bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Open Chromatin Landscape of Non–Small Cell Lung Carcinoma
Authors: Wang Zhoufeng , Tu Kailing , Xia Lin , Luo Kai , Luo Wenxin , Tang Jie , Lu Keying , Hu Xinlei , He Yijing , Qiao Wenliang , Zhou Yongzhao , Zhang Jun , Cao Feng , Dai Shuiping , Tian Panwen , Wang Ye , Liu Lunxu , Che Guowei , Zhou Qinghua , Xie Dan , Li Weimin 
Published: June 2019

AbstractNon–small cell lung carcinoma (NSCLC) is a major cancer type whose epigenetic alteration remains unclear. We analyzed open chromatin data with matched whole-genome sequencing and RNA-seq data of 50 primary NSCLC cases. We observed high interpatient heterogeneity of open chromatin profiles and the degree of heterogeneity correlated to several clinical parameters. Lung adenocarcinoma and lung squamous cell carcinoma (LUSC) exhibited distinct open chromatin patterns. Beyond this, we uncovered that the broadest open chromatin peaks indicated key NSCLC genes and led to less stable expression. Furthermore, we found that the open chromatin peaks were gained or lost together with somatic copy number alterations and affected the expression of important NSCLC genes. In addition, we identified 21 joint-quantitative trait loci (joint-QTL) that correlated to both assay for transposase accessible chromatin sequencing peak intensity and gene expression levels. Finally, we identified 87 regulatory risk loci associated with lung cancer–related phenotypes by intersecting the QTLs with genome-wide association study significant loci. In summary, this compendium of multiomics data provides valuable insights and a resource to understand the landscape of open chromatin features and regulatory networks in NSCLC.Significance:This study utilizes state of the art genomic methods to differentiate lung cancer subtypes.See related commentary by Bowcock, p. 4808
p38 Stabilizes Snail by Suppressing DYRK2-Mediated Phosphorylation That Is Required for GSK3β-βTrCP–Induced Snail Degradation
Authors: Ryu Ki-Jun , Park Sun-Mi , Park Seung-Ho , Kim In-Kyu , Han Hyeontak , Kim Hyo-Jin , Kim Seon-Hee , Hong Keun-Seok , Kim Hyemin , Kim Minju , Yoon Sung-Jin , Asaithambi Killivalavan , Lee Kon Ho , Park Jae-Yong , Hah Young-Sool , Cho Hee Jun , Yook Jong In , Yang Jung Wook , Ko Gyung-Hyuck , Lee Gyemin , Kang Yang Jae , Hwangbo Cheol , Kim Kwang Dong , Park Young-Jun , Yoo Jiyun 
Published: June 2019

AbstractSnail is a key regulator of epithelial–mesenchymal transition (EMT), which is a major step in tumor metastasis. Although the induction of Snail transcription precedes EMT, posttranslational regulation, especially phosphorylation of Snail, is critical for determining Snail protein levels or stability, subcellular localization, and the ability to induce EMT. To date, several kinases are known that enhance the stability of Snail by preventing its ubiquitination; however, the molecular mechanism(s) underlying this are still unclear. Here, we identified p38 MAPK as a crucial posttranslational regulator that enhances the stability of Snail. p38 directly phosphorylated Snail at Ser107, and this effectively suppressed DYRK2-mediated Ser104 phosphorylation, which is critical for GSK3β-dependent Snail phosphorylation and βTrCP-mediated Snail ubiquitination and degradation. Importantly, functional studies and analysis of clinical samples established a crucial role for the p38–Snail axis in regulating ovarian cancer EMT and metastasis. These results indicate the potential therapeutic value of targeting the p38–Snail axis in ovarian cancer.Significance:These findings identify p38 MAPK as a novel regulator of Snail protein stability and potential therapeutic target in ovarian cancer.
Characteristics and Outcomes in a Contemporary Group of Patients With Suspected Significant Mitral Stenosis Undergoing Treadmill Stress Echocardiography
Authors: Gentry James L. , Parikh Parth K. , Alashi Alaa , Gillinov A Marc , Pettersson Gosta B. , Rodriguez L Leonardo , Popovic Zoran B. , Sato Kimi , Grimm Richard A. , Kapadia Samir R. , Tuzcu E Murat , Svensson, Lars G. , Griffin Brian P. , Desai Milind Y. 
Published: June 2019

Background:
In contemporary patients with suspected significant mitral stenosis (MS) undergoing rest and treadmill stress echocardiography, we assessed characteristics and factors associated with longer-term survival.

Methods:

We studied 515 consecutive patients (asymptomatic/atypical symptoms, mean left ventricular ejection fraction 58±2%; 43% male) with suspected at least moderate MS ([1] native mitral valve [MV]: resting mean MV gradient ≥5 mm Hg or area ≤1.5 cm
2
and [2] prosthetic valve: resting mean MV gradient ≥5 mm Hg or effective orifice area ≤2 cm) who underwent rest and treadmill stress echocardiography between 1/2003 and 12/2013. MS was categorized as rheumatic (n=170, 33%), postsurgical (prior mitral repair/replacement, n=245, 48%), and primary nonrheumatic (n=100, 19%). Primary outcome was all-cause mortality.

Results:

Mean resting MV gradient and right ventricular systolic pressure were 8.5±3 and 39±13 mm Hg. Patients achieved 95±29% age-sex predicted metabolic equivalents; peak-stress MV gradient and right ventricular systolic pressure were 17±7 and 61±14 mm Hg, respectively. At 54 days (median), 224 (44%) underwent invasive mitral procedure. At 6±4 years, 76 (15%) died. On survival analysis, primary nonrheumatic MS (hazard ratio [HR], 4.92), higher Society of Thoracic Surgeons score (HR, 1.92), lower % age-sex predicted metabolic equivalents (HR, 1.22), and higher peak-stress right ventricular systolic pressure (HR, 1.35), was associated with higher mortality, while invasive mitral procedures were associated with improved survival (HR, 0.67; all
P
<0.01).

Conclusions:
In asymptomatic patients (or with atypical symptoms) with significant MS undergoing treadmill stress echocardiography, higher mortality was associated with primary nonrheumatic MS, lower % age-sex predicted metabolic equivalents, and higher peak-stress right ventricular systolic pressure, while invasive MV procedures were associated with survival.
Impact of Bridge to Transplantation With Continuous-Flow Left Ventricular Assist Devices on Posttransplantation Mortality
Authors: Truby Lauren K. , Farr Maryjane A. , Garan A. Reshad , Givens Raymond , Restaino Susan W. , Latif Farhana , Takayama Hiroo , Naka Yoshifumi , Takeda Koji , Topkara Veli K. 
Published: June 2019

Background:
Bridge to transplantation (BTT) with left ventricular assist devices (LVADs) is a mainstay of therapy for heart failure in patients awaiting heart transplantation (HT). Criteria for HT listing do not differ between patients medically managed and those mechanically bridged to HT. The objectives of the present study were to evaluate the impact of BTT with LVAD on posttransplantation survival, to describe differences in causes of 1-year mortality in medically and mechanically bridged patients, and to evaluate differences in risk factors for 1-year mortality between those with and those without LVAD at the time of HT.

Methods:
Using the United Network of Organ Sharing database, we identified 5486 adult, single-organ HT recipients transplanted between 2008 and 2015. Patients were propensity matched for likelihood of LVAD at the time of HT. Kaplan–Meier survival estimates were used to assess the impact of BTT on 1- and 5-year mortality. Logistic regression analysis was used to evaluate the odds ratio of 1-year mortality for patients BTT with LVAD compared with those with medical management across clinically significant variables at various thresholds.

Results:

Early mortality was higher in mechanically bridged patients: 9.5% versus 7.2% mortality at 1 year (
P
<0.001). BTT patients incurred an increased risk of 1-year mortality with an estimated glomerular filtration rate of 40 to 60 mL·min
−1
·1.73 m
−2
(odds ratio, 1.69;
P
=0.003) and <40 mL·min
−1
·1.73 m
−2
(odds ratio, 2.16;
P
=0.005). A similar trend was seen in patients with a body mass index of 25 to 30 kg/m
2
(odds ratio, 1.88;
P
=0.024) and >30 kg/m
2
(odds ratio, 2.11;
P
<0.001). When patients were stratified by BTT status and the presence of risk factors, including age >60 years, estimated glomerular filtration rate <40 mL·min
−1
·1.73 m
−2
, and body mass index >30 kg/m
2
, there were significant differences in 1-year mortality between medium- and high-risk medically and mechanically bridged patients, with 1-year mortality in high-risk BTT patients at 17.6% compared with 10.4% in high-risk medically managed patients.

Conclusions:
Bridge to HT with LVAD, although necessary because of organ scarcity and capable of improving wait list survival, confers a significantly higher risk of early posttransplantation mortality. Patients bridged with mechanical support may require more careful consideration for transplant eligibility after LVAD placement.
Emergent Carotid Stenting Plus Thrombectomy After Thrombolysis in Tandem Strokes
Authors: Anadani Mohammad , Spiotta Alejandro M. , Alawieh Ali , Turjman Francis , Piotin Michel , Haussen Diogo C. , Nogueira Raul G. , Papanagiotou Panagiotis , Siddiqui Adnan H. , Lapergue Bertrand , Dorn Franziska , Cognard Christophe , Ribo Marc , Psychogios Marios N. , Labeyrie Marc Antoine , Mazighi Mikael , Biondi Alessandra , Anxionnat René , Bracard Serge , Richard Sébastien , Gory Benjamin , Grossberg Jonathan Andrew , Guenego Adrien , Darcourt Julien , Vukasinovic Isabelle , Pomero Elisa , Davies Jason , Renieri Leonardo , Hecker Corentin , Muchada Maria Muchada , Consoli Arturo , Rodesch Georges , Houdart Emmanuel , Turner Raymond , Turk Aquilla , Chaudry Imran , Lockau Johanna , Kastrup Andreas , Blanc Raphaël , Redjem Hocine , Behme Daniel , Shallwani Hussain , Christopher Maurer , Mione Gioia , Humbertjean Lisa , Lacour Jean-Christophe , Zhu François , Derelle Anne-Laure , Tonnelet Romain , Liao Liang 
Published: June 2019

Background and Purpose—
Emergent carotid artery stenting plus mechanical thrombectomy is an effective treatment for acute ischemic stroke patients with tandem occlusion of the anterior circulation. However, there is limited data supporting the safety of this approach in patients treated with prior intravenous thrombolysis (IVT). We aimed to investigate the safety of emergent carotid artery stenting-mechanical thrombectomy approach in stroke patient population treated with prior IVT.

Methods—
We assessed patients with acute ischemic stroke because of atherosclerotic tandem occlusion that were treated with emergent carotid artery stenting-mechanical thrombectomy approach from the multicenter observational Thrombectomy in Tandem Lesions registry. Patients were divided into 2 groups based on pretreatment IVT (IVT versus no-IVT). Intracerebral hemorrhages were classified according to the European Cooperative Acute Stroke Study II criteria.

Results—

Among 205 patients included in the present study, 125 (60%) received prior IVT. Time from symptoms onset-to-groin puncture was shorter (234±100 versus 256±234 minutes;
P
=0.002), and heparin use was less in the IVT group (14% versus 35%;
P
<0.001); otherwise, there was no difference in the baseline characteristics. There was no significant difference between the IVT and no-IVT groups in the rate of symptomatic intracerebral hemorrhage (5% versus 8%;
P
=0.544), parenchymal hematoma type 1 to 2 (15% versus 18%;
P
=0.647), successful reperfusion (modified Thrombolysis in Cerebral Ischemia 2b–3), or 90-day favorable outcome (modified Rankin Scale score of 0–2 at 90 days). The 90-day all-cause mortality rate was significantly lower in the IVT group (8% versus 20%;
P
=0.017). After adjusting for covariates, IVT was not associated with symptomatic intracerebral hemorrhage or 90-day mortality.

Conclusions—
Emergent carotid artery stenting-mechanical thrombectomy approach was not associated with an increased risk of hemorrhagic complications in tandem occlusion patients who received IVT before the intervention.
Opening the door to electronic publication of zoological nomenclature and taxonomy
Authors: ZHANG ZHI-QIANG 
Published: June 2019

On pages 57–67 of this issue of Zootaxa we publish a notice entitled “Proposed amendment of the International Code of Zoological Nomenclature to expand and refine methods of publication” by the International Commission on Zoological Nomenclature (ICZN 2008). We publish this notice under the “Creative Commons Attribution License” (for information about this license, see http://creativecommons.org/licenses/by/3.0/) to make it freely available online for everyone to read, download, copy, distribute, and use (with attribution). Zootaxa is now the most important journal in zoological taxonomy with the largest base of editors and authors (over 5000) and the highest rate of online access use. It is opportune for Zootaxa to help publicise this important notice by ICZN so that it reaches the widest readership possible.
The Iceland Greenland Seas Project
Authors: Renfrew I. A. , Pickart R. S. , Våge K. , Moore G. W. K. , Bracegirdle T. J. , Elvidge A. D. , Jeansson E. , Lachlan-Cope T. , McRaven L. T. , Papritz L. , Reuder J. , Sodemann H. , Terpstra A. , Waterman S. , Valdimarsson H. , Weiss A. , Almansi M. , Bahr F. , Brakstad A. , Barrell C. , Brooke J. K. , Brooks B. J. , Brooks I. M. , Brooks M. E. , Bruvik E. M. , Duscha C. , Fer I. , Golid H. M. , Hallerstig M. , Hessevik I. , Huang J. , Houghton L. , Jónsson S. , Jonassen M. , Jackson K. , Kvalsund K. , Kolstad E. W. , Konstali K. , Kristiansen J. , Ladkin R. , Lin P. , Macrander A. , Mitchell A. , Olafsson H. , Pacini A. , Payne C. , Palmason B. , Pérez-Hernández M. D. , Peterson A. K. , Petersen G. N. , Pisareva M. N. , Pope J. O. , Seidl A. , Semper S. , Sergeev D. , Skjelsvik S. , Søiland H. , Smith D. , Spall M. A. , Spengler T. , Touzeau A. , Tupper G. , Weng Y. , Williams K. D. , Yang X. , Zhou S. 
Published: June 2019

AbstractThe Iceland Greenland Seas Project (IGP) is a coordinated atmosphere–ocean research program investigating climate processes in the source region of the densest waters of the Atlantic meridional overturning circulation. During February and March 2018, a field campaign was executed over the Iceland and southern Greenland Seas that utilized a range of observing platforms to investigate critical processes in the region, including a research vessel, a research aircraft, moorings, sea gliders, floats, and a meteorological buoy. A remarkable feature of the field campaign was the highly coordinated deployment of the observing platforms, whereby the research vessel and aircraft tracks were planned in concert to allow simultaneous sampling of the atmosphere, the ocean, and their interactions. This joint planning was supported by tailor-made convection-permitting weather forecasts and novel diagnostics from an ensemble prediction system. The scientific aims of the IGP are to characterize the atmospheric forcing and the ocean response of coupled processes; in particular, cold-air outbreaks in the vicinity of the marginal ice zone and their triggering of oceanic heat loss, and the role of freshwater in the generation of dense water masses. The campaign observed the life cycle of a long-lasting cold-air outbreak over the Iceland Sea and the development of a cold-air outbreak over the Greenland Sea. Repeated profiling revealed the immediate impact on the ocean, while a comprehensive hydrographic survey provided a rare picture of these subpolar seas in winter. A joint atmosphere–ocean approach is also being used in the analysis phase, with coupled observational analysis and coordinated numerical modeling activities underway.
Efficient Modeling of the Interaction of Mesoscale Gravity Waves with Unbalanced Large-Scale Flows: Pseudomomentum-Flux Convergence versus Direct Approach
Authors: Wei Junhong , Bölöni Gergely , Achatz Ulrich 
Published: June 2019

AbstractThis paper compares two different approaches for the efficient modeling of subgrid-scale inertia–gravity waves in a rotating compressible atmosphere. The first approach, denoted as the pseudomomentum scheme, exploits the fact that in a Lagrangian-mean reference frame the response of a large-scale flow can only be due to forcing momentum. Present-day gravity wave parameterizations follow this route. They do so, however, in an Eulerian-mean formulation. Transformation to that reference frame leads, under certain assumptions, to pseudomomentum-flux convergence by which the momentum is to be forced. It can be shown that this approach is justified if the large-scale flow is in geostrophic and hydrostatic balance. Otherwise, elastic and thermal effects might be lost. In the second approach, called the direct scheme and not relying on such assumptions, the large-scale flow is forced both in the momentum equation, by anelastic momentum-flux convergence and an additional elastic term, and in the entropy equation, via entropy-flux convergence. A budget analysis based on one-dimensional wave packets suggests that the comparison between the abovementioned two schemes should be sensitive to the following two parameters: 1) the intrinsic frequency and 2) the wave packet scale. The smaller the intrinsic frequency is, the greater their differences are. More importantly, with high-resolution wave-resolving simulations as a reference, this study shows conclusive evidence that the direct scheme is more reliable than the pseudomomentum scheme, regardless of whether one-dimensional or two-dimensional wave packets are considered. In addition, sensitivity experiments are performed to further investigate the relative importance of each term in the direct scheme, as well as the wave–mean flow interactions during the wave propagation.
Characteristics of Households of People With Diabetes Accessing US Food Pantries: Implications for Diabetes Self-Management Education and Support
Authors: Wetherill Marianna S. , Williams Mary B. , White Kayla C. , Seligman Hilary K. 
Published: June 2019

Purpose The purpose of this study is to explore the associations between food insecurity (FI) and coping strategies of relevance to diabetes self-management among households of people with diabetes (HHDM) who access US food pantry programs. Methods The authors conducted a secondary data analysis of HHDM accessing US food pantry programs from the Hunger in America 2014 study ( n = 16 826). Weighted analyses included descriptive statistics for household sociodemographics, food pantry service utilization, FI, and coping behaviors. The authors used chi-square and logistic regression to estimate the relationship between FI and coping behaviors. Results Nearly one-half of HHDM reported visiting food pantries at least 6 times in the past year. Most HHDM were FI, with the majority experiencing the most severe form of FI. Over one-fifth of households reported lacking health insurance. The majority of HHDM reported purchasing inexpensive unhealthy foods to ensure household food adequacy, and many reported watering down food and beverages. The odds of reporting these behaviors significantly increased as FI worsened. Conclusion Food pantries represent an opportunity for the delivery of community-based diabetes self-management education and support programs. These programs should be adapted to address population barriers to self-management and to support access to healthful foods and medical care.
The validity of resting energy expenditure predictive equations in adults with central obesity: A sub-sample of the RaNCD cohort study
Authors: Pasdar Yahya , Moradi Shima , Hamzeh Behrooz , Najafi Farid , Nachvak Seyed Mostafa , Mostafai Roghayeh , Abdollahzad Hadi , Nelson Michael 
Published: June 2019

Background: There are different equations for estimating Resting Energy Expenditure (REE). However, these equations were mainly developed based on populations of western countries. Aim: The present study was conducted to determine the validity of REE predictive equations in adults with central obesity. Methods: This study was conducted with 129 adults with central obesity aged 35–65 years, a sub-sample from a large cohort study (Western Iran), Kurdish population. REE was measured by indirect calorimetry (IC) and REE predictive equations. Data were analysed using Pearson correlation, paired t-test, concordance correlation coefficient (CCC), mean squared deviation (MSD), level of agreement (LOA) and Bland-Altman plot. Results: All REE predictive equations had low CCC and high LOA. Although there was no statistically significant difference in the REE measured with IC and the REE predicted with the Food and Agriculture Organization/World Health Organization/United Nations University (FAO/WHO/UNU), FAO/WHO/UNU (Height), Muller and revised Harris-Benedict equations ( P = 0.874, 0.113, 0.619, 0.143 and P = 0.121), other equations had statistically significant differences with IC ( P<0.001). In addition, the highest correlation was found between the IC (r = 0.682). The least difference was related to the FAO/WHO/UNU equation, with an agreement limit of -507.96 to 500.79 Kcal/day, with a 95% confidence interval. Conclusions: The results of this study showed that the FAO/WHO/UNU, Muller, revised Harris-Benedict equations and Mifflin St Jeor equations are relatively acceptable for estimating REE. However, these prediction equations are not good at predicting REE; more precise equations are needed to apply for different ethnic groups.
Application of computer-assisted navigation in mandibular angle osteotomy
Authors: Lin Liqin , Fan Bokai , Yu Zheyuan , Xu Liang , Yuan Jie , Wu Jun , Wei Min 
Published: June 2019

Objective To compare the effectiveness, accuracy, and surgical safety of a navigation technique with those of a traditional technique for intraoperative mandibular angle osteotomy. Methods Forty-three postsurgical patients with mandibular angle hypertrophy who were admitted to our Department from June 2014 to June 2017 were retrospectively reviewed. Of these patients, 23 underwent mandibular angle osteotomy using computer-assisted navigation (navigation group), and 20 underwent osteotomy using a traditional technique (traditional group). Postoperative computed tomography images were analyzed by three-dimensional software. Each patient’s facial proportion indices were measured using Mimics 19.0 software, and statistical comparisons and analyses were performed preoperatively and postoperatively. Results The postoperative facial contour morphology and facial proportion were improved in both groups; the navigation group showed greater improvement. The difference between the predicted and postoperative values was smaller in the navigation group than traditional group. The postoperative shape of the mandibular angle sample was similar to the preoperative predicted shape in the navigation group. No complications occurred in the navigation group, but paresthesia occurred in 17% of patients in the traditional group. Conclusions Mandibular angle osteotomy aided with computer-assisted navigation is more effective, accurate, and safe than the traditional technique and represents a promising clinical approach.