Lena van Giesen, Luis Hernandez-Nunez, Sophie Delasoie-Baranek, Martino Colombo, Philippe Renaud, Rémy Bruggmann, Richard Benton, Aravinthan D. T. Samuel, and Simon G. Sprecher
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Science - Abstract
While gustatory systems have been extensively studied in adult Drosophila, not much is known about taste coding at the larval stage. Here, the authors investigate gustatory receptor neurons in larvae and find single neurons are capable of responding to more than one taste modality.
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- 2016
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208. Phospholipase A2 (PLA2) as an Early Indicator of Envenomation in Australian Elapid Snakebites (ASP-27)
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Geoffrey K. Isbister, Nandita Mirajkar, Kellie Fakes, Simon G. A. Brown, and Punnam Chander Veerati
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snakebite ,envenomation ,phospholipase ,diagnosis ,antivenom ,venom ,Biology (General) ,QH301-705.5 - Abstract
Early diagnosis of snake envenomation is essential, especially neurotoxicity and myotoxicity. We investigated the diagnostic value of serum phospholipase (PLA2) in Australian snakebites. In total, 115 envenomated and 80 non-envenomated patients were recruited over 2 years, in which an early blood sample was available pre-antivenom. Serum samples were analyzed for secretory PLA2 activity using a Cayman sPLA2 assay kit (#765001 Cayman Chemical Company, Ann Arbor MI, USA). Venom concentrations were measured for snake identification using venom-specific enzyme immunoassay. The most common snakes were Pseudonaja spp. (33), Notechis scutatus (24), Pseudechis porphyriacus (19) and Tropidechis carinatus (17). There was a significant difference in median PLA2 activity between non-envenomated (9 nmol/min/mL; IQR: 7–11) and envenomated patients (19 nmol/min/mL; IQR: 10–66, p < 0.0001) but Pseudonaja spp. were not different to non-envenomated. There was a significant correlation between venom concentrations and PLA2 activity (r = 0.71; p < 0.0001). PLA2 activity was predictive for envenomation; area under the receiver-operating-characteristic curve (AUC-ROC), 0.79 (95% confidence intervals [95%CI]: 0.72–0.85), which improved with brown snakes excluded, AUC-ROC, 0.88 (95%CI: 0.82–0.94). A cut-point of 16 nmol/min/mL gives a sensitivity of 72% and specificity of 100% for Australian snakes, excluding Pseudonaja. PLA2 activity was a good early predictor of envenomation in most Australian elapid bites. A bedside PLA2 activity test has potential utility for early case identification but may not be useful for excluding envenomation.
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- 2020
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209. Publisher Correction: An expression atlas of variant ionotropic glutamate receptors identifies a molecular basis of carbonation sensing
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Juan Antonio Sánchez-Alcañiz, Ana Florencia Silbering, Vincent Croset, Giovanna Zappia, Anantha Krishna Sivasubramaniam, Liliane Abuin, Saumya Yashmohini Sahai, Daniel Münch, Kathrin Steck, Thomas O. Auer, Steeve Cruchet, G. Larisa Neagu-Maier, Simon G. Sprecher, Carlos Ribeiro, Nilay Yapici, and Richard Benton
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Science - Abstract
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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- 2020
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210. Two Pairs of Drosophila Central Brain Neurons Mediate Larval Navigational Strategies Based on Temporal Light Information Processing
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Tim-Henning Humberg and Simon G. Sprecher
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Drosophila larvae ,NP394 ,insect behavior ,light navigation ,temporal information processing ,spatial information integration ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Some animals are attracted by sun light, others are highly repulsed by it. Especially for slowly moving animals, such as Drosophila larvae, direct sunlight may be perceived as noxious stimulus as it increases the risk of desiccation, DNA-damaging by UV-light and exposure to predators. For several reasons, model organisms like Drosophila larvae are well-suited for investigating how light cues are translated into an appropriate behavioral output. First, many of the genetic tools, which were created for use in adult fruit flies, work also in larvae. Second, the lower number of cells in Drosophila larvae compared to adults makes this system adequate for reconstructing neural circuits. Third, the relatively simple behavioral repertoire of larvae facilitates the study of basic functions like navigation with regards to light. Larvae navigate robustly away from a light source by the use of several sophisticated behavioral strategies which are based on temporal or spatial information processing. Two central brain neurons, the NP394-neurons, are highly important for larval light avoidance. It was even reported that these cells seem to play a functional role in a putative larval light preference switch right before pupation. However, the exact function of the NP394-neurons in light navigation remains unknown. We here show that the functional role of NP394-neurons in larval light navigation is restricted to behaviors based on temporal information processing, but not for spatial navigation.
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- 2018
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211. Attempted Nose and Lip Replantation after Partial Animal Digestion
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Trajan A. Cuellar, Catherine M. Westbom, Dennis Orgill, Julian J. Pribaz, Edward J. Caterson, and Simon G. Talbot
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replantation ,dog bite ,facial reconstruction ,Surgery ,RD1-811 - Abstract
We report a case of a 71-year-old female patient who sustained a severe midface soft tissue avulsion injury from a family canine. The removed tissue was recovered from the canine's digestive tract and transferred to the hospital where emergent microvascular replantation was performed. The tissue survived for 72 hours, but then developed vascular compromise. Despite aggressive revision of multiple anastomoses with extensive use of vein grafting, the replanted segment was lost. Reconstruction then proceeded along traditional lines with an acceptable cosmetic outcome and good functional outcomes.
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- 2018
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212. Functional Identification and Characterization of the Diuretic Hormone 31 (DH31) Signaling System in the Green Shore Crab, Carcinus maenas
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Jodi Alexander, Andrew Oliphant, David C. Wilcockson, and Simon G. Webster
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Carcinus maenas ,calcitonin-like diuretic hormone 31 ,G protein-coupled receptor ,neuroanatomy ,mRNA and peptide expression ,physiological roles ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
The functional characterization of crustacean neuropeptides and their cognate receptors has not kept pace with the recent advances in sequence determination and, therefore, our understanding of the physiological roles of neuropeptides in this important arthropod sub-phylum is rather limited. We identified a candidate receptor-ligand pairing for diuretic hormone 31 (DH31) in a neural transcriptome of the crab, Carcinus maenas. In insects, DH31 plays species -specific but central roles in many facets of physiology, including fluid secretion, myoactivity, and gut peristalsis but little is known concerning its functions in crustaceans. The C. maenas DH31 transcript codes for a 147 amino acid prepropeptide, and a single receptor transcript translates to a secretin-like (Class B1) G protein-coupled receptor (GPCR). We used an in vitro aequorin luminescence Ca2+ mobilization assay to demonstrate that this candidate DH31R is activated byCarcinus and insect DH31s in a dose-dependent manner (EC50 15–30 nM). Whole mount immunohistochemical and in situ hybridization localization revealed extensive DH31 expressing neurons throughout the central nervous system, most notably in the abdominal ganglion where large, unpaired cells give rise to medial nerves, which terminate in extensive DH31 immunopositive dendritic fields intimately associated with oesophageal musculature. This system constitutes a large and hitherto undescribed neurohemal area adjacent to key muscle groups associated with the gastric system. DH31 expressing neurons were also seen in the cardiac, commissural, oesophageal, and stomatogastric ganglia and intense labeling was seen in dendrites innervating fore- and hindgut musculature but not with limb muscles. These labeling patterns, together with measurement of DH31R mRNA in the heart and hindgut, prompted us test the effects of DH31 on semi-isolated heart preparations. Cardiac superfusion with peptide evoked increased heart rates (10–100 nM). The neuroanatomical distribution of DH31 and its receptor transcripts, particularly that associated with gastric and cardiac musculature, coupled with the cardio- acceleratory effects of the peptide implicate this peptide in key myoactive roles, likely related to rhythmic coordination.
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- 2018
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213. Functional Characterization and Signaling Systems of Corazonin and Red Pigment Concentrating Hormone in the Green Shore Crab, Carcinus maenas
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Jodi L. Alexander, Andrew Oliphant, David C. Wilcockson, Neil Audsley, Rachel E. Down, Rene Lafont, and Simon G. Webster
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Carcinus maenas ,neuropeptides ,G protein-coupled receptors ,corazonin ,red pigment concentrating hormone ,mRNA and peptide expression ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Neuropeptides play a central role as neurotransmitters, neuromodulators and hormones in orchestrating arthropod physiology. The post-genomic surge in identified neuropeptides and their putative receptors has not been matched by functional characterization of ligand-receptor pairs. Indeed, until very recently no G protein-coupled receptors (GPCRs) had been functionally defined in any crustacean. Here we explore the structurally-related, functionally-diverse gonadotropin-releasing hormone paralogs, corazonin (CRZ) and red-pigment concentrating hormone (RPCH) and their G-protein coupled receptors (GPCRs) in the crab, Carcinus maenas. Using aequorin luminescence to measure in vitro Ca2+ mobilization we demonstrated receptor-ligand pairings of CRZ and RPCH. CRZR-activated cell signaling in a dose-dependent manner (EC50 0.75 nM) and comparative studies with insect CRZ peptides suggest that the C-terminus of this peptide is important in receptor-ligand interaction. RPCH interacted with RPCHR with extremely high sensitivity (EC50 20 pM). Neither receptor bound GnRH, nor the AKH/CRZ-related peptide. Transcript distributions of both receptors indicate that CRZR expression was, unexpectedly, restricted to the Y-organs (YO). Application of CRZ peptide to YO had no effect on ecdysteroid biosynthesis, excepting a modest stimulation in early post-molt. CRZ had no effect on heart activity, blood glucose levels, lipid mobilization or pigment distribution in chromatophores, a scenario that reflected the distribution of its mRNA. Apart from the well-known activity of RPCH as a chromatophorotropin, it also indirectly elicited hyperglycemia (which was eyestalk-dependent). RPCHR mRNA was also expressed in the ovary, indicating possible roles in reproduction. The anatomy of CRZ and RPCH neurons in the nervous system is described in detail by immunohistochemistry and in situ hybridization. Each peptide has extensive but non-overlapping distribution in the CNS, and neuroanatomy suggests that both are possibly released from the post-commissural organs. This study is one of the first to deorphanize a GPCR in a crustacean and to provide evidence for hitherto unknown and diverse functions of these evolutionarily-related neuropeptides.
- Published
- 2018
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214. Holocene Dynamics of Temperate Rainforests in West-Central Patagonia
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Virginia Iglesias, Simon G. Haberle, Andrés Holz, and Cathy Whitlock
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anthropogenic impact ,charcoal ,climate ,pollen ,stability ,vegetation ,Evolution ,QH359-425 ,Ecology ,QH540-549.5 - Abstract
Analyses of long-term ecosystem dynamics offer insights into the conditions that have led to stability vs. rapid change in the past and the importance of disturbance in regulating community composition. In this study, we (1) used lithology, pollen, and charcoal data from Mallín Casanova (47°S) to reconstruct the wetland, vegetation, and fire history of west-central Patagonia; and (2) compared the records with independent paleoenvironmental and archeological information to assess the effects of past climate and human activity on ecosystem dynamics. Pollen data indicate that Nothofagus-Pilgerodendron forests were established by 9,000 cal yr BP. Although the biodiversity of the understory increased between 8,480 and 5,630 cal yr BP, forests remained relatively unchanged from 9,000 to 2,000 cal yr BP. The charcoal record registers high fire-episode frequency in the early Holocene followed by low biomass burning between 6,500 and 2,000 cal yr BP. Covarying trends in charcoal, bog development, and Neoglacial advances suggest that climate was the primary driver of these changes. After 2,000 cal yr BP, the proxy data indicate (a) increased fire-episode frequency; (b) centennial-scale shifts in bog and forest composition; (c) the emergence of vegetation-fire linkages not recorded in previous times; and (d) paludification in the last 500 years possibly associated with forest loss. Our results therefore suggest that Nothofagus-Pilgerodendron dominance was maintained through much of the Holocene despite long-term changes in climate and fire. Unparalleled fluctuations in local ecosystems during the last two millennia were governed by disturbance-vegetation-hydrology feedbacks likely triggered by greater climate variability and deforestation.
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- 2018
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215. Scalable Atomic Arrays for Spin-Based Quantum Computers in Silicon
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Jakob, Alexander M., Robson, Simon G., Firgau, Hannes R., Mourik, Vincent, Schmitt, Vivien, Holmes, Danielle, Posselt, Matthias, Mayes, Edwin L. H., Spemann, Daniel, Morello, Andrea, and Jamieson, David N.
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Condensed Matter - Materials Science ,Condensed Matter - Mesoscale and Nanoscale Physics ,Quantum Physics - Abstract
Semiconductor spin qubits combine excellent quantum performance with the prospect of manufacturing quantum devices using industry-standard metal-oxide-semiconductor (MOS) processes. This applies also to ion-implanted donor spins, which further afford exceptional coherence times and large Hilbert space dimension in their nuclear spin. Here we demonstrate and integrate multiple strategies to manufacture scale-up donor-based quantum computers. We use $^{31}$PF$_{2}$ molecule implants to triple the placement certainty compared to $^{31}$P ions, while attaining 99.99$\,$% confidence in detecting the implant. Similar confidence is retained by implanting heavier atoms such as $^{123}$Sb and $^{209}$Bi, which represent high-dimensional qudits for quantum information processing, while Sb$_2$ molecules enable deterministic formation of closely-spaced qudits. We demonstrate the deterministic formation of regular arrays of donor atoms with 300$\,$nm spacing, using step-and-repeat implantation through a nano aperture. These methods cover the full gamut of technological requirements for the construction of donor-based quantum computers in silicon., Comment: 11 pages, 6 figures, 2 tables
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- 2023
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216. Functional brain regeneration in the acoel worm Symsagittifera roscoffensis
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Simon G. Sprecher, F. Javier Bernardo-Garcia, Lena van Giesen, Volker Hartenstein, Heinrich Reichert, Ricardo Neves, Xavier Bailly, Pedro Martinez, and Michael Brauchle
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Brain regeneration ,Xenacoelomorpha ,Symsagittifera roscoffensis ,Nervous system ,Animal behavior ,Science ,Biology (General) ,QH301-705.5 - Abstract
The ability of some animals to regrow their head and brain after decapitation provides a striking example of the regenerative capacity within the animal kingdom. The acoel worm Symsagittifera roscoffensis can regrow its head, brain and sensory head organs within only a few weeks after decapitation. How rapidly and to what degree it also reacquires its functionality to control behavior however remains unknown. We provide here a neuroanatomical map of the brain neuropils of the adult S. roscoffensis and show that after decapitation a normal neuroanatomical organization of the brain is restored in the majority of animals. By testing different behaviors we further show that functionality of both sensory perception and the underlying brain architecture are restored within weeks after decapitation. Interestingly not all behaviors are restored at the same speed and to the same extent. While we find that phototaxis recovered rapidly, geotaxis is not restored within 7 weeks. Our findings show that regeneration of the head, sensory organs and brain result in the restoration of directed navigation behavior, suggesting a tight coordination in the regeneration of certain sensory organs with that of their underlying neural circuits. Thus, at least in S. roscoffensis, the regenerative capacity of different sensory modalities follows distinct paths.
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- 2015
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217. Mesenchymal stem cells and serelaxin synergistically abrogate established airway fibrosis in an experimental model of chronic allergic airways disease
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Simon G. Royce, Matthew Shen, Krupesh P. Patel, Brooke M. Huuskes, Sharon D. Ricardo, and Chrishan S. Samuel
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Asthma ,Airway remodeling ,Fibrosis ,Mesenchymal stem cells ,Serelaxin ,Biology (General) ,QH301-705.5 - Abstract
This study determined if the anti-fibrotic drug, serelaxin (RLN), could augment human bone marrow-derived mesenchymal stem cell (MSC)-mediated reversal of airway remodeling and airway hyperresponsiveness (AHR) associated with chronic allergic airways disease (AAD/asthma). Female Balb/c mice subjected to the 9-week model of ovalbumin (OVA)-induced chronic AAD were either untreated or treated with MSCs alone, RLN alone or both combined from weeks 9–11. Changes in airway inflammation (AI), epithelial thickness, goblet cell metaplasia, transforming growth factor (TGF)-β1 expression, myofibroblast differentiation, subepithelial and total lung collagen deposition, matrix metalloproteinase (MMP) expression, and AHR were then assessed. MSCs alone modestly reversed OVA-induced subepithelial and total collagen deposition, and increased MMP-9 levels above that induced by OVA alone (all p
- Published
- 2015
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218. Diversity of internal structures in inhibited epoxy primers
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Anthony E. Hughes, Y. Sam Yang, Simon G. Hardin, Andrew Tulloh, Yudan Wang, and You He
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computed tomography ,data constrained modeling ,inhibited primers ,chromate inhibitors ,x-ray absorption tomography ,Materials of engineering and construction. Mechanics of materials ,TA401-492 - Abstract
Computed tomography is making a significant impact in the field of materials science in recent years. In this paper the authors report on advances made in three areas of characterization and also identified where further research needs to be focused. First we report on a new approach to data analysis called “Data Constrained Modelling (DCM)” in which compositional tomography can be undertaken rather than adsorption or phase contrast tomography. This is achieved by collecting X-ray CT data at different energies and then combining the datasets to reconstruct 3D compositional tomography. Second, on the application of this approach to inhibited primers typical of those used in the aerospace industry. Aerospace primers are effectively composite materials containing inorganic phases which are bound together with a polymer. Understanding the materials science of these systems requires information over several orders of magnitude in length-scale. In this paper we report on how DCM can be used to extend our understanding at the smaller length scales at the limits of resolution of the technique. The third and final advance is in extending the approach to include 4-dimensional studies. In this case we examine the primer before and after leaching. This process causes changes in the primer which can be both detected and quantified using the above approach.
- Published
- 2015
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219. Corporate governance and corporate social responsibility – the case of FIFA
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Obada S. Zeidan and Simon G. Fauser
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Business ,HF5001-6182 - Published
- 2015
220. Differences in grass pollen allergen exposure across Australia
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Paul J. Beggs, Constance H. Katelaris, Danielle Medek, Fay H. Johnston, Pamela K. Burton, Bradley Campbell, Alison K. Jaggard, Don Vicendese, David M.J.S. Bowman, Ian Godwin, Alfredo R. Huete, Bircan Erbas, Brett J. Green, Rewi M. Newnham, Ed Newbigin, Simon G. Haberle, and Janet M. Davies
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pollen ,allergen ,season ,allergic rhinitis ,allergic asthma ,Public aspects of medicine ,RA1-1270 - Abstract
Abstract Objective: Allergic rhinitis and allergic asthma are important chronic diseases posing serious public health issues in Australia with associated medical, economic, and societal burdens. Pollen are significant sources of clinically relevant outdoor aeroallergens, recognised as both a major trigger for, and cause of, allergic respiratory diseases. This study aimed to provide a national, and indeed international, perspective on the state of Australian pollen data using a large representative sample. Methods: Atmospheric grass pollen concentration is examined over a number of years within the period 1995 to 2013 for Brisbane, Canberra, Darwin, Hobart, Melbourne, and Sydney, including determination of the ‘clinical’ grass pollen season and grass pollen peak. Results: The results of this study describe, for the first time, a striking spatial and temporal variability in grass pollen seasons in Australia, with important implications for clinicians and public health professionals, and the Australian grass pollen‐allergic community. Conclusions: These results demonstrate that static pollen calendars are of limited utility and in some cases misleading. This study also highlights significant deficiencies and limitations in the existing Australian pollen monitoring and data. Implications: Establishment of an Australian national pollen monitoring network would help facilitate advances in the clinical and public health management of the millions of Australians with asthma and allergic rhinitis.
- Published
- 2015
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221. British Buddhism: Teachings, practice and development, by Robert Bluck.
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Simon G. Smith
- Subjects
Philosophy. Psychology. Religion - Published
- 2015
222. Protein target highlights in CASP15: Analysis of models by structure providers
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Alexander, Leila T, Durairaj, Janani, Kryshtafovych, Andriy, Abriata, Luciano A, Bayo, Yusupha, Bhabha, Gira, Breyton, Cécile, Caulton, Simon G, Chen, James, Degroux, Séraphine, Ekiert, Damian C, Erlandsen, Benedikte S, Freddolino, Peter L, Gilzer, Dominic, Greening, Chris, Grimes, Jonathan M, Grinter, Rhys, Gurusaran, Manickam, Hartmann, Marcus D, Hitchman, Charlie J, Keown, Jeremy R, Kropp, Ashleigh, Kursula, Petri, Lovering, Andrew L, Lemaitre, Bruno, Lia, Andrea, Liu, Shiheng, Logotheti, Maria, Lu, Shuze, Markússon, Sigurbjörn, Miller, Mitchell D, Minasov, George, Niemann, Hartmut H, Opazo, Felipe, Phillips, George N, Davies, Owen R, Rommelaere, Samuel, Rosas‐Lemus, Monica, Roversi, Pietro, Satchell, Karla, Smith, Nathan, Wilson, Mark A, Wu, Kuan‐Lin, Xia, Xian, Xiao, Han, Zhang, Wenhua, Zhou, Z Hong, Fidelis, Krzysztof, Topf, Maya, Moult, John, and Schwede, Torsten
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Biochemistry and Cell Biology ,Bioinformatics and Computational Biology ,Biological Sciences ,Protein Conformation ,Models ,Molecular ,Computational Biology ,Proteins ,CASP ,cryo-EM ,protein structure prediction ,X-ray crystallography ,Mathematical Sciences ,Information and Computing Sciences ,Bioinformatics ,Biological sciences ,Mathematical sciences - Abstract
We present an in-depth analysis of selected CASP15 targets, focusing on their biological and functional significance. The authors of the structures identify and discuss key protein features and evaluate how effectively these aspects were captured in the submitted predictions. While the overall ability to predict three-dimensional protein structures continues to impress, reproducing uncommon features not previously observed in experimental structures is still a challenge. Furthermore, instances with conformational flexibility and large multimeric complexes highlight the need for novel scoring strategies to better emphasize biologically relevant structural regions. Looking ahead, closer integration of computational and experimental techniques will play a key role in determining the next challenges to be unraveled in the field of structural molecular biology.
- Published
- 2023
223. Pesticide use negatively affects bumble bees across European landscapes
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Nicholson, Charlie C., Knapp, Jessica, Kiljanek, Tomasz, Albrecht, Matthias, Chauzat, Marie-Pierre, Costa, Cecilia, De la Rúa, Pilar, Klein, Alexandra-Maria, Mänd, Marika, Potts, Simon G., Schweiger, Oliver, Bottero, Irene, Cini, Elena, de Miranda, Joachim R., Di Prisco, Gennaro, Dominik, Christophe, Hodge, Simon, Kaunath, Vera, Knauer, Anina, Laurent, Marion, Martínez-López, Vicente, Medrzycki, Piotr, Pereira-Peixoto, Maria Helena, Raimets, Risto, Schwarz, Janine M., Senapathi, Deepa, Tamburini, Giovanni, Brown, Mark J. F., Stout, Jane C., and Rundlöf, Maj
- Published
- 2024
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224. Small and Intermediate Calcium-Activated Potassium Channel Openers Improve Rat Endothelial and Erectile Function
- Author
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Simon G. Comerma-Steffensen, Ingrid Carvacho, Elise R. Hedegaard, and Ulf Simonsen
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erectile function ,calcium activated potassium channels ,NS309 ,NS4591 ,corpus cavernosum ,KCa2.3 ,Therapeutics. Pharmacology ,RM1-950 - Abstract
Modulation of endothelial calcium-activated potassium (KCa) channels has been proposed as an approach to restore endothelial function. The present study investigated whether novel openers of KCa channels with small (KCa2.x) and intermediate (KCa3.1) conductance, NS309 and NS4591, improve endothelium-dependent relaxation and erectile function. Rat corpus cavernosum (CC) strips were mounted for isometric tension recording and processed for immunoblotting. Mean arterial pressure (MAP), intracavernosal pressure (ICP), and electrocardiographic (ECG) measurements were conducted in anesthetized rats. Immunoblotting revealed the presence of KCa2.3 and large KCa conductance (KCa1.1) channels in the corpus cavernosum. NS309 and NS4591 increased current in CC endothelial cells in whole cell patch clamp experiments. Relaxation induced by NS309 (
- Published
- 2017
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225. Hypoxic Induced Decrease in Oxygen Consumption in Cuttlefish (Sepia officinalis) Is Associated with Minor Increases in Mantle Octopine but No Changes in Markers of Protein Turnover
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Juan C. Capaz, Louise Tunnah, Tyson J. MacCormack, Simon G. Lamarre, Antonio V. Sykes, and William R. Driedzic
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European cuttlefish ,Sepia officinalis ,HSP70 ,octopine ,polyubiquitinated protein ,ventilation frequency ,Physiology ,QP1-981 - Abstract
The common cuttlefish (Sepia officinalis), a dominant species in the north-east Atlantic ocean and Mediterranean Sea, is potentially subject to hypoxic conditions due to eutrophication of coastal waters and intensive aquaculture. Here we initiate studies on the biochemical response to an anticipated level of hypoxia. Cuttlefish challenged for 1 h at an oxygen level of 50% dissolved oxygen saturation showed a decrease in oxygen consumption of 37% associated with an 85% increase in ventilation rate. Octopine levels were increased to a small but significant level in mantle, whereas there was no change in gill or heart. There were no changes in mantle free glucose or glycogen levels. Similarly, the hypoxic period did not result in changes in HSP70 or polyubiquinated protein levels in mantle, gill, or heart. As such, it appears that although there was a decrease in metabolic rate there was only a minor increase in anaerobic metabolism as evidenced by octopine accumulation and no biochemical changes that are hallmarks of alterations in protein trafficking. Experiments with isolated preparations of mantle, gill, and heart revealed that pharmacological inhibition of protein synthesis could decrease oxygen consumption by 32 to 42% or Na+/K+ ATPase activity by 24 to 54% dependent upon tissue type. We propose that the decrease in whole animal oxygen consumption was potentially the result of controlled decreases in the energy demanding processes of both protein synthesis and Na+/K+ ATPase activity.
- Published
- 2017
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226. Age- and Wavelength-Dependency of Drosophila Larval Phototaxis and Behavioral Responses to Natural Lighting Conditions
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Simon G. Sprecher and Tim-Henning Humberg
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visual system ,phototaxis ,navigation ,Drosophila larva ,photoreceptor ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Animals use various environmental cues as key determinant for their behavioral decisions. Visual systems are hereby responsible to translate light-dependent stimuli into neuronal encoded information. Even though the larval eyes of the fruit fly Drosophila melanogaster are comparably simple, they comprise two types of photoreceptor neurons (PRs), defined by different Rhodopsin genes expressed. Recent findings support that for light avoidance Rhodopsin5 (Rh5) expressing photoreceptors are crucial, while Rhodopsin6 (Rh6) expressing photoreceptors are dispensable under laboratory conditions. However, it remains debated how animals change light preference during larval live. We show that larval negative phototaxis is age-independent as it persists in larvae from foraging to wandering developmental stages. Moreover, if spectrally different Rhodopsins are employed for the detection of different wavelength of light remains unexplored. We found that negative phototaxis can be elicit by light with wavelengths ranging from ultraviolet (UV) to green. This behavior is uniquely mediated by Rh5 expressing photoreceptors, and therefore suggest that this photoreceptor-type is able to perceive UV up to green light. In contrast to laboratory our field experiments revealed that Drosophila larvae uses both types of photoreceptors under natural lighting conditions. All our results, demonstrate that Drosophila larval eyes mediate avoidance of light stimuli with a wide, ecological relevant range of quantity (intensities) and quality (wavelengths). Thus, the two photoreceptor-types appear more likely to play a role in different aspects of phototaxis under natural lighting conditions, rather than color discrimination.
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- 2017
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227. Social Disadvantage Is Associated With Lower Vitamin D Levels in Older People and There Is No Surrogate for Its Measurement
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Adrian H. Heald DM, Simon G. Anderson PhD, Jonathan J. Scargill MSc, Andrea Short PhD, David Holland BA, Adnan Khan MD, Anthony A. Fryer PhD, Rachelle P. Donn PhD, and Mark Livingston PhD
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Geriatrics ,RC952-954.6 - Abstract
Introduction: There is increasing evidence concerning adverse health consequences of low vitamin D levels. We determined whether there is any surrogate for measuring vitamin D in people older than 70 years and the relation between index of multiple deprivation (IMD) and vitamin D levels. Methods: Blood samples from 241 patients were included in this analysis. Concurrent measurements for 25-hydroxyvitamin D (25(OH)D), parathyroid hormone (PTH), and bone profile are reported. Results: The prevalence of total vitamin D insufficiency/deficiency (defined as total vitamin D
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- 2017
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228. Humoral Responses to Rv1733c, Rv0081, Rv1735c, and Rv1737c DosR Regulon-Encoded Proteins of Mycobacterium tuberculosis in Individuals with Latent Tuberculosis Infection
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Simon G. Kimuda, Angela Nalwoga, Jonathan Levin, Kees L. M. C. Franken, Tom H. M. Ottenhoff, Alison M. Elliott, Stephen Cose, and Irene Andia-Biraro
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Immunologic diseases. Allergy ,RC581-607 - Abstract
Latent tuberculosis infection (LTBI) is evidence of immunological control of tuberculosis. Dormancy survival regulator (DosR) regulon-encoded proteins may have a role in the maintenance of LTBI. T cell responses to Rv1733c, Rv0081, Rv1735c, and Rv1737c DosR regulon-encoded proteins were found to be most frequent among household contacts of TB cases from Uganda compared to other DosR proteins, but antibody responses were not described. We characterized antibody responses to these proteins in individuals from Uganda. Antibodies to Rv1733c, Rv0081, Rv1735c, and Rv1737c DosR regulon-encoded proteins were measured in 68 uninfected individuals, 62 with LTBI, and 107 with active pulmonary tuberculosis (APTB) cases. There were no differences in the concentrations of antibodies to Rv0081, Rv1735c, and Rv1737c DosR regulon-encoded proteins between individuals with LTBI and APTB and those who were uninfected. LTBI was associated with higher concentrations of antibodies to Rv1733c in female participants [adjusted geometric mean ratio: 1.812, 95% confidence interval (CI): 1.105 2.973, and p=0.019] but not in males (p value for interaction = 0.060). Antibodies to the four DosR regulon-encoded proteins investigated may not serve as good biomarkers of LTBI in the general population. More of the M.tb proteome needs to be screened to identify proteins that induce strong antibody responses in LTBI.
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- 2017
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229. Graphene-Enhanced Single Ion Detectors for Deterministic Near-Surface Dopant Implantation in Diamond
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Collins, Nicholas F. L., Jakob, Alexander M., Robson, Simon G., Lim, Shao Qi, Räcke, Paul, Johnson, Brett C., Liu, Boqing, Lu, Yuerui, Spemann, Daniel, McCallum, Jeffrey C., and Jamieson, David N.
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Condensed Matter - Mesoscale and Nanoscale Physics ,Physics - Instrumentation and Detectors ,Quantum Physics - Abstract
Colour centre ensembles in diamond have been the subject of intensive investigation for many applications including single photon sources for quantum communication, quantum computation with optical inputs and outputs, and magnetic field sensing down to the nanoscale. Some of these applications are realised with a single centre or randomly distributed ensembles in chips, but the most demanding application for a large-scale quantum computer will require ordered arrays. By configuring an electronic-grade diamond substrate with a biased surface graphene electrode connected to charge-sensitive electronics, it is possible to demonstrate deterministic single ion implantation for ions stopping between 30 and 130~nm deep from a typical stochastic ion source. An implantation event is signalled by a charge pulse induced by the drift of electron-hole pairs from the ion implantation. The ion implantation site is localised with an AFM nanostencil or a focused ion beam. This allows the construction of ordered arrays of single atoms with associated colour centres that paves the way for the fabrication of deterministic colour center networks in a monolithic device., Comment: 11 pages, 5 figures
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- 2023
230. The effect of loops on the mean square displacement of Rouse-model chromatin
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Yuan, Tianyu, Yan, Hao, Bailey, Mary Lou P., Williams, Jessica F., Surovtsev, Ivan, King, Megan C., and Mochrie, Simon G. J.
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Physics - Biological Physics ,Condensed Matter - Soft Condensed Matter ,Quantitative Biology - Subcellular Processes - Abstract
Many researchers have been encouraged to describe the dynamics of chromosomal loci in chromatin using the classical Rouse model of polymer dynamics by the agreement between the measured mean square displacement (MSD) versus time of fluorescently-labelled loci and the Rouse-model predictions. However, the discovery of intermediate-scale chromatin organization, known as topologically associating domains (TADs), together with the proposed explanation of TADs in terms of chromatin loops and loop extrusion, is at odds with the classical Rouse model, which does not contain loops. Accordingly, we introduce an extended Rouse model that incorporates chromatin loop configurations from loop-extrusion-factor-model simulations. Specifically, we extend the classical Rouse model by modifying the polymer's dynamical matrix to incorporate extra springs that represent loop bases. We also theoretically generalize the friction coefficient matrix so that the Rouse beads with non-uniform friction coefficients are compatible with our Rouse model simulation method. This extended Rouse model allowes us to investigate the impact of loops and loop extrusion on the dynamics of chromatin. We show that loops significantly suppress the averaged MSD of a chromosomal locus, consistent with recent experiments that track fluorescently-labelled chromatin loci in fission yeast [M. L. P. Bailey, I. Surovtsev, J. F. Williams, H. Yan, T. Yuan, S. G. Mochrie, and M. C. King, Mol. Biol. Cell (in press)]. We also find that loops slightly reduce the MSD's stretching exponent from the classical Rouse-model value of 0.5 to a loop-density-dependent value in the 0.45-0.40 range. Remarkably, stretching exponent values in this range have also been reported in recent experiments [S. C. Weber, A. J. Spakowitz, and J. A. Theriot, Phys. Rev. Lett. 104, 238102 (2010) and Bailey et al., Mol. Biol. Cell (in press)].
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- 2023
231. The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts
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Lawrence N. Hudson, Tim Newbold, Sara Contu, Samantha L. L. Hill, Igor Lysenko, Adriana De Palma, Helen R. P. Phillips, Rebecca A. Senior, Dominic J. Bennett, Hollie Booth, Argyrios Choimes, David L. P. Correia, Julie Day, Susy Echeverría‐Londoño, Morgan Garon, Michelle L. K. Harrison, Daniel J. Ingram, Martin Jung, Victoria Kemp, Lucinda Kirkpatrick, Callum D. Martin, Yuan Pan, Hannah J. White, Job Aben, Stefan Abrahamczyk, Gilbert B. Adum, Virginia Aguilar‐Barquero, Marcelo A. Aizen, Marc Ancrenaz, Enrique Arbeláez‐Cortés, Inge Armbrecht, Badrul Azhar, Adrián B. Azpiroz, Lander Baeten, András Báldi, John E. Banks, Jos Barlow, Péter Batáry, Adam J. Bates, Erin M. Bayne, Pedro Beja, Åke Berg, Nicholas J. Berry, Jake E. Bicknell, Jochen H. Bihn, Katrin Böhning‐Gaese, Teun Boekhout, Céline Boutin, Jérémy Bouyer, Francis Q. Brearley, Isabel Brito, Jörg Brunet, Grzegorz Buczkowski, Erika Buscardo, Jimmy Cabra‐García, María Calviño‐Cancela, Sydney A. Cameron, Eliana M. Cancello, Tiago F. Carrijo, Anelena L. Carvalho, Helena Castro, Alejandro A. Castro‐Luna, Rolando Cerda, Alexis Cerezo, Matthieu Chauvat, Frank M. Clarke, Daniel F. R. Cleary, Stuart P. Connop, Biagio D'Aniello, Pedro Giovâni daSilva, Ben Darvill, Jens Dauber, Alain Dejean, Tim Diekötter, Yamileth Dominguez‐Haydar, Carsten F. Dormann, Bertrand Dumont, Simon G. Dures, Mats Dynesius, Lars Edenius, Zoltán Elek, Martin H. Entling, Nina Farwig, Tom M. Fayle, Antonio Felicioli, Annika M. Felton, Gentile F. Ficetola, Bruno K. C. Filgueiras, Steven J. Fonte, Lauchlan H. Fraser, Daisuke Fukuda, Dario Furlani, Jörg U. Ganzhorn, Jenni G. Garden, Carla Gheler‐Costa, Paolo Giordani, Simonetta Giordano, Marco S. Gottschalk, Dave Goulson, Aaron D. Gove, James Grogan, Mick E. Hanley, Thor Hanson, Nor R. Hashim, Joseph E. Hawes, Christian Hébert, Alvin J. Helden, John‐André Henden, Lionel Hernández, Felix Herzog, Diego Higuera‐Diaz, Branko Hilje, Finbarr G. Horgan, Roland Horváth, Kristoffer Hylander, Paola Isaacs‐Cubides, Masahiro Ishitani, Carmen T. Jacobs, Víctor J. Jaramillo, Birgit Jauker, Mats Jonsell, Thomas S. Jung, Vena Kapoor, Vassiliki Kati, Eric Katovai, Michael Kessler, Eva Knop, Annette Kolb, Ádám Kőrösi, Thibault Lachat, Victoria Lantschner, Violette Le Féon, Gretchen LeBuhn, Jean‐Philippe Légaré, Susan G. Letcher, Nick A. Littlewood, Carlos A. López‐Quintero, Mounir Louhaichi, Gabor L. Lövei, Manuel Esteban Lucas‐Borja, Victor H. Luja, Kaoru Maeto, Tibor Magura, Neil Aldrin Mallari, Erika Marin‐Spiotta, E. J. P. Marshall, Eliana Martínez, Margaret M. Mayfield, Grzegorz Mikusinski, Jeffrey C. Milder, James R. Miller, Carolina L. Morales, Mary N. Muchane, Muchai Muchane, Robin Naidoo, Akihiro Nakamura, Shoji Naoe, Guiomar Nates‐Parra, Dario A. Navarrete Gutierrez, Eike L. Neuschulz, Norbertas Noreika, Olivia Norfolk, Jorge Ari Noriega, Nicole M. Nöske, Niall O'Dea, William Oduro, Caleb Ofori‐Boateng, Chris O. Oke, Lynne M. Osgathorpe, Juan Paritsis, Alejandro Parra‐H, Nicolás Pelegrin, Carlos A. Peres, Anna S. Persson, Theodora Petanidou, Ben Phalan, T. Keith Philips, Katja Poveda, Eileen F. Power, Steven J. Presley, Vânia Proença, Marino Quaranta, Carolina Quintero, Nicola A. Redpath‐Downing, J. Leighton Reid, Yana T. Reis, Danilo B. Ribeiro, Barbara A. Richardson, Michael J. Richardson, Carolina A. Robles, Jörg Römbke, Luz Piedad Romero‐Duque, Loreta Rosselli, Stephen J. Rossiter, T'ai H. Roulston, Laurent Rousseau, Jonathan P. Sadler, Szabolcs Sáfián, Romeo A. Saldaña‐Vázquez, Ulrika Samnegård, Christof Schüepp, Oliver Schweiger, Jodi L. Sedlock, Ghazala Shahabuddin, Douglas Sheil, Fernando A. B. Silva, Eleanor M. Slade, Allan H. Smith‐Pardo, Navjot S. Sodhi, Eduardo J. Somarriba, Ramón A. Sosa, Jane C. Stout, Matthew J. Struebig, Yik‐Hei Sung, Caragh G. Threlfall, Rebecca Tonietto, Béla Tóthmérész, Teja Tscharntke, Edgar C. Turner, Jason M. Tylianakis, Adam J. Vanbergen, Kiril Vassilev, Hans A. F. Verboven, Carlos H. Vergara, Pablo M. Vergara, Jort Verhulst, Tony R. Walker, Yanping Wang, James I. Watling, Konstans Wells, Christopher D. Williams, Michael R. Willig, John C. Z. Woinarski, Jan H. D. Wolf, Ben A. Woodcock, Douglas W. Yu, Andrey S. Zaitsev, Ben Collen, Rob M. Ewers, Georgina M. Mace, Drew W. Purves, Jörn P. W. Scharlemann, and Andy Purvis
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Data sharing ,global change ,habitat destruction ,land use ,Ecology ,QH540-549.5 - Abstract
Abstract Biodiversity continues to decline in the face of increasing anthropogenic pressures such as habitat destruction, exploitation, pollution and introduction of alien species. Existing global databases of species’ threat status or population time series are dominated by charismatic species. The collation of datasets with broad taxonomic and biogeographic extents, and that support computation of a range of biodiversity indicators, is necessary to enable better understanding of historical declines and to project – and avert – future declines. We describe and assess a new database of more than 1.6 million samples from 78 countries representing over 28,000 species, collated from existing spatial comparisons of local‐scale biodiversity exposed to different intensities and types of anthropogenic pressures, from terrestrial sites around the world. The database contains measurements taken in 208 (of 814) ecoregions, 13 (of 14) biomes, 25 (of 35) biodiversity hotspots and 16 (of 17) megadiverse countries. The database contains more than 1% of the total number of all species described, and more than 1% of the described species within many taxonomic groups – including flowering plants, gymnosperms, birds, mammals, reptiles, amphibians, beetles, lepidopterans and hymenopterans. The dataset, which is still being added to, is therefore already considerably larger and more representative than those used by previous quantitative models of biodiversity trends and responses. The database is being assembled as part of the PREDICTS project (Projecting Responses of Ecological Diversity In Changing Terrestrial Systems – https://www.nhm.ac.uk/our-science/our-work/biodiversity/predicts.html). We make site‐level summary data available alongside this article. The full database will be publicly available in 2015.
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- 2014
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232. Protein interference applications in cellular and developmental biology using DARPins that recognize GFP and mCherry
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Michael Brauchle, Simon Hansen, Emmanuel Caussinus, Anna Lenard, Amanda Ochoa-Espinosa, Oliver Scholz, Simon G. Sprecher, Andreas Plückthun, and Markus Affolter
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DARPin ,GFP ,mCherry ,Protein interference ,Science ,Biology (General) ,QH301-705.5 - Abstract
Protein–protein interactions are crucial for cellular homeostasis and play important roles in the dynamic execution of biological processes. While antibodies represent a well-established tool to study protein interactions of extracellular domains and secreted proteins, as well as in fixed and permeabilized cells, they usually cannot be functionally expressed in the cytoplasm of living cells. Non-immunoglobulin protein-binding scaffolds have been identified that also function intracellularly and are now being engineered for synthetic biology applications. Here we used the Designed Ankyrin Repeat Protein (DARPin) scaffold to generate binders to fluorescent proteins and used them to modify biological systems directly at the protein level. DARPins binding to GFP or mCherry were selected by ribosome display. For GFP, binders with KD as low as 160 pM were obtained, while for mCherry the best affinity was 6 nM. We then verified in cell culture their specific binding in a complex cellular environment and found an affinity cut-off in the mid-nanomolar region, above which binding is no longer detectable in the cell. Next, their binding properties were employed to change the localization of the respective fluorescent proteins within cells. Finally, we performed experiments in Drosophila melanogaster and Danio rerio and utilized these DARPins to either degrade or delocalize fluorescently tagged fusion proteins in developing organisms, and to phenocopy loss-of-function mutations. Specific protein binders can thus be selected in vitro and used to reprogram developmental systems in vivo directly at the protein level, thereby bypassing some limitations of approaches that function at the DNA or the RNA level.
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- 2014
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233. Lipid droplet and early autophagosomal membrane targeting of Atg2A and Atg14L in human tumor cells[S]
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Simon G. Pfisterer, Daniela Bakula, Tancred Frickey, Alice Cezanne, Daniel Brigger, Mario P. Tschan, Horst Robenek, and Tassula Proikas-Cezanne
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autophagy ,autophagosome ,Atg2A ,Atg14L ,double-FYVE containing protein 1 ,WIPI-1 ,Biochemistry ,QD415-436 - Abstract
Autophagy is a lysosomal bulk degradation pathway for cytoplasmic cargo, such as long-lived proteins, lipids, and organelles. Induced upon nutrient starvation, autophagic degradation is accomplished by the concerted actions of autophagy-related (ATG) proteins. Here we demonstrate that two ATGs, human Atg2A and Atg14L, colocalize at cytoplasmic lipid droplets (LDs) and are functionally involved in controlling the number and size of LDs in human tumor cell lines. We show that Atg2A is targeted to cytoplasmic ADRP-positive LDs that migrate bidirectionally along microtubules. The LD localization of Atg2A was found to be independent of the autophagic status. Further, Atg2A colocalized with Atg14L under nutrient-rich conditions when autophagy was not induced. Upon nutrient starvation and dependent on phosphatidylinositol 3-phosphate [PtdIns(3)P] generation, both Atg2A and Atg14L were also specifically targeted to endoplasmic reticulum-associated early autophagosomal membranes, marked by the PtdIns(3)P effectors double-FYVE containing protein 1 (DFCP1) and WD-repeat protein interacting with phosphoinositides 1 (WIPI-1), both of which function at the onset of autophagy. These data provide evidence for additional roles of Atg2A and Atg14L in the formation of early autophagosomal membranes and also in lipid metabolism.
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- 2014
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234. Correction to: Review of the accomplishments of mid-latitude Super Dual Auroral Radar Network (SuperDARN) HF radars
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Nozomu Nishitani, John Michael Ruohoniemi, Mark Lester, Joseph Benjamin Harold Baker, Alexandre Vasilyevich Koustov, Simon G. Shepherd, Gareth Chisham, Tomoaki Hori, Evan G. Thomas, Roman A. Makarevich, Aurélie Marchaudon, Pavlo Ponomarenko, James A. Wild, Stephen E. Milan, William A. Bristow, John Devlin, Ethan Miller, Raymond A. Greenwald, Tadahiko Ogawa, and Takashi Kikuchi
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Geography. Anthropology. Recreation ,Geology ,QE1-996.5 - Abstract
After publication of this article (Nishitani et al. 2019), it was brought to our attention that the figure 5 is incorrect, where the positions of DCE and SPS were misplaced. The correct figure 5 is as below, the original publication has been corrected.
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- 2019
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235. A genotype–phenotype approach to discriminate Central European spelt landraces from modern wheat-spelt intercrosses in the Swiss context
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Stefan, Laura, Sanchez-Martin, Javier, Kurth, Thomas, Keller, Beat, Herren, Gerhard, Krattinger, Simon G., Strebel, Silvan, Ampuero Kragten, Silvia, Camp, Karl-Heinz, and Levy Häner, Lilia
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- 2024
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236. Exploring the Perceived Causes and Management of Challenging Behavior in Namibian and Ghanaian Schools
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Chitiyo, Morgan, Kumedzro, Felix K., Taukeni, Simon G., Chitiyo, Argnue, Ahmed, Siddiq, Alzayyat, Lubna, and Green, Bridget
- Abstract
Since challenging behaviors are present in classrooms, it is imperative to understand how teachers acknowledge and respond to these unwanted actions within their schools. The overarching purpose of this study is to understand schoolteachers' perspectives on the causes of students' unwanted behaviors and their responses in the classroom. The study was also designed to explore schoolteachers' perspectives on the relationship between the students' challenging behavior and disability. A total of 1,056 Ghanaian (n=502) and Namibian (n=554) schoolteachers were surveyed to identify their understanding of causes of their students' challenging behavior and how they addressed the behaviors. Results of the study indicated that the teachers perceived challenging behavior as related to discipline and not disability. Most teachers also believed that both home and school environmental factors influenced challenging behavior. Furthermore, most schoolteachers from both countries did not believe that physical punishment was an effective way to address challenging behavior and did not support its use in schools. Teacher training programs in both countries need to emphasize the use of evidence-based proactive strategies to address students' challenging behavior in order to minimize the use of punitive strategies such as physical punishment.
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- 2022
237. Polarising Agents and Spin Tags Used in DNP-ssNMR Studies on Biological Samples: An Update
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Nawaz, Nighat, primary and Patching, Simon G., additional
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- 2024
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238. A horizon scan of future threats and opportunities for pollinators and pollination
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Mark J.F. Brown, Lynn V. Dicks, Robert J. Paxton, Katherine C.R. Baldock, Andrew B. Barron, Marie-Pierre Chauzat, Breno M. Freitas, Dave Goulson, Sarina Jepsen, Claire Kremen, Jilian Li, Peter Neumann, David E. Pattemore, Simon G. Potts, Oliver Schweiger, Colleen L. Seymour, and Jane C. Stout
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Horizon scanning ,Pollinator ,Pollination ,Ecosystem services ,Conservation ,Medicine ,Biology (General) ,QH301-705.5 - Abstract
Background. Pollinators, which provide the agriculturally and ecologically essential service of pollination, are under threat at a global scale. Habitat loss and homogenisation, pesticides, parasites and pathogens, invasive species, and climate change have been identified as past and current threats to pollinators. Actions to mitigate these threats, e.g., agri-environment schemes and pesticide-use moratoriums, exist, but have largely been applied post-hoc. However, future sustainability of pollinators and the service they provide requires anticipation of potential threats and opportunities before they occur, enabling timely implementation of policy and practice to prevent, rather than mitigate, further pollinator declines. Methods.Using a horizon scanning approach we identified issues that are likely to impact pollinators, either positively or negatively, over the coming three decades. Results.Our analysis highlights six high priority, and nine secondary issues. High priorities are: (1) corporate control of global agriculture, (2) novel systemic pesticides, (3) novel RNA viruses, (4) the development of new managed pollinators, (5) more frequent heatwaves and drought under climate change, and (6) the potential positive impact of reduced chemical use on pollinators in non-agricultural settings. Discussion. While current pollinator management approaches are largely driven by mitigating past impacts, we present opportunities for pre-emptive practice, legislation, and policy to sustainably manage pollinators for future generations.
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- 2016
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239. A pair of pharyngeal gustatory receptor neurons regulates caffeine-dependent ingestion in Drosophila larvae
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Jaekyun Choi, Lena van Giesen, Min Sung Choi, KyeongJin Kang, Simon G. Sprecher, and Jae Young Kwon
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Caffeine ,Drosophila ,Larva ,bitter ,ingestion ,gustatory receptor neuron ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
The sense of taste is an essential chemosensory modality that enables animals to identify appropriate food sources and control feeding behavior. In particular, the recognition of bitter taste prevents animals from feeding on harmful substances. Feeding is a complex behavior comprised of multiple steps, and food quality is continuously assessed. We here examined the role of pharyngeal gustatory organs in ingestion behavior. As a first step, we constructed a gustatory receptor-to-neuron map of the larval pharyngeal sense organs, and examined corresponding gustatory receptor neuron projections in the larval brain. Out of 22 candidate bitter compounds, we found 14 bitter compounds that elicit inhibition of ingestion in a dose-dependent manner. We provide evidence that certain pharyngeal gustatory receptor neurons are necessary and sufficient for the ingestion response of larvae to caffeine. Additionally, we show that a specific pair of pharyngeal gustatory receptor neurons, DP1, responds to caffeine by calcium imaging. In this study we show that a specific pair of gustatory receptor neurons in the pharyngeal sense organs coordinates caffeine sensing with regulation of behavioral responses such as ingestion. Our results indicate that in Drosophila larvae, the pharyngeal gustatory receptor neurons have a major role in sensing food palatability to regulate ingestion behavior. The pharyngeal sense organs are prime candidates to influence ingestion due to their position in the pharynx, and they may act as first level sensors of ingested food.
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- 2016
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240. Super resolution imaging of genetically labelled synapses in Drosophila brain tissue
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Isabelle Ayumi Spühler, Gaurasundar Marc Conley, Frank eScheffold, and Simon G. Sprecher
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Synapses ,Brain Tissue ,mushroom body ,dSTORM ,olfactory projection neurons ,Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Understanding synaptic connectivity and plasticity within brain circuits and their relationship to learning and behavior is a fundamental quest in neuroscience. Visualizing the fine details of synapses using optical microscopy remains however a major technical challenge. Super resolution microscopy opens the possibility to reveal molecular features of synapses beyond the diffraction limit. With direct stochastic optical reconstruction microscopy, dSTORM, we image synaptic proteins in the brain tissue of the fruit fly, Drosophila melanogaster. Super resolution imaging of brain tissue harbors difficulties due to light scattering and the density of signals. In order to reduce out of focus signal, we take advantage of the genetic tools available in the Drosophila and have fluorescently tagged synaptic proteins expressed in only a small number of neurons. These neurons form synapses within the calyx of the mushroom body, a distinct brain region involved in associative memory formation. Our results show that super resolution microscopy, in combination with genetically labelled synaptic proteins, is a powerful tool to investigate synapses in a quantitative fashion providing an entry point for studies on synaptic plasticity during learning and memory formation
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- 2016
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241. Effects of Patterned Sound Deprivation on Short- and Long-Term Plasticity in the Rat Thalamocortical Auditory System In Vivo
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Chloe N. Soutar, Laura G. Rosen, Simon G. Rodier, and Hans C. Dringenberg
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Neurosciences. Biological psychiatry. Neuropsychiatry ,RC321-571 - Abstract
Postnatal sensory experience plays a significant role in the maturation and synaptic stabilization of sensory cortices, such as the primary auditory cortex (A1). Here, we examined the effects of patterned sound deprivation (by rearing in continuous white noise, WN) during early postnatal life on short- and long-term plasticity of adult male rats using an in vivo preparation (urethane anesthesia). Relative to age-matched control animals reared under unaltered sound conditions, rats raised in WN (from postnatal day 5 to 50–60) showed greater levels of long-term potentiation (LTP) of field potentials in A1 induced by theta-burst stimulation (TBS) of the medial geniculate nucleus (MGN). In contrast, analyses of short-term plasticity using paired-pulse stimulation (interstimulus intervals of 25–1000 ms) did not reveal any significant effects of WN rearing. However, LTP induction resulted in a significant enhancement of paired-pulse depression (PPD) for both rearing conditions. We conclude that patterned sound deprivation during early postnatal life results in the maintenance of heightened, juvenile-like long-term plasticity (LTP) into adulthood. Further, the enhanced PPD following LTP induction provides novel evidence that presynaptic mechanisms contribute to thalamocortical LTP in A1 under in vivo conditions.
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- 2016
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242. Anomaly Detection in Security Logs using Sequence Modeling.
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Simon G. E. Gökstorp, Jakob Nyberg, Yeongwoo Kim, Pontus Johnson, and György Dán
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- 2024
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243. Towards Minimally Complex Motion Planning in a Robot-Inclusive Space.
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Prabhu R. Naraharisetti, Michael A. Saliba, and Simon G. Fabri
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- 2024
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244. Global Neurocritical Care
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Barthélemy, Ernest J., Tesfaye, Emnet, Ammanuel, Simon G., Garcia, Roxanna M., Medow, Joshua, Rosseau, Gail, Mahanna Gabrielli, Elizabeth, editor, O'Phelan, Kristine H., editor, Kumar, Monisha A., editor, Levine, Joshua, editor, Le Roux, Peter, editor, Gabrielli, Andrea, editor, and Layon, A. Joseph, editor
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- 2024
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245. An Elementary Computation of Heat Trace Invariants
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Grieger, Elisabeth, Scott, Simon G., Chatzakou, Marianna, editor, Restrepo, Joel, editor, Ruzhansky, Michael, editor, Torebek, Berikbol, editor, and Van Bockstal, Karel, editor
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- 2024
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246. Pollination ecology in the 21st Century: Key questions for future research
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Carolin Mayer, Lynn Adler, W. Scott Armbruster, Amots Dafni, Connal Eardley, Shuang-Quan Huang, Peter G. Kevan, Jeff Ollerton, Laurence Packer, Axel Ssymank, Jane C. Stout, and Simon G. Potts
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angiosperms ,conservation ,evolution ,ecosystem services ,diversity ,mutualism ,species interactions ,Evolution ,QH359-425 ,Plant ecology ,QK900-989 - Abstract
To inspire new ideas in research on pollination ecology, we list the most important unanswered questions in the field. This list was drawn up by contacting 170 scientists from different areas of pollination ecology and asking them to contribute their opinion on the greatest knowledge gaps that need to be addressed. Almost 40% of them took part in our email poll and we received more than 650 questions and comments, which we classified into different categories representing various aspects of pollination research. The original questions were merged and synthesised, and a final vote and ranking led to the resultant list. The categories cover plant sexual reproduction, pollen and stigma biology, abiotic pollination, evolution of animal-mediated pollination, interactions of pollinators and floral antagonists, pollinator behaviour, taxonomy, plant-pollinator assemblages, geographical trends in diversity, drivers of pollinator loss, ecosystem services, management of pollination, and conservation issues such as the implementation of pollinator conservation. We focused on questions that were of a broad scope rather than case-specific; thus, addressing some questions may not be feasible within single research projects but constitute a general guide for future directions. With this compilation we hope to raise awareness of pollination-related topics not only among researchers but also among non-specialists including policy makers, funding agencies and the public at large. download Appendix
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- 2011
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247. Author Correction: Promoter interactome of human embryonic stem cell-derived cardiomyocytes connects GWAS regions to cardiac gene networks
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Mun-Kit Choy, Biola M. Javierre, Simon G. Williams, Stephanie L. Baross, Yingjuan Liu, Steven W. Wingett, Artur Akbarov, Chris Wallace, Paula Freire-Pritchett, Peter J. Rugg-Gunn, Mikhail Spivakov, Peter Fraser, and Bernard D. Keavney
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Science - Abstract
In the original version of the Article, the gene symbol for tissue factor pathway inhibitor was inadvertently given as ‘TFP1’ instead of ‘TFPI’. This has now been corrected in both the PDF and HTML versions of the Article.
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- 2018
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248. Abstract: The Impact of Delaying Breast Reconstruction on Patient Expectations and Health Related Quality of Life: An Analysis Using the Breast-Q
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Alexander Morzycki, MSc, Joseph P. Corkum, MD, Nadim Joukhdar, BSc, Osama A. Samargandi, MD, Jason Williams, MD, FRCSC, and Simon G. Frank, MD FRCSC
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Surgery ,RD1-811 - Published
- 2018
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249. SCCRO Promotes Glioma Formation and Malignant Progression in Mice
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Stephen R. Broderick, Benjamin J. Golas, Duykhanh Pham, Christopher W. Towe, Simon G. Talbot, Andrew Kaufman, Sarina. Bains, Laryssa A. Huryn, Yoshihiro Yonekawa, Diane Carlson, Dolores Hambardzumyan, Yegnanarayana Ramanathan, and Bhuvanesh Singh
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Neoplasms. Tumors. Oncology. Including cancer and carcinogens ,RC254-282 - Abstract
Originally identified as an oncogene activated by amplification in squamous cell carcinomas, several lines of evidence now suggest that squamous cell carcinoma-related oncogene (SCCRO; aka DCUN1D1) may play a role in the pathogenesis of a wide range of human cancers including gliomas. SCCRO's oncogenic function is substantiated by its ectopic expression, resulting in transformation of cells in culture and xenograft formation in nude mice. The aim of this study was to assess the in vivo oncogenicity of SCCRO in a murine model. Ubiquitous expression of SCCRO resulted in early embryonic lethality. Because SCCRO overexpression was detected in human gliomas, its in vivo oncogenic activity was assessed in an established murine glioma model. Conditional expression of SCCRO using a replication-competent ASLV long terminal repeat with splice acceptor/nestin-(tumor virus-A) tv-a model system was not sufficient to induce tumor formation in a wild-type genetic background, but tumors formed with increasing frequency and decreasing latency in facilitated background containing Ink4a deletion alone or in combination with PTEN loss. Ectopic expression of SCCRO in glial progenitor cells resulted in lower-grade gliomas in Ink4a-/- mice, whereas its expression in Ink4a-/-/PTEN-/- background produced high-grade glioblastoma-like lesions that were indistinguishable from human tumors. Expression of SCCRO with platelet-derived growth factor-beta (PDGF-β) resulted in an increased proportion of mice forming glioblastoma-like tumors compared with those induced by PDGF-β alone. This work substantiates SCCRO's function as an oncogene by showing its ability to facilitate malignant transformation and carcinogenic progression in vivo and supports a role for SCCRO in the pathogenesis of gliomas and other human cancers.
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- 2010
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250. Natural Language Processing Algorithm Used for Staging Pulmonary Oncology from Free-Text Radiological Reports: “Including PET-CT and Validation Towards Clinical Use”
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Nobel, J. Martijn, Puts, Sander, Krdzalic, Jasenko, Zegers, Karen M. L., Lobbes, Marc B. I., F. Robben, Simon G., and Dekker, André L. A. J.
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- 2024
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