bluuebunny/crossref_metadata_2025_split huggingface dataset:
High-Intensity Zones on MRI of the Cervical Spine in Patients: Epidemiology and Association With Pain and Disability
Authors: Nguyen Austin Q. , Harada Garrett K. , Leverich Kayla L. , Khanna Krishn , Louie Philip K. , Basques Bryce A. , Tao Youping , Galbusera Fabio , Niemeyer Frank , Wilke Hans-Joachim , An Howard S. , Samartzis Dino 
Published: November 2020

Study Design: Retrospective cohort study. Objectives: This study aimed to address the prevalence, distribution, and clinical significance of cervical high-intensity zones (HIZs) on magnetic resonance imaging (MRI) with respect to pain and other patient-reported outcomes in the setting of patients that will undergo an anterior cervical discectomy and fusion (ACDF) procedure. Methods: A retrospective cohort study of ACDF patients surgically treated at a single center from 2008 to 2015. Based on preoperative MRI, HIZ subtypes were identified as either traditional T2-hyperintense, T1-hypointense (“single-HIZs”), or combined T1- and T2-hyperintense (“dual-HIZs”), and their level-specific prevalence was assessed. Preoperative symptoms, patient-reported outcomes, and disc degeneration pathology were assessed in relation to HIZs and HIZ subtypes. Results: Of 861 patients, 58 demonstrated evidence of HIZs in the cervical spine (6.7%). Single-HIZs and dual-HIZs comprised 63.8% and 36.2% of the overall HIZs, respectively. HIZs found outside of the planned fusion segment reported better preoperative Neck Disability Index (NDI; P = .049) and Visual Analogue Scale (VAS) Arm ( P = .014) scores relative to patients without HIZs. Furthermore, patients with single-HIZs found inside the planned fusion segment had worse VAS Neck ( P = .045) and VAS Arm ( P = .010) scores. In general, dual-HIZ patients showed no significant differences across all clinical outcomes. Conclusions: This is the first study to evaluate the clinical significance of HIZs in the cervical spine, noting level-specific and clinical outcome–specific variations. Single-HIZs were associated with significantly more pain when located inside the fusion segment, while dual-HIZs showed no associations with patient-reported outcomes. The presence of single-HIZs may correlate with concurrent spinal pathologies and should be more closely evaluated.
Cervical Spine Alignment in the Sagittal Axis: A Review of the Best Validated Measures in Clinical Practice
Authors: Martini Michael L. , Neifert Sean N. , Chapman Emily K. , Mroz Thomas E. , Rasouli Jonathan J. 
Published: November 2020

Study Design: Review of the best-validated measures of cervical spine alignment in the sagittal axis. Objective: Describe the C2-C7 Cobb Angle, C2-C7 sagittal vertical axis, chin-brow to vertical angle, T1 slope minus C2-C7 lordosis, C2 slope, and different types of cervical kyphosis. Methods: Search PubMed for recent technical literature on radiograph-based measurements of the cervical spine. Results: Despite the continuing use of measures developed many years ago such as the C2-C7 Cobb angle, there are new radiographic parameters being published and utilized in recent years, including the C2 slope. Further research is needed to compare older and newer measures for cross-validation. Utilizing these measures to determine the degree of correction intraoperatively and postoperatively will enable surgeons to optimize patient-level outcomes. Conclusion: Cervical spinal deformity can be a debilitating condition characterized by cervical spinal misalignment that affects the elderly more commonly than young populations. Many of these validated measures of cervical spinal alignment are useful in clinical settings due to their ease of implementation and correlations with various postoperative and health-related quality of life outcomes.
The Effect of Traditional Single Growing Rod Technique on the Growth of Unsegmented Levels in Mixed-Type Congenital Scoliosis
Authors: Rong Tianhua , Shen Jianxiong , Wang Yipeng , Li Zheng , Lin Youxi , Tan Haining , Feng Erwei , Jiao Yang 
Published: November 2020

Study Design: Retrospective case series. Objectives: To present outcomes concerning patients with early-onset mixed-type congenital scoliosis (EOMTCS) treated with the traditional single growing rod (TSGR), focusing on the growth of unsegmented levels (USLs). Methods: Patients with EOMTCS who underwent TSGR and had a minimum of 4 USLs, 4 distractions, and 3-year follow-up were enrolled. Spine radiographs before and after index surgery and at the latest follow-up were evaluated. The length of the concave and convex side of USLs and thoracic parameters were measured. The absolute value and percentage of growth were calculated. Results: Fourteen patients (mean age, 7.3 ± 2.8 years) were enrolled. The average follow-up duration was 4.9 ± 1.2 years, during which time 84 distractions and 8 final fusions were performed. The average number of USLs was 6.3 ± 2.2. The total and annual percent growth of concave side of USLs was significantly higher than convex side (32.2 ± 13.3% vs. 23.9 ± 9.5%, p = 0.007; 6.8 ± 2.7%/year vs. 5.1% ± 2.2%/year, p = 0.007, respectively). The concave-to-convex ratio of USLs increased from 58.6 ± 6.4 ± 7.6% at baseline to 68.8 ± 9.3% at the latest follow-up (p < 0.001). The Campbell’s space available for lung ratio increased from 74.9 ± 11.1% at baseline to 89.6 ± 7.0% at the latest follow-up (p < 0.001). Conclusions: In patients with EOMTCS, unilateral repetitive lengthening with TSGR can accelerate the growth of the concave side of USLs and improve the symmetry of the thorax.
Decline in Racial Disparities for United States Hospital Admissions After Anterior Cruciate Ligament Reconstruction From 2007 to 2015
Authors: Li Lambert T. , Bokshan Steven L. , McGlone Patrick J. , Owens Brett D. 
Published: November 2020

Background: Racial disparities in perioperative complications have been shown to exist for many procedures in orthopaedic surgery. Although anterior cruciate ligament reconstruction (ACLR) is commonly performed as an outpatient procedure, the rate of admission to the hospital postoperatively is not insignificant. Hispanic patients have been shown to have higher odds of admission compared with non-Hispanic patients. Hypothesis: We hypothesized that racial disparities would decrease from 2007 to 2015, resulting in lower rates of hospital admission for Black and Hispanic patients. Study Design: Descriptive epidemiology study. Methods: This study represents a retrospective analysis of the National Surgical Quality Improvement Program (NSQIP) database for patients undergoing ACLR between 2007 and 2015. We performed bivariate analysis as well as binary logistic regression, with postoperative admission as the primary outcome. Previously identified risk factors for admission were used as predictors in addition to a term for the statistical interaction between year of surgery and ethnicity. Results: A total of 7542 patients undergoing ACLR were assessed. The logistic regression model showed that Hispanic patients had higher overall odds of admission (odds ratio [OR], 3.320; P < .001) than White patients; Black patients also had higher odds compared with White patients (OR, 1.929; P = .009). However, there was a significant interaction between year of surgery and both Black ethnicity (OR, 0.907; P = .026) and Hispanic ethnicity (OR, 0.835; P = .002), indicating a significant decrease in the admission rates for these minority patients compared with White patients over time. Other risk factors for admission were the use of regional anesthesia (OR, 3.482; P < .001), bleeding disorders (OR, 5.064; P = .002), a higher body mass index (OR, 1.029; P < .001), and longer operative times (OR, 1.012; P < .001). More recent surgery was associated with lower odds of admission (OR, 0.826; P < .001). Conclusion: Admission rates after ACLR declined from 2007 to 2015. Black and Hispanic patients were more likely to be admitted overall, but they also saw a greater decrease in the odds of admission than White patients. This represents a reduction in disparity between the 2 groups and is a reassuring improvement in racial disparity trends after a common sports procedure.
Clinical Outcomes and Cadaveric Biomechanical Analysis of Endoscopic Percutaneous Achilles Tendon Rupture Repair With Absorbable Suture
Authors: Carpenter Daniel , Dederer Katherine , Weinhold Paul , Tennant Joshua N. 
Published: November 2020

Background: Percutaneous repair of acute Achilles tendon rupture (ATR) continues to gain in popularity. The primary aim of the study was to review the outcomes of a patient cohort undergoing a novel technique of endoscopic percutaneous Achilles tendon repair with absorbable suture. A secondary purpose of this study was to evaluate the basic biomechanical properties of the technique. Methods: A cohort of 30 patients who underwent percutaneous ATR repair was retrospectively analyzed with Achilles Tendon Rupture Scores (ATRS), complications, and additional outcome measures. For a biomechanical analysis portion of the study, 12 cadaveric specimens were paired and randomized to either novel percutaneous repair or open Kessler repair with absorbable suture. These specimens were subjected to 2 phases of cyclical testing (100 cycles 10-43 N followed by 200 cycles 10-86 N) and ultimate strength testing. Results: In the clinical portion of the study we report excellent patient reported outcomes (mean ATRS 94.1), high level of return to sport, and high patient satisfaction. One partial re-rupture was reported but with no major wound or neurologic complications. In the biomechanical portion of the study we found no significant difference in tendon gapping between percutaneous and open repairs in phase 1 of testing. In phase 2, increased gapping occurred between percutaneous (17.8 mm [range 10.7-24.1, SD 6.4]) and open repairs (10.8 mm [range 7.6-14.9, SD 2.7, P = .037]). The ultimate load at failure was not statistically different between the 2 repairs. Conclusions: A percutaneous ATR repair technique using endoscopic assistance and absorbable suture demonstrated low complications and good outcomes in a cohort of patients, with high satisfaction, and excellent functional outcomes including high rates of return to sport. Cadaveric biomechanical testing demonstrated excellent survival during testing and minimal increase in gapping compared with open repair technique, representing sufficient strength to withstand forces seen in early rehabilitation. A percutaneous Achilles tendon repair technique with absorbable suture may minimize risks associated with operative repair while still maintaining the benefit of operative repair. Level of Evidence: Level IV, retrospective case series.
Evaluation of negative pressure transfer through tissue in a benchtop cornea and eyelid model
Authors: Chu Nathan , Brambilla Enrico , Yoo Paul , Ferguson Tanner J. 
Published: November 2020

Purpose: A new glaucoma treatment device, known as the multi-pressure dial (MPD), has been introduced, which offers a novel approach to IOP reduction by delivering negative pressure to the periocular region. Clinical studies have demonstrated the IOP-lowering effect of the MPD via direct measurements using pneumatonometry. It remains unclear whether the eyelids, when closed, affect the transmission of negative pressure and subsequently affect IOP reduction. This study aimed to evaluate whether the transfer of negative pressure and subsequent decrease in IOP are altered by the presence of synthetic eyelid tissue. Methods: A model with 13 different configurations controlling for eyelid material type, presence of slit/opening, and eyelid–cornea contact was employed. The slit modification was employed to mimic the physiologic separation that exists between the eyelids. Baseline IOP within an eye model was set at various levels ranging from 10 to 30 mmHg with applied negative pressure settings of 10, 15, and 20 mmHg utilized at each baseline IOP. The percentage of vacuum transfer was calculated by comparing baseline IOP to resultant IOP measurements following application of vacuum to the system. Results: In the open configuration (without eyelid tissue), the mean % vacuum transfer was 98.7%. The sealed, full-contact configurations exhibited values of 97.4%, 98.8%, and 97.2%. The slit configurations, which closely mimic the physiologic eyelid, demonstrated a mean % vacuum transfer of 98.7% across all settings. Conclusions: The impact of eyelid tissue on transfer of negative pressure can be isolated and evaluated. The presence of eyelid tissue has an insignificant impact on the transfer of negative pressure, and the IOP reduction achievable with the MPD would not be altered with the eyelids closed.
Pre-Alpine thermal history recorded in the continental crust from Alpine Corsica (France): evidence from zircon and allanite LA-ICP-MS dating
Authors: Di Rosa Maria , Farina Federico , Lanari Pierre , Marroni Michele 
Published: November 2020

AbstractThe pre-Alpine history of the Venaco-Ghisoni Unit, a continental unit belonging to the Alpine Corsica (France), was reconstructed on the basis of U–Pb dating of zircon and allanite. Zircon was separated from a metagranitoid and an epidote-bearing metagabbro and analyzed by Laser Ablation Inductively Coupled Plasma Mass Spectrometry (LA-ICP-MS). Magmatic ages ranging from 291 to 265 Ma were obtained for the metagranitoid samples and 276.9 ± 1.1 Ma for the epidote-bearing metagabbro. This geochronological dataset, combined with field observations, microstructural and cathodoluminescence analysis demonstrate that in the Early Permian, the Variscan basement of the Venaco-Ghisoni Unit was intruded first by the granitoid and then by the gabbro. Allanite was identified in the metagranitoid and exhibit an U–Pb age of 225 ± 8 Ma. We interpret this age as reflecting metamorphism associated to the Late Triassic rifting predating the opening of the Piemonte-Liguria Ocean. The absence of middle Eocene—Oligocene zircon and allanite overgrowths is compatible with the low metamorphic conditions (< 350–400 °C) recorded by the Venaco-Ghisoni Unit during Alpine metamorphism.
Is micropollutant-loaded powdered activated carbon from a wastewater treatment plant toxic to the bivalve Corbicula sp.?
Authors: Woermann Marion , Zimmermann Sonja , Sures Bernd 
Published: November 2020

AbstractBackgroundIn order to reduce emissions of micropollutants (MPs) via effluents of wastewater treatment plants (WWTPs), additional treatment steps are suggested and already deployed in selected WWTPs. Next to advanced oxidation processes, the application of powdered activated carbon (PAC) is considered a promising and suitable option as MP removal rates of 80% and more can be achieved. However, this method might also hold a drawback as a complete retention of PAC applied within the WWTP cannot always be guaranteed. Hence, small amounts of MP-loaded PAC can enter receiving waters with potentially negative consequences for aquatic organisms. The present study investigated possible effects of MP-loaded PAC from a WWTP as compared to unloaded, native PAC on the bivalveCorbicula sp. in a 10-week exposure experiment. The PAC types were administered in concentrations of 1, 10 and 100 mg/L in a semi-static sediment–water system.ResultsMolecular biomarker responses for xenobiotic metabolism (i.e., glutathione-S-transferase (GST)) and oxidative stress (i.e., catalase (CAT) activity and lipid peroxidation) were analyzed and in none of the treatments, significant differences to the control could be detected, except for the CAT activity in the 1 mg/L PACWWTPtreatment. Moreover, the filtration rate of individual bivalves was measured after 5 and 10 weeks of exposure and compared to the initial filtration rate with the result that the presence of PAC did not affect the filtration rate ofCorbicula sp. In summary, despite the selection of sensitive endpoints and a comparatively long exposure period, no significant effects were detected for unloaded and MP-loaded PAC even at the highest test concentration, which is far away from environmental relevance.ConclusionsThese results give an auspicious perspective for the application of PAC in WWTPs. Even when small PAC leakages from WWTPs occur, adverse effects for aquatic organisms appear to be neglectable based on our findings.
MHSNMF: multi-view hessian regularization based symmetric nonnegative matrix factorization for microbiome data analysis
Authors: Ma Yuanyuan , Zhao Junmin , Ma Yingjun 
Published: November 2020

AbstractBackgroundWith the rapid development of high-throughput technique, multiple heterogeneous omics data have been accumulated vastly (e.g., genomics, proteomics and metabolomics data). Integrating information from multiple sources or views is challenging to obtain a profound insight into the complicated relations among micro-organisms, nutrients and host environment. In this paper we propose a multi-view Hessian regularization based symmetric nonnegative matrix factorization algorithm (MHSNMF) for clustering heterogeneous microbiome data. Compared with many existing approaches, the advantages of MHSNMF lie in: (1) MHSNMF combines multiple Hessian regularization to leverage the high-order information from the same cohort of instances with multiple representations; (2) MHSNMF utilities the advantages of SNMF and naturally handles the complex relationship among microbiome samples; (3) uses the consensus matrix obtained by MHSNMF, we also design a novel approach to predict the classification of new microbiome samples.ResultsWe conduct extensive experiments on two real-word datasets (Three-source dataset and Human Microbiome Plan dataset), the experimental results show that the proposed MHSNMF algorithm outperforms other baseline and state-of-the-art methods. Compared with other methods, MHSNMF achieves the best performance (accuracy: 95.28%, normalized mutual information: 91.79%) on microbiome data. It suggests the potential application of MHSNMF in microbiome data analysis.ConclusionsResults show that the proposed MHSNMF algorithm can effectively combine the phylogenetic, transporter, and metabolic profiles into a unified paradigm to analyze the relationships among different microbiome samples. Furthermore, the proposed prediction method based on MHSNMF has been shown to be effective in judging the types of new microbiome samples.
Markov chain Monte Carlo for active module identification problem
Authors: Alexeev Nikita , Isomurodov Javlon , Sukhov Vladimir , Korotkevich Gennady , Sergushichev Alexey 
Published: November 2020

Abstract
Background
Integrative network methods are commonly used for interpretation of high-throughput experimental biological data: transcriptomics, proteomics, metabolomics and others. One of the common approaches is finding a connected subnetwork of a global interaction network that best encompasses significant individual changes in the data and represents a so-called active module. Usually methods implementing this approach find a single subnetwork and thus solve a hard classification problem for vertices. This subnetwork inherently contains erroneous vertices, while no instrument is provided to estimate the confidence level of any particular vertex inclusion. To address this issue, in the current study we consider the active module problem as a soft classification problem.

Results
We propose a method to estimate probabilities of each vertex to belong to the active module based on Markov chain Monte Carlo (MCMC) subnetwork sampling. As an example of the performance of our method on real data, we run it on two gene expression datasets. For the first many-replicate expression dataset we show that the proposed approach is consistent with an existing resampling-based method. On the second dataset the jackknife resampling method is inapplicable due to the small number of biological replicates, but the MCMC method can be run and shows high classification performance.

Conclusions
The proposed method allows to estimate the probability that an individual vertex belongs to the active module as well as the false discovery rate (FDR) for a given set of vertices. Given the estimated probabilities, it becomes possible to provide a connected subgraph in a consistent manner for any given FDR level: no vertex can disappear when the FDR level is relaxed. We show, on both simulated and real datasets, that the proposed method has good computational performance and high classification accuracy.
Compressed sensing improved iterative reconstruction-reprojection algorithm for electron tomography
Authors: Li Lun , Han Renmin , Zhang Zhaotian , Guo Tiande , Liu Zhiyong , Zhang Fa 
Published: November 2020

Abstract
Background
Electron tomography (ET) is an important technique for the study of complex biological structures and their functions. Electron tomography reconstructs the interior of a three-dimensional object from its projections at different orientations. However, due to the instrument limitation, the angular tilt range of the projections is limited within +70∘ to −70∘. The missing angle range is known as the missing wedge and will cause artifacts.

Results
In this paper, we proposed a novel algorithm, compressed sensing improved iterative reconstruction-reprojection (CSIIRR), which follows the schedule of improved iterative reconstruction-reprojection but further considers the sparsity of the biological ultra-structural content in specimen. The proposed algorithm keeps both the merits of the improved iterative reconstruction-reprojection (IIRR) and compressed sensing, resulting in an estimation of the electron tomography with faster execution speed and better reconstruction result. A comprehensive experiment has been carried out, in which CSIIRR was challenged on both simulated and real-world datasets as well as compared with a number of classical methods. The experimental results prove the effectiveness and efficiency of CSIIRR, and further show its advantages over the other methods.

Conclusions
The proposed algorithm has an obvious advance in the suppression of missing wedge effects and the restoration of missing information, which provides an option to the structural biologist for clear and accurate tomographic reconstruction.