Transposable elements are no longer considered to be “junk” DNA. Here, we review how TEs can impact gene regulation systematically. TEs encode various regulatory elements that enables them to regulate gene expression. RJ Britten and EH Davidson hypothesized that TEs can integrate the function of various transcriptional regulators into gene regulatory networks. Uniquely TEs can deposit regulatory sites across the genome when they transpose, and thereby bring multiple genes under control of the same regulatory logic. Several studies together have robustly (...) established that TEs participate in embryonic development and oncogenesis. We discuss the regulatory characteristics of TEs in context of evolution to understand the extent of their impact on gene networks. Understanding these features of TEs is central to future investigations of TEs in cellular processes and phenotypic presentations, which are applicable to development and disease studies. We re-visit the Britten–Davidson “gene-battery” model and understand the genetic and transcriptional impact of TEs in innovating gene regulatory networks. Transposable elements are exogenous sequences that have either been co-opted or repurposed for host functions. The vast amounts of TE sequence in the genome provides raw material for gene expression regulation, and still remains to be fully understood; the “gene-battery” model provides the basis for understanding this. (shrink)

Treatise on the Advaita school in Hindu philosophy.

Localized mRNA translation is a biological process that allows mRNA to be translated on‐site, which is proposed to provide fine control in protein regulation, both spatially and temporally within a cell. We recently reported that Vasa, an RNA‐helicase, is a promising factor that appears to regulate this process on the spindle during the embryonic development of the sea urchin, yet the detailed roles and functional mechanisms of Vasa in this process are still largely unknown. In this review article, to elucidate (...) these remaining questions, we first summarize the prior knowledge and our recent findings in the area of Vasa research and further discuss how Vasa may function in localized mRNA translation, contributing to efficient protein regulation during rapid embryogenesis and cancer cell regulation. (shrink)

Journal of International Political Theory, Ahead of Print. Practice turn marks an important advancement in International Relations theorizing. In challenging abstract meta-theoretical debates, practice theorizing in International Relations aims to get close to the lifeworld of the actual practitioners of politics. Scholars from different positions such as constructivism, critical theory, and post-structuralism have critically interrogated the analytical framework of practices in international politics. Building upon these works, we are concerned with a question of how to examine the context of international (...) practices that unfolds in multiple ways in practitioners’ performances. Our central thesis is that a distinct pragmatic methodology offers an opportunity to keep with the practice turn and avoid the problematic foundational moves of mainstream practice theorizing. This involves foregrounding three interrelated processes in examining practices: the role of exceptions in the normal stream of performances, normative uptake of the analysts, and the semantic field that actors navigate in political performances. We argue that this methodology is predicated on its usefulness to interpret practices through reflective social-science inquiry. (shrink)

Ernst Cassirer was the last of the major exponents of the Marburg School of Neo-Kantianism. This book presents his philosophy of science in the context of the developments in the physical sciences in this century. Cassirer's call for a redefinition of the «concept of substance» is critically evaluated in terms of the meanings of such terms as «laws,» «theories,» and «causality» as used in the sciences. By treating the sciences as one of the Symbolic Forms, this book establishes the relevancy (...) of the critical philosophy of Kant to an understanding of the recent history and philosophy of science. (shrink)

A large number of cross-references to various bodies of text are used in legal texts, each serving a different purpose. It is often necessary for authorities and companies to look into certain types of these citations. Yet, there is a lack of automatic tools to aid in this process. Recently, citation graphs have been used to improve the intelligibility of complex rule frameworks. We propose an algorithm that builds the citation graph from a document and automatically labels each edge according (...) to its purpose. Our method uses the citing text only and thus works only on citations who’s purpose can be uniquely identified by their surrounding text. This framework is then applied to the US code. This paper includes defining and evaluating a standard gold set of labels that cover a vast majority of citation types which appear in the “US Code” but are still short enough for practical use. We also proposed a novel linear-chain conditional random field model that extracts the features required for labeling the citations from the surrounding text. We then analyzed the effectiveness of different clustering methods such as K-means and support vector machine to automatically label each citation with the corresponding label. Besides this, we talk about the practical difficulties of this task and give a comparison of human accuracy compared to our end-to-end algorithm. (shrink)

Vulval development in the Caenorhabditis elegans hermaphrodite represents a simple, genetically tractable system for studying how cell signaling events control cell fata decisions. Current models suggest that proper specification of vulval cell fates relies on the integration of multiple signaling systems, including one that involves a receptor tyrosine kinase (RTK)→Ras→mitogen activated protein kinase (MAPK) cascade and one that involves a LIN‐12/Notch family receptor. In this review, we first discuss how genetic strategies are being used to identify and analyze components that (...) control vulval cell fate decisions. We then describe the different signaling systems that have been elucidated and how they relate to one another. Finally, we highlight several recently characterized genes that encode positive regulators, negative regulators or potential targets of the RTK→Ras→MAPK cascade involved in vulval induction. (shrink)

The paper considers Ernst' Cassirer's standpoint with reference to Euclidean geometry and the complementarity principle of quantum theory, interpreted as a choice between a causal description and a space — time description. The acceptance of the complementarity principle by Cassirer not only lands him off the Kantian path slightly, but it also leads him to some contradictions and incompatibilities within his own system of thought. 1. Accepting complementarity, Cassirer cannot still hold that there is an infinite hierarchy of objective levels (...) as he does towards the end of hisDeterminismus; and 2. accepting complementarity, Cassirer cannot still hold on to the observability principle of Leibniz. (shrink)

This book, first published in 1996, introduces students to optimization theory and its use in economics and allied disciplines. The first of its three parts examines the existence of solutions to optimization problems in Rn, and how these solutions may be identified. The second part explores how solutions to optimization problems change with changes in the underlying parameters, and the last part provides an extensive description of the fundamental principles of finite- and infinite-horizon dynamic programming. Each chapter contains a number (...) of detailed examples explaining both the theory and its applications for first-year master's and graduate students. 'Cookbook' procedures are accompanied by a discussion of when such methods are guaranteed to be successful, and, equally importantly, when they could fail. Each result in the main body of the text is also accompanied by a complete proof. A preliminary chapter and three appendices are designed to keep the book mathematically self-contained. (shrink)

Practice turn marks an important advancement in International Relations theorizing. In challenging abstract meta-theoretical debates, practice theorizing in International Relations aims to get close to the lifeworld of the actual practitioners of politics. Scholars from different positions such as constructivism, critical theory, and post-structuralism have critically interrogated the analytical framework of practices in international politics. Building upon these works, we are concerned with a question of how to examine the context of international practices that unfolds in multiple ways in practitioners’ (...) performances. Our central thesis is that a distinct pragmatic methodology offers an opportunity to keep with the practice turn and avoid the problematic foundational moves of mainstream practice theorizing. This involves foregrounding three interrelated processes in examining practices: the role of exceptions in the normal stream of performances, normative uptake of the analysts, and the semantic field that actors navigate in political performances. We argue that this methodology is predicated on its usefulness to interpret practices through reflective social-science inquiry. (shrink)

One of the anticipations of this Congress, namely, that of all the world's philosophical traditions address the 'problems of human life, civilization, and residence on earth,' cannot be accomplished by insisting upon the means and prescriptions of any one tradition. In this paper I address the theme of the Congress by considering the views of Johann Gottfried Herder and Hans-Georg Gadamer on education and history. In spite of attacks on his religious loyalties, Herder supported what may today be called pluralism. (...) Having studied history and having watched history in the making of one of its darkest moments, Gadamer also saw the future of the humanities in the global conversation. To educate humanity, I conclude, philosophy should first attempt to understand the existential conditions of human life. (shrink)

Die Arbeit betrachtet die verschiedenen Ansichten, die über wissenschaftliche Objektivität bestehen: Etwa als Charakteristik einer gesamtwissenschaftlichen Praxis, als Gesamtfortschritt, der durch die Struktur der Institution bestimmt ist, oder als etwas, was auf subjektivem Glauben, subjektivem Verfahren und kollektiven Meinungen begründet ist. Sie betrachtet die Objektivität der Wissenschaft auch in bezug auf den Sinn wissenschaftlicher Behauptungen und bezüglich des allgemeinen erkenntnistheoretischen Hintergrundes. Mit Blick auf einige neuere Thesen innerhalb der Quantenphysik und in der Sprache der Quantenphysik versucht die Arbeit herauszustellen, daß (...) die Praxis der tatsächlichen Wissenschaft über historische und logisch-methodologische Rechenschaftsablegung hinausgeht, um ihre Glaubwürdigkeit in einer kontinuierlich sich erweiternden Erfahrung unter Beweis zu stellen. Wissenschaft als ein systematisches öffentliches Unternehmen, dessen Zweck es ist, Behauptungen über die Natur zu formulieren, erreicht dies durch einen Bedeutungswandel von Objektivität und indem sie neue "Sprachen" übernimmt, die durch solchen Wandel erfordert werden. (shrink)

Chromatin structure and dynamics regulate key cellular processes such as DNA replication, transcription, repair, remodeling, and gene expression, wherein different protein factors interact with the nucleosomes. In these events, DNA and RNA polymerases, chromatin remodeling enzymes and transcription factors interact with nucleosomes, either in a DNA‐sequence‐specific manner and/or by recognizing different structural features on the nucleosome. The molecular details of the recognition of a nucleosome by different viral proteins, remodeling enzymes, histone post‐translational modifiers, and RNA polymerase II, have been explored (...) in the recent past. The present review puts forth critical insights into the basic mechanisms of nucleosome recognition by the various protein factors and the role of distinct surface epitopes on a nucleosome. These determinants of the underlying specificity include features such as the acidic patch, arginine anchor, histone post‐translational modifications, core DNA, DNA lesions, and linker DNA. (shrink)

ABSTRACT This narrative synthesis based on a literature review undertaken for the project ?Creating Citizenship Communities? (funded by the Esmée Fairbairn Foundation) includes discussion, principally, about what research evidence tells us about young people?s definitions of community, of types of engagement by different groups of young people, actions by schools and what they might do in the future to promote engagement. Community is seen as a highly significant and contested area. Young people are viewed negatively by adults but are in (...) some contexts already positively engaged in communities. There seem to be gaps in the literature about what young people understand about community. There is, broadly, some consensus about how to promote engagement. (shrink)

This article approaches the recent work of pre-eminent Indian conceptual artist Vivan Sundaram, Trash, as a supplement to dominant representational practices of, and within, the Indian megacity. Re-purposing tropes that motivate both popular and specialist discourses, Sundaram’s recent ensemble rehearses the discursive construction of the megacity-as-waste, by representing an urban totality through elaborate, ordered arrangements of garbage. Working collaboratively with waste-pickers who are members of the non-governmental organization Chintan: Environmental and Research Action Group in New Delhi, the artist (...) sorts, re-assembles and scales the found-objects of Trash into detailed models of a monumental urban landscape. Through a close reading of its formal aspects, the entry examines Trash’s reflection on logics of planned obsolescence which govern both the work as well as fantasies of economic nationalism premised on dualistic images of the global/mega-city. (shrink)

* Hatha yoga is commonly thought to be a pure, ancient Indian spiritual discipline that transcends cultural, temporal and spatial boundaries or a spiritual discipline corrupted by Indians (for export) or Westerners (for import) to accommodate Westerners. Calling these beliefs into question, Max Popov's Radiant Bodies shows how hatha yoga was transformed from sacred practice into a health and fitness regime for middle-class Indians in India in the early and mid-20th century. Popov tells the story of this transformation through the (...) lives and accomplishments of eleven key figures: six Indian yogis (Shri Yogendra, Swami Kuvalayananda, S. Sundaram, T. Krishnamacharya, Swami Sivananda and B. K. S. Iyengar), an Indian bodybuilder (K. V. Iyer), a rajah (Bhavanarao Shrinivasrao), an Indian diplomat (Apa Pant), an American-born English journalist (Louise Morgan), and a Russian-born yogi trained in India (Indra Devi).Their accomplishments are placed within the context of such Western trends as the physical culture movement, the commodification of exercise, militant nationalism, post-World War I anxiety, the mystique of science, jazz age popular entertainment, and the quest for youth and beauty. Through a series of biographical narratives placed in a rich cultural context, Popov not only brings to life the formation of modern hatha yoga as an exercise system in the early 20th century but also its transformation over the course of the 20th century into an embodied spiritual practice. Popov draws on extensive research from rare primary sources to present a cutting edge interpretation of the history of modern hatha yoga. Radiant Bodies is a thoughtful book for the educated general reader that would also be of special interest for religion scholars and yoga professionals and practitioners. (shrink)

One of the consequences of the renewed interest in philosophical aspects of chemistry has been the corresponding renewed interest in the periodic system of the elements which embodies so much chemical knowledge in an implicit form.We have therefore decided to further promote scholarship on the periodic system by compiling a bibliography of previously published material. As the title of this article implies, we restrict ourselves to secondary sources. Readers interested in primary material can consult a number of useful references for (...) this purpose. These include the classical treatment on the History of the periodic system by van Spronsen as well as Mazurs’s compilation of over 700 forms of the periodic system. Mazurs also includes a detailed bibliography of articles and books in several different languages. Additional sources of primary articles which come to mind include David Knight’s Classics in the History of Chemistry, Carmen Giunta’s web pages for the history of chemistry and entries under individual scientists in the Dictionary of Scientific Biography. Turning to the present compilation we do not claim this to be a comprehensive list, since it partly reflects the interests of the senior author (E.R.S.), namely the relationship between the periodic system and quantum mechanics. For example, in addition to articles specifically on the periodic system we include a number of articles which deal with the related themes of electronic configurations of the elements. This bias also explains the disproportionate number of references to the work of the senior author.We have tried to include as many as possible of the articles on the periodic system which have appeared in the philosophy of science literature. These include Bensaude, Christie, Hettema and Kuipers, Kultgen, Lipton, Maher, Scerri, Shapere and Sundaram, among others. (shrink)

A recursive enumerator for a function h is an algorithm f which enumerates for an input x finitely many elements including h(x), f is a k(n)-enumerator if for every input x of length n, h(x) is among the first k(n) elements enumerated by f. If there is a k(n)-enumerator for h then h is called k(n)-enumerable. We also consider enumerators which are only A-recursive for some oracle A. We determine exactly how hard it is to enumerate the Kolmogorov function, which (...) assigns to each string x its Kolmogorov complexity: • For every underlying universal machine U, there is a constant a such that C is k(n)-enumerable only if k(n) ≥ n/a for almost all n. • For any given constant k, the Kolmogorov function is k-enumerable relative to an oracle A if and only if A is at least as hard as the halting problem. • There exists an r.e., Turing-incomplete set A such for every non-decreasing and unbounded recursive function k, the Kolmogorov function is k(n)-enumerable relative to A. The last result is obtained by using a relativizable construction for a nonrecursive set A relative to which the prefix-free Kolmogorov complexity differs only by a constant from the unrelativized prefix-free Kolmogorov complexity. Although every 2-enumerator for C is Turing hard for K, we show that reductions must depend on the specific choice of the 2-enumerator and there is no bound on the quantity of their queries. We show our negative results even for strong 2-enumerators as an oracle where the querying machine for any x gets directly an explicit list of all hypotheses of the enumerator for this input. The limitations are very general and we show them for any recursively bounded function g: • For every Turing reduction M and every non-recursive set B, there is a strong 2-enumerator f for g such that M does not Turing reduce B to f. • For every non-recursive set B, there is a strong 2-enumerator f for g such that B is not wtt-reducible to f. Furthermore, we deal with the resource-bounded case and give characterizations for the class ${\rm S}_{2}^{{\rm P}}$ introduced by Canetti and independently Russell and Sundaram and the classes PSPACE, EXP. • ${\rm S}_{2}^{{\rm P}}$ is the class of all sets A for which there is a polynomially bounded function g such that there is a polynomial time tt-reduction which reduces A to every strong 2-enumerator for g. • PSPACE is the class of all sets A for which there is a polynomially bounded function g such that there is a polynomial time Turing reduction which reduces A to every strong 2-enumerator for g. Interestingly, g can be taken to be the Kolmogorov function for the conditional space bounded Kolmogorov complexity. • EXP is the class of all sets A for which there is a polynomially bounded function g and a machine M which witnesses A ∈ PSPACEf for all strong 2-enumerators f for g. Finally, we show that any strong O(log n)-enumerator for the conditional space bounded Kolmogorov function must be PSPACE-hard if P = NP. (shrink)