This paper distinguishes between epistemic and metaphysical problems of arbitrariness for vagueness. It argues that epistemicism can resolve the epistemic problem of arbitrariness but not the metaphysical one.

Analysis of sites of newly integrated DNA in cellular genomes is important to several fields, but methods for analyzing and visualizing these datasets are still under development. Here, we describe tools for data analysis and visualization that take as input integration site data from our INSPIIRED pipeline. Paired-end sequencing allows inference of the numbers of transduced cells as well as the distributions of integration sites in target genomes. We present interactive heatmaps that allow comparison of distributions of integration sites to (...) genomic features and that support numerous user-defined statistical tests. To summarize integration site data from human gene therapy samples, we developed a reproducible report format that catalogs sample population structure, longitudinal dynamics, and integration frequency near cancer-associated genes. We also introduce a novel summary statistic, the UC50, which provides a single number summarizing possible clonal expansion. Using these tools, we characterize ongoing longitudinal characterization of a patient from the first trial to treat severe combined immunodeficiency-X1, showing successful reconstitution for 15 years accompanied by persistence of a cell clone with an integration site near the cancer-associated gene CCND2. Software is available at https://github.com/BushmanLab/INSPIIRED. (shrink)

Throughout, there are many case histories to illustrate the text.

In this book, Christopher D. Rodkey asks how the brain worships and responds by engaging ideas from neurological science, philosophy, ritual theory, and religious education. The Synaptic Gospel will prove to be a useful theoretical tool for pastors, religious educators, youth ministers, church music professionals, and seminary students.

We present a system for deciding whether a given sentence can be inferred from text. Each sentence is represented as a directed graph (extracted from a dependency parser) in which the nodes represent words or phrases, and the links represent syntactic and semantic relationships. We develop a learned graph matching model to approximate entailment by the amount of the sentence’s semantic content which is contained in the text. We present results on the Recognizing Textual Entailment dataset (Dagan et al., 2005), (...) and show that our approach outperforms Bag- Of-Words and TF-IDF models. (shrink)

Christopher Frith is a research professor at the Functional Imaging Laboratory of the Wellcome Department of Imaging Neuroscience at University College, London. He explores, experimentally, using the techniques of functional brain imaging, the relationship between human consciousness and the brain. His research focuses on questions pertaining to perception, attention, control of action, free will, and awareness of our own mental states and those of others. As the following discussion makes clear, Frith investigates brain systems involved in the choice of (...) one action over another and in the understanding of other people. Such investigations are aimed at understanding brain basis of autism and schizophrenia. In his widely cited study of schizophrenia, The Cognitive Neuropsychology of Schizophrenia , Frith argues that many of the positive symptoms of schizophrenia, such as delusions of control, auditory hallucinations, and thought insertion, involve problems of self-monitoring. Patients, in effect, lose track of their own intentions and mistakenly attribute agency for their own actions to someone else. Frith employs models of motor control, involving comparator mechanisms and efference copy, not only to explain delusions that involve movement, but also to develop a neurocognitive explanation of delusional cognition. (shrink)

This paper examines the Stanford typed dependencies representation, which was designed to provide a straightforward description of grammatical relations for any user who could benefit from automatic text understanding. For such purposes, we argue that dependency schemes must follow a simple design and provide semantically contentful information, as well as offer an automatic procedure to extract the relations. We consider the underlying design principles of the Stanford scheme from this perspective, and compare it to the GR and PARC representations. Finally, (...) we address the question of the suitability of the Stanford scheme for parser evaluation. (shrink)

Antti Revonsuo has given us an engaging and deliberately provocative paper discussing the value of brain imaging in the search for the neural basis of consciousness. In some places, however, his enthusiasm for the controversial nature of the topic has led him to overstate or misdirect his case.

Linking constructions involving dሇ (DE) are ubiquitous in Chinese, and can be translated into English in many different ways. This is a major source of machine translation error, even when syntaxsensitive translation models are used. This paper explores how getting more information about the syntactic, semantic, and discourse context of uses of dሇ (DE) can facilitate producing an appropriate English translation strategy. We describe a finergrained classification of dሇ (DE) constructions in Chinese NPs, construct a corpus of annotated examples, and (...) then train a log-linear classifier, which contains linguistically inspired features. We use the DE classifier to preprocess MT data by explicitly labeling dሇ (DE) constructions, as well as reordering phrases, and show that our approach provides significant BLEU point gains on MT02 (+1.24), MT03 (+0.88) and MT05 (+1.49) on a phrasedbased system. The improvement persists when a hierarchical reordering model is applied. (shrink)

This paper examines feature selection for log linear models over rich constraint-based grammar (HPSG) representations by building decision trees over features in corresponding probabilistic context free grammars (PCFGs). We show that single decision trees do not make optimal use of the available information; constructed ensembles of decision trees based on different feature subspaces show signifi- cant performance gains (14% parse selection error reduction). We compare the performance of the learned PCFG grammars and log linear models over the same features.

Many NLP tasks rely on accurately estimating word dependency probabilities P(w1|w2), where the words w1 and w2 have a particular relationship (such as verb-object). Because of the sparseness of counts of such dependencies, smoothing and the ability to use multiple sources of knowledge are important challenges. For example, if the probability P(N |V ) of noun N being the subject of verb V is high, and V takes similar objects to V , and V is synonymous to V , then (...) we want to conclude that P(N |V ) should also be reasonably high—even when those words did not cooccur in the training data. (shrink)

Abeill´e and Godard (1994) seek to show that the rightward branching analysis of French tense auxiliaries shown in (1b), that I argued for in Manning (1992) and which is widely adopted in general, is wrong, and that rather we should adopt a flat analysis for this construction as shown in (1c), and they show how such an analysis can be realized within HPSG (Pollard and Sag 1994).

A desirable quality of a coreference resolution system is the ability to handle transitivity constraints, such that even if it places high likelihood on a particular mention being coreferent with each of two other mentions, it will also consider the likelihood of those two mentions being coreferent when making a final assignment. This is exactly the kind of constraint that integer linear programming (ILP) is ideal for, but, surprisingly, previous work applying ILP to coreference resolution has not encoded this type (...) of constraint. We train a coreference classifier over pairs of mentions, and show how to encode this type of constraint on top of the probabilities output from our pairwise classifier to extract the most probable legal entity assignments. We present results on two commonly used datasets which show that enforcement of transitive closure consistently improves performance, including improvements of up to 3.6% using the b3 scorer, and up to 16.5% using cluster f-measure. (shrink)

Discriminative feature-based methods are widely used in natural language processing, but sentence parsing is still dominated by generative methods. While prior feature-based dynamic programming parsers have restricted training and evaluation to artificially short sentences, we present the first general, featurerich discriminative parser, based on a conditional random field model, which has been successfully scaled to the full WSJ parsing data. Our efficiency is primarily due to the use of stochastic optimization techniques, as well as parallelization and chart prefiltering. On WSJ15, (...) we attain a state-of-the-art F-score of 90.9%, a 14% relative reduction in error over previous models, while being two orders of magnitude faster. On sentences of length 40, our system achieves an F-score of 89.0%, a 36% relative reduction in error over a generative baseline. (shrink)

Skyrms has pointed out differences between the results of rational choice theory and evolutionary game theory. This commentary argues that there is a great deal of agreement on the Nash Bargaining Solution, which maximizes the product of player payoffs, in both rational-choice-based and evolution-based theories of equilibrium selection. While evolutionary game theory has the potential to explain how we arrive at the behavioural rules that govern what we do, realistic models will require calibration through laboratory experiments. Indeed, experimental evidence strongly (...) supports the Nash Bargaining Solution. (shrink)

The correct locus (or loci) of binding theory has been a matter of much discussion. Theories can be seen as varying along at least two dimensions. The rst is whether binding theory is con gurationally determined (that is, the theory exploits the geometry of a phrase marker, appealing to such purely structural notions as c-command and government) or whether the theory depends rather on examining the relations between items selected by a predicate (where by selection I am intending to cover (...) everything from semantic dependencies to syntactic subcategorization). The second is the level of grammar on which binding is de ned. Attempting to roughly equate levels across di erent theories, suggestions have included the semantics/lexical conceptual structure (Jackendo 1992), thematic structure (Jackendo 1972, Wilkins 1988), argument structure/D-structure/initial grammatical relations (Manning 1994, Belletti and Rizzi 1988, Perlmutter 1984), surface syntax/grammatical relations, logical form, linear order, pragmatics (Levinson 1991), and discourse (Iida 1992). The data is su ciently varied and complex that many theories end up as mixtures, variously employing a combination of elements along both dimensions (for instance, Chomsky (1986) relies purely on con gurational notions for the relationship between an anaphor and its antecedent, but uses concepts from selection in the de nition of the binding domain of an anaphor). LFG has always rejected a con gurational account of binding. For instancError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMapError: Illegal entry in bfrange block in ToUnicode CMape, Simpson (1991) argues that a con gurational theory of binding in Warlpiri cannot be maintained, among other reasons because nite clauses lack a VP.. (shrink)

adjacent phrases, but they typically lack the ability to perform the kind of long-distance reorderings possible with syntax-based systems. In this paper, we present a novel hierarchical phrase reordering model aimed at improving non-local reorderings, which seamlessly integrates with a standard phrase-based system with little loss of computational efficiency. We show that this model can successfully handle the key examples often used to motivate syntax-based systems, such as the rotation of a prepositional phrase around a noun phrase. We contrast our (...) model with reordering models commonly used in phrase-based systems, and show that our approach provides statistically significant BLEU point gains for two language pairs: Chinese-English (+0.53 on MT05 and +0.71 on MT08) and Arabic-English (+0.55 on MT05). (shrink)

This report details experimental results of using stochastic disambiguation models for parsing sentences from the Redwoods treebank (Oepen et al., 2002). The goals of this paper are two-fold: (i) to report accuracy results on the more highly ambiguous latest version of the treebank, as compared to already published results achieved by the same stochastic models on a previous version of the corpus, and (ii) to present some newly developed models using features from the HPSG signs, as well as the MRS (...) dependency graphs. (shrink)

I examine what would be necessary to move part-of-speech tagging performance from its current level of about 97.3% token accuracy (56% sentence accuracy) to close to 100% accuracy. I suggest that it must still be possible to greatly increase tagging performance and examine some useful improvements that have recently been made to the Stanford Part-of-Speech Tagger. However, an error analysis of some of the remaining errors suggests that there is limited further mileage to be had either from better machine learning (...) or better features in a discriminative sequence classifier. The prospects for further gains from semisupervised learning also seem quite limited. Rather, I suggest and begin to demonstrate that the largest opportunity for further progress comes from improving the taxonomic basis of the linguistic resources from which taggers are trained. That is, from improved descriptive linguistics. However, I conclude by suggesting that there are also limits to this process. The status of some words may not be able to be adequately captured by assigning them to one of a small number of categories. While conventions can be used in such cases to improve tagging consistency, they lack a strong linguistic basis. (shrink)

The alignment problem—establishing links between corresponding phrases in two related sentences—is as important in natural language inference (NLI) as it is in machine translation (MT). But the tools and techniques of MT alignment do not readily transfer to NLI, where one cannot assume semantic equivalence, and for which large volumes of bitext are lacking. We present a new NLI aligner, the MANLI system, designed to address these challenges. It uses a phrase-based alignment representation, exploits external lexical resources, and capitalizes on (...) a new set of supervised training data. We compare the performance of MANLI to existing NLI and MT aligners on an NLI alignment task over the well-known Recognizing Textual Entailment data. We show that MANLI significantly outperforms existing aligners, achieving gains of 6.2% in F1 over a representative NLI aligner and 10.5% over GIZA++. (shrink)

We have only limited awareness of the system by which we control our actions and this limited awareness does not seem to be concerned with the control of action. Awareness of choosing one action rather than another comes after the choice has been made, while awareness of initiating an action occurs before the movement has begun. These temporal differences bind together in consciousness the intention to act and the consequences of the action. This creates our sense of agency. Activity in (...) the anterior cingulate cortex and medial prefrontal cortex is associated with awareness of our own actions and also occurs when we think about the actions of others. I propose that the mechanism underlying awareness of how our own intentions lead to actions can also be used to represent the intentions that underlie the actions of others. This common system enables us to communicate mental states and thereby share our experiences. (shrink)

Between Sickness and Health is about illness rather than disease, and recovery rather than cure. The book argues that illness is an experience, represented by the feeling that 'I am not myself'. From the book's phenomenological point of view, feelings of illness cannot be 'unreal' or 'fake', whatever their biological basis, nor need they be categorised as 'physical', 'psychosomatic' or 'psychiatric'. The book challenges the disease-centred ethos of medicine and medical education. It demonstrates that a clearer conception of illness, as (...) distinct from disease, is therapeutic. The feeling that 'I am once again myself' can return, in some degree, whatever state the body is in. Resilience becomes more available when it is seen as a set of personal skills that can be developed, rather than as an inborn trait. Possibilities of wellness are enhanced by recognising that medical and other therapies can either support or impede recovery, as can human relationships and the socio-political environment. The book's many clinical examples are drawn from the author's broad experience as a neurologist, rehabilitation physician and systemic family therapist. Between Sickness and Health will be useful for students, practitioners and academics, and also for anyone who has been or might one day be ill. (shrink)

Originally published in 1972, Should Trees Have Standing? was a rallying point for the then burgeoning environmental movement, launching a worldwide debate on the basic nature of legal rights that reached the U.S. Supreme Court. Now, in the 35th anniversary edition of this remarkably influential book, Christopher D. Stone updates his original thesis and explores the impact his ideas have had on the courts, the academy, and society as a whole. At the heart of the book is an eminently (...) sensible, legally sound, and compelling argument that the environment should be granted legal rights. For the new edition, Stone explores a variety of recent cases and current events--and related topics such as climate change and protecting the oceans--providing a thoughtful survey of the past and an insightful glimpse at the future of the environmental movement. This enduring work continues to serve as the definitive statement as to why trees, oceans, animals, and the environment as a whole should be bestowed with legal rights, so that the voiceless elements in nature are protected for future generations. (shrink)

Grammatical theory has long wrestled with the fact that causative constructions exhibit properties of both single words and complex phrases. However, as Paul Kiparsky has observed, the distribution of such properties of causatives is not arbitrary: ‘construal’ phenomena such as honorification, anaphor and pronominal binding, and quantifier ‘floating’ typically behave as they would if causatives were syntactically complex, embedding constructions; whereas case marking, agreement and word order phenomena all point to the analysis of causatives as single lexical items.1 Although an (...) analysis of causatives in terms of complex syntactic structures has frequently been adopted in an attempt to simplify the mapping to semantic structure, we believe that motivating syntactic structure based on perceived semantics is questionable because in general a syntax/semantics homomorphism cannot be maintained without vitiating syntactic theory (Miller 1991). Instead, we sketch a strictly lexical theory of Japanese causatives that deals with the evidence offered for a complex phrasal analysis. Such an analysis makes the phonology, morphology and syntax parallel, while a mismatch occurs with the semantics. The conclusions we will reach are given in (1). (shrink)

We present a novel algorithm for the fast computation of PageRank, a hyperlink-based estimate of the “importance” of Web pages. The original PageRank algorithm uses the Power Method to compute successive iterates that converge to the principal eigenvector of the Markov matrix representing the Web link graph. The algorithm presented here, called Quadratic Extrapolation, accelerates the convergence of the Power Method by periodically subtracting off estimates of the nonprincipal eigenvectors from the current iterate of the Power Method. In Quadratic Extrapolation, (...) we take advantage of the fact that the first eigenvalue of a Markov matrix is known to be 1 to compute the nonprincipal eigenvectors using successive iterates of the Power Method. Empirically, we show that using Quadratic Extrapolation speeds up PageRank computation by 50- 300% on a Web graph of 80 million nodes, with minimal overhead. (shrink)

Many named entities contain other named entities inside them. Despite this fact, the field of named entity recognition has almost entirely ignored nested named entity recognition, but due to technological, rather than ideological reasons. In this paper, we present a new technique for recognizing nested named entities, by using a discriminative constituency parser. To train the model, we transform each sentence into a tree, with constituents for each named entity (and no other syntactic structure). We present results on both newspaper (...) and biomedical corpora which contain nested named entities. In three out of four sets of experiments, our model outperforms a standard semi-CRF on the more traditional top-level entities. At the same time, we improve the overall F-score by up to 30% over the flat model, which is unable to recover any nested entities. (shrink)

MutL family proteins contain an N‐terminal ATPase domain (NTD), an unstructured interdomain linker, and a C‐terminal domain (CTD), which mediates constitutive dimerization between subunits and often contains an endonuclease active site. Most MutL homologs direct strand‐specific DNA mismatch repair by cleaving the error‐containing daughter DNA strand. The strand cleavage reaction is poorly understood; however, the structure of the endonuclease active site is consistent with a two‐ or three‐metal ion cleavage mechanism. A motif required for this endonuclease activity is present in (...) the unstructured linker of Mlh1 and is conserved in all eukaryotic Mlh1 proteins, except those from metamonads, which also lack the almost absolutely conserved Mlh1 C‐terminal phenylalanine‐glutamate‐arginine‐cysteine (FERC) sequence. We hypothesize that the cysteine in the FERC sequence is autoinhibitory, as it sequesters the active site. We further hypothesize that the evolutionary co‐occurrence of the conserved linker motif with the FERC sequence indicates a functional interaction, possibly by linker motif‐mediated displacement of the inhibitory cysteine. This role is consistent with available data for interactions between the linker motif with DNA and the CTDs in the vicinity of the active site. (shrink)

Environmental ethics has reached a certain level of maturity; further significant advances require reexamining its status within the larger realm of moral philosophy. It could aim to extend to nonhumans one of the familiar sets of principles subject to appropriate modifications; or it could seek to break away and put forward its own paradigm or paradigms. Selecting the proper course requires as the most immediate mission exploring the formal requirements of an ethical system. In general, are there constraints against bringing (...) our moral relations with different sorts of things under different mIes of govemance? In particular, how much independence can an environmental ethic (or ethics) aim to have? (shrink)

This paper proposes a new architecture for textual inference in which finding a good alignment is separated from evaluating entailment. Current approaches to semantic inference in question answering and textual entailment have approximated the entailment problem as that of computing the best alignment of the hypothesis to the text, using a locally decomposable matching score. While this formulation is adequate for representing local (word-level) phenomena such as synonymy, it is incapable of representing global interactions, such as that between verb negation (...) and the addition/removal of qualifiers, which are often critical for determining entailment. We propose a pipelined approach where alignment is followed by a classification step, in which we extract features representing high-level characteristics of the entailment problem, and give the resulting feature vector to a statistical classifier trained on development data. (shrink)

An outline is given in the following memoir of some of the earlier results of an inquiry which I am still prosecuting, and a comparatively new statistical process will be used in it for the first time in dealings with psychological data. It is that which I described under the title of "Statistics by Intercomparison" in the Philosophical Magazine of Jany., 1875.

The Quaestiones super Physica Aristotelis traditionally attributed to Iohannes Canonicus survive in over 35 manuscripts and at least 8 printings from 1475 to 1520. Yet historians have disagreed about the century, the place of origin, the name and the institutional position of the author. This brief paper combines old and new evidence proving that the text was authored by an Augustinian Canon Regular of the Cathedral of Tortosa named Francesc Marbres, a Catalan from Barcelona, while he was Master of Arts (...) at the University of Toulouse around 1330. (shrink)

Abstract:Ninety years ago, John Dewey’s discussion of “the religious”—as distinct from traditional “religion”—opened new ways of thinking about the connection between spirituality and everyday forms of human action. But in what ways does our contemporary religious landscape invite us to reimagine and reconstruct Deweyan approaches to religion? This essay addresses this question by focusing on how the community of El Paso, Texas came together to respond to one of the worst racially motivated mass shootings in recent history. This community’s use (...) of spirituality, art, and institutional religion all corroborate key Deweyan insights and invite us to stretch them further. (shrink)