cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Approximating a Global Passive Adversary Against Tor
Creators: name: Chakravarty, Sambuddho
name: Stavrou, Angelos
name: Keromytis, Angelos D.
Publisher: name: Columbia University
Year: 2008
Subjects: Computer science
Computer networks
Computer networks--Security measures

description: We present a novel, practical, and effective mechanism for identifying the IP address of Tor clients. We approximate an almost-global passive adversary (GPA) capable of eavesdropping anywhere in the network by using LinkWidth, a novel bandwidth-estimation technique. LinkWidth allows network edge-attached entities to estimate the available bandwidth in an arbitrary Internet link without a cooperating peer host, router, or ISP. By modulating the bandwidth of an anonymous connection (e.g., when the destination server or its router is under our control), we can observe these fluctuations as they propagate through the Tor network and the Internet to the end-user's IP address. Our technique exploits one of the design criteria for Tor (trading off GPA-resistance for improved latency/bandwidth over MIXes) by allowing well-provisioned (in terms of bandwidth) adversaries to effectively become GPAs. Although timing-based attacks have been demonstrated against non-timing-preserving anonymity networks, they have depended either on a global passive adversary or on the compromise of a substantial number of Tor nodes. Our technique does not require compromise of any Tor nodes or collaboration of the end-server (for some scenarios). We demonstrate the effectiveness of our approach in tracking the IP address of Tor users in a series of experiments. Even for an underprovisioned adversary with only two network vantage points, we can identify the end user (IP address) in many cases.
Conversion of terahertz wave polarization at the boundary of a layered superconductor due to the resonance excitation of oblique surface waves
Creators: name: Averkov, Yu. O.
name: Yakovenko, V. M.
name: Yampol'skii, V. A.
name: Nori, Franco
Publisher: name: arXiv
Year: 2011
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: We predict a complete TM-TE transformation of the polarization of terahertz electromagnetic waves reflected from a strongly anisotropic boundary of a layered superconductor. We consider the case when the wave is incident on the superconductor from a dielectric prism separated from the sample by a thin vacuum gap. The physical origin of the predicted phenomenon is similar to the Wood anomalies known in optics, and is related to the resonance excitation of the oblique surface waves. We also discuss the dispersion relation for these waves, propagating along the boundary of the superconductor at some angle with respect to the anisotropy axis, as well as their excitation by the attenuated-total-reflection method.
description: 4 pages, 5 figures
title: Hydrology days award
title: Hydrology days 2016
titleType: AlternativeTitle
title: AGU hydrology days 2016
titleType: AlternativeTitle
Creators: name: Colorado State University, Author
name: Colorado State University, Publisher
Publisher: name: Mountain Scholar
Year: 2016
Subjects: subject: Hydrology -- Congresses
subject: Award winners

description: 2016 annual AGU hydrology days was held at Colorado State University on March 21 - March 23, 2016.
description: The 2016 Hydrology Days Award was presented to Dara Entekhabi.
HIV and People With Serious Mental Illness: The Public Sector’s Role in Reducing HIV Risk and Improving Care
Creators: name: Sullivan, Greer
name: Koegel, Paul
name: Kanouse, David E.
name: Cournos, Francine
name: McKinnon, Karen M.
name: Young, Alexander S.
name: Bean, Donna
Publisher: name: Columbia University
Year: 1999
Subjects: HIV-positive persons
Mentally ill
HIV infections--Risk factors
Psychiatry
Mental health services

description: Objective: The paper discusses issues related to the detection, prevention of transmission, and treatment of human immunodefiency virus (HIV) infection among persons with serious mental illness and suggests ways public mental health systems can address these issues. Methods: MEDLINE was searched from 1980 through 1998, and all pertinent references were reviewed. Results: Persons with severe mental illness are at greatly increased risk of HIV infection due to increased likelihood of high-risk sexual behaviors and injection drug use. The formidable barriers to detection and effective treatment of HIV that exist in this population can be attributed to the unique characteristics of this population, lack of knowledge and expertise among mental and physical health care providers, and fragmented mental and physical health care systems. Conclusions: In the last five years, treatments for HIV that are far more efficacious than earlier treatments have become available, making it more important for HIV infection be detected and treated among persons with serious mental illness. Public mental health systems need to implement active prevention policies and practices, educate both mental health and physical health care providers about key treatment issues, and develop effective linkages between mental and physical health care providers and systems.
title: Mapping the patterns of cortical thickness in single- and multiple-domain amnestic mild cognitive impairment patients
Creators: name: Zhao, Lei
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Neuro
subject: Neuroradiology brain
subject: MR
subject: Statistics
subject: FOS: Mathematics
subject: Dementia
subject: Retrospective
subject: Cross-sectional study
subject: Not applicable

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: Amnestic mild cognitive impairment (aMCI) is consideredto be a transitional stage between the expected cognitive decline of normal aging and AD. This study aims to compare the cortical thickness among AD, aMCI, and normal control (NC) entities,...
title: Programming in Natural Language with fuSE: Synthesizing Methods from Spoken Utterances Using Deep Natural Language Understanding
Creators: name: Weigelt, Sebastian
name: Steurer, Vanessa
name: Hey, Tobias
name: Tichy, Walter
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: Programming in Natural Language
subject: End-User Programming
subject: Deep Learning
subject: AI
subject: NLP

description: With fuSE laypeople can create simple programs: one can teach intelligent systems new functions using plain English. fuSE uses deep learning to synthesize source code: it creates method signatures (for newly learned functions) and generates API calls (to form the body). In an evaluation on an unseen dataset fuSE synthesized 84.6% of the signatures and 66.9% of the API calls correctly.
title: Single isolated subsegmental pulmonary embolism (SISSPE), are you sure?
Creators: name: Gonzalez Lopez, AMALIA
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Chest
subject: Pulmonary vessels
subject: Thorax
subject: CT-Angiography
subject: Contrast agent-intravenous
subject: Diagnostic procedure
subject: Embolism / Thrombosis
subject: Not applicable
subject: Observational
subject: Performed at one institution

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: Multidetector computed tomography pulmonary angiography (CTPA) enables highly accurate visualization of subsegmental vessels, resulting increased diagnosis of pulmonary embolism (PE). However, this increase has not been accompanied by a decrease in...
STEM TECHNOLOGIES IN TEACHING PROFESSIONAL ENGINEERING DISCIPLINES
Creators: name: Levchenko, Yulia
name: Basova, Yulia
name: Popov, Stanislav
Publisher: name: figshare
Year: 2025
Subjects: classificationCode: 401002
subject: Engineering education

description: The prospects for the application of various STEM as a means of updating educational activities in the training of engineering specialists are identified.
GPU-accelerated simulation of colloidal suspensions with direct hydrodynamic interactions
Creators: name: Kopp, Michael
name: Höfling, Felix
Publisher: name: arXiv
Year: 2012
Subjects: subject: Computational Physics (physics.comp-ph)
subject: FOS: Physical sciences

description: Solvent-mediated hydrodynamic interactions between colloidal particles can significantly alter their dynamics. We discuss the implementation of Stokesian dynamics in leading approximation for streaming processors as provided by the compute unified device architecture (CUDA) of recent graphics processors (GPUs). Thereby, the simulation of explicit solvent particles is avoided and hydrodynamic interactions can easily be accounted for in already available, highly accelerated molecular dynamics simulations. Special emphasis is put on efficient memory access and numerical stability. The algorithm is applied to the periodic sedimentation of a cluster of four suspended particles. Finally, we investigate the runtime performance of generic memory access patterns of complexity $O(N^2)$ for various GPU algorithms relying on either hardware cache or shared memory.
description: to appear in a special issue of Eur. Phys. J. Special Topics on "Computer Simulations on GPUs"
title: Role of Digital Breast Tomosynthesis (DBT) in Preoperative Assessment of Breast Cancer
Creators: name: Sghedoni, Barbara
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Breast
subject: Oncology
subject: Mammography
subject: Diagnostic procedure
subject: Neoplasia
subject: Retrospective
subject: Observational
subject: Performed at one institution

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: Breast cancer (BC) is the most common cancer in women worldwidein terms ofincidence and mortality[1][Fig.1]. According to the latest published data by Italian Cancer Registry Association, BC is also the most common in our Country representing the...
title: Cutting through the Jungle: Disambiguating Model-based Traceability Terminology
Creators: name: Holtmann, Jörg
name: Steghöfer, Jan-Philipp
name: Rath, Michael
name: Schmelter, David
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: Traceability
subject: Requirements Engineering
subject: Model-based Engineering
subject: Terminology

description: This extended abstract summarizes our distinguished paper [Ho20], published and presented in 2020 at the 28th IEEE International Requirements Engineering Conference (RE’20).
Tricholabiodes arabicus SUAREZ 1967
Creators: name: Madl, Michael
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Hymenoptera
Mutillidae
Tricholabiodes
Tricholabiodes arabicus

description: Tricholabiodes arabicus SUÁREZ, 1967
Tricholabiodes arabicus SUÁREZ, 1967: BAYLISS 1998: 31 (tax.), 47 (key ♂), 157 (tax., descr. ♂, Djibouti, Obock), 303 (world cat.), 469 (fig. 4: tax.), 470 (fig. 5: tax.), 471 (fig. 6: tax.), 472 (fig. 7: tax.), 473 (fig. 8: tax.), 474 (fig. 9: tax.), 503 (fig. 85: map).
* Mutilla (Tricholabiodes) semistriata KLUG, 1829: ANDRÉ 1901: 172-5 (tax., key ♂, descr. ♂, Obock (♂ partim)), pl. 8 (fig. 1).
D i s t r i b u t i o n: Djibouti, Obock.
Tricholabiodes arabicus is known from the Afrotropical (Djibouti, Ethiopia, Niger, Somalia, Sudan) and Palaearctic (Egypt, Saudi Arabia, Yemen) regions.
description: Published as part of Madl, Michael, 2018, A preliminary catalogue of the Hymenoptera (Insecta) of the Republic of Djibouti, pp. 907-967 in Linzer biologische Beiträge 50 (2) on page 921, DOI: 10.5281/zenodo.3776452
The diamagnetism above the superconducting transition in underdoped La(1.9)Sr(0.1)CuO(4) revisited: Chemical disorder or phase incoherent superconductivity?
Creators: name: Mosqueira, Jesús
name: Dancausa, Javier D.
name: Vidal, Félix
Publisher: name: arXiv
Year: 2011
Subjects: subject: Superconductivity (cond-mat.supr-con)
subject: FOS: Physical sciences

description: The interplay between superconducting fluctuations and inhomogeneities presents a renewed interest due to recent works supporting an anomalous [beyond the conventional Gaussian-Ginzburg-Landau (GGL) scenario] diamagnetism above Tc in underdoped cuprates. This conclusion, mainly based in the observation of new anomalies in the low-field isothermal magnetization curves, is in contradiction with our earlier results in the underdoped La(1.9)Sr(0.1)CuO(4) [Phys. Rev. Lett. 84, 3157 (2000)]. These seemingly intrinsic anomalies are being presented in various influential works as a 'thermodynamic evidence' for phase incoherent superconductivity in the pseudogap regime, this last being at present a central and debated issue of the cuprate superconductors' physics. Here we have extended our magnetization measurements in La(1.9)Sr(0.1)CuO(4) to two samples with different chemical disorder, in one of them close to the one associated with the random distribution of Sr ions. For this sample, the corresponding Tc-distribution may be approximated as symmetric around the average Tc, while in the most disordered sample is strongly asymmetric. The comparison between the magnetization measured in both samples provides a crucial check of the chemical disorder origin of the observed diamagnetism anomalies, which are similar to those claimed as due to phase fluctuations by other authors. This conclusion applies also to the sample affected only by the intrinsic-like chemical disorder, providing then a further check that the intrinsic diamagnetism above the superconducting transition of underdoped cuprates is not affected by the opening of a pseudogap in the normal state. It is also shown here that once these disorder effects are overcome, the remaining precursor diamagnetism may be accounted at a quantitative level in terms of the GGL approach under a total energy cutoff.
description: 13 pages, 7 figures. Minor corrections included
title: The Role of Stereotactic Vacuum-Assisted Breast Biopsy in Armenia
Creators: name: Talanyan, Meri
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Breast
subject: Breast
subject: Oncology
subject: Mammography
subject: Biopsy
subject: Calcifications / Calculi
subject: Cancer
subject: Neoplasia
subject: Retrospective
subject: Observational
subject: Performed at one institution

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: The aim of this study is to determine the role of stereotactic vacuum-assisted breast biopsy in cases with mammography-detected breast...
title: Feature-Modell-geführtes Online Reinforcement Learning für Selbst-adaptive Systeme
Creators: name: Metzger, Andreas
name: Quinton, Clément
name: Mann, Zoltán
name: Baresi, Luciano
name: Pohl, Klaus
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: Adaptation
subject: Reinforcement Learning
subject: Feature Modell
subject: Cloud Service

description: Wir stellen Lernstrategien für selbst-adaptive Systeme vor, welche Feature-Modelle aus der Software-Produktentwicklung nutzen, um den Lernprozess zur Laufzeit zu beschleunigen.
Parameter Shrinkage for Joint Age-Period-Cohort Modeling of Related Datasets
Creators: name: Venter, Gary
Publisher: name: Columbia University
Year: 2017
Subjects: Actuarial science
Estimation theory
Cohort analysis

description: Actuaries use age-period-cohort (APC) models for mortality modeling and general insurance loss reserving. Several recent papers have addressed simultaneously modeling related datasets, such as loss triangles for subsets of a class of business or mortality data across regions. This paper does joint modeling by shrinking the differences among the same parameters for different datasets. This could loosely be described as credibility weighting for triangles, but it comes more directly from statistical approaches such as ridge regression and lasso. Like credibility, these seek to reduce estimation and prediction error by various forms of shrinkage.
The models discussed here already incorporate parameter reduction by smoothing linear spline slope changes. This is extended to also shrink the differences between the same slope changes for different datasets. Doing so can reduce prediction error, measured using penalized log-likelihood, by increasing model parsimony. Bayesian Markov Chain Monte Carlo (MCMC) estimation is used in an example to illustrate the method. A related classical approach based on random effects is introduced as an alternative. The example is a joint model of historical female mortality data for Spain and Japan – two of the world's longest lived populations.
A socio-cultural history of sites in Ming Hangzhou
Creators: name: Cheung, Desmond H. H.
Publisher: name: University of British Columbia
Year: 2011

description: This dissertation takes a fresh approach to the study of place for parsing Ming society. Through a close analysis of the construction and representation of five famous places in the former imperial capital of Hangzhou – a pair of official shrines, a Buddhist monastery, the city god temple, and West Lake – I develop the dual idea of the “site” as a physical place that people made and maintained, and also as an imagined place that had important meanings in the cultural landscape. I argue that no individual group – not even the Ming state – was able to maintain a site on its own, nor was it able to control the meanings ascribed to it. Rather, members of different social groups participated in the construction of a site and the production of its historical meanings, and drew on particular meanings to advance their own concerns. This place-based history was an open resource that was constructed, used, and contested by multiple parties. While it could prompt people to contribute towards the restoration or maintenance of a site, in some cases it also provoked violent engagement with it. This included the intended destruction of statues of villains who engineered the death of a loyal hero, and also the unintended (and mistaken) smashing of religious carvings to punish a nefarious monk. This place-based analysis presents new possibilities for understanding the dynamics of Ming society by focussing on the interactions between its constituent groups. Each site had a particular place within the political order of the state, and also its own relevance to wider society. The interplay of cultural imagination and physical engagement that underlay the making of historical sites reveals the multiple voices involved in the production of meaning in Ming society, and the cooperation, negotiation, and contestation among the groups to whom those voices belonged.
title: Developing rating curves for bedrock step-pool rivers using sparse data
title: Hydrology days 2012
titleType: AlternativeTitle
title: AGU hydrology days 2012
titleType: AlternativeTitle
Creators: name: Stuart, Kevin L.
name: Emerman, Steven H.
name: Colorado State University, Publisher
Publisher: name: Mountain Scholar
Year: 2012

description: 2012 annual AGU hydrology days was held at Colorado State University on March 21 - March 23, 2012.
description: Includes bibliographical references.
description: The objective of this study was to investigate the possibility of a generic rating curve with a small number of adjustable parameters for the restricted class of bedrock step-pool rivers. The motivation for this study arose from Utah Valley University's long-term program of groundwater development in the Trans-Mexican Volcanic Belt, which requires hydrographs for bedrock step-pool rivers near remote mountain villages. Based upon personal communications from USGS state hydrologists and Google Earth satellite images and aerial photos, 71 USGS active or historic gaging sites were identified as bedrock step-pool rivers, involving 403 rating numbers and 13,409 gage height vs. discharge measurements. For comparison, 71 gaging sites were chosen randomly, involving 268 rating numbers and 7617 gage height vs. discharge measurements. As the distributions of gage heights and discharges were a good fit to a lognormal distribution, the data were normalized by computing the Z-scores of the logarithms of discharge and gage height, in which the average and standard deviation were computed separately for each rating number. The linear relationships between Z-scores of gage height (y-axis) and discharge (x-axis) were surprisingly similar for bedrock step-pool and random rivers. For bedrock step-pool rivers, the slope was 0.8829 with R2 = 0.78, while for random rivers, the slope was 0.8467 with R2 = 0.72. Numerical experiments on generating rating curves based on two random measurements for each rating number showed that 50% of all observed discharges deviated from predicted discharges by less than 31.0% for bedrock step-pool rivers and 27.3% for random rivers.
Breakdown of chiral symmetry during saturation of the Tayler instability
Creators: name: Bonanno, Alfio
name: Brandenburg, Axel
name: Del Sordo, Fabio
name: Mitra, Dhrubaditya
Publisher: name: arXiv
Year: 2012
Subjects: subject: Fluid Dynamics (physics.flu-dyn)
subject: Solar and Stellar Astrophysics (astro-ph.SR)
subject: FOS: Physical sciences

description: We study spontaneous breakdown of chiral symmetry during the nonlinear evolution of the Tayler instability. We start with an initial steady state of zero helicity. Within linearized perturbation calculations, helical perturbations of this initial state have the same growth rate for either sign of helicity. Direct numerical simulations (DNS) of the fully nonlinear equations, however, show that an infinitesimal excess of one sign of helicity in the initial perturbation gives rise to a saturated helical state. We further show that this symmetry breaking can be described by weakly nonlinear finite--amplitude equations with undetermined coefficients which can be deduced solely from symmetry consideration. By fitting solutions of the amplitude equations to data from DNS we further determine the coefficients of the amplitude equations.
description: 8 pages, 5 figures, Published on Phys. Rev. E
title: Imaging utilisation and outcomes, in patients under 45 years old, presenting to a novel Rapid Access Diagnostic Clinic
Creators: name: Cleary, Jon
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Oncologic Imaging
subject: CNS
subject: Gastrointestinal tract
subject: Oncology
subject: CT
subject: MR
subject: Ultrasound
subject: Outcomes analysis
subject: Multidisciplinary cancer care
subject: Outcomes
subject: Retrospective
subject: Observational
subject: Performed at one institution

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: The early diagnosis rates of cancer and other serious conditions in the U.K. lag behind most European countries 1 . The British National Health Service is piloting new multidisciplinary diagnostic centres (MDCs), where patients with non-specific but...
title: Learning Circumstances of Software Failures
Creators: name: Gopinath, Rahul
name: Havrikov, Nikolas
name: Kampmann, Alexander
name: Soremekun, Ezekiel
name: Zeller, Andreas
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: debugging
subject: grammar
subject: error diagnosis

description: A program fails. Under which circumstances does the failure occur? Starting with a single failure-inducing input ("The input ((4)) fails") and an input grammar, this talk presents two techniques that use systematic tests to automatically determine the circumstances under which the failure occurs. The DDSET algorithm [Go20] generalizes the input to an _abstract failure-inducing input_ that contains both (concrete) terminal symbols and (abstract) nonterminal symbols from the grammar - for instance, “(())”, which represents any expression in double parentheses. The ALHAZEN technique [Ka20] takes this even further, using decision trees to learn input properties such as length or numerical values associated with failures: "The error occurs as soon as there are two parentheses or more." Such abstractions can be used as debugging diagnostics, characterizing the circumstances under which a failure occurs; and as producers of additional failure-inducing tests to help design and validate fixes and repair candidates. Both have the potential to significantly boost speed and quality of software debugging.
title: Fundamental Study of Effect of Contrast Agent Concentration on Late Enhancement in Cardiac MRI
Creators: name: Okubo, Takumi
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Cardiac
subject: Cardiac
subject: Contrast agents
subject: MR
subject: Contrast agent-intravenous
subject: Ischaemia / Infarction
subject: Not applicable
subject: Experimental
subject: Performed at one institution

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: Late gadolinium enhancement (LGE) imaging, one of the cardiac magnetic resonance (CMR) approach, can evaluate myocardial viability in patients with myocardial infarction [1]. In LGE, the image contrast between infarcted myocardium and normal...
Analysis of join-the-shortest-queue routing for web server farms
Creators: name: Gupta, Varun
name: Harchol-Balter, Mor
name: Sigman, Karl
name: Whitt, Ward
Publisher: name: Columbia University
Year: 2007
Subjects: Queuing theory
Industrial engineering
Probabilities
Operations research

description: Join the Shortest Queue (JSQ) is a popular routing policy for server farms. However, until now all analysis of JSQ has been limited to First-Come-First-Serve (FCFS) server farms, whereas it is known that web server farms are better modeled as Processor Sharing (PS) server farms. We provide the first approximate analysis of JSQ in the PS server farm model for general job-size distributions, obtaining the distribution of queue length at each queue. To do this, we approximate the queue length of each queue in the server farm by a one-dimensional Markov chain, in a novel fashion. We also discover some interesting insensitivity properties of PS server farms with JSQ routing, and discuss the near-optimality of JSQ.
Discrete Wheeler-DeWitt Equation
Creators: name: Hamber, Herbert W.
name: Williams, Ruth M.
Publisher: name: arXiv
Year: 2011
Subjects: subject: High Energy Physics - Theory (hep-th)
subject: General Relativity and Quantum Cosmology (gr-qc)
subject: FOS: Physical sciences

description: We present a discrete form of the Wheeler-DeWitt equation for quantum gravitation, based on the lattice formulation due to Regge. In this setup the infinite-dimensional manifold of 3-geometries is replaced by a space of three-dimensional piecewise linear spaces, with the solutions to the lattice equations providing a suitable approximation to the continuum wave functional. The equations incorporate a set of constraints on the quantum wavefunctional, arising from the triangle inequalities and their higher dimensional analogs. The character of the solutions is discussed in the strong coupling (large $G$) limit, where it is shown that the wavefunctional only depends on geometric quantities, such as areas and volumes. An explicit form, determined from the discrete wave equation supplemented by suitable regularity conditions, shows peaks corresponding to integer multiples of a fundamental unit of volume. An application of the variational method using correlated product wavefunctions suggests a relationship between quantum gravity in $n+1$ dimensions, and averages computed in the Euclidean path integral formulation in $n$ dimensions. The proposed discrete equations could provide a useful, and complementary, computational alternative to the Euclidean lattice path integral approach to quantum gravity.
description: 45 pages, 8 figures
Evolutionarily conserved regulatory programs
Creators: name: Kwon, Tae-Jun Andrew
Publisher: name: University of British Columbia
Year: 2011

description: Despite the diversity of metazoans, common biochemical systems and structures can be found in distinct taxonomic groups. The development and formation of metazoan tissues and structures has been well researched, but their regulatory mechanisms are not understood well. To this end, we implemented bioinformatics tools regulatory mechanism analysis and applied them to study regulatory program conservation with an emphasis on muscle development. We first performed a genome-wide scan for muscle-specific cis-regulatory modules (CRMs) using three computational prediction programs. Based on the predictions, 339 candidate CRMs were tested in cell culture with NIH3T3 fibroblasts and C2C12 myoblasts for capacity to direct selective reporter gene expression to differentiated myotubes. A subset of 19 CRMs validated as functional in the assay. The rate of predictive success reveals striking limitations of computational CRM discovery. Motif-based methods performed no better than predictions based only on sequence conservation. Analysis of the properties of the functional sequences relative to inactive sequences identifies nucleotide sequence composition and ChIP-Seq evidence as important characteristics to incorporate in future methods for improved predictive specificity. In studying the transcriptional regulation, motif enrichment analysis of co-expressed genes is often employed to determine mediating transcription factors. We built oPOSSUM-3, a web-based software system for identification of enriched transcription factor binding sites (TFBS) and TFBS families in DNA sequences of co-expressed genes and sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known sets of published data demonstrates the capacity for oPOSSUM-3 to identify mediating TFs for co-regulated genes. Studies have shown that TF binding profiles tend to be highly conserved over long evolutionary distances. In large-scale public genome annotation projects, such as modENCODE, transcriptional regulation data is compiled for comparative genomics research. Using the oPOSSUM-3 system and published data, we performed comparative analyses of the regulatory programs across evolutionarily divergent species, including human, fruit fly, and nematode, and examined the extent of conservation in major regulatory programs. The thesis research provides new approaches to computational analysis of DNA sequences and insights into the analysis of transcription regulation across the phylogenetic spectrum.
Generating linked RDF data from heterogeneous streaming and archival data sources: Populating the datAcron ontology
Creators: name: Santipantakis, Georgios
name: Vouros, George
name: Glenis, Apostolos
name: Doulkeridis, Christos
name: Vlachou, Akrivi
Publisher: name: Zenodo
Year: 2017

description: Analysis of moving objects behaviour requires surveillance data (i.e. spatio-temporal data concerning objects’ positional information), together with information about moving objects, occurring events and their context. Thus, data from disparate sources must be converted to a common format, integrated w.r.t. a specific model. This paper proposes a generic framework for generating RDF from heterogenous data formats - exploiting the specification of graph templates. We present and demonstrate the benefits of the proposed RDF generation process for the provision of semantically annotated data revolving around the notion of objects’ trajectory. The process is demonstrated for the population of the datAcron ontology using real-world domain-specific data sources.
title: Views on Quality Requirements in Academia and Practice: Commonalities, Differences, and Context-Dependent Grey Areas
Creators: name: Vogelsang, Andreas
name: Eckhardt, Jonas
name: Mendez, Daniel
name: Berger, Moritz
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: quality requirements
subject: non-functional requirements
subject: context factors
subject: requirements engineering
subject: survey
subject: empirical study

description: This article originally appeared in Information and Software Technology (IST). Context: Quality requirements (QRs) are a topic of constant discussions both in industry and academia. While many academic endeavors contribute to the body of knowledge about QRs, practitioners may have different views. Objective: We report on a study to better understand the extent to which available research statements on QRs from academic publications, are reflected in the perception of practitioners. Our goal is to analyze differences, commonalities, and context-dependent grey areas in the views of academics and practitioners. Method: We conducted a survey with 109 practitioners to assess their agreement with the selected research statements about QRs. Based on a statistical model, we evaluate the impact of a set of context factors to the perception of research statements. Results: Our results show that a majority of the statements is well respected by practitioners; however, not all of them. When examining the different groups of respondents, we noticed deviations of perceptions that lead to new research questions. Conclusions: Our results help identifying context-dependent differences about how academics and practitioners view QRs and statements where further research is useful.
Proposal for an X-Ray Free Electron Laser Oscillator with Intermediate Energy Electron Beam
Creators: name: Dai, Jinhua
name: Deng, Haixiao
name: Dai, Zhimin
Publisher: name: arXiv
Year: 2011
Subjects: subject: Accelerator Physics (physics.acc-ph)
subject: Optics (physics.optics)
subject: FOS: Physical sciences

description: Harmonic lasing of low-gain free electron laser oscillators has been experimentally demonstrated in the terahertz and infrared regions. Recently, the low-gain oscillator has been reconsidered as a promising candidate for hard x-ray free electron lasers, through the use of high reflectivity, high resolution x-ray crystals. In this letter, it is proposed to utilize a crystal-based cavity resonant at a higher harmonic of the undulator radiation, together with phase shifting, to enable harmonic lasing of the x-ray free electron laser oscillator, and hence allow the generation of hard x-ray radiation at a reduced electron beam energy. Results show that fully coherent free electron laser radiation with megawatt peak power, in the spectral region of 10-25keV, can be generated with a 3.5GeV electron beam.
description: 5 pages, 5 figures, To be published in Physical Review Letters
title: Low-energy X-ray CT Technique in Forward Projected Model-based Iterative Reconstruction to improve the Low Contrast using Cerebral Stroke Phantom Model
Creators: name: Hara, Hidetake
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Performed at one institution
subject: Experimental
subject: Prospective
subject: Ischaemia / Infarction
subject: Imaging sequences
subject: Diagnostic procedure
subject: CT-Quantitative
subject: CT
subject: Neuroradiology brain
subject: Emergency
subject: CT

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: In Japan, cerebrovascular disease is the fourth cause of death and the first cause of bedridden patients 1) . Recently, cerebral stroke has been under serious consideration due to the westernization of the diets and an increase in geriatric...
title: Using Key Performance Indicators to Compare Software-Development Processes
Creators: name: Sürücü, Cem
name: Song, Bianying
name: Krüger, Jacob
name: Saake, Gunter
name: Leich, Thomas
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: Key performance indicators
subject: Quality assurance
subject: Monitoring
subject: Experience report

description: Extended abstract of our paper published at the Joint European Software Engineering Conference and Symposium on the Foundations of Software Engineering (ESEC/FSE) 2020.
HIV Infection Linked to Substance Use Among Hospitalized Patients With Severe Mental Illness
Creators: name: McKinnon, Karen M.
name: Cournos, Francine
Publisher: name: Columbia University
Year: 1998
Subjects: HIV infections--Risk factors
Substance abuse
Mentally ill
AIDS (Disease)--Prevention
Psychiatry

description: Last June the National Institute of Mental Health adopted new priorities to address the AIDS epidemic among people with severe mental illness. Besides prevention and treatment, the priorities emphasize the need for a fuller understanding of the extent and social organization of sexual and drug use behavior, the nationwide prevalence of HIV, and the nature of causality between mental illness and HIV infection (1).
Monte Carlo computer simulations and electron microscopy of colloidal cluster formation via emulsion droplet evaporation
Creators: name: Schwarz, Ingmar
name: Fortini, Andrea
name: Wagner, Claudia Simone
name: Wittemann, Alexander
name: Schmidt, Matthias
Publisher: name: arXiv
Year: 2011
Subjects: subject: Soft Condensed Matter (cond-mat.soft)
subject: Mesoscale and Nanoscale Physics (cond-mat.mes-hall)
subject: Statistical Mechanics (cond-mat.stat-mech)
subject: FOS: Physical sciences

description: We consider a theoretical model for a binary mixture of colloidal particles and spherical emulsion droplets. The hard sphere colloids interact via additional short-ranged attraction and long-ranged repulsion. The droplet-colloid interaction is an attractive well at the droplet surface, which induces the Pickering effect. The droplet-droplet interaction is a hard-core interaction. The droplets shrink in time, which models the evaporation of the dispersed (oil) phase, and we use Monte Carlo simulations for the dynamics. In the experiments, polystyrene particles were assembled using toluene droplets as templates. The arrangement of the particles on the surface of the droplets was analyzed with cryogenic field emission scanning electron microscopy. Before evaporation of the oil, the particle distribution on the droplet surface was found to be disordered in experiments, and the simulations reproduce this effect. After complete evaporation, ordered colloidal clusters are formed that are stable against thermal fluctuations. Both in the simulations and with field emission scanning electron microscopy, we find stable packings that range from doublets, triplets, and tetrahedra to complex polyhedra of colloids. The simulated cluster structures and size distribution agree well with the experimental results. We also simulate hierarchical assembly in a mixture of tetrahedral clusters and droplets, and find supercluster structures with morphologies that are more complex than those of clusters of single particles.
description: 12 pages, 10 figures
title: On the Feasibility of Automated Prediction of Bug and Non-Bug Issues
Creators: name: Herbold, Steffen
name: Trautsch, Alexander
name: Trautsch, Fabian
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: issue type prediction
subject: bug issues
subject: recommendation systems
subject: empirical software engineering

description: The article "On the feasibility of automated prediction of bug and non-bug issues" published in Empirical Software Engineering in 2020 considers the application of machine learning for the automated classification of issue types, e.g., for research purposes or as a recommendation system. Issue tracking systems are used to track and describe tasks in the development process, e.g., requested feature improvements or reported bugs. However, past research has shown that the reported issue types often do not match the description of the issue. Within our work, we evaluate the state of the art of issue type prediction system can accurately identify bugs. We also investigate if manually specified knowledge can improve such systems. While we found that manually specified knowledge about contents is not useful, respecting structural aspects can be valuable. Our experiments show that issue type prediction system can be trained based on large amounts of unvalidated data and still be sufficiently accurate to be useful. Overall, the misclassifications of the automated system are comparable to the misclassifications made by developers.
title: Estimation of soil erosion risk of the Euphrates river watershed using RUSLE model, remote sensing and GIS techniques
title: Hydrology days 2018
titleType: AlternativeTitle
title: AGU hydrology days 2018
titleType: AlternativeTitle
Creators: name: Khassaf, Saleh Issa
name: Jaber Al Rammahi, Ali Hussein
name: Colorado State University, Publisher
Publisher: name: Mountain Scholar
Year: 2018
Subjects: erosion
RUSLE
remote sensing
NDVI
Euphrates basin

description: 2018 annual AGU hydrology days was held at Colorado State University on March 19 - March 21, 2018.
description: Includes bibliographical references.
description: The average annual soil erosion is the main problem of natural water resources and the agriculture, the most dominant factor that effect on the soil erosion is water. The aim of this study was estimated the average annual soil erosion by using RUSLE model and the ArcGIS software of the Euphrates river watershed, this model was based on five factors for calculation soil erosion map of the watershed. The rainfall-runoff erosivity (R) factor map was computed for precipitation data that content from thirty-one stations scattered within and outside the watershed area to assist in the interpolation estimation. The soil erodibilty (K) factor map of topsoil was derived based on data that provided from UN-FAO (Food and Agriculture Organization of the United Nations). The topographic factor map can be depended mainly on the raw images of the Digital Elevation Model (DEM) of the watershed which DEM of Euphrates watershed consisted of sixteen images with a spatial cell size 30m*30m. The cover/crop management (C) factor map can be calculated based on the NDVI (Normalized Difference Vegetation Index) map of the Euphrates basin, the NDVI map can be derived based on remote sensing of the data available in the United State Geological Survey (USGS) for multi-images of the study area. The support practice factor (P) can be assumed equal to 1 because the bare land area occupied about 92% of the total area for computational years 2013 and 2017. The average annual soil loss for the year 2017 was ranged from 0 to 2995.614 tons/ha/year, 99.69% of the watershed area had the slight soil erosion loss while 0.17% of the watershed was represented the soil erosion of the slight to moderate type. For the year 2013, the soil loss estimated from 0 to 2610.47 tons/ha/year, 99.7% of watershed had the slight soil erosion loss while 0.16% of the watershed was classified into the slight to moderate soil loss type. Furthermore, the other soil loss types such as moderate to extremely high were found in the riverbed of the Euphrates. The sediment delivery ratio can be computed for upstream of Al Shamia barrage based on the field value of sediment yield for the year 2013. The observation value equaled to 25.62% while it's equal to 26.12% based on the Renfro equation.
title: A Longitudinal Study of Static Analysis Warning Evolution and the Effects of PMD on Software Quality in Apache Open Source Projects
Creators: name: Trautsch, Alexander
name: Herbold, Steffen
name: Grabowski, Jens
Publisher: name: Gesellschaft für Informatik e.V.
Year: 2020
Subjects: subject: Static code analysis
subject: Quality evolution
subject: Software metrics
subject: Software quality

description: This article summarizes our work originally published in the journal Empirical Software Engineering.
title: Prevalence of incidental thyroid malignancy identified on routine 18F- FDG PET-CT scans performed in a large teaching hospital
Creators: name: Roddy, Shea
Publisher: name: European Congress of Radiology
Year: 2020
Subjects: subject: Performed at one institution
subject: Cross-sectional study
subject: Retrospective
subject: Pathology
subject: Neoplasia
subject: Epidemiology
subject: Biopsy
subject: PET-CT
subject: Thyroid / Parathyroids
subject: Nuclear medicine
subject: Hybrid Imaging
subject: Hybrid, Molecular and Translational Imaging

description: Purpose Methods and materials Results Conclusion Personal information and conflict of interest References
description: Purpose: The increasing role of PET-CT in oncological and non-oncological conditions has resulted in an increased detection of PET-CT incidentalomas, commonly involving the thyroid gland [1, 2 and 3]. The tracer 18-Fluorodeoxyglucose( 18 F-FDG) used in...
Childhood Experiences and Current Adjustment of Offspring of Indigent Patients With Schizophrenia
Creators: name: Caton, Carol L. M.
name: Cournos, Francine
name: Felix, Alan
name: Wyatt, Richard Jed
Publisher: name: Columbia University
Year: 1998
Subjects: Children of schizophrenics
Families
Psychiatry
Schizophrenia
Child rearing

description: OBJECTIVE: This study reports the childhood experiences, current life situation and level of adjustment, and prior mental health service use of offspring of indigent people with schizophrenia. METHODS: Sixty-eight patient-parents were asked for consent for researchers to contact their adolescent and adult offspring. Thirty-nine consenting offspring were interviewed with an assessment battery that included measures of current occupational and social functioning, psychiatric status, and mental health service use. RESULTS: Interviewed offspring were raised in an average of three different settings from birth to 18 years of age. Relatives, particularly grandparents and aunts, were more likely to provide surrogate parenting than were nonkin foster parents and were more significant nurturing figures than biological parents. The typical offspring had a high school diploma, was gainfully employed, and was involved with a spouse or household partner or had a close friend. Twenty-three of the 39 offspring had children, and most were raising their children alone. Ten offspring had a diagnosis of major depression, schizoaffective disorder, or drug or alcohol abuse, but none had a diagnosis of schizophrenia. Four of the ten offspring with a psychiatric diagnosis had never been treated. CONCLUSIONS: Findings underscore the need for long-term studies of families with a parent who is a psychiatric patient. Rehabilitation efforts should include extended family who play a critical role in raising offspring during periods when patient-parents are unable to do so. Offspring should be included in efforts to educate families about schizophrenia.
Ultra cold neutron trap as a tool to search for dark matter with long-range radius of forces
Creators: name: Serebrov, A. P.
name: Zherebtsov, O. M.
name: Fomin, A. K.
name: Onegin, M. S.
Publisher: name: arXiv
Year: 2012
Subjects: subject: Nuclear Experiment (nucl-ex)
subject: FOS: Physical sciences

description: The problem of possible application of an ultracold neutron (UCN) trap as a detector of dark matter particles with long-range radius of forces has been considered. Transmission of small recoil energy in scattering is a characteristic of long-range forces. The main advantage of the ultracold neutron technique lies in possibility of detecting recoil energy as small as $10^{-7}$ eV. Here are presented constraints on the interaction potential parameters: $U(r)=a r^{-1} e^{-r/λ}$ for dark matter particles and neutrons, as well as on the density value of long-range dark matter on the Earth. The possible mechanism of accumulation of long-range dark matter on the Earth surface is considered and the factor of density increase on the Earth surface is evaluated. The results of the first experiment on search of astronomical day variation of ultracold neutron storage time are under discussion.
description: 17 pages, 19 figures. arXiv admin note: substantial text overlap with arXiv:1109.3391