bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cell of origin, germinal center versus nongerminal center, determined by immunohistochemistry on tissue microarray, does not correlate with outcome in patients with relapsed and refractory DLBCL
Authors: Moskowitz Craig H. , Zelenetz Andrew D. , Kewalramani Tarun , Hamlin Paul , Lessac-Chenen Simone , Houldsworth Jane , Olshen Adam , Chaganti Raju , Nimer Stephen , Teruya-Feldstein Julie 
Published: August 2005

AbstractA number of prognostic factors affect outcome in patients with relapsed or primary refractory diffuse large B-cell lymphoma (DLBCL), including refractory disease and the second-line age-adjusted international prognostic index. In de novo DLBCL, the cell of orgin, as determined by expression microarray analysis or immunohistochemistry (IHC), predicts event-free survival (EFS). We evaluated the cell of origin, as well as other pathologic markers of outcome, on the repeat biopsy specimen of 88 transplantation-eligible patients undergoing ifosfamide, carboplatin, etoposide (ICE) second-line chemotherapy (SLT) followed by high-dose therapy (HDT) and autologous stem cell transplantation (ASCT) to see if were they prognostic in the salvage setting. Pretreatment clinical factors were well balanced between the cohorts. There was no significant difference in response to SLT, HDT, event-free or overall survival based on the cell of origin or any of the common pathologic markers examined. The cell of origin as determined by IHC does not predict outcome in transplantation-eligible patients with relapsed or primary refractory DLBCL.
A systematic search for new mammalian noncoding RNAs indicates little conserved intergenic transcription
Authors: Babak Tomas , Blencowe Benjamin J , Hughes Timothy R 
Published: August 2005

Abstract

Background
Systematic identification and functional characterization of novel types of noncoding (nc)RNA in genomes is more difficult than it is for protein coding mRNAs, since ncRNAs typically do not possess sequence features such as splicing or translation signals, or long open reading frames. Recent "tiling" microarray studies have reported that a surprisingly larger proportion of mammalian genomes is transcribed than was previously anticipated. However, these non-genic transcripts often appear to be low in abundance, and their functional significance is not known.

Results
To systematically search for functional ncRNAs, we designed microarrays to detect 3,478 intergenic and intronic sequences that are conserved between the human, mouse, and rat genomes, and that score highly by other criteria that characterize ncRNAs. We probed these arrays with total RNA isolated from 16 wild-type mouse tissues. Among 55 candidates for highly-expressed novel ncRNAs tested by northern blotting, eight were confirmed as small, highly-and ubiquitously-expressed RNAs in mouse. Of the eight, five were also detected in rat tissues, but none were detected at appreciable levels in human tissues or cultured cells.

Conclusion
Since the sequence and expression of most known coding transcripts and functional ncRNAs is conserved between human and mouse, the lack of northern-detectable expression in human cells and tissues of the novel mouse and rat ncRNAs that we identified suggests that they are not functional or possibly have rodent-specific functions. Our results confirm that relatively little of the intergenic sequence conserved between human, mouse and rat is transcribed at high levels in mammalian tissues, possibly suggesting a limited role for transcribed intergenic and intronic sequences as independent functional elements.
Genetic polymorphism of the N-acetyltransferase 2 gene, and susceptibility to prostate cancer: a pilot study in north Indian population
Authors: Srivastava Daya SL , Mittal Rama D 
Published: August 2005

AbstractBackgroundN-acetyltransferase 2 is phase II metabolizing enzyme that participates in the bioconversion of heterocyclic arylamines into electrophilic nitrenium ions, which are important ultimate carcinogens that are directly implicated in tumor initiation process. This study was conducted to examine; (1) whether the N-acetyltransferase 2 (NAT2) genotype is a risk factor for prostate cancer, (2) to study effect of NAT2 genotype on modifying prostate cancer risk from tobacco use.MethodsThe case control study was undertaken over a period of 28 months and included 130 prostate cancer patients (CaP) and 140 controls. The NAT2 genotypes were identified by PCR-RFLP method in DNA extracted from peripheral blood. Genotype frequencies and the association of genotypes with patients and control groups were assessed by logistic regression model.ResultsWe observed non-significant association of rapid acetylator genotype NAT2 (OR = 1.452, 95% CI: 0.54–1.87,P= 0.136) in prostate cancer patients. However significant association was observed between rapid acetylator genotype NAT2 and CaP tobacco users (OR = 3.43, 95% CI: 1.68–7.02,P-value < 0.001) when compared with controls.ConclusionThe data suggests that the NAT2 rapid acetylator genotypes may play an important role in determining the risk of developing prostate cancer particularly in the tobacco users of north Indian population.
Need for enforcement of ethicolegal education – an analysis of the survey of postgraduate clinical trainees
Authors: Mayeda Mayumi , Takase Kozo 
Published: August 2005

Abstract
Background
The number of medical lawsuits in Japan was between 14 and 21 each year before 1998, but increased to 24 to 35 per year after 1999. There were 210 lawsuits during this 10-year period. There is a need for skills and knowledge related to ethics, which is as fundamental to the practice of medicine as basic sciences or clinical skills. in Japan education in ethics is relatively rare and its importance is not yet recognized. Establishing ethics education using legal precedents, which has already been achieved in Western countries, will be a very important issue in Japan. In the present study, a questionnaire survey was conducted among graduate intern doctors, in order to investigate whether ethics education using precedents might have a positive effect in Japan.

Methods
In 2002, a questionnaire survey entitled Physicians' Clinical Ethics was carried out in a compulsory orientation lecture given to trainees before they started clinical practice in our hospital. The attendees at this lecture were trainees who came from colleges in various districts of Japan. During the lecture, 102 questionnaires were distributed, completed by attendees and collected. The recovery rate was 100%. The questionnaire consisted of 22 questions (in three categories), of which 20 were answered by multiple choices, and the other two were answered by description. The time required to complete the questionnaire was about 10 minutes.

Results
The recovered questionnaires were analyzed using statistical analysis software (SPSS for Windows, Release 10.07J-1/June/2000), in addition to simple statistical analysis. answers using multiple choices for the 20 questions in the questionnaire were input into SPSS. The principal component analysis was performed for each question. As a result, the item that came to the fore was "legal precedent". Since many intern doctors were interested in understanding laws and precedents, learning about ethical considerations through education using precedents might better meet with their needs and interests.

Conclusion
We applied a new method in which the results of principal component analysis and frequencies of answers to other questions were combined. From this we deduced that the precedent education used in Western countries was useful to help doctors acquire ethical sensitivity and was not against their will. A relationship was found between reading precedents and the influence of lawsuits, and it was thought that student participation-type precedent education would be useful for doctors in order to acquire ethical sensitivity.
Predictors of failed attendances in a multi-specialty outpatient centre using electronic databases
Authors: Lee Vernon J , Earnest Arul , Chen Mark I , Krishnan Bala 
Published: August 2005

AbstractBackgroundFailure to keep outpatient medical appointments results in inefficiencies and costs. The objective of this study is to show the factors in an existing electronic database that affect failed appointments and to develop a predictive probability model to increase the effectiveness of interventions.MethodsA retrospective study was conducted on outpatient clinic attendances at Tan Tock Seng Hospital, Singapore from 2000 to 2004. 22864 patients were randomly sampled for analysis. The outcome measure was failed outpatient appointments according to each patient's latest appointment.ResultsFailures comprised of 21% of all appointments and 39% when using the patients' latest appointment. Using odds ratios from the mutliple logistic regression analysis, age group (0.75 to 0.84 for groups above 40 years compared to below 20 years), race (1.48 for Malays, 1.61 for Indians compared to Chinese), days from scheduling to appointment (2.38 for more than 21 days compared to less than 7 days), previous failed appointments (1.79 for more than 60% failures and 4.38 for no previous appointments, compared with less than 20% failures), provision of cell phone number (0.10 for providing numbers compared to otherwise) and distance from hospital (1.14 for more than 14 km compared to less than 6 km) were significantly associated with failed appointments. The predicted probability model's diagnostic accuracy to predict failures is more than 80%.ConclusionA few key variables have shown to adequately account for and predict failed appointments using existing electronic databases. These can be used to develop integrative technological solutions in the outpatient clinic.
The Logic of Plausible Reasoning: A Core Theory
Authors: Collins Allan , Michalski Ryszard 
Published: August 2005

The paper presents a core theory of human plausible reasoning based on analysis of people's answers to everyday questions about the world. The theory consists of three parts:
a formal representation of plausible inference patterns; such as deductions, inductions, and analogies, that are frequently employed in answering everyday questions;
a set of parameters, such as conditional likelihood, typicality, and similarity, that affect the certainty of people's answers to such questions; and
a system relating the different plausible inference patterns and the different certainty parameters.
This is one of the first attempts to construct a formal theory that addresses both the semantic and parametric aspects of the kind of everyday reasoning that pervades. all of human discourse.
A Default‐Oriented Theory of Procedural Semantics
Authors: Hadley Robert F. 
Published: August 2005

Procedural Semantics(PS), broadly construed, is the thesis that the meaning of a symbolic expression may be identified with procedures which specify how the expression is to be used, or applied to the world. J.A. Fodor has characterized PS as a wildly implausible form of the verification theory of meaning, and has argued that PS constitutes a plausible semantic theory only for highly simplistic universes, such as “blocks worlds” and databases. Fodor argued further that insofar as PS is defensible, it is “parasitic upon” classical denotational semantics. Fodor's critique of PS provoked various rejoinders. Although these rejoinders were not always in agreement, both Wilks and Woods reasoned that some form of PS must be true if we are to render coherent certain fundamental concepts of modeloretic semantics (e.g., denotations and truth‐conditions). In the present paper these arguments are reviewed and extended. It is argued that not only Tarskian semantics, but other forms of model‐theoretic semantics (including possible world and Situation Semantics) may very well ontologically presuppose some form of PS.In addition, a default‐oriented form of PS is presented which avoids the “decision procedure” approach of early PS. The new theory embraces aspects of Quine's pragmatism, and assumes that semantic procedures may return pragmatic (default) truth values which may be revised, if the need arises, by adjudication procedures. On the theory here described, semantic procedures do not constitute the complete meanings of symbolic expressions, but constrain these meanings. It is argued that such constraints must exist if there are to be ontological foundations for such traditional notions as denotations and extensions.
The Role of Notation and Knowledge Representation in the Determination of Programming Strategy: A Framework for Integrating Models of Programming Behavior
Authors: Davies Simon P. 
Published: August 2005

A number of accounts of expert programming behavior have been advanced. These models of the programming activity have served to highlight the range of factors that are thought to underpin programming strategy. However, such accounts have tended to emphasize either the effects of the organization of the programmer's knowledge representation or the role played by features of the notation of the task language on the emergence, development, and support of particular forms of strategy. Such work has neglected to (a) provide an account of the way in which these factors might interact to determine programming strategy, and (b) shed light upon the nature of the development of particular strategies as programming skill increases.This article presents the results of an empirical analysis of the strategies employed by programmers of varying skill levels using different programming languages. The development of particular forms of strategy is hypothesized to be related both to the development of systematic asymmetries in programmers' generic plan‐based representations of programming knowledge and to the way in which features of the notation of particular programming languages might differentially support particular strategies. However, the results of the study reported here suggest that these effects must be interpreted within a broad developmental context. Hence, as programming skill develops, it appears that the notation of the task language tends to take precedence as a determinant of strategy, but has less relevance at beginning stages of skill development and within the context of expert performance. This finding would not be predicted by current models of the programming activity because such models suggest that any notational effects will tend to be consistent regardless of the skill level attained by the programmer. This article endeavors to extend current models of programming by emphasizing the need to consider in detail not only the development of programming strategy, but also the way in which knowledge representation and features of the task langauge interact to give rise to particular forms of programming behavior.
Reasoning About a Semantic Memory Encoding of the Connectivity of Events
Authors: Alterman Richard , Bookman Lawrence A. 
Published: August 2005

In artificial intelligence, human understanding of text is modeled by programs that construct representations. A critical question concerns determining the form of the representation (hence, the form of the understanding). This article explores the encoding relationship between the semantic memory and the representation/understanding. An important feature of this relationship is that semantic memory and the constructed representation share the same structure, that is, the structure of the “understanding” is a “copy” of some piece of structure taken from semantic memory. A key idea developed is the notion of conceptual roots, the basic framework of the semantic memory‐encoded understanding/representation.The research reported in this article examined the twin themes of “copybased” representation/understanding and the conceptual roots by exploring their roles In several reasoning tasks: The conceptual roots can be used to explain succinctly the connection between any two concept‐coherent events in an understanding. The semantic memory encoding provides a measure of importance that quantifies the conceptual emphasis of the understanding; given this measure of importance, It is easy to show that each of the important nodes is either a conceptual root or covered by one of the conceptual roots. A combination of techniques can be used to generate a description of the basic event content of the narrative (i.e., a basic summary): This last task reveals some other interesting properties of the conceptual roots.
Computational Imagery
Authors: Glasgow Janice , Papadias Dimitri 
Published: August 2005

After many years of neglect, the topic of mental imagery has recently emerged as an active area of research and debate in the cognitive science community. This article proposes a concept of computational imagery, which has potential applications to problems whose solutions by humans involve the use of mental imagery. Computational imagery can be defined as the ability to represent, retrieve, and reason about spatial and visual information not explicitly stored in long‐term memory.The article proposes a knowledge representation scheme for computational imagery that incorporates three representations: a long‐term memory, descriptive representation and two working‐memory representations, corresponding to the distinct visual and spatial components of mental imagery. The three representations, and a set of primitive functions, are specified using a formal theory of arrays and implemented in the array‐based language Nial. Although results of studies in mental imagery provide initial motivation for the representations and functionality of the scheme, our ultimate concerns are expressive power, inferential adequacy, and efficiency.
Intermediate Vision: Architecture, Implementation, and Use
Authors: Chapman David 
Published: August 2005

This article describes an implemented architecture for intermediate vision. By integrating a variety of Intermediate visual mechanisms and putting them to use in support of concrete activity, the implementation demonstrates their utility. The sytem, SIVS, models psychophysical discoveries about visual attention and search. It is designed to be efficiently implementable in slow, massively parallel, locally connected hardware, such as that of the brain.SIVS addresses five fundamental problems. Visual attention is required to restrict processing to task‐relevant locations in the image. Visual search finds such locations. Visual routines are a means for nonuniform processing based on task demands. Intermediate objects keep track of intermediate results of this processing. Visual operators are a set of relatively abstract, general‐purpose primitives for spatial analysis, out of which visual routines are assembled.
Defining Emotion Concepts
Authors: Wierzbicka Anna 
Published: August 2005

This article demonstrates that emotion concepts—including the so‐called basic ones, such as anger or sadness—can be defined in terms of universal semantic primitives such as “good”, “bad”, “do”, “happen”, “know”, and “want”, in terms of which all areas of meaning, in all languages, can be rigorously and revealingly portrayed.The definitions proposed here take the form of certain prototypical scripts or scenarios, formulated in terms of thoughts, wants, and feelings. These scripts, however, can be seen as formulas providing rigorous specifications of necessary and sufficient conditions (not for emotions as such, but for emotion concepts), and they do not support the idea that boundaries between emotion concepts are “fuzzy.” On the contrary, the small set of universal semantic primitives employed here (which has emerged from two decades of empirical investigations by the author and colleagues) demonstrates that even apparent synonyms such as sad and unhappy embody different—and fully specifiable—conceptual structures.
Problem‐Solving Restructuration: Elimination of Implicit Constraints
Authors: Richard Jean‐François , Poitrenaud Sébastien , Tijus Charles 
Published: August 2005

A general model of problem‐solving processes based on misconception elimination is presented to simulate both impasses and solving processes. The model operates on goal‐related rules and a set of constraint rules in the form of “if (state or goal), do not (Action)” for the explicit constraints in the instructions and the implicit constraints that come from misconceptions of legal moves. When impasses occur, a constraint elimination mechanism is applied. Because successive eliminations of implicit constraints enlarge the problem space and have an effect on planning, the model integrates “plan‐based” and “constraint‐based” approaches to problem‐solving behavior.Simulating individual protocols of Tower of Hanoi situations shows that the model, which has a proper set of constraints, predicts a single move with no alternative on about 61% of the movements and that protocols are quite successfully simulated movement by movement. Finally, it is shown that many features of previous models are embedded in the constraint elimination model.
On Distinguishing Epistemic from Pragmatic Action
Authors: Kirsh David , Maglio Paul 
Published: August 2005

We present data and argument to show that in Tetris—a real‐time, interactive video game—certain cognitive and perceptual problems are more quickly, easily, and reliably solved by performing actions in the world than by performing computational actions in the head alone. We have found that some of the translations and rotations made by players of this video game are best understood as actions that use the world to improve cognition. These actions are not used to implement a plan, or to implement a reaction; they are used to change the world in order to simplify the problem‐solving task. Thus, we distinguish pragmatic actions—actions performed to bring one physically closer to a goal—from epistemic actions—actions performed to uncover informatioan that is hidden or hard to compute mentally.To illustrate the need for epistemic actions, we first develop a standard information‐processing model of Tetris cognition and show that it cannot explain performance data from human players of the game—even when we relax the assumption of fully sequential processing. Standard models disregard many actions taken by players because they appear unmotivated or superfluous. However, we show that such actions are actually far from superfluous; they play a valuable role in improving human performance. We argue that traditional accounts are limited because they regard action as having a single function: to change the world. By recognizing a second function of action—an epistemic function—we can explain many of the actions that a traditional model cannot. Although our argument is supported by numerous examples specifically from Tetris, we outline how the new category of epistemic action can be incorporated into theories of action more generally.