cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Specific Missense Alleles of the Arabidopsis Jasmonic Acid Co-Receptor COI1 Regulate Innate Immune Receptor Accumulation and Function
Creators: name: Chung, Eui-Hwan
name: He, Yijian
name: Tornero, Pablo
name: Dangl, Jeffery L.
name: Hubert, David A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: Plants utilize proteins containing nucleotide binding site (NB) and leucine-rich repeat (LRR) domains as intracellular innate immune receptors to recognize pathogens and initiate defense responses. Since mis-activation of defense responses can lead to tissue damage and even developmental arrest, proper regulation of NB–LRR protein signaling is critical. RAR1, SGT1, and HSP90 act as regulatory chaperones of pre-activation NB–LRR steady-state proteins. We extended our analysis of mutants derived from a rar1 suppressor screen and present two allelic rar1 suppressor (rsp) mutations of Arabidopsis COI1. Like all other coi1 mutations, coi1rsp missense mutations impair Jasmonic Acid (JA) signaling resulting in JA–insensitivity. However, unlike previously identified coi1 alleles, both coi1rsp alleles lack a male sterile phenotype. The coi1rsp mutants express two sets of disease resistance phenotypes. The first, also observed in coi1-1 null allele, includes enhanced basal defense against the virulent bacterial pathogen Pto DC3000 and enhanced effector-triggered immunity (ETI) mediated by the NB–LRR RPM1 protein in both rar1 and wild-type backgrounds. These enhanced disease resistance phenotypes depend on the JA signaling function of COI1. Additionally, the coi1rsp mutants showed a unique inability to properly regulate RPM1 accumulation and HR, exhibited increased RPM1 levels in rar1, and weakened RPM1-mediated HR in RAR1. Importantly, there was no change in the steady-state levels or HR function of RPM1 in coi1-1. These results suggest that the coi1rsp proteins regulate NB–LRR protein accumulation independent of JA signaling. Based on the phenotypic similarities and genetic interactions among coi1rsp, sgt1b, and hsp90.2rsp mutants, our data suggest that COI1 affects NB–LRR accumulation via two NB–LRR co-chaperones, SGT1b and HSP90. Together, our data demonstrate a role for COI1 in disease resistance independent of JA signaling and provide a molecular link between the JA and NB–LRR signaling pathways.
Univalence and completeness of Segal objects
Creators: name: Stenzel, Raffael
Publisher: name: arXiv
Year: 2019
Subjects: subject: Category Theory (math.CT)
subject: Algebraic Topology (math.AT)
subject: FOS: Mathematics
subject: 18N45, 18N50, 18N60, 18C50, 55U35

description: Univalence, originally a type theoretical notion at the heart of Voevodsky's Univalent Foundations Program, has found general importance as a higher categorical property that characterizes descent and hence classifying maps in $(\infty,1)$-categories. Completeness is a property of Segal spaces introduced by Rezk that characterizes those Segal spaces which are $(\infty,1)$-categories. In this paper, first, we make rigorous an analogy between univalence and completeness that has found various informal expressions in the higher categorical research community to date, and second, study its ramifications. The core aspect of this analogy can be understood as a translation between internal and external notions, motivated by model categorical considerations of Joyal and Tierney. As a result, we characterize the internal notion of univalence in logical model categories by the external notion of completeness defined as the right Quillen condition of suitably indexed Set-weighted limit functors. Furthermore, we extend the analogy and show that univalent completion in the sense of van den Berg and Moerdijk translates to Rezk-completion of associated Segal objects as well. Motivated by these correspondences, we exhibit univalence as a homotopical locality condition whenever univalent completion exists.
description: Final journal version for JPAA. Improved exposition (particularly Sections 2 and 5) and corrected minor mistakes in virtue of the comments of an anonymous referee
Il suono del racconto. Forme letterarie e modelli musicali come dispositivi pedagogici
Creators: name: Sorgente, Alessia
Publisher: name: Universita degli studi di Salerno
Year: 2022
Subjects: subject: M-PED/01 PEDAGOGIA GENERALE E SOCIALE
subject: Narrazione
subject: Educazione
subject: Musica

description: 2020 - 2021
description: The patterns of the hypercomplex society are becoming ever tighter in the contemporary digital era, making evident the educational urgency to guide children and adolescents along the difficult path of the construction of identity; and this request is inevitably combined with the ancestral, never faded, necessity to narrate and tell about ourselves, which belongs to humans since the dawn of time. The pedagogical implicit held in the narratives, in fact, makes them privileged devices to reach the beating heart of the subject in formation. Narrations amplify experiences, giving new meanings to emotions, events, fragments of existence, so that they become indispensable companions in the formation of childhood and adolescence. We chose, therefore, to analyze a narrative that, among others, vividly embodies the metaphor of constant – and never ended – pursuit of completeness, of the tension to an identity that is as integral and total as ever: the trilogy I nostri antenati by Italo Calvino. Halving, ramping up, non-existing appear as necessary passages of a struggled growth which always reaches for an inner fulfilment, a story that accompanies the young reader and that saves him, because it reminds him that he is not alone in facing the multiple complexity of reality. Then, the analysis of this fantasy trilogy is dissolved in the reading of a realistic fairy tale, Marcovaldo ovvero Le stagioni in città, which expresses all the light dis-enchantment of a childlike gaze at the world. However, it is not only literary narration that appears to be an irreplaceable educational device to guide children and adolescents to create their own identity: the thesis, in fact, also takes into account another narrative category, within which the absence of words allows the individual to search and understand himself more freely, far from the definition of language, open to the fluidity of notes. Music contains the most archaic element of human connection with the surrounding world: sound. The sound becomes tale and story, intertwines with the auto-narration giving meaning to emotions, feelings and thoughts. In particular, the pieces of two composers that have marked the musical panorama of the XIX and XX century, Fryderyk Chopin and Sergej Vasil’evič Rachmaninoff, accompany the listener, opening for him an introspective world in which he reflects and, finally, recognizes himself. [edited by Author]
Stratifying Type 2 Diabetes Cases by BMI Identifies Genetic Risk Variants in LAMA1 and Enrichment for Risk Variants in Lean Compared to Obese Cases
Creators: name: Li, Man
name: Collins, Francis S.
name: Gieger, Christian
name: Ganser, Martha
name: Steinthorsdottir, Valgerdur
name: Boerwinkle, Eric
name: Scott, Robert A.
name: Arking, Dan E.
name: Dupuis, Josée
name: Johnson, Andrew D.
name: Charpentier, Guillaume
name: Hadjadj, Samy
name: Qi, Lu
name: Bonnycastle, Lori
name: Green, Todd
name: Almgren, Peter
name: Burtt, Noël P.
name: Navarro, Pau
name: Benediktsson, Rafn
name: Bergman, Richard N.
name: Kottgen, Anna
name: Aulchenko, Yurii
name: Amin, Najaf
name: Campbell, Harry
name: Balkau, Beverley
name: Hattersley, Andrew T.
name: Perry, John R. B.
name: Herder, Christian
name: Hofman, Albert
name: Grallert, Harald
name: Yengo, Loïc
name: Voight, Benjamin F.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: Common diseases such as type 2 diabetes are phenotypically heterogeneous. Obesity is a major risk factor for type 2 diabetes, but patients vary appreciably in body mass index. We hypothesized that the genetic predisposition to the disease may be different in lean (BMI<25 Kg/m2) compared to obese cases (BMI≥30 Kg/m2). We performed two case-control genome-wide studies using two accepted cut-offs for defining individuals as overweight or obese. We used 2,112 lean type 2 diabetes cases (BMI<25 kg/m2) or 4,123 obese cases (BMI≥30 kg/m2), and 54,412 un-stratified controls. Replication was performed in 2,881 lean cases or 8,702 obese cases, and 18,957 un-stratified controls. To assess the effects of known signals, we tested the individual and combined effects of SNPs representing 36 type 2 diabetes loci. After combining data from discovery and replication datasets, we identified two signals not previously reported in Europeans. A variant (rs8090011) in the LAMA1 gene was associated with type 2 diabetes in lean cases (P = 8.4×10−9, OR = 1.13 [95% CI 1.09–1.18]), and this association was stronger than that in obese cases (P = 0.04, OR = 1.03 [95% CI 1.00–1.06]). A variant in HMG20A—previously identified in South Asians but not Europeans—was associated with type 2 diabetes in obese cases (P = 1.3×10−8, OR = 1.11 [95% CI 1.07–1.15]), although this association was not significantly stronger than that in lean cases (P = 0.02, OR = 1.09 [95% CI 1.02–1.17]). For 36 known type 2 diabetes loci, 29 had a larger odds ratio in the lean compared to obese (binomial P = 0.0002). In the lean analysis, we observed a weighted per-risk allele OR = 1.13 [95% CI 1.10–1.17], P = 3.2×10−14. This was larger than the same model fitted in the obese analysis where the OR = 1.06 [95% CI 1.05–1.08], P = 2.2×10−16. This study provides evidence that stratification of type 2 diabetes cases by BMI may help identify additional risk variants and that lean cases may have a stronger genetic predisposition to type 2 diabetes.
Systems Genetic Analysis of Osteoblast-Lineage Cells
Creators: name: Eskin, Eleazar
name: Lusis, Aldons J.
name: Farber, Charles R.
name: Calabrese, Gina
name: Kang, Hyun M.
name: Orozco, Luz
name: Dombret, Carlos
name: Bennett, Brian J.
name: De Backer, Olivier
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: The osteoblast-lineage consists of cells at various stages of maturation that are essential for skeletal development, growth, and maintenance. Over the past decade, many of the signaling cascades that regulate this lineage have been elucidated; however, little is known of the networks that coordinate, modulate, and transmit these signals. Here, we identify a gene network specific to the osteoblast-lineage through the reconstruction of a bone co-expression network using microarray profiles collected on 96 Hybrid Mouse Diversity Panel (HMDP) inbred strains. Of the 21 modules that comprised the bone network, module 9 (M9) contained genes that were highly correlated with prototypical osteoblast maker genes and were more highly expressed in osteoblasts relative to other bone cells. In addition, the M9 contained many of the key genes that define the osteoblast-lineage, which together suggested that it was specific to this lineage. To use the M9 to identify novel osteoblast genes and highlight its biological relevance, we knocked-down the expression of its two most connected “hub” genes, Maged1 and Pard6g. Their perturbation altered both osteoblast proliferation and differentiation. Furthermore, we demonstrated the mice deficient in Maged1 had decreased bone mineral density (BMD). It was also discovered that a local expression quantitative trait locus (eQTL) regulating the Wnt signaling antagonist Sfrp1 was a key driver of the M9. We also show that the M9 is associated with BMD in the HMDP and is enriched for genes implicated in the regulation of human BMD through genome-wide association studies. In conclusion, we have identified a physiologically relevant gene network and used it to discover novel genes and regulatory mechanisms involved in the function of osteoblast-lineage cells. Our results highlight the power of harnessing natural genetic variation to generate co-expression networks that can be used to gain insight into the function of specific cell-types.
ارزیابی قلمروهای همگانی براساس مشاهده و تحلیل الگوهای فعالیتی-رفتاری (موردپژوهی: پیاده راه احمدی شیراز)
Publisher: name: دانشگاه کردستان
Year: 2018

description: روش مشاهده رفتاری، رویکردی نوین در طراحی محیطی و تحلیل قلمروهای همگانی و روشی برای فهم روابط متقابل\nافراد و فضاست. هدف اصلی این پژوهش ارزیابی و تحلیل الگوهای فعالیتی و رفتاری پیاده راه احمدی شیراز با استفاده از\nروش مشاهده رفتاری است. در این راستا دریافت مؤلفه یا مؤلفه های اصلی طراحی محیطی در ارتقای کالبدی و رفتاری\nقلمروهای همگانی شهر شیراز مطرح میشود. سئوال اصلی پژوهش حاضر آن است که روش مشاهده رفتاری، چگونه\nمی تواند به برنامه ریزی و طراحی قلمروهای همگانی در شهرها کمک نماید؟ بدین منظور کاربست این روش در نمونه\nپیاده راه احمدی شیراز که زمانی نقطه آغازین یکی از محورهای اصلی بافت تاریخی این شهر بوده و به مرور دچار تغییر و\nدگردیسی شده، صورت گرفته است. پژوهش حاضر از نوع کاربردی بوده و به روش مطالعه پیمایشی انجام شده و در طی آن،\nتجزیه و تحلیل کیفیت های کالبدی_محیطی،الگوهای فعالیتی و مؤلفه های رفتاری از طریق برداشت کالبدی و مشاهده\nطبیعی و مشارکتی انجام شده است. ابزارهای این روش، ثبت مکان فعالیت ایستگاهی در ایجاد مرا کز فعالیتی، شمارش\nفعالیت برای حضور متوازن گروه های مختلف جمعیتی، ثبت مکان توقف افراد برای یافتن انگیزه مانایی و توزیع متوازن\nفعالیت ها می باشد و از تکنیک ردگیری برای بهبود کیفیت آن بخشهایی از قلمروهای همگانی که کیفیت محیطی پایینی\nداشته اند، استفاده شده است. برای اعتبارسنجی یافته های این پژوهش، از راهبرد پیمایشی به منظور تطبیق یافته ها با\nنقطه نظرات 50نفر از استفاده کنندگان فضا استفاده شده است. نتایج تحلیل ها نشان میدهد، پیاده راه احمدی شیراز در\nساعات میانی روز ( 14تا  )17با شکستگی حجم فعالیت ایستگاهی و کاهش الگوهای رفتاری روبه رو است و بیشترین حجم\nتردد ( 76درصد) و نقاط مکث ( 78درصد) در بخشهای سایه دار پیاده راه ثبت شده است. از طرف دیگر، با برهم نهاد\nنقشه های سایه اندازی، حجم تردد و فعالیت های ایستگاهی بر روی یکدیگر، به نظر میرسد آسایش اقلیمی از مؤلفه های\nاصلی استفاده از قلمروهای همگانی در شهر شیراز است. از این رو میتوان ادعا نمود، روش مشاهده رفتاری، الگویی کارآمد\nبرای سنجش و تحلیل قلمروهای همگانی است که میتوان از آن در توسعه و باززنده سازی آتی قلمروهای همگانی بهره\nجست
Meta-Modeling Semantics of UML
Creators: name: Evans, Andy
name: Lano, Kevin
name: France, Robert
name: Rumpe, Bernhard
Publisher: name: arXiv
Year: 2014
Subjects: subject: Software Engineering (cs.SE)
subject: FOS: Computer and information sciences

description: The Unified Modelling Language is emerging as a de-facto standard for modelling object-oriented systems. However, the semantics document that a part of the standard definition primarily provides a description of the language's syntax and well-formedness rules. The meaning of the language, which is mainly described in English, is too informal and unstructured to provide a foundation for developing formal analysis and development techniques. This paper outlines a formalisation strategy for making precise the core semantics of UML. This is achieved by strengthening the denotational semantics of the existing UML metamodel. To illustrate the approach, the semantics of generalization/specialization are made precise.
description: 18 pages, 6 figures
سنجش پراکنده رویی شهری با استفاده از داده های فضایی- زمانی، نمونه موردی: شهر ارومیه
Publisher: name: دانشگاه کردستان
Year: 2018

description: رشد روزافزون جمعیت و افزایش شهرنشینی، باعث ایجاد پدیدهای به نام پرا کنده رویی شهری در عمده شهرهای جهان\nگردیده است. این امر پیامدهای اقتصادی و زیست محیطی فراوانی را به شهرها تحمیل نموده؛ بنابراین بررسی، سنجش\nو شناخت این پدیده ضروری می نماید. هدف از پژوهش حاضر، شناسایی و سنجش شدت پرا کنده رویی شهری در شهر\nارومیه به عنوان مطالعه موردی می باشد تا برنامه ریزان و مدیران شهری بتوانند با آ گاهی و شناخت بیشتری به منظور\nرشد آتی شهر ارومیه و رسیدن به توسعه پایدار شهری برنامه ریزی نمایند. پژوهش حاضر از نظر هدف پژوهشی، نظری_\nکاربردی است و از نظر ماهیت پژوهشی، توصیفی_تحلیلی است. به منظور سنجش و بررسی پرا کنده رویی شهری روشهای\nمتعددی به کار گرفته شده است. امروزه متریک های چشم انداز و داده هـای فضایی به دلیل این که پرا کنده رویی را با\nجزئیات بالا و در یک سطح دقیق شناسایی میکنند، در سرتاسر جهان به طور وسیعی به کار گرفته می شوند. در تحقیق پیش\nرو برای سنجش پرا کنده رویی شهری در شهر ارومیه از داده های فضایی_ماهوارهای و تلفیق این داده ها با متریک\nهای چشم انداز (برای نخستین بار در ایران) در راستای سنجش پرا کنده رویی بهره گرفته شده است. در این راستا ابتدا\nتصاویر ماهوارهای مربوط به سالهای  1390 ،1385 ،1375و  1394به کمک ماهواره (لند ست) گردآوری گردیده و با استفاده\nاز شبکه عصبی مصنوعی در دو کلاس اراضی ساخته شده و اراضی ساخته نشده طبقه بندی گردیده و سپس آشکارسازی\nتغییرات با استفاده از نرم افزار ای.ان.وی.آی4.8 صورت گرفته و با کاربست متریک های چشم انداز(شاخص بعد فرا کتال، شاخص\nبزرگترین قطعه، شاخص مجاورت، شاخص تعداد قطعه و شاخص شکل) با استفاده از نرم افزار فراگستاتس4.2پراکنده رویی\nشهری در شهر ارومیه سنجیده شده است. نتایج پژوهش حاضر نشان میدهد پراکنده رویی شهری در شهر ارومیه در بازه\nزمانی  1370تا 1390روندی کاهشی داشته و از این دوره تا به امروز روند افزایشی را پیموده است
Oscillation and concentration in sequences of PDE constrained measures
Creators: name: Kristensen, Jan
name: Raiţă, Bogdan
Publisher: name: arXiv
Year: 2019
Subjects: subject: Analysis of PDEs (math.AP)
subject: FOS: Mathematics
subject: 49J45 (Primary) 35G05 (Secondary)

description: We show that for constant rank partial differential operators $\mathscr{A}$, generalized Young measures generated by sequences of $\mathscr{A}$-free measures can be characterized by duality with $\mathscr{A}$-quasiconvex integrands of linear growth.
description: 20 pages
"Wait and see": The elephant in the community bushfire safety room?
Creators: name: McLennan, James
name: Elliott, Glenn
Publisher: name: La Trobe
Year: 2023

description: Australian community bushfire safety policy identifies two safe courses of action for householders under bushfire threat: leave well in advance of possible fire impact, or stay and defend a suitably-prepared property. Findings from a survey of residents of at-risk communities in south-eastern Australia were that under (hypothetical) bushfire threat on a day of Extreme Fire Danger 30% intended to wait and see how a fire developed before committing to a bushfire survival action. Reported reasons for waiting to see included: perceptions that the risk associated with waiting is low; expectations that others will warn or protect in case of serious threat developing; efficacy beliefs about successfully defending against smaller fires; and reluctance to leave because of potential costs and dangers associated with leaving unnecessarily, and with driving during a bushfire. We conclude that householders who intend to wait and see: (a) understand that bushfires are dangerous; (b) believe that waiting and seeing what develops does not involve significant risk; and (c) view waiting and seeing as an appropriate response to an initial bushfire warning. We suggest some ways fire agencies could better address this reality--‘wait and see’ may not be considered a safe course of action by community safety policy makers and practitioners, but it is what many householders at risk of bushfire intend to do at present.

['Bushfire CRC & AFAC Research Forum [2012 : Perth Convention & Exhibition Centre]']
Statistically optimal continuous free energy surfaces from biased simulations and multistate reweighting
Creators: name: Shirts, Michael R.
name: Ferguson, Andrew L.
Publisher: name: arXiv
Year: 2020
Subjects: subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: Free energies as a function of a selected set of collective variables are commonly computed in molecular simulation and of significant value in understanding and engineering molecular behavior. These free energy surfaces are most commonly estimated using variants of histogramming techniques, but such approaches obscure two important facets of these functions. First, the empirical observations along the collective variable are defined by an ensemble of discrete observations and the coarsening of these observations into a histogram bins incurs unnecessary loss of information. Second, the free energy surface is itself almost always a continuous function, and its representation by a histogram introduces inherent approximations due to the discretization. In this study, we relate the observed discrete observations from biased simulations to the inferred underlying continuous probability distribution over the collective variables and derive histogram-free techniques for estimating this free energy surface. We reformulate free energy surface estimation as minimization of a Kullback-Leibler divergence between a continuous trial function and the discrete empirical distribution and show that this is equivalent to likelihood maximization of a trial function given a set of sampled data. We then present a fully Bayesian treatment of this formalism, which enables the incorporation of powerful Bayesian tools such as the inclusion of regularizing priors, uncertainty quantification, and model selection techniques. We demonstrate this new formalism in the analysis of umbrella sampling simulations for the $χ$ torsion of a valine sidechain in the L99A mutant of T4 lysozyme with benzene bound in the cavity.
description: 24 pages, 5 figures
Unsupervised non-parametric change point detection in quasi-periodic signals
Creators: name: Shvetsov, Nikolay
name: Buzun, Nazar
name: Dylov, Dmitry V.
Publisher: name: arXiv
Year: 2020
Subjects: subject: Machine Learning (cs.LG)
subject: Statistics Theory (math.ST)
subject: Machine Learning (stat.ML)
subject: FOS: Computer and information sciences
subject: FOS: Mathematics

description: We propose a new unsupervised and non-parametric method to detect change points in intricate quasi-periodic signals. The detection relies on optimal transport theory combined with topological analysis and the bootstrap procedure. The algorithm is designed to detect changes in virtually any harmonic or a partially harmonic signal and is verified on three different sources of physiological data streams. We successfully find abnormal or irregular cardiac cycles in the waveforms for the six of the most frequent types of clinical arrhythmias using a single algorithm. The validation and the efficiency of the method are shown both on synthetic and on real time series. Our unsupervised approach reaches the level of performance of the supervised state-of-the-art techniques. We provide conceptual justification for the efficiency of the method and prove the convergence of the bootstrap procedure theoretically.
description: 8 pages, 7 figures, 1 table
اثرگذاری فناوری های اطلاعاتی و ارتباطی نوین بر ساختار کالبدی – فضایی شهر با رویکرد شهر خلاق (مطالعه موردی شهر اصفهان)
Publisher: name: دانشگاه کردستان
Year: 2018

description: از آنجایی که اساس دیدگاه شهر خلاق، بهره گیری از توان همه شهر برای رشد فضاهای عمومی، فرهنگ، امنیت، ایمنی\nو ارتباطات میباشد، یکی از مهمترین ابزارهایی که میتواند به این امر کمک کند، فناوری های نوین از جمله شبکه های\nارتباطی والکترونیک میباشد.در این پژوهش ویژگی هایی مانند تنوع، فرا گیری و به روز بودن به عنوان شاخص های فناوری\nاطلاعات در راستای تحقق شاخص های شهر خلاق، خلاقیت و توان بومی، ساختار کالبدی_فیزیکی شهر و ویژگی های\nاجتماعی_ اقتصادی مورد مطالعه قرار گرفته است. نوع پژوهش از نظر هدف کاربردی و از نظر روش شناسی توصیفی_\nتحلیلی می باشد. برای گردآوری اطلاعات از روش کتابخانه ای و میدانی استفاده شده است. داده های میدانی از طریق\nتوزیع پرسشنامه بین 210نفر از کارشناسان شهرسازی و 30نفر از کارشناسان فاوا 3در شهر اصفهان به دست آمده است. برای\nسنجش اثرگذاری فناوری های اطلاعاتی و ارتباطی بر ساختار کالبدی_ فضایی شهر از روش مدلسازی معادلات ساختاری\nدر محیط نرم افزار آموس گرافیک استفاده شده است. نتایج به دست آمده حاکی از آن است که عامل به روز بودن بر همه\nابعاد شهر خلاق یعنی خلاقیت وتوان بومی، ساختار کالبدی_ فیزیکی شهر و ویژگی های اجتماعی_اقتصادی تأثیرگذار است\nهمچنین تأثیر آن، مهمتر از عوامل دیگر (مانند فرا گیر بودن و تنوع فناوری های نوین) می باشد.عامل فراگیر بودن تنها بر\nخلاقیت و ارتقای توان بومی و عامل تنوع فناوری های نوین بر روی عملکرد اجتماعی_اقتصادی شهر اثرگذار است
The Burkholderia bcpAIOB Genes Define Unique Classes of Two-Partner Secretion and Contact Dependent Growth Inhibition Systems
Creators: name: Garcia, Erin C.
name: Anderson, Melissa S.
name: Cotter, Peggy A.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: Microbes have evolved many strategies to adapt to changes in environmental conditions and population structures, including cooperation and competition. One apparently competitive mechanism is contact dependent growth inhibition (CDI). Identified in Escherichia coli, CDI is mediated by Two–Partner Secretion (TPS) pathway proteins, CdiA and CdiB. Upon cell contact, the toxic C-terminus of the TpsA family member CdiA, called the CdiA-CT, inhibits the growth of CDI− bacteria. CDI+ bacteria are protected from autoinhibition by an immunity protein, CdiI. Bioinformatic analyses indicate that CDI systems are widespread amongst α, β, and γ proteobacteria and that the CdiA-CTs and CdiI proteins are highly variable. CdiI proteins protect against CDI in an allele-specific manner. Here we identify predicted CDI system-encoding loci in species of Burkholderia, Ralstonia and Cupriavidus, named bcpAIOB, that are distinguished from previously-described CDI systems by gene order and the presence of a small ORF, bcpO, located 5′ to the gene encoding the TpsB family member. A requirement for bcpO in function of BcpA (the TpsA family member) was demonstrated, indicating that bcpAIOB define a novel class of TPS system. Using fluorescence microscopy and flow cytometry, we show that these genes are expressed in a probabilistic manner during culture of Burkholderia thailandensis in liquid medium. The bcpAIOB genes and extracellular DNA were required for autoaggregation and adherence to an abiotic surface, suggesting that CDI is required for biofilm formation, an activity not previously attributed to CDI. By contrast to what has been observed in E. coli, the B. thailandensis bcpAIOB genes only mediated interbacterial competition on a solid surface. Competition occurred in a defined spatiotemporal manner and was abrogated by allele-specific immunity. Our data indicate that the bcpAIOB genes encode distinct classes of CDI and TPS systems that appear to function in sociomicrobiological community development.
“bokken ranga pāmuda?” gut feeling, instinct and rhetoric of Sri Lankan actor learning
Creators: name: Liyanage, Saumya
Publisher: name: La Trobe
Year: 2023

description: This paper was presented at the 2013 ADSA conference held on the 9-12 July at Flinders Universtiy, Adelaide.

The mental representation of learning as a dominant model of knowledge acquisition has been a long standing formula for Western pedagogy. Within the sensation-idea-response model (Barnacle 2009, Horn and Wilburn 2005) the subject perceives the objects and conceptualizes ideas in the brain and generates actions through the body. Thus the relationship between perception and action is hierarchical as the action is secondary to the perception. (Noë 2005) This epistemological problem is the result of the disembodied mind propagates by the Cartesian tradition. It is no exception when it comes to the discourse of acting: the rhetoric of acting has also been affected by this split (Zarrilli 2002); the actor’s mind is regarded as the rational knower and the active mover of the body. However some actors in Sri Lankan theatre often refer the phrase “bokken ranga pamu” (act from the gut) as metaphorical expression of how the actor should act truthfully. It further means that the good actor does not act from the heart or intellect but from the ‘gut instinct’ of the body. This metaphorical idea of ‘gut’ replaces the ‘disembodied rational thinking’ in the mind with something fleshy embedded in the ‘intestine’ of the actor’s body. In this paper I want to show how a group of Sri Lankan actors challenge the idea of mental representation of learning by introducing a visceral origination of their knowing (Deway 1896, Merleu-Ponty 1962, Dreyfus, 2002) and the synergy of thoughts and imagination coupled with the lived body.

['Australasian Association for Theatre, Drama and Performance Studies (2013 : Flinders University, Adelaide)']
The DNA Replication Factor RFC1 Is Required for Interference-Sensitive Meiotic Crossovers in Arabidopsis thaliana
Creators: name: Gong, Zhizhong
name: Hong, Yue
name: Huang, Jiyue
name: Shi, Qian
name: Wang, Yingxiang
name: Ma, Hong
name: Copenhaver, Gregory P.
name: Cheng, Zhihao
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: During meiotic recombination, induced double-strand breaks (DSBs) are processed into crossovers (COs) and non-COs (NCO); the former are required for proper chromosome segregation and fertility. DNA synthesis is essential in current models of meiotic recombination pathways and includes only leading strand DNA synthesis, but few genes crucial for DNA synthesis have been tested genetically for their functions in meiosis. Furthermore, lagging strand synthesis has been assumed to be unnecessary. Here we show that the Arabidopsis thaliana DNA REPLICATION FACTOR C1 (RFC1) important for lagging strand synthesis is necessary for fertility, meiotic bivalent formation, and homolog segregation. Loss of meiotic RFC1 function caused abnormal meiotic chromosome association and other cytological defects; genetic analyses with other meiotic mutations indicate that RFC1 acts in the MSH4-dependent interference-sensitive pathway for CO formation. In a rfc1 mutant, residual pollen viability is MUS81-dependent and COs exhibit essentially no interference, indicating that these COs form via the MUS81-dependent interference-insensitive pathway. We hypothesize that lagging strand DNA synthesis is important for the formation of double Holliday junctions, but not alternative recombination intermediates. That RFC1 is found in divergent eukaryotes suggests a previously unrecognized and highly conserved role for DNA synthesis in discriminating between recombination pathways.
تبیین سلسله مراتب روابط عملکردی شبکه شهری: نمونه موردی استان فارس
Publisher: name: دانشگاه کردستان
Year: 2018

description: برای شناسایی نظام های شهری، در نظر داشتن روابط بیرونی شهرها و اهمیت و نقش هریک از ارتباطات ضروری می نماید\nاز این رو، درک صحیح ماهیت فضا و نیروهای شکل دهنده آن و درنهایت شناسایی شیوه سازمان یابی فضا در سطح منطقه،\nنیازمند شناسایی انواع روابط میان شهرهاست. در این پژوهش تلاش میشود سلسله مراتب روابط کارکردی بین شهرها در\nاستان فارس مورد بررسی قرار گیرد. پژوهش حاضر در پی پاسخگویی به سئوالات ذیل خواهد بود: -1الگوی سلسله مراتبی\nارتباطات کارکردی استان فارس چگونه است؟-2برای تحقق الگوی توسعه متعادل منطقه ای، کدام کانونها و کدام نوع\nارتباطات از اهمیت بیشتری برخوردار است؟ این پژوهش در زمره پژوهش های اثباتی قرار میگیرد؛ از نقطه نظر روششناسی\n، کاربردی و توسعه ای بوده و با روش کمی به بررسی سلسله مراتب ارتباطات شهری استان فارس می پردازد. اطلاعات\nمورد نیاز از طریق مطالعات اسنادی و کتابخانه ای جمع آوری شده است. پژوهش حاضر سلسله مراتب ارتباطات شهری\nاستان فارس را به تفکیک ارتباطات خدماتی (شامل خدمات گردشگری تفریحی، حمل ونقل، بهداشتی درمانی و آموزشی،)\nسیاسی و اقتصادی بررسی نموده و درنهایت براساس برآیند ارتباطات شهری خدماتی، سیاسی و اقتصادی، سلسله مراتب\nارتباطات شهری استان را تبیین می نماید.بررسی الگوی ارتباطات شهری استان فارس بیانگر وجود ساختاری تک مرکزی_\nخوشه ًای در استان است و شهر شیراز در مرکزیت مسلط استان قرار دارد. نهایتا نتیجه میشود، توزیع خدمات در استان\nنقش مهمی در سلسله مراتب نظام شهری دارد و وابستگی های جمعیتی بیشتر متأثر از ساختار خدماتی و ارتباطی استان\nشکل گرفته است. در پژوهش حاضر چارچوبی پیشنهاد شده است که از آن طریق میتوان تجسمی فراتر از سلسله مراتب\nشهری به روشهای ً صرفا مبتنی بر توزیع جمعیت یا خدمات داشت
GALFIT-CORSAIR: implementing the core-Sersic model into GALFIT
Creators: name: Bonfini, P.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Instrumentation and Methods for Astrophysics (astro-ph.IM)
subject: Astrophysics of Galaxies (astro-ph.GA)
subject: FOS: Physical sciences

description: We introduce GALFIT-CORSAIR: a publicly available, fully retro-compatible modification of the 2D fitting software GALFIT (v.3) which adds an implementation of the core-Sersic model. We demonstrate the software by fitting the images of NGC 5557 and NGC 5813, which have been previously identified as core-Sersic galaxies by their 1D radial light profiles. These two examples are representative of different dust obscuration conditions, and of bulge/disk decomposition. To perform the analysis, we obtained deep Hubble Legacy Archive (HLA) mosaics in the F555W filter (~V-band). We successfully reproduce the results of the previous 1D analysis, modulo the intrinsic differences between the 1D and the 2D fitting procedures. The code and the analysis procedure described here have been developed for the first coherent 2D analysis of a sample of core-Sersic galaxies, which will be presented in a forth-coming paper. As the 2D analysis provides better constraining on multi-component fitting, and is fully seeing-corrected, it will yield complementary constraints on the missing mass in depleted galaxy cores.
description: Accepted for publication in PASP; A binary version of GALFIT-CORSAIR is publicly available at http://astronomy.swin.edu.au/~pbonfini/galfit-corsair/
Host isotope mass effects on the hyperfine interaction of group-V donors in silicon
Creators: name: Sekiguchi, T.
name: Tyryshkin, A. M.
name: Tojo, S.
name: Abe, E.
name: Mori, R.
name: Riemann, H.
name: Abrosimov, N. V.
name: Becker, P.
name: Pohl, H. -J.
name: Ager, J. W.
name: Haller, E. E.
name: Thewalt, M. L. W.
name: Morton, J. J. L.
name: Lyon, S. A.
name: Itoh, K. M.
Publisher: name: arXiv
Year: 2014
Subjects: subject: Materials Science (cond-mat.mtrl-sci)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: FOS: Physical sciences

description: The effects of host isotope mass on the hyperfine interaction of group-V donors in silicon are revealed by pulsed electron nuclear double resonance (ENDOR) spectroscopy of isotopically engineered Si single crystals. Each of the hyperfine-split P-31, As-75, Sb-121, Sb-123, and Bi-209 ENDOR lines splits further into multiple components, whose relative intensities accurately match the statistical likelihood of the nine possible average Si masses in the four nearest-neighbor sites due to random occupation by the three stable isotopes Si-28, Si-29, and Si-30. Further investigation with P-31 donors shows that the resolved ENDOR components shift linearly with the bulk-averaged Si mass.
description: 5 pages, 4 figures, 1 table
Exchanging musical metadata with IncipitSearch
Creators: name: Vlahovits, Frederic Von
name: Neovesky, Anna
Publisher: name: Zenodo
Year: 2018
Subjects: Digital musicology
metasearch

description: IncipitSearch is a search engine for music-incipits. Incipts are a pragmatic approach for the cataloguing of notated music, in which a few bars of a score are transcribed. Concurrently, statements about the melodic characteristics of the music can occasionally be made on basis of these short fragments. Still, the IncipitSearch considers itself primarily as a counterpart to conventional thematic-bibliographical catalogues, as they have been presented in printed form for a long time. Integration of repositories  different types of repositories (digital / analogue source catalogues, work catalogues etc.) different types of integrated data (RDF/XML, MARC XML, HTML) data aggregation via custom crawlers or IncipitSearch RDF metadata format in Turtle Serialization IncipitSearch API  • all aggregated content available as open data • JSON API: elasticsearch endpoint • can be used to implement incipit search functionality in other repositories RDF metadata format  • using schema.org vocabulary to add semantic information to web content • data type MusicComposition with own extension MusicIncipit • JSON-LD serialization to enrich web output
Hydrochus soekhnandanae Makhan
Creators: name: Perkins, Philip D.
Publisher: name: Zenodo
Year: 2021
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Coleoptera
Hydrochidae
Hydrochus
Hydrochus soekhnandanae

description: Hydrochus soekhnandanae Makhan
Fig. 31
Hydrochus soekhnandanae Makhan 1992: 98.
Hydrochus pupillus Orchymont: Oliva (1996: 331), misidentification; corrected by Perkins (2019c).
Originally described from Suriname; locality data records have also been published for Venezuela (Perkins, 2019c). Images of the habitus and male genitalia, and detailed description of the male genitalia are given in Perkins (2019c). One record is now known for Panama.
Material examined (1): Panama: Canal Zone, Barro Colorado Isl., 9.v.1946, leg. P. V. Mook (1 NMNH).
description: Published as part of Perkins, Philip D., 2021, Taxonomy of Central American water beetles in the genus Hydrochus Leach, 1817 (Coleoptera: Hydrochidae), pp. 459-503 in Zootaxa 4974 (3) on page 479, DOI: 10.11646/zootaxa.4974.3.2, http://zenodo.org/record/4777839
Two-Component Elements Mediate Interactions between Cytokinin and Salicylic Acid in Plant Immunity
Creators: name: Kieber, Joseph J.
name: To, Jennifer P. C.
name: Schaller, G. Eric
name: Hutchison, Claire E.
name: Dangl, Jeffery L.
name: Epple, Petra
name: Argueso, Cristiana T.
name: Ferreira, Fernando J.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: Recent studies have revealed an important role for hormones in plant immunity. We are now beginning to understand the contribution of crosstalk among different hormone signaling networks to the outcome of plant–pathogen interactions. Cytokinins are plant hormones that regulate development and responses to the environment. Cytokinin signaling involves a phosphorelay circuitry similar to two-component systems used by bacteria and fungi to perceive and react to various environmental stimuli. In this study, we asked whether cytokinin and components of cytokinin signaling contribute to plant immunity. We demonstrate that cytokinin levels in Arabidopsis are important in determining the amplitude of immune responses, ultimately influencing the outcome of plant–pathogen interactions. We show that high concentrations of cytokinin lead to increased defense responses to a virulent oomycete pathogen, through a process that is dependent on salicylic acid (SA) accumulation and activation of defense gene expression. Surprisingly, treatment with lower concentrations of cytokinin results in increased susceptibility. These functions for cytokinin in plant immunity require a host phosphorelay system and are mediated in part by type-A response regulators, which act as negative regulators of basal and pathogen-induced SA–dependent gene expression. Our results support a model in which cytokinin up-regulates plant immunity via an elevation of SA–dependent defense responses and in which SA in turn feedback-inhibits cytokinin signaling. The crosstalk between cytokinin and SA signaling networks may help plants fine-tune defense responses against pathogens.
UTX and UTY Demonstrate Histone Demethylase-Independent Function in Mouse Embryonic Development
Creators: name: Sengoku, Toru
name: Yokoyama, Shigeyuki
name: Magnuson, Terry
name: Shpargel, Karl B.
Publisher: name: The University of North Carolina at Chapel Hill University Libraries
Year: 2012

description: UTX (KDM6A) and UTY are homologous X and Y chromosome members of the Histone H3 Lysine 27 (H3K27) demethylase gene family. UTX can demethylate H3K27; however, in vitro assays suggest that human UTY has lost enzymatic activity due to sequence divergence. We produced mouse mutations in both Utx and Uty. Homozygous Utx mutant female embryos are mid-gestational lethal with defects in neural tube, yolk sac, and cardiac development. We demonstrate that mouse UTY is devoid of in vivo demethylase activity, so hemizygous XUtx− Y+ mutant male embryos should phenocopy homozygous XUtx− XUtx− females. However, XUtx− Y+ mutant male embryos develop to term; although runted, approximately 25% survive postnatally reaching adulthood. Hemizygous X+ YUty− mutant males are viable. In contrast, compound hemizygous XUtx− YUty− males phenocopy homozygous XUtx− XUtx− females. Therefore, despite divergence of UTX and UTY in catalyzing H3K27 demethylation, they maintain functional redundancy during embryonic development. Our data suggest that UTX and UTY are able to regulate gene activity through demethylase independent mechanisms. We conclude that UTX H3K27 demethylation is non-essential for embryonic viability.
بررسی تـأثیر رؤیت پذیری فضای کالبدی بر رفتار عابران پیاده در میادین شهری با کمک تحلیل های مبتنی بر آیزویست سه بعدی (نمونه موردی: سبزه میدان تهران)
Publisher: name: دانشگاه کردستان
Year: 2018

description: یکی از مباحث مهم در تحلیل بصری فضاهای شهری، موضوع رؤیت پذیری آنها می باشد که در سالهای اخیر، به ویژه\nبا توسعه فناوری و گسترش نرم افزارهای رایانه ای، جایگاه ویژهای در مطالعات شهری یافته است. این در حالی است که\nیافته های بسیاری از پژوهش ها و مطالعات اخیر بیانگر وجود ارتباطی تنگاتنگ میان رؤیت پذیری کالبدی و رفتارهای\nاحتمالی در فضاهای شهری است. از سوی دیگر زمینه های فضایی مختلف نیز میتوانند شرایط رؤیت پذیری متفاوتی را\nپدید آورده و متعاقب آن ادراک افراد را دستخوش تغییر قرار دهند. ازاین رو در این پژوهش برای بررسی تخصصی و دستیابی\nبه یافته های علمی، از میان انواع مختلف بسترهای فضایی قابل ً بررسی، صرفا بر موضوع میادین شهری، تأ کید و تمرکز\nگردیده است. هدف این تحقیق بررسی تأثیر رؤیت پذیری فضای شهری بر برخی گونه های رفتاری استفاده کنندگان می باشد\nنمونه مورد پژوهی در مطالعه حاضر، سبزه میدان واقع در محدوده مرکزی شهر تهران می باشد که به دلیل دارا بودن بسیاری\nاز ویژگی های یک میدان شهری در مفهوم حقیقی آن انتخاب گردیده است. در این مقاله، با به کارگیری مفهوم آیزوویست\nسه بعدی، تحلیل های مربوط به رؤیت پذیری فضای مورد مطالعه صورت پذیرفته و ارتباط میان این متغیر و برخی از\nگونه های رفتاری مردم _ شامل "مکث و حرکت،" "رفتارهای فردی و اجتماعی" و "سرعت حرکت" در کنار متغیر "جنسیت_"\nمورد مطالعه و بررسی قرار گرفته است. بدین منظور، نقشه رؤیت پذیری میدان مورد بررسی در محیط نرم افزارجی.آی.اس تولید\nگردیده و ارتباط میان متغیرهای هدف پژوهش با یکدیگر با استفاده از آزمون های آماری و بررسی ضرایب همبستگی در\nنرم افزار اس.پی.اس.اس مورد تحلیل قرار گرفت. نتایج به دست آمده نشان داد که بین رؤیت پذیری کالبدی با گونه های رفتاری\nمشخص شده در این پژوهش، ارتباط معناداری وجود دارد. زنان در فضاهایی که رؤیت پذیری در حدمتوسطی است،\nحضور پررنگتری دارند. در فضاهایی که رؤیت پذیری از شدت بیشتری برخوردار است، مکث بیشتری صورت میگیرد\nرفتارهای اجتماعی در نقاطی که بیشتردر معرض دید قرار دارنـد، انجام میشود و سرعت حرکت با شدت رؤیت پذیری\nرابطه ای معکوس را نشان میدهد
The Hard X-Ray Luminosity Function of High-Redshift ($3
Creators: name: Vito, Fabio
name: Gilli, Roberto
name: Vignali, Cristian
name: Comastri, Andrea
name: Brusa, Marcella
name: Cappelluti, Nico
name: Iwasawa, Kazushi
Publisher: name: arXiv
Year: 2014
Subjects: subject: Astrophysics of Galaxies (astro-ph.GA)
subject: Cosmology and Nongalactic Astrophysics (astro-ph.CO)
subject: FOS: Physical sciences

description: We present the hard-band ($2-10\,\mathrm{keV}$) X-ray luminosity function (HXLF) of $0.5-2\,\mathrm{keV}$ band selected AGN at high redshift. We have assembled a sample of 141 AGN at $310^{44}\mathrm{erg\,s^{-1}}}$) obscured AGN fraction from $z=0$ to $z>3$.
description: MNRAS, Accepted 2014 September 23. Received 2014 September 10; in original form 2014 August 5; 19 pages, 11 figures, 5 tables
From cornerstone to capstone: information literacy collaboration across the curriculum
Creators: name: Salisbury, Fiona
name: Corbin, Jenny
name: Peseta, Tai
Publisher: name: La Trobe
Year: 2023

description: Librarians and academics alike are passionate about how students engage with scholarly information. We want students to build on their existing information literacy skills when they commence university and to graduate with the information skills needed for lifelong learning in their chosen profession and society at large. Collaboration between librarians and academics to embed information literacy into curriculum design is a key strategy for developing students’ information skills. But what impact does our collaborative effort have on student learning outcomes and long-term information seeking behaviour? Are our graduates information literate and ready for a complex information society? At Latrobe University information literacy is situated as part of inquiry/research graduate capability. Librarians and academics invest much time and effort in teaching and learning partnerships at the institutional, course and subject level. The emphasis is on a coherent, consistent and coordinated approach to embedding information literacy into curriculum design across these three domains. This approach is supported by reusable online resources that have been developed by library staff at La Trobe and intended for use in a blended learning environment. This paper describes the results of a longitudinal study that tracked the information literacy skills of a particular cohort of students from cornerstone to capstone (2009-2012), and reflects on how this evidence-base has informed collaborative practice and development of learning activities and assessment tasks. The study includes the outcome of international benchmarking for final year students at La Trobe University using a standardised information literacy assessment tool. In conclusion, the paper returns to the importance of embedding information literacy into the curriculum design and measuring information literacy learning outcomes progressively during a course. Highlighting the advantages of collaborative practice in terms of student learning outcomes and graduate capabilities reinforces the impact of library and faculty partnerships in the university teaching and learning environment.

['International Association of Scientific and Technological University Libraries. [34th : 2013 : Cape Town, South Africa]']
Quantum turbulence simulations using the Gross-Pitaevskii equation: high-performance computing and new numerical benchmarks
Creators: name: Kobayashi, Michikazu
name: Parnaudeau, Philippe
name: Luddens, Francky
name: Lothode, Corentin
name: Danaila, Luminita
name: Brachet, Marc
name: Danaila, Ionut
Publisher: name: arXiv
Year: 2020
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Other Condensed Matter (cond-mat.other)
subject: Numerical Analysis (math.NA)
subject: FOS: Physical sciences
subject: FOS: Mathematics

description: This paper is concerned with the numerical investigation of Quantum Turbulence (QT) described by the Gross-Pitaevskii (GP) equation. Numerical simulations are performed using a parallel (MPI-OpenMP) code based on a pseudo-spectral spatial discretization and second order splitting for the time integration. We start by revisiting (in the framework of high-performance/high-accuracy computations) well-known GP-QT settings, based on the analogy with classical vortical flows: Taylor-Green (TG) vortices and Arnold-Beltrami-Childress (ABC) flow. Two new settings are suggested to build the initial condition for the QT simulation. They are based on the direct manipulation of the wave function by generating a smoothed random phase (SRP) field, or seeding random vortex rings (RVR) pairs. The new initial conditions have the advantage to be simpler to implement than the TG and ABC approaches, while generating statistically equivalent QT fields. Each of these four GP-QT settings is described in detail by defining corresponding benchmarks that could be used to validate/calibrate new GP codes. We offer a comprehensive description of the numerical and physical parameters of each benchmark. We analyze the results in detail and present values, spectra and structure functions of main quantities of interest (energy, helicity, etc.) that are useful to describe the turbulent flow. Some general features of QT are identified, despite the variety of initial states.
description: 61 pages, 21 figures