bluuebunny/crossref_metadata_2025_split huggingface dataset:
Error correcting optical mapping data
Authors: Mukherjee Kingshuk , Washimkar Darshan , Muggli Martin D , Salmela Leena , Boucher Christina 
Published: May 2018

Abstract
Optical mapping is a unique system that is capable of producing high-resolution, high-throughput genomic map data that gives information about the structure of a genome . Recently it has been used for scaffolding contigs and for assembly validation for large-scale sequencing projects, including the maize, goat, and Amborella genomes. However, a major impediment in the use of this data is the variety and quantity of errors in the raw optical mapping data, which are called Rmaps. The challenges associated with using Rmap data are analogous to dealing with insertions and deletions in the alignment of long reads. Moreover, they are arguably harder to tackle since the data are numerical and susceptible to inaccuracy. We develop cOMet to error correct Rmap data, which to the best of our knowledge is the only optical mapping error correction method. Our experimental results demonstrate that cOMet has high prevision and corrects 82.49% of insertion errors and 77.38% of deletion errors in Rmap data generated from the Escherichia coli K-12 reference genome. Out of the deletion errors corrected, 98.26% are true errors. Similarly, out of the insertion errors corrected, 82.19% are true errors. It also successfully scales to large genomes, improving the quality of 78% and 99% of the Rmaps in the plum and goat genomes, respectively. Last, we show the utility of error correction by demonstrating how it improves the assembly of Rmap data. Error corrected Rmap data results in an assembly that is more contiguous and covers a larger fraction of the genome.
Constrained global adaptive controller for a plug-flow tubular reactor with partial temperature measurements
Authors: Beniich N , El Bouhtouri A , Dochain D 
Published: May 2018

Abstract
In this work, a global constrained adaptive output feedback is presented for a class of plug-flow tubular reactors models described by non-linear partial differential equations. The output of the system is the measured temperature in a fixed zone of the reactor. It is then used to regulate the temperature throughout the reactor to a ball with radius $\lambda $ (arbitrarily small) centred at the fixed temperature profile.
Bispectrality and Time–Band Limiting: Matrix-valued Polynomials
Authors: Grünbaum F Alberto , Pacharoni Inés , Zurrián Ignacio 
Published: May 2018

Abstract
The subject of time–band limiting, originating in signal processing, is dominated by the miracle that a naturally appearing integral operator admits a commuting differential one allowing for a numerically efficient way to compute its eigenfunctions. Bispectrality is an effort to dig into the reasons behind this miracle and goes back to joint work with H. Duistermaat. This search has revealed unexpected connections with several parts of mathematics, including integrable systems. Here we consider a matrix-valued version of bispectrality and give a general condition under which we can display a constructive and simple way to obtain the commuting differential operator. Furthermore, we build an operator that commutes with both the time-limiting operator and the band-limiting operators.
Vein of Galen Aneurysmal Malformation: Advances in Management and Endovascular treatment
Authors: Berenstein Alejandro , Paramasivam Srinivasan , Sorscher Michelle , Molofsky Walter , Meila Dan , Ghatan Saadi 
Published: May 2018

Abstract

BACKGROUND
Vein of Galen aneurysmal malformation (VGAM) is a rare congenital vascular malformation representing <1% of all arteriovenous malformations. The knowledge and strategies in the management are constantly evolving.

OBJECTIVE
To review our series of postneonatal VGAM patients treated over 11-yr period.

METHODS
Retrospective analysis of 113 VGAM treated between January 2004 and April 2015. After exclusions, 45 patients were included: 33 choroidal and 12 mural types.

RESULTS
Presenting symptom in the order of frequency: enlarged head circumference, antenatal diagnosis, mild CHF, and PHT at birth. Older patients were diagnosed following trauma, headache, cognitive decline, and incidentally during workup for other diseases. Hydrocephalus due to hydrodynamic disorder was present in 70% of choroidal and 58% of mural types. Only a quarter needed cerebrospinal fluid diversion procedure. Radiological cure was achieved in 82%; the outcome graded on a 5-point scale: 0 (death) to 4 (normal). A total of 66.6% are neurologically and developmentally intact with outcome score 4, 20% had outcome score of 3, and 8.9% had outcome score of 2. There was 4.4% mortality. Dural feeders to VGAM were found either in the initial or during the treatment in 22.2% in the current series. Angiogenesis from pial vessels developed after partial embolization in 17.7% that resolved completely following complete obliteration of VGAM.

CONCLUSION
Technical and technological advancements in endovascular embolization along with better understanding of clinical, anatomic, and pathophysiological aspects have resulted in significantly improved outcome and prognosis in VGAM. Most patients with proper treatment can now survive and most develop normally following appropriately timed treatment.
Interstitial Stereotactic Laser Anterior Corpus Callosotomy: A Report of 2 Cases with Operative Technique and Effectiveness
Authors: Tao James X , Issa Naoum P , Wu Shasha , Rose Sandra , Collins John , Warnke Peter C 
Published: May 2018

Abstract

BACKGROUND AND IMPORTANCE
Corpus callosotomy is an effective palliative treatment for medically intractable Lennox–Gastaut syndrome (LGS) that disrupts the interhemispheric synchronization of epileptiform discharges. However, traditional open corpus callosotomy carries a significant risk of surgical complications associated with craniotomy and a parafalcine approach to the corpus callosum. Here, we report 2 cases of anterior corpus callosotomy using MRI-guided stereotactic laser interstitial thermal therapy (LITT) as a minimally invasive technique for mitigating the risks of craniotomy while achieving favorable outcomes.

CLINICAL PRESENTATION
Two patients with medically intractable LGS underwent stereotactic laser anterior corpus callosotomy using a 2 laser-fiber approach. Ablation of 70%-80% of the corpus callosum was confirmed by postoperative MRI diffusion tensor imaging and volumetric analysis. Marked reduction of epileptiform activity was observed in both patients during postoperative video-EEG studies as compared to preoperative video-EEG studies. Freedom from disabling seizures including drop attacks was achieved in 1 patient for 18 mo, and more than a 90% reduction of disabling seizures was achieved in the other patient for 7 mo with cognitive improvement and without surgical complications.

CONCLUSION
These early data demonstrate the technical feasibility, safety, and favorable outcomes of MRI-guided stereotactic laser anterior corpus callosotomy in patients with LGS, making it a potentially safe and effective alternative to traditional open corpus callosotomy and other stereotactic methods including radiofrequency ablation and radiosurgery due to the ability to monitor the ablation in real time with MRI.
Protecting only white children: the impact of child restraint legislation in Brazil
Authors: Nazif-Muñoz José Ignacio , Nandi Arijit , Ruiz-Casares Mónica 
Published: May 2018

Abstract

Background
In 2010, Brazil introduced child restraint legislation (CRL). We assessed the effectiveness of CRL in reducing child (aged 0–8 years) injuries and fatalities by race. We performed an evaluation study with an interrupted time–series design.

Methods
We measured the effect of CRL on two outcomes—number of child deaths and number of child injured in traffic collisions per child population, stratified by race, from 2008 to 2014. We controlled for time, unemployment rate and oil consumption (barrels/day in thousands).

Results
The CRL was associated with a 3% reduction in the rate of child injuries among whites (incidence rate ratio (IRR): 0.97; 95% CI: 0.96–0.99), but no reduction in child injuries among non-whites (IRR: 0.99; 95% CI: 0.99–1.00). In the first month after the implementation of Brazil’s CRL we observed a 39% reduction in all child fatalities (IRR: 0.61; 95% CI: 0.44–0.84), including a 52% reduction among whites (IRR: 0.48; 95% CI: 0.33–0.68), but no reduction in non-white fatalities (IRR: 0.87; 95% CI: 0.55–1.37).

Conclusions
Our results support the hypothesis that socially advantaged populations were more likely to consistently adopt and employ restraint devices following the reform. Countries should also consider complementary policies that facilitate an equitable distribution of safety devices that reach vulnerable populations.
The 70th anniversary of glucocorticoids in rheumatic diseases: the second youth of an old friend
Authors: Palmowski Yannick , Buttgereit Thomas , Buttgereit Frank 
Published: May 2018

Abstract
Seventy years ago, the first administration of cortisone in a patient with RA marked a milestone in the treatment of inflammatory diseases. However, the initial enthusiasm rapidly vanished as the administration of high doses for lengthy periods revealed worrisome adverse effects. It has taken several decades to overcome the (sometimes excessive) mistrust and to achieve a more differentiated evaluation of the benefit–risk profile and the adequate usage of glucocorticoids (GCs). Today, GCs remain indispensable for the treatment of many inflammatory conditions and their usefulness in RA as a disease-modifying low-dose co-medication is widely acknowledged. Recent studies show promising results concerning both traditional GCs and new formulations. Still, decades of relatively little scientific attention have resulted in a continuing lack of detailed evidence. Hence there is an ongoing need for further research regarding mechanisms of GC actions, the further optimization of treatment parameters for traditional GCs and new formulations.
The effect of zilpaterol hydrochloride on beef producer and processor revenue of calf-fed Holstein steers
Authors: McEvers Trent J , May Nathan D , Reed Jacob A , Walter Lee-Anne J , Hutcheson John P , Lawrence Ty E 
Published: May 2018

Abstract
A serial harvest was conducted every 28 d from 254 to 534 days on feed (DOF) to quantify changes in growth and composition of calf-fed Holstein steers (n = 110, initial BW = 449.2 ± 19.9 kg). One-half were supplemented the β-2 adrenergic agonist zilpaterol hydrochloride (ZH; 8.33 mg/kg 100% DM basis), and the remainder fed a control (CON) ration during the final 20 d followed by a 3 d withdrawal prior to harvest. Cattle were randomly allocated to dietary treatment and harvest endpoint (254, 282, 310, 338, 366, 394, 422, 450, 478, 506, and 534 DOF) using a 2 × 11 factorial treatment structure and a completely randomized experimental design structure. The objective of this ad-hoc investigation was to quantify changes in value across multiple harvest endpoints and marketing strategies for cattle supplemented with ZH. Cattle-fed ZH had increased (P &lt; 0.01) value when sold on a dressed basis (+$82.64) or on a value-based formula (+$75.59) compared with CON cattle. No differences (P ≥ 0.14) were detected between ZH and CON carcasses for premiums and discounts related to HCW, yield grade, or quality grade. Moreover, no differences (P = 0.98) were detected for overall adjusted carcass value between ZH and CON carcasses. Fabrication values revealed that ZH carcasses had greater (P &lt; 0.01) revenue than CON carcasses for primal round (+$36.23), loin (+$38.16), flank (+$8.95), rib (+$16.33), and chuck (+$27.49) regardless of DOF. Increased primal values ultimately led to greater (P &lt; 0.01) processor revenue (+$138.94) and carcass value per 45.4 kg (+$6.45) for cattle-fed ZH compared with CON cattle. Overall, increased carcass weight and improved fabrication yield led to greater revenue at all harvest endpoints for cattle-fed ZH. Linear increases in live and dressed values indicated the daily change in live value was $3.48, which is less than an increase of $3.77 daily for dressed carcass value. Greater beef processor margin and profitability are expected when this growth technology is used.
Conserved forage-based systems for backgrounding weaned beef calves1
Authors: Forte Erin M , Mullenix Mary Kimberly , Tucker Jennifer J , Elmore Joshua B , Bergen Werner G 
Published: May 2018

Abstract
A 45-d backgrounding study was conducted to compare animal performance, forage nutritive value, digestion dynamics, and diet costs of conserved forage systems for weaned beef calves. One hundred and eight weaned Angus × Simmental beef calves (initial BW 279 ± 34 kg) were randomly assigned to one of three diets (n = 3 pens/treatment): 1) free-choice annual ryegrass (RB; cv. ‘Marshall’) baleage and 4 kg of a 50/50 mixture of pelleted soybean hulls and corn gluten feed, 2) free-choice Tifton 85 bermudagrass (BH) and 3 kg of a 50/50 mixture of pelleted soybean hulls and corn gluten feed, or 3) free-choice corn silage (CS; cv. Pioneer P1662YHR) and 2 kg of a 85% cracked corn and 15% cottonseed meal mixture. Diets were formulated to achieve a target gain of 0.9 kg/d based on the NRC (2000) requirement for a 270 kg growing calf. Animal performance (initial BW, final BW, and ADG) was measured on days 0 and 45 of the study. Forage nutritive value and an in vitro digestion trial were conducted to evaluate supplementation effects on forage diet digestion dynamics. Data were analyzed using PROC Mixed in SAS 9.4 as a completely randomized design. Pen was the experimental unit. Mean initial and final BW of the animals did not differ (P = 0.50 and P = 0.99, respectively) across treatments. Calf ADG for RB, BH, and CS diets were 0.61, 0.72, and 0.72 kg/d, respectively, and did not differ across treatments (P = 0.57). Based on these results, these forage options supported a similar level of gain when used for backgrounding beef calves. Forage in vitro DM digestibility differed 48 h after digestion, and BH + 50:50 had greater 48-h digestibility than when unsupplemented, which may be related to complementary forage-supplement interactions. In diets containing RB and CS, digestibility was greater with no supplementation at the 48-h time point. These data support the observation that supplementation type and level influence conserved forage diet digestibility compared with forage alone. The cost of feeding a baleage-based diet in this system was higher ($1.37/d) than CS or BH diets ($1.02 and $0.95/d, respectively). Results suggest that RB baleage-based diets may support a similar level of gain to BH or CS diets in growing beef calves, but supplement type, level, and ration costs should be evaluated when determining cost-effective backgrounding options in the Southeastern United States.
Development and the Labor Share
Authors: Maarek Paul , Orgiazzi Elsa 
Published: May 2018

AbstractA U-shaped relationship between development and the labor share of income is brought to light. To do so, a panel dataset on the labor share in the manufacturing sector of developing countries is exploited. This dataset has greater coverage than the ones of previous studies focusing on developing countries. These data are also available at the disaggregated level for 28 manufacturing subsectors. This allows us to show that the U-shaped pattern of the labor share is also observed at the subsector level, suggesting that it does not correspond to reallocation forces across manufacturing subsectors during the development process. Standard theories of development economics that feature duality in the labor market easily generate such a pattern.
Negative Illness Perceptions are Associated With a Pronociceptive Modulation Profile and Augmented Pelvic Pain
Authors: Grinberg Keren , Granot Michal , Lowenstein Lior , Abramov Liora , Weissman-Fogel Irit 
Published: May 2018

Objectives:
A patient’s personal interpretations of a health threat or “illness perceptions” (IPs) are associated with their clinical outcomes. This study explored whether IPs are associated with pain severity and ability to modulate pain in women with chronic pelvic pain syndrome (CPPS), as well as the predictive value of IPs on myofascial manual therapy (MMT) success.

Materials and Methods:
Illness Perceptions Questionnaire-Revised (IPQ-R), mechanical and heat pain thresholds, mechanical temporal summation, and conditioned pain modulation (CPM) were evaluated in CPPS patients (n=39) before, and 3 months after MMT. CPPS severity was obtained by the Brief Pain Inventory (BPI).

Results:
Stronger perceptions of illness chronicity were correlated with less efficient CPM (r=0.488, P=0.002) and increased mechanical pain intensity (r=0.405, P=0.02). Lower perceptions of control over illness were associated with enhanced mechanical temporal summation (r=0.399, P=0.01). Higher BPI scores were correlated with emotional representations (negative emotional representations) and severe consequences due to CPPS. Regression analyses revealed that negative IPs predict less efficient MMT.

Discussion:
Cognitive representations play a unique role in CPPS expression and MMT outcomes. The interplay between negative IPs and a pronociceptive modulation profile, mediated by enhanced facilitatory and reduced inhibitory processes, may be involved in the manifestation of CPPS.
Spinopelvic Alignment in Subjects With Down Syndrome
Authors: Assi Ayman , Bakouny Ziad , Mansour Elie , Yaacoub Jean-Jacques , Yared Fares , Ghanem Ismat 
Published: May 2018

Study Design:
This was a cross-sectional study.

Objective:
The aim of this study was to describe the spinopelvic alignment of subjects with Down syndrome (DS).

Summary of Background Data:
Subjects with DS are known to suffer from a large prevalence of scoliosis. While scoliosis is known to significantly affect postural alignment, there are currently no studies on the spinopelvic alignment of subjects with DS.

Materials and Methods:
In total, 41 subjects (28 female subjects and 13 male subjects) with DS, age and sex-matched to 41 asymptomatic subjects, underwent biplanar x-rays with 3-dimensional reconstructions of their spines and pelvises, followed by measurement of commonly used spinopelvic sagittal and coronal alignment parameters. Subjects were then classified into one of Roussouly’s 4 types of sagittal alignment. Alignment parameters and prevalence of alignment patterns were compared between the 2 groups.

Results:
Subjects with DS were found to be relatively hypokyphotic (T4–T12=−29.0 vs. −37.5 degrees; P<0.001) and hyperlordotic (L1–L5=53.8 vs. 44.3 degrees; P<0.001) with larger pelvic incidence (53.2 vs. 45.1 degrees; P<0.001), sacral slope (47.7 vs. 36.8 degrees; P<0.001), Cobb angle (10.2 vs. 8.0 degrees; P=0.005), and axial rotation of the apical vertebra (6.6 vs. 3.7 degrees; P<0.001) but had smaller pelvic tilt (4.9 vs. 8.1 degrees; P<0.001) compared with control subjects. Roussouly’s type 4 was found to be the most frequent pattern in DS subjects (68.3% vs. 14.6%; P<0.001).

Conclusions:
Subjects with DS were found to have a peculiar pattern of hypokyphosis, hyperlordosis, large pelvic incidence, and small pelvic tilt. The altered spinopelvic alignment found in DS could predispose these subjects to hip instability and osteoarthritis.

Level of Evidence:
Level III.
The Outcomes of Posterior Arthrodesis for Atlantoaxial Subluxation in Down Syndrome Patients
Authors: Scollan Joseph P. , Alhammoud Abduljabbar , Tretiakov Mikhail , Hollern Douglas A. , Bloom Lee R. , Shah Neil V. , Naziri Qais , Diebo Bassel G. , Yoshihara Hiroyuki , Scott Claude B. , Hesham Khalid , Paulino Carl B. 
Published: May 2018

Study Design:
This is a meta-analysis.

Objective:
To establish rates of (1) neurological complications, (2) bony-related complications, (3) complications delaying recovery, (4) reoperation, and (5) fatalities following posterior cervical arthrodesis in Down syndrome (DS) patients with atlantoaxial subluxation. To determine if presenting symptoms had any relationship to postoperative complications.

Summary of Background Data:
Posterior arthrodesis is commonly utilized to correct cervical instability secondary to atlantoaxial instability in DS patients. However, there has never been a global evaluation of postoperative complications associated with posterior cervical spinal arthrodesis in DS patients.

Methods:
A comprehensive search of Medline/PubMed, EMBASE, and Ovid databases between January 1980 and July 2017 was utilized to identify DS patients with atlantoaxial subluxation who underwent posterior cervical arthrodesis. Data were sorted by neurological complications, complications delaying recovery, bony-related complications, reoperations, and fatalities. Patients were sorted into 2 groups based on presentation with or without neurological deficits.

Results:
Twelve studies met inclusion criteria, including 128 DS patients. Mean age was 13.8 years (range: 6.7–32.7 y; 47.8% male). Mean follow-up was 31.7 months (range: 14.9–77 mo). All patients underwent primary posterior cervical arthrodesis with an average of 2.5 vertebrae fused. A total of 39.6% of patients had bony-related complications [95% confidence interval (CI), 31.4%–48.5%], 23.3% had neurological deficits (95% CI, 16.6%–31.6%), and 26.4% experienced complications delaying recovery (95% CI, 19.4%–34.9%). The reoperation rate was 34.9% (95% CI, 25.5%–45.6%). The mortality rate was 3.9% (95% CI, 1.5%–9.7%). Neurological complications were 4-fold (P<0.05) and reoperation was 5.5-fold (P<0.05) more likely in patients presenting with neurological deficits compared with those without.

Conclusions:
This study detailed global complication rates of posterior arthrodesis for DS patients, identifying bony-related complications and reoperations among the most common. Patients presenting with neurological symptoms and cervical instability have increased postoperative rates of neurological complications and reoperations than patients with instability alone. Further investigation into how postoperative complications effect patient independence is warranted.
Gynecological sarcomas: what's new in 2018, a brief review of published literature
Authors: Gantzer Justine , Ray-Coquard Isabelle 
Published: May 2018

Purpose of review
In this article, we focus on recent published data (2017) on the management of gynecologic sarcomas.

Recent findings
The most significant data published in 2017 develop definition of a new molecular subtype of high grade endometrial stromal sarcoma (ESS) using molecular technics added to histological analysis. The identification of a new translocation on presumed uterine leiomyosarcoma (LMS) points to refinement of nosological classification, with fragmentation of even rare tumors into distinct molecular entities: gynecologic sarcomas are now distinguished into distinct entities from a heterogeneous group of tumors. Other articles have discussed the real incidence of unsuspected sarcomas after fibroid mini-invasive surgery and evaluate the risk of relapse and dissemination after morcellation. Among several criteria, preoperative imagery could become a useful tool. For systemic treatment, no clinical trials changing practices were published, only one positive nonrandomized phase II with carboplatin and pegylated liposomal doxorubicin (PLD) in the treatment of uterine sarcomas after the conventional first line, especially in LMSs and ESSs.

Summary
Many articles were published on this confidential domain in oncology demonstrating interests on rare sarcomas. All specialties were represented in the literature, even though we are still waiting for urgent improvements in early diagnosis and therapeutic strategies to transform the poor prognostic of these tumors.