bluuebunny/crossref_metadata_2025_split huggingface dataset:
Proteomics and Metabolomics in Pregnancy—An Overview
Authors: Vora Niraj , Kalagiri Ram , Mallett Lea H. , Oh Jin Ho , Wajid Umaima , Munir Saef , Colon Natalie , Raju Venkata Nakta , Beeram Madhava R. , Nasir Uddin M. 
Published: February 2019

Importance
Pregnancy is getting more and more complex due to increasing number of complications that may affect fetal outcomes. The introduction of newer “proteomics and metabolomics” technologies in the field of obstetrics and gynecology may allow physicians to identify possible associated etiologies that affect the mother during pregnancy and lead to associated complications affecting the offspring.

Objective
The principal objective of this review article is to provide a comprehensive evaluation of the use of proteomics and metabolomics in complicated pregnancies. Future studies that incorporate data from multiple technologies may allow the development of an integrated biological system approach to maternal genomes, proteomes, and metabolomes in pregnancy.

Evidence Acquisition and Results
We conducted a substantial MEDLINE, EBSCOhost, and Cochrane database search for all the relevant articles containing use of “omics” technologies in pregnancy. We identified 197 relevant articles, following standardized systematic review process along with grading systems; 69 eligible articles were identified.

Conclusion/Relevance
We sought to provide a comprehensive review in this emerging field of “omics” in pregnancy and associated complications. This article focuses mainly on use of proteomics and metabolomics identification techniques and possible interventions for early pregnancy complications to improve neonatal outcomes.

Target Audience
Obstetricians and gynecologists, family physicians

Learning Objectives
After completing this activity, the learner should be better able to describe the various complications of pregnancy and their outcomes; assess current available techniques and modalities involving proteomics and metabolomics; and evaluate and provide a comprehensive review of the use of proteomics and metabolomic techniques in various complications of pregnancy.
Evaluation of Comprehensive Chromosome Screening Platforms for the Detection of Mosaic Segmental Aneuploidy
Authors: Goodrich David , Xing Tongji , Tao Xin , Lonczak Agnieszka , Zhan Yiping , Landis Jessica , Zimmerman Rebekah , Scott Richard T. , Treff Nathan R. 
Published: February 2019

(Abstracted from J Assist Reprod Genet 2017;34:975–981)
Advancements in the efficacy of comprehensive chromosomal screening (CCS), namely, the ability to detect aneuploidy in all 24 human chromosomes, have established it as a cornerstone of infertility care. Recently, the development of high-throughput, massively parallel sequencing for use with CCS has led to highly accurate, simultaneous screening of multiple samples.
Effect of Oxygen vs Room Air on Intrauterine Fetal Resuscitation: A Randomized Noninferiority Clinical Trial
Authors: Raghuraman Nandini , Wan Leping , Temming Lorene A. , Woolfolk Candice , Macones George A. , Tuuli Methodius G. , Cahill Alison G. 
Published: February 2019

(Abstracted from JAMA Pediatr 2018;172(9):818–823)
Category II fetal heart tracings are defined by the National Institute of Child Health and Human Development as a broad class of electronic fetal monitoring observed in more than 80% of laboring patients. This categorization does not necessarily predict neonatal acidemia, but the presence of category II fetal heart tracings often results in intrauterine resuscitation efforts aimed at improving fetal oxygenation.
Long-term Comparison of Recurrence Rates Between Different Lightweight and Heavyweight Meshes in Open Anterior Mesh Inguinal Hernia Repair
Authors: Melkemichel Maria , Bringman Sven Anders Wilhelm , Widhe Björn Otto Ola 
Published: February 2019

Objective:
To compare the reoperation rate for recurrence of different lightweight to heavyweight meshes after an open anterior mesh (OAM) inguinal hernia repair.

Summary Background Data:
Lightweight meshes have shown benefits compared with heavyweight meshes in terms of accelerated recovery after surgery with less postoperative pain. The use of such meshes may, however, be associated with an increase in hernia recurrence. Studies of large cohorts with long-term follow-up regarding recurrence are lacking.

Methods:
All OAM groin hernia repairs registered in The Swedish Hernia Register between January 1, 2005 and December 31, 2013 were eligible. Follow-up time was until June 30, 2016. Four groups of meshes were included: polypropylene (PP) heavyweight meshes >50 g/m2 (HWM), regular lightweight PP meshes <50 g/m2 (regular LWM-PP), lightweight PP mesh with absorbable poliglecaprone-25(LWM-PP/PGC), or polyglactin-910(LWM-PP/PG). Primary endpoint was reoperation for recurrence.

Results:
76,495 OAM inguinal hernia repairs in male patients were included for statistical analysis. 1676 repairs were reoperated for recurrence. Multivariate analysis demonstrated no significant difference of risk for recurrence between HWM and regular LWM-PP (HR 1.12, P = 0.13). LWM-PP/PGC (HR 1.42, P < 0.001) and LWM-PP/PG (HR 2.05, P < 0.001) resulted in a significant increased risk compared with HWM. Larger hernia defects, direct hernias, and recurrent hernias were associated with an increased risk of reoperation for recurrence.

Conclusions:
Although lightweight meshes with partially absorbable component resulted in an increased risk of recurrence, there was no difference between regular LWM-PP and HWM. Considering that regular LWM-PP has less associated side effects there are no benefits of using HWM in OAM inguinal hernia repair.
Is understanding the structure-function of microbial community of sludge suitable using DNA-based molecular methods?
Authors: Wang Ping , Wang Zhen , Ma Jing 
Published: February 2019

AbstractAnalysis the similarities between total and active microbial community is crucial to evaluate whether understanding the structure-function of microbial community of different types sludge is suitable using DNA-based molecular methods. In this study, procaryotic communities in different types sludge samples (including primary sludge, excess sludge, mixed sludge, and digested sludge) were evaluated using DNA-based and RNA-based Illumina MiSeq. Results showed that the similarities between total and active procaryotic communities of all different types sludge were considerable high. Meanwhile, the similarity in running sludge higher than that in idle sludge, because of the Jarccard’s coefficient of digested sludge was the highest in all types sludge samples. This study indicates that the DNA-based molecular biology technology could be applicable to profile procaryotic community structure and function in sludge samples, and this study adds the understanding of total and active procaryotic communities of sludge samples.
MS.liverK: an R package for transcriptome-based computation of molecular subtypes and functional signatures in liver cancer
Authors: Petitprez Florent , Meunier Léa , Letouzé Eric , Hoshida Yujin , Villanueva Augusto , Llovet Josep , Thorgeirsson Snorri , Wang Xin Wei , Fridman Wolf H , Zucman-Rossi Jessica , de Reyniès Aurélien 
Published: February 2019

AbstractSummaryLiver cancer is a highly heterogeneous disease in terms of etiology, tissue and cellular morphology, tumor molecular characteristics, microenvironment composition and prognosis. Several studies, based on tumor gene-expression profiling (GEP) data, have dissected the molecular heterogeneity of liver cancer. They resulted in various tools, either delineating homogeneous tumor subtypes or calculating molecular scores of prognostic or biological functions. Here, we present MS.liverK, an easy-to-use R package providing a comprehensive implementation of these tools, for research use.Availability and implementationThe MS.liverK R package is available from GitHub (https://github.com/cit-bioinfo/MS.liverK).
A cross-species assessment of behavioral flexibility in compulsive disorders
Authors: Benzina Nabil , N’Diaye Karim , Pelissolo Antoine , Mallet Luc , Burguière Eric 
Published: February 2019

ABSTRACTBackgroundCompulsive behaviors, one of the core symptoms of Obsessive-Compulsive Disorder (OCD), are defined as repetitive behaviors performed through rigid rituals. The lack of behavioral flexibility has been as being one of the primary causes of compulsions, but studies exploring this dimension have shown inconsistencies in different tasks performed in human and animal models of compulsive behavior. The aim of this study was so to assess the involvement of behavioral flexibility in compulsion, with a similar approach across different species sharing a common symptom of compulsivity.Methods40 OCD patients, 40 healthy individually matched control subjects, 26 C57BL/6J Sapap3 KO mice and 26 matched wildtype littermates were included in this study. A similar reversal learning task was designed to assess behavioral flexibility in parallel in these two species.ResultsWhen considered as homogeneous groups, OCD patients and KO mice expressing compulsive behaviors did not significantly differ from their controls regarding behavioral flexibility. When clinical subtypes were considered, only patients exhibiting checking compulsions were impaired with more trials needed to reach the reversal criterion. In KO mice, a similarly impaired subgroup was identified. For both species, this impairment did not result in a greater perseveration after reversal, but in a greater lability in their responses in the reversal condition. Moreover, this impairment did not correlate with the severity of compulsive behaviors.ConclusionsIn our cross-species study, we found no consistent link between compulsive behaviors and a lack of behavioral flexibility. However, we showed in both species that the compulsive group was heterogeneous in term of performance in our reversal learning task. Among the compulsive subjects, we identified a subgroup with impaired performance not due to perseverative and rigid behaviors as commonly hypothesized, but rather to an increase in response lability.
Recent adverse mortality trends in Scotland: comparison with other high-income countries
Authors: Fenton Lynda , Minton Jon , Ramsay Julie , Kaye-Bardgett Maria , Fischbacher Colin , Wyper Grant MA , McCartney Gerry 
Published: February 2019

AbstractObjectiveGains in life expectancy have faltered in several high-income countries in recent years. We aim to compare life expectancy trends in Scotland to those seen internationally, and to assess the timing of any recent changes in mortality trends for Scotland.SettingAustria, Croatia, Czech Republic, Denmark, England & Wales, Estonia, France, Germany, Hungary, Iceland, Israel, Japan, Korea, Latvia, Lithuania, Netherlands, Northern Ireland, Poland, Scotland, Slovakia, Spain, Sweden, Switzerland, USA.MethodsWe used life expectancy data from the Human Mortality Database (HMD) to calculate the mean annual life expectancy change for 24 high-income countries over five-year periods from 1992 to 2016, and the change for Scotland for five-year periods from 1857 to 2016. One- and two-break segmented regression models were applied to mortality data from National Records of Scotland (NRS) to identify turning points in age-standardised mortality trends between 1990 and 2018.ResultsIn 2012-2016 life expectancies in Scotland increased by 2.5 weeks/year for females and 4.5 weeks/year for males, the smallest gains of any period since the early 1970s. The improvements in life expectancy in 2012-2016 were smallest among females (<2.0 weeks/year) in Northern Ireland, Iceland, England & Wales and the USA and among males (<5.0 weeks/year) in Iceland, USA, England & Wales and Scotland. Japan, Korea, and countries of Eastern Europe have seen substantial gains in the same period. The best estimate of when mortality rates changed to a slower rate of improvement in Scotland was the year to 2012 Q4 for males and the year to 2014 Q2 for females.ConclusionLife expectancy improvement has stalled across many, but not all, high income countries. The recent change in the mortality trend in Scotland occurred within the period 2012-2014. Further research is required to understand these trends, but governments must also take timely action on plausible contributors.Strengths and limitations of this studyThe use of five-year time periods for comparison of life expectancy changes reduces the influence of year-to-year variation on observations.Examining long-term trends addresses concerns that recent life expectancy stalling may be over-emphasised due to notably large gains in the immediately preceding period.The international comparison was limited to the 24 high-income countries for which data were readily available for the relevant period.Analysis of trend data will always be sensitive to the period selected, however segmented regression of the full period of mortality rates available offers an objective method of identifying the timing of a change in trend.
Spatiotemporal dissection of the cell cycle with single-cell proteogenomics
Authors: Mahdessian Diana , Cesnik Anthony J. , Gnann Christian , Danielsson Frida , Stenström Lovisa , Arif Muhammad , Zhang Cheng , Shutten Rutger , Bäckström Anna , Thul Peter , Cho Nathan H. , Carja Oana , Uhlén Mathias , Mardinoglu Adil , Stadler Charlotte , Lindskog Cecilia , Ayoglu Burcu , Leonetti Manuel D. , Pontén Fredrik , Sullivan Devin , Lundberg Emma 
Published: February 2019

ABSTRACTCellular division is a fundamental source of cell-to-cell variability, and studies of transcript and protein abundances have revealed several hundred genes that are regulated by the cell cycle1–8. However, none of these studies provide single-cell resolution of protein expression, leaving an incomplete understanding of cell-to-cell heterogeneity and the roles of cycling transcripts and proteins. Here, we present the first comprehensive map of spatiotemporal heterogeneity of the human proteome by integrating proteomics at subcellular resolution, single-cell transcriptomics, and pseudotime measurements of individual cells within the cell cycle. We identify that 17% of the human proteome displays cell-to-cell variability, of which 26% is correlated to cell cycle progression, and we present the first evidence of cell cycle association for 235 proteins. Only 15% of proteomic cell cycle regulation is due to transcriptomic cycling, which points to other means of regulation such as post-translational modifications. For proteins regulated at the transcript level, we observe a 7.7 hour delay between peak expression of transcript and protein on average. This spatially resolved proteomic map of the cell cycle has been integrated into the Human Protein Atlas and serves as a valuable resource for accelerating molecular studies of the human cell cycle and cell proliferation.
Evosep One Enables Robust Quantitative Deep Proteome Coverage using Tandem Mass Tags while Significantly Reducing Instrument Time
Authors: Krieger Jonathan R. , Wybenga-Groot Leanne E. , Tong Jiefei , Bache Nicolai , Tsao Ming S. , Moran Michael F. 
Published: February 2019

AbstractThe balance between comprehensively analyzing the proteome and using valuable mass spectrometry time is a genuine challenge in the field of proteomics. Multidimensional fractionation strategies have significantly increased proteome coverage, but often at the cost of increased mass analysis time, despite advances in mass spectrometer acquisition rates. Recently, the Evosep One liquid chromatography system was shown to analyze peptide samples in a high throughput manner without sacrificing in depth proteomics coverage. We demonstrate incorporation of Evosep One technology into our multiplexing workflow for quantitative analysis of tandem mass tag (TMT)-labeled non-small cell lung carcinoma (NSCLC) patient-derived xenografts (PDXs). Using a 30 samples per day Evosep workflow, >12,000 proteins were identified in 48 hours of mass spectrometry time, which is comparable to the number of proteins identified by our conventional concatenated EASY-nLC workflow in 67.5 hours. Shorter Evosep gradient lengths reduced the number of protein identifications by 10%, while decreasing mass analysis time by 50%. Thus, our Evosep workflow enables quantitative analysis of multiplexed samples in less time without conceding depth of proteome coverage.
Investigating the effectiveness of school health services delivered by a health provider: a systematic review of systematic reviews
Authors: Levinson Julia , Kohl Kid , Baltag Valentina , Ross David 
Published: February 2019

ABSTRACTSchools are the only institution regularly reaching the majority of school-age children and adolescents across the globe. Although at least 102 countries have school health services, there is no rigorous, evidence-based guidance on which school health services are effective and should be implemented in schools. To investigate the effectiveness of school health services for improving the health of school-age children and adolescents, a systematic review of systematic reviews (overview) was conducted. Five databases were searched through June 2018. Systematic reviews of intervention studies that evaluated school-based or school-linked health services delivered by a health provider were included. Review quality was assessed using a modified Ballard and Montgomery four-item checklist. 1654 references were screened and 20 systematic reviews containing 270 primary studies were assessed narratively. Interventions with evidence for effectiveness addressed autism, depression, anxiety, obesity, dental caries, visual acuity, asthma, and sleep. No review evaluated the effectiveness of a multi-component school health services intervention addressing multiple health areas. Strongest evidence supports implementation of anxiety prevention programs, indicated asthma education, and vision screening with provision of free spectacles. Additional systematic reviews are needed that analyze the effectiveness of comprehensive school health services, and specific services for under-researched health areas relevant for this population.
Expectancy disconfirmation
Authors: Au Alan Kai Ming , Tse Alan Ching Biu 
Published: February 2019

PurposeThe purpose of this paper is to examine the effect of expectancy disconfirmation on passengers’ reactions to airline delays.Design/methodology/approachThe study uses a between-subject factorial design with 9 treatments involving 161 subjects to collect data to test the hypotheses.FindingsThe study showed that, when given a positive disconfirmation, subjects feel better and are more satisfied, but when given a negative disconfirmation, they feel more negative and dissatisfied. Also, the effect size of positive disconfirmation on satisfaction and feelings about the service provider were significantly less than that of negative disconfirmation of the same size. Hence, in the event of a delay, managers may have to announce the upper bound of the delay duration so that passengers might feel better and become more satisfied when the actual delay duration is shorter than what was initially expected. In addition, they must try their best not to create situations of negative disconfirmation in light of their disproportional impact on satisfaction.Practical implicationsAccording to the results, airline managers should estimate as accurately as possible the duration of a delay when there is one.Originality/valueA major contribution of this study is that manipulating the way delay duration information is given to passengers can affect feelings about the delay and the level of satisfaction with the airline.
The resilience of collective bargaining – a renewed logic for joint regulation?
Authors: Moore Sian , Onaran Ozlem , Guschanski Alexander , Antunes Bethania , Symon Graham 
Published: February 2019

PurposeThe purpose of this paper is twofold: first, to reassert the persistent association of the decline in collective bargaining with the increase in income inequality, the fall in the share of wages in national income and deterioration in macroeconomic performance in the UK; and second, to present case studies affirming concrete outcomes of organisational collective bargaining for workers, in terms of pay, job quality, working hours and work-life balance.Design/methodology/approachThe paper is based upon two methodological approaches. First, econometric analyses using industry-level and firm-level data for advanced and emerging economies testing the relationship between declining union density, collective bargaining coverage and the fall in the share of wages in national income. Second, it reports on ten in-depth case studies of collective bargaining each based upon analysis of collective bargaining agreements plus in-depth interviews with the actors party to them: in total, 16 trade union officers, 16 members and 11 employer representatives.FindingsThere is robust evidence of the effects of different measures of bargaining power on the labour share including union density, welfare state retrenchment, minimum wages and female employment. The case studies appear to address a legacy of deregulated industrial relations. A number demonstrate the reinvigoration of collective bargaining at the organisational and sectoral level, addressing the two-tier workforce and contractual differentiation, alongside the consequences of government pay policies for equality.Research limitations/implicationsThe case studies represent a purposive sample and therefore findings are not generalisable; researchers are encouraged to test the suggested propositions further.Practical implicationsThe paper proposes that tackling income inequality requires a restructuring of the institutional framework in which bargaining takes place and a level playing field where the bargaining power of labour is more in balance with that of capital. Collective bargaining addresses a number of the issues raised by the Taylor Review of Modern Working Practices as essential for “good work”, yet is at odds with the review’s assumptions and remedies. The case studies reiterate the importance of the development of strong workplace representation and bargaining at workplace level, which advocates for non-members and provides a basis for union recruitment, organisation and wider employee engagement.Originality/valueThe paper indicates that there may be limits to employer commitment to deregulated employment relations. The emergence of new or reinvigorated collective agreements may represent a concession by employers that a “free”, individualised, deinstitutionalised, precarious approach to industrial relations, based on wage suppression and work intensification, is not in their interests in the long run.