bluuebunny/crossref_metadata_2025_split huggingface dataset:
Algorithmic Classification of Five Characteristic Types of Paraphasias
Authors: Fergadiotis Gerasimos , Gorman Kyle , Bedrick Steven 
Published: December 2016

Purpose
This study was intended to evaluate a series of algorithms developed to perform automatic classification of paraphasic errors (formal, semantic, mixed, neologistic, and unrelated errors).

Method
We analyzed 7,111 paraphasias from the Moss Aphasia Psycholinguistics Project Database (Mirman et al., 2010) and evaluated the classification accuracy of 3 automated tools. First, we used frequency norms from the SUBTLEXus database (Brysbaert & New, 2009) to differentiate nonword errors and real-word productions. Then we implemented a phonological-similarity algorithm to identify phonologically related real-word errors. Last, we assessed the performance of a semantic-similarity criterion that was based on word2vec (Mikolov, Yih, & Zweig, 2013).

Results
Overall, the algorithmic classification replicated human scoring for the major categories of paraphasias studied with high accuracy. The tool that was based on the SUBTLEXus frequency norms was more than 97% accurate in making lexicality judgments. The phonological-similarity criterion was approximately 91% accurate, and the overall classification accuracy of the semantic classifier ranged from 86% to 90%.

Conclusion
Overall, the results highlight the potential of tools from the field of natural language processing for the development of highly reliable, cost-effective diagnostic tools suitable for collecting high-quality measurement data for research and clinical purposes.

Supplemental Material

https://doi.org/10.23641/asha.14963559
Intelligibility and Clarity of Reverberant Speech: Effects of Wide Dynamic Range Compression Release Time and Working Memory
Authors: Reinhart Paul N. , Souza Pamela E. 
Published: December 2016

PurposeThe purpose of this study was to examine the effects of varying wide dynamic range compression (WDRC) release time on intelligibility and clarity of reverberant speech. The study also considered the role of individual working memory.MethodThirty older listeners with mild to moderately-severe sloping sensorineural hearing loss participated. Individuals were divided into high and low working memory groups on the basis of the results of a reading span test. Participants listened binaurally to sentence stimuli simulated at a range of reverberation conditions and WDRC release times using a high compression ratio. Outcome measures included objective intelligibility and subjective clarity ratings.ResultsSpeech intelligibility and clarity ratings both decreased as a function of reverberation. The low working memory group demonstrated a greater decrease in intelligibility with increasing amounts of reverberation than the high working memory group. Both groups, regardless of working memory, had higher speech intelligibility and clarity ratings with longer WDRC release times. WDRC release time had a larger effect on speech intelligibility under more reverberant conditions.ConclusionsReverberation significantly affects speech intelligibility, particularly for individuals with lower working memory. In addition, longer release times in hearing aids may improve listener speech intelligibility and clarity in reverberant environments.Supplemental Materialhttps://doi.org/10.23641/asha.14963952
Light emitting from the self‐interstitial clusters buried in the Si+ self‐ion implanted Si films
Authors: OuYang Lingxi , Wang Chong , Zhou Mengwei , Yang Jie , Yang Yu 
Published: December 2016

The photoluminescence (PL) properties corresponding to different types of the interstitial clusters (or defects) in the silicon ion (Si+) self‐implanted Si have been well reviewed. Given a brief of the conjectural origin, defect type, annealing temperature of the W (1218 nm), X (1193 nm) peak, R (1376 nm), and D bands concluded the present application of Si+ self‐ion‐implantation. The challenges for application of light‐emitting Si and application prospects are also discussed.
An Automated Methodology for Assessing Anatomy-Specific Instrument Motion during Endoscopic Endonasal Skull Base Surgery
Authors: Harbison R. , Li Yangming , Berens Angelique , Bly Randall , Hannaford Blake , Moe Kris 
Published: December 2016

Objectives Describe instrument motion during live endoscopic skull base surgery (ESBS) and evaluate kinematics within anatomic regions.
Design Case series.
Setting Tertiary academic center.
Participants A single skull base surgeon performed six anterior skull base approaches to the pituitary.
Main Outcomes and Measures Time-stamped instrument coordinates were recorded using an optical tracking system. Kinematics (i.e., mean cumulative instrument travel, velocity, acceleration, and angular velocity) was calculated by anatomic region including nasal vestibule, anterior and posterior ethmoid, sphenoid, and lateral opticocarotid recess (lOCR) regions.
Results We observed mean (standard deviation, SD) velocities of 6.14 cm/s (1.55) in the nasal vestibule versus 1.65 cm/s (0.34) near the lOCR. Mean (SD) acceleration was 7,480 cm/s2 (5790) in the vestibule versus 928 cm/s2 (662) near the lOCR. Mean (SD) angular velocity was 17.2 degrees/s (8.31) in the vestibule and 5.37 degrees/s (1.09) near the lOCR. We observed a decreasing trend in the geometric mean velocity, acceleration, and angular velocity when approaching the pituitary (p < 0.001).
Conclusion Using a novel method for analyzing instrument motion during live ESBS, we observed a decreasing trend in kinematics with proximity to the pituitary. Additional characterization of surgical instrument motion is paramount for optimizing patient safety and training.
Dynamic NHERF interaction with TRPC4/5 proteins is required for channel gating by diacylglycerol
Authors: Storch Ursula , Forst Anna-Lena , Pardatscher Franziska , Erdogmus Serap , Philipp Maximilian , Gregoritza Manuel , Mederos y Schnitzler Michael , Gudermann Thomas 
Published: December 2016

SignificanceTransient receptor potential cation (TRPC) 4 and 5 channels are nonselective cation channels activated via G protein-coupled receptors. In contrast to all other TRPC channels, they are regarded as insensitive to the phospholipase C (PLC) product diacylglycerol (DAG). Deeper insight into the G protein-dependent activation mechanism of TRPC4/5 channels is lacking. In this study we unravel the Gq/11protein-mediated signaling pathway leading to TRPC4/5 activation. Depletion of phosphatidylinositol 4,5-bisphosphate causes a conformational change of the TRPC5 C terminus leading to dissociation of Na+/H+exchanger regulatory factor (NHERF) proteins thereby inducing a DAG-sensitive channel state. Our findings reveal a previously unidentified activation mechanism of TRPC4/5 channels with NHERF proteins as dynamic regulators of channel activity. Moreover, we demonstrate that TRPC channels are DAG sensitive.
Evaluation of Methods to Estimate Salmon Harvest Using Angler Harvest Permits Available on a Smartphone Application
Authors: McCormick Joshua L. 
Published: December 2016

Abstract
Chinook Salmon Oncorhynchus tshawytscha harvest in Oregon is currently estimated using voluntary returns of angler harvest permits. However, estimates are potentially biased due to nonresponse. The objective of this study was to evaluate the utility of a new method for estimating harvest in which anglers were given the option to record harvest on a smartphone application in addition to traditional paper harvest permits. Estimates were evaluated via simulation using eight basins along the mid- and north coast of Oregon as a theoretical case study. Simulated harvest was estimated using data from supplemental on-site surveys in conjunction with hypothetical harvest data recorded on smartphones. Confidence intervals varied from 1.2% to 24.7% of actual harvest at the aggregate scale and from 2.6% to 104.1% at the individual-fishery scale when smartphone recording rates were consistent among fisheries. Precision increased as the percentage of anglers recording harvest on a smartphone increased. Based on the simulation results, it is expected that harvest estimates relying on smartphones would have a precision up to 3.0 times greater than that of traditional creel survey estimates. Although the methods described in this study will likely need further evaluation when implemented in practice, they have the potential to provide cost-effective harvest estimates compared with those of the techniques that are currently being applied.
Received March 25, 2016; accepted July 30, 2016 Published online December 20, 2016
A Profitability Analysis of Catch Quotas for the Pacific Hake Fishery in the Gulf of California
Authors: Ramírez-Rodríguez Mauricio 
Published: December 2016

Abstract
Fishing for Pacific Hake Merluccius productus in the Gulf of California is carried out by shrimp trawlers. When the shrimp fishing season ends, these boats shift to catching Pacific Hake and other finfish. The Pacific Hake fishery is relatively new and has the potential to grow as an industry. Therefore, there is interest in defining management plans to create a sustainable fishery. One option is an individual vessel quota system. This paper estimates the per-vessel quota in the Pacific Hake fishery that achieves a break-even operation and estimates the number of vessels that could enter the fishery to avoid overexploitation and overcapacity. Potential per-vessel quotas were estimated based on the cash flow of a representative trawler and the estimate of total Pacific Hake biomass. The results indicate that individual catch quotas for Pacific Hake should be 90.4 or 100 metric tons to achieve a 30% or 45% increase, respectively, in net cash. Additionally, with total allowable catch values equivalent to 25% of the available biomass, the corresponding fleet size would be 74, 82, or 103 vessels based on different scenarios. Because the Pacific Hake fishery is under development, these approximations can be used during the planning stage to meet resource conservation and right-of-use standards.
Received November 12, 2015; accepted August 16, 2016Published online December 20, 2016
Examination of Black Sea Bass Trap Catches in Relation to Soak Time in the Middle Atlantic Bight
Authors: Cullen Daniel W. , Stevens Bradley G. 
Published: December 2016

Abstract
Fish traps were soaked for long (d) and short (min) intervals to examine the relationship between the catch of Black Sea Bass Centropristis striata and soak time for traps used in the Middle Atlantic Bight commercial fishery. First, we soaked traps over a 14-d period to examine how catch changes over time and modeled catch as a function of soak time using two three-parameter models from the literature. Maximum catches were obtained after 11 soak days before declining. Models applied to catch and soak time data fit reasonably well and may be used to correct for changes in soak time to develop abundance estimates. Second, we used a modified trap equipped with video cameras to observe fish interactions, including entry and escapement dynamics with traps over short (~60 min) soak times. Out of all the fish that were observed entering the trap, 48 (84.2%) exited while 9 (15.8%) were caught. Patterns for cumulative distributions of entries and exits indicated that entry and escapement behaviors may lead to saturation in Black Sea Bass traps used in the Middle Atlantic Bight. Additional study is needed to examine the dynamics of the saturation process and to elucidate how well trap catches reflect true abundance.
Received February 2, 2016; accepted September 7, 2016 Published online December 20, 2016
Screen Efficiency and Implications for Losses of Lamprey Macrophthalmia at California's Largest Water Diversions
Authors: Goodman Damon H. , Reid Stewart B. , Reyes Rene C. , Wu Brandon J. , Bridges Brent B. 
Published: December 2016

Abstract
We investigated the guidance efficiency of fish screens for the protection of emigrating Pacific Lamprey Entosphenus tridentatus and Western River Lamprey (also known as River Lamprey) Lampetra ayresii in a series of experimental trials. All trials were conducted at the Tracy Fish Collection Facility, located in the Sacramento–San Joaquin River Estuary at the entrance to one of the world's largest surface water diversions. Using 1,200 lamprey macrophthalmia, we tested for the effect of screen type, time of day, and channel water velocity to guide their swimming behavior to avoid entrainment. We found overwhelming evidence for an effect of screen type on efficiency, whereby all lampreys were successfully guided to a holding tank when a vertical traveling screen was used. This was likely due to the small pore size of the screen relative to lamprey sizes. In contrast, the efficiency of louvers, a behavioral screen designed for salmonids, varied by the interaction of time of day and channel velocity. During nighttime, when lamprey typically emigrate, louver guidance efficiency ranged from 21% (95% CI, 14–30%) to 24% (95% CI, 16–34%). These results were applied to estimate the probability for salvage of lamprey macrophthalmia at the Tracy Fish Collection Facility, which includes a two-stage fish screen design. Between 1957 and 2014, we estimated that 94–96% of the lampreys that were entrained in the export flows were lost and not returned to the delta. However, the probability for fish loss was reduced in 2014 when the secondary louver was replaced with a vertical traveling screen. Our results suggest that lamprey macrophthalmia entrainment into the canals will be eliminated at the Tracy Fish Collection Facility if the primary screen is converted to vertical traveling screen. Surface water diversions may represent a substantial threat to regional metapopulations of anadromous lamprey species worldwide, and screening approaches applied to other fish species such as salmonids may not be protective of lampreys.
Received June 7, 2016; accepted August 23, 2016Published online December 20, 2016
Increased Aldosterone Release During Head-Up Tilt in Early Primary Hypertension
Authors: Reinold Annemarie , Schneider Andreas , Kalizki Tatjana , Raff Ulrike , Schneider Markus P. , Schmieder Roland E. , Schmidt Bernhard M.W. 
Published: December 2016

Abstract

BACKGROUND
Hyperaldosteronism is well known cause of secondary hypertension. However, the importance of aldosterone for the much larger group of patients with primary hypertension is less clear. We hypothesized that in young subjects with primary hypertension, the rise of plasma aldosterone levels in response to head-up tilt testing as a stress stimulus is exaggerated.

METHODS
Hemodynamics (blood pressure (BP), heart rate (HR), cardiac index (CI), and total peripheral vascular resistance index (TPRI), all by TaskForce monitor) and hormones (plasma renin activity (PRA), angiotensin II (Ang II), aldosterone) were measured before and during 30 minutes of head-up tilt in 45 young hypertensive and 45 normotensive subjects.

RESULTS
BP, HR, CI, and TPRI all increased in response to head-up tilt, with no difference between groups. There was no difference in baseline PRA, Ang II, and aldosterone between groups. During head-up tilt, PRA, and Ang II levels increased similarly. However, aldosterone levels increased to a greater extent in the hypertensive vs. normotensive subjects (P = 0.0021).

CONCLUSIONS
Our data suggest that an increased release of aldosterone in response to orthostatic stress is a feature of early primary hypertension. The similar increase in PRA and Ang II suggests a potential role for secretagogues of aldosterone other than Ang II in this response. In addition to its established role in secondary hypertension, dysregulation of aldosterone release might contribute to the development of primary arterial hypertension.
MRUniNovo: an efficient tool for de novo peptide sequencing utilizing the hadoop distributed computing framework
Authors: Li Chuang , Chen Tao , He Qiang , Zhu Yunping , Li Kenli 
Published: December 2016

Abstract

Summary
Tandem mass spectrometry-based de novo peptide sequencing is a complex and time-consuming process. The current algorithms for de novo peptide sequencing cannot rapidly and thoroughly process large mass spectrometry datasets. In this paper, we propose MRUniNovo, a novel tool for parallel de novo peptide sequencing. MRUniNovo parallelizes UniNovo based on the Hadoop compute platform. Our experimental results demonstrate that MRUniNovo significantly reduces the computation time of de novo peptide sequencing without sacrificing the correctness and accuracy of the results, and thus can process very large datasets that UniNovo cannot.

Availability and Implementation
MRUniNovo is an open source software tool implemented in java. The source code and the parameter settings are available at http://bioinfo.hupo.org.cn/MRUniNovo/index.php

Supplementary information
Supplementary data are available at Bioinformatics online.
How the Brain Converts Negative Evaluation into Performance Facilitation
Authors: Prévost Charlotte , Lau Hakwan , Mobbs Dean 
Published: December 2016

Abstract
Surpassing negative evaluation is a recurrent theme of success stories. Yet, there is little evidence supporting the counterintuitive idea that negative evaluation might not only motivate people, but also enhance performance. To address this question, we designed a task that required participants to decide whether taking up a risky challenge after receiving positive or negative evaluations from independent judges. Participants believed that these evaluations were based on their prior performance on a related task. Results showed that negative evaluation caused a facilitation in performance. Concurrent functional magnetic resonance imaging revealed that the motivating effect of negative evaluation was represented in the insula and striatum, while the performance boost was associated with functional positive connectivity between the insula and a set of brain regions involved in goal-directed behavior and the orienting of attention. These findings provide new insight into the neural representation of negative evaluation-induced facilitation.
Joint Attention and Brain Functional Connectivity in Infants and Toddlers
Authors: Eggebrecht Adam T , Elison Jed T , Feczko Eric , Todorov Alexandre , Wolff Jason J , Kandala Sridhar , Adams Chloe M , Snyder Abraham Z , Lewis John D , Estes Annette M , Zwaigenbaum Lonnie , Botteron Kelly N , McKinstry Robert C , Constantino John N , Evans Alan , Hazlett Heather C , Dager Stephen , Paterson Sarah J , Schultz Robert T , Styner Martin A , Gerig Guido , Das Samir , Kostopoulos Penelope ,   The IBIS Network, Schlaggar Bradley L , Petersen Steven E , Piven Joseph , Pruett John R 
Published: December 2016

Abstract
Initiating joint attention (IJA), the behavioral instigation of coordinated focus of 2 people on an object, emerges over the first 2 years of life and supports social-communicative functioning related to the healthy development of aspects of language, empathy, and theory of mind. Deficits in IJA provide strong early indicators for autism spectrum disorder, and therapies targeting joint attention have shown tremendous promise. However, the brain systems underlying IJA in early childhood are poorly understood, due in part to significant methodological challenges in imaging localized brain function that supports social behaviors during the first 2 years of life. Herein, we show that the functional organization of the brain is intimately related to the emergence of IJA using functional connectivity magnetic resonance imaging and dimensional behavioral assessments in a large semilongitudinal cohort of infants and toddlers. In particular, though functional connections spanning the brain are involved in IJA, the strongest brain-behavior associations cluster within connections between a small subset of functional brain networks; namely between the visual network and dorsal attention network and between the visual network and posterior cingulate aspects of the default mode network. These observations mark the earliest known description of how functional brain systems underlie a burgeoning fundamental social behavior, may help improve the design of targeted therapies for neurodevelopmental disorders, and, more generally, elucidate physiological mechanisms essential to healthy social behavior development.
Locking Compression Pilon Plate for Fixation of Comminuted Posterior Wall Acetabular Fractures: A Novel Technique
Authors: Lee Adam K. , Wagner Benjamin R. , McPhillips Kristin , Horwitz Daniel S. , Widmaier James C. 
Published: December 2016

Summary:
Posterior wall acetabular fractures involving a large portion the wall's width and with extensive comminution are difficult fractures to manage operatively. Cortical substitution with a pelvic reconstruction plate and supplemental spring plates has been the traditional means of fixation for these fractures. This option, however, requires the use of multiple, unlinked plates and provides no reliable option for peripheral fixation in comminuted fragments. We describe a novel technique for operative fixation of large, comminuted posterior wall fractures using a single distal tibia pilon plate with the option for peripheral locking screw fixation and report on a series of 20 consecutive patients treated with this method.
Superficial Acral Fibromyxoma of the Toe: Unusual Location of the Mixoid Variant
Authors: Lamberti Arianna , Miracco Clelia , Fimiani Michele , Rubegni Pietro 
Published: December 2016

Abstract:
Superficial acral fibromyxoma (SAFM) is a rare soft tissue tumor that frequently involves the periungual and subungual regions of acral surfaces. Macroscopically, it appears as a flesh-colored dome-shaped solitary mass; microscopically, it consists of a moderately cellular proliferation of spindle-shaped fibroblast-like cells embedded in a myxocollagenous stroma and arranged in a loose storiform and focally fascicular pattern. The tumor cells are immunoreactive for CD34, epithelial membrane antigen, CD99, and CD10. In this study, we describe a case of SAFM on the fourth toe with predominantly myxoid stroma. Our case, in contrast of those reported in the literature, showed an unusual location for the myxoid variant. SAFM is often not recognized; it may resemble some benign and malignant mesenchymal neoplasm. The gold standard treatment is surgery. The tumor was completely excised, and no recurrence was evident at 1-year follow-up. Awareness of this entity facilitates its diagnosis and management, avoiding unwarranted concerns and additional procedures for the patient.
Total Matricectomy and V-Y Advancement Flap Technique in the Treatment of Onychogryphosis
Authors: Gürbüz Kaan , Ozan Firat , Kayali Cemil , Altay Taşkin 
Published: December 2016

BACKGROUND
Onychogryphosis is manifested by irregular thickening and curving of nails and the nailfold, resulting in ram horn appearance. No therapeutic modality that can normalize nails with onychogryphosis is yet available. Recommended therapies include palliative measures and various surgical interventions.

OBJECTIVE
The authors reviewed the outcomes of total matricectomy and V-Y advancement flap technique used for nail removal in patients with onychogryphosis at the big toe.

MATERIALS AND METHODS
The authors evaluated 14 patients with onychogryphosis, including 8 men and 6 women (15 big toes; 10 at the right foot and 5 at the left foot), who underwent total matricectomy and V-Y advancement flap technique. The general complaints included repeated nail removal, pain, cosmetic complaints, and difficulty in wearing shoe and footwear.

RESULTS
Mean age of the patients was 42.4 years. Mean follow-up was 13.5 months. Clinical history revealed at least 2 previous nail removals. No complications were observed during the follow-up period. Mean time to return to daily activities was 4.5 weeks. Patient satisfaction was rated as very good in 9 patients and good in 5 patients.

CONCLUSION
The surgical technique employed in patients with onychogryphosis is a safe treatment option with a high success rate.