bluuebunny/crossref_metadata_2025_split huggingface dataset:
Indikation zur stationären medizinischen Rehabilitation bei Hausarztpatienten mit chronischen psychischen Erkrankungen und Teilhabebeeinträchtigungen
Authors: Muschalla Beate , Linden Michael 
Published: February 2019

Zusammenfassung
Hintergrund Psychische Erkrankungen gehen vielfach mit Beeinträchtigungen in der Teilhabe am gesellschaftlichen und beruflichen Leben einher. Es ergibt sich daraus häufig die Indikation für eine stationäre Rehabilitation. Derartige Patienten werden langzeitig v. a. von Hausärzten behandelt, die auch wichtige Vermittler bei der Einleitung einer Rehabilitationsmaßnahme sind. Allerdings weisen die Rentenversicherer darauf hin, dass in vielen Fällen von Erwerbsminderungsrenten vorab keine Rehabilitationsmaßnahme durchgeführt wurde. Es stellt sich die Frage, bei welchen Hausarztpatienten eine Rehabilitationsmaßnahme durchgeführt wird oder durchgeführt werden sollte.
Methode Eine prototypisch repräsentative Stichprobe von 307 Patienten aus 40 Hausarztpraxen wurde von einem psychosomatischen Konsiliararzt untersucht, einschließlich (Reha-)Behandlungsvorgeschichte, Krankheitsstatus und Teilhabe. Es wurde geprüft, welche Behandlungsoptionen vorliegen und ob aktuell eine Rehaindikation vorliegt. Bei der Hälfte der Patienten wurden die Hausärzte über die Konsilempfehlung informiert und ein halbes Jahr später nachgefragt, ob diese umgesetzt wurden.
Ergebnisse Bei 64% der Patienten mit chronischen psychischen Erkrankungen war bislang keine psychosomatische Reha erfolgt und auch keine Indikation gegeben. Bei 5,2% wurde bereits einmal eine stationäre psychosomatische Rehabilitation durchgeführt, und jetzt nicht nochmals eine Rehaindikation gestellt. Bei 27% wurde bislang noch keine Rehamaßnahme durchgeführt, wurde jetzt aber konsiliarärztlich erstmals empfohlen. Bei 3,6% war schon einmal eine psychosomatische Reha durchgeführt worden und dennoch vom Konsiliararzt eine Wiederholungsreha als sinnvoll erachtet. Patienten, die bereits einmal in Reha waren sind kränker und haben mehr Fähigkeits- und Teilhabeprobleme. Patienten, bei denen aus Sicht des Konsilarztes erstmalig eine psychosomatische Rehabilitation erwogen werden sollte, haben primär arbeitsbezogene Probleme und nur zu einem geringeren Ausmaß aktuelle psychische und somatische Beeinträchtigungen. Von 35 Patienten, bei denen der Konsiliararzt die Neubeantragung einer psychosomatischen Rehabilitation empfahl, wurde bei 13 im Verlauf der folgenden 6 Monate ein Antrag gestellt.
Schlussfolgerung Da Hausärzte eine zentrale Position bei der Betreuung von Langzeitkranken mit Teilhabebeeinträchtigungen haben, sollten Maßnahmen zur Förderung einer MBOR-Orientierung auch bei Hausärzten erfolgen. Dazu gehört auch eine verbesserte und erleichterte Kooperation bei der Beantragung von Rehabilitationsmaßnahmen inklusive einer transparenten Begutachtung.
Progression of Albuminuria Among Patients with Type 1 Diabetes Mellitus: A Long Term Observational Follow-up Study
Authors: Stratigou Theodora , Vallianou Natalia , Koutroumpi Stavroula , Vlassopoulou Barbara , Apostolou Theofanis , Tsagarakis Stylianos , Ioannidis George 
Published: February 2019

Abstract
Background The purpose of the present study was to determine whether patients with DM1 have shown improvement, stabilization or deterioration of their urine albumin excretion levels during a close follow-up.
Patients and Methods A cohort of 84 patients, 18–76 years of age, a median duration of diabetes of 24 years (1–50 years) and a median follow-up duration of 12 years (1–37 years) were included in the study.
Results Among the 84 patients for whom we had UAE levels at the beginning and by the end of the study, mean glycosylated hemoglobin was statistically significantly decreased during the follow-up period, from 8.02±2.04–7.06±1.05% (p=0.036). Normoalbuminuria was present in 66 patients and remained so in 56 patients while 9 patients progressed to microalbuminuria and one patient to macroalbuminuria by the end of the study. Microalbuminuria was present in 15 patients: regression was observed in 8 patients, and progression in one patient. Regression of macroalbuminuria to microalbuminuria was noted in one patient and to normoalbuminuria was noted in one participant, too.
Conclusions Improvement of glycemic control with close monitoring of DM1 patients together with the appropriate use ACE or AT2 inhibitors and statins, seems to exert nephron-protective potential and to delay or even reverse the presence of micro/macroalbuminuria. This long term follow-up study has demonstrated a statistically significant increase in serum HDLcholesterol levels. The study also revealed that intensively treated diabetes patients may show reductions in serum ALP levels. Whether this finding is related to diabetic nephropathy, NAFLD, or diabetic hepatosclerosis remains to be assessed in future trials.
Extracorporeal Membrane Oxygenation for Diffuse Alveolar Hemorrhage Caused by Idiopathic Pulmonary Hemosiderosis: A Case Report and a Review of the Literature
Authors: Matsumoto Shotaro , Nakagawa Satoshi 
Published: February 2019

AbstractDiffuse alveolar hemorrhage (DAH) is a life-threatening condition presenting with hemoptysis, anemia, and diffuse radiographic pulmonary infiltrates; it causes acute respiratory failure. Idiopathic pulmonary hemosiderosis (IPH) is a rare cause of DAH occurring predominantly in children. Bleeding is often considered to be a contraindication for extracorporeal membrane oxygenation (ECMO) due to systemic anticoagulation. We present an 8-year-old girl with DAH caused by IPH. Unfractionated heparin was administered to maintain an activated clotting time of 150 to 180 seconds. The DAH resolved with immunosuppressive therapy, and the patient survived to decannulation. ECMO may be applied as a rescue therapy for DAH even with systemic anticoagulation.
DIFFpop: a stochastic computational approach to simulate differentiation hierarchies with single cell barcoding
Authors: Ferlic Jeremy , Shi Jiantao , McDonald Thomas O , Michor Franziska 
Published: February 2019

Abstract

Summary
DIFFpop is an R package designed to simulate cellular differentiation hierarchies using either exponentially-expanding or fixed population sizes. The software includes functionalities to simulate clonal evolution due to the emergence of driver mutations under the infinite-allele assumption as well as options for simulation and analysis of single cell barcoding and labeling data. The software uses the Gillespie Stochastic Simulation Algorithm and a modification of expanding or fixed-size stochastic process models expanded to a large number of cell types and scenarios.

Availability and implementation
DIFFpop is available as an R-package along with vignettes on Github (https://github.com/ferlicjl/diffpop).

Supplementary information
Supplementary data are available at Bioinformatics online.
metagenomeFeatures: an R package for working with 16S rRNA reference databases and marker-gene survey feature data
Authors: Olson Nathan D , Shah Nidhi , Kancherla Jayaram , Wagner Justin , Paulson Joseph N , Corrada Bravo Hector 
Published: February 2019

Abstract

Summary
We developed the metagenomeFeatures R Bioconductor package along with annotation packages for three 16S rRNA databases (Greengenes, RDP and SILVA) to facilitate working with 16S rRNA databases and marker-gene survey feature data. The metagenomeFeatures package defines two classes, MgDb for working with 16S rRNA sequence databases, and mgFeatures for marker-gene survey feature data. The associated annotation packages provide a consistent interface to the different databases facilitating database comparison and exploration. The mgFeatures-class represents a crucial step in the development of a common data structure for working with 16S marker-gene survey data in R.

Availability and implementation
https://bioconductor.org/packages/release/bioc/html/metagenomeFeatures.html.

Supplementary information
Supplementary material is available at Bioinformatics online.
FORESEE: a tool for the systematic comparison of translational drug response modeling pipelines
Authors: Turnhoff Lisa-Katrin , Hadizadeh Esfahani Ali , Montazeri Maryam , Kusch Nina , Schuppert Andreas 
Published: February 2019

Abstract

Summary
Translational models that utilize omics data generated in in vitro studies to predict the drug efficacy of anti-cancer compounds in patients are highly distinct, which complicates the benchmarking process for new computational approaches. In reaction to this, we introduce the uniFied translatiOnal dRug rESponsE prEdiction platform FORESEE, an open-source R-package. FORESEE not only provides a uniform data format for public cell line and patient datasets, but also establishes a standardized environment for drug response prediction pipelines, incorporating various state-of-the-art pre-processing methods, model training algorithms and validation techniques. The modular implementation of individual elements of the pipeline facilitates a straightforward development of combinatorial models, which can be used to re-evaluate and improve already existing pipelines as well as to develop new ones.

Availability and implementation
FORESEE is licensed under GNU General Public License v3.0 and available at https://github.com/JRC-COMBINE/FORESEE and https://doi.org/10.17605/OSF.IO/RF6QK, and provides vignettes for documentation and application both online and in the Supplementary Files 2 and 3.

Supplementary information
Supplementary data are available at Bioinformatics online.
Sperm selection methods in the 21st century
Authors: Vaughan Denis A , Sakkas Denny 
Published: February 2019

AbstractNatural sperm selection in humans is a rigorous process resulting in the highest quality sperm reaching, and having an opportunity to fertilize, the oocyte. Relative to other mammalian species, the human ejaculate consists of a heterogeneous pool of sperm, varying in characteristics such as shape, size, and motility. Semen preparation in assisted reproductive technologies (ART) has long been performed using either a simple swim-up method or density gradients. Both methodologies provide highly motile sperm populations; however neither replicates the complex selection processes seen in nature. A number of methods have now been developed to mimic some of the natural selection processes that exist in the female reproductive tract. These methods attempt to select a better individual, or population of, spermatozoa when compared to classical methods of preparation. Of the approaches already tested, platforms based upon sperm membrane markers, such as hyaluronan or annexin V, have been used to either select or deselect sperm with varied success. One technology that utilizes the size, motility, and other characteristics of sperm to improve both semen analysis and sperm selection is microfluidics. Here, we sought to review the efficacy of both available and emerging techniques that aim to improve the quality of the sperm pool available for use in ART.
The Unsolved Link of Genetic Markers and Crohn’s Disease Progression: A North American Cohort Experience
Authors: O’Donnell Sarah , Borowski Krzysztof , Espin-Garcia Osvaldo , Milgrom Raquel , Kabakchiev Boyko , Stempak Joanne , Panikkath Deepah , Eksteen Bertus , Xu Wei , Steinhart A Hillary , Kaplan Gilaad G , McGovern Dermot P B , Silverberg Mark S 
Published: February 2019

Abstract

Background
While progress has been made in the identification of Crohn’s disease (CD) susceptibility loci, efforts to identify a genetic basis for disease progression have been less fruitful. The specific aim of this study was to build upon the major genetic advances made in IBD by applying genome-wide technologies toward predicting disease progression in CD.

Methods
Crohn’s disease cases (n = 1495) from 3 IBD centers were reviewed by experienced physicians. Clinical and demographic details were collected, focusing on the time to first disease progression. Genome-wide association (GWA) analysis was carried out on 3 clinical outcomes: 1) time to disease progression; 2) time to first abdominal surgery; and 3) a binary analysis of indolent vs progressive disease. Cox-proportional hazard and logistic regression models were used.

Results
A GWA analysis was carried out to determine any genetic variation associated with the time to disease progression; 662 cases were included after quality control (QC) and exclusion of any cases with B2/B3 behavior at baseline (n = 450). There were 1360 cases included after QC in the time to abdominal surgery analysis. No variant reached genome-wide significance in any of the 3 analyses performed. Eight known IBD susceptibility single nucleotide polymorphism (SNPs) were found to be associated with time-to-abdominal surgery SMAD3 (rs17293632), CCR6 (rs1819333), CNTF (rs11229555), TSPAN14 (rs7097656), CARD9 (rs10781499), IPMK (rs2790216), IL10 (rs3024505), and SMURF1 (rs9297145) (P < 0.05).

Conclusion
Our GWA study failed to show any SNP-phenotype association reaching genome-wide significance. It is likely that multiple variables affect disease progression, with genetic factors potentially having only a small effect size.
Solitary, Well-Circumscribed, T2 Hyperintense Masses on MRI Have Very Low Malignancy Rates
Authors: Grimm Lars J , Enslow Michael , Ghate Sujata V 
Published: February 2019

AbstractObjectiveThe purpose of this study was to determine the malignancy rate of solitary MRI masses with benign BI-RADS descriptors.MethodsA retrospective review was conducted of all breast MRI reports that described a mass with a final BI-RADS assessment of 3, 4, or 5, from February 1, 2005, through February 28, 2014 (n = 1510). Studies were excluded if the mass was not solitary, did not meet formal criteria for a mass, or had classically suspicious BI-RADS features (e.g., washout kinetics, and spiculated margin). The masses were reviewed by 2 fellowship-trained breast radiologists who reported consensus BI-RADS mass margin, shape, internal-enhancement, and kinetics descriptors. The T2 signal was reported as hyperintense if equal to or greater than the signal intensity of the axillary lymph nodes. Pathology results or 2 years of imaging follow-up were recorded. Comparisons were made between mass descriptors and clinical outcomes.ResultsThere were 127 women with 127 masses available for analysis. There were 76 (60%) masses that underwent biopsy for an overall malignancy rate of 4% (5/127): 2 ductal carcinoma in situ (DCIS) and 3 invasive ductal carcinoma. The malignancy rate was 2% (1/59) for T2 hyperintense solitary masses. The malignancy rate was greater than 2% for all of the following BI-RADS descriptors: oval (3%, 3/88), round (5%, 2/39), circumscribed (4%, 5/127), homogeneous (4%, 3/74), and dark internal septations (4%, 2/44).ConclusionT2 hyperintense solitary masses without associated suspicious features have a low malignancy rate, and they could be considered for a BI-RADS 3 final assessment.
Divergent Switchgrass Cultivars Modify Cereal Aphid Transcriptomes
Authors: Koch Kyle G , Scully Erin D , Palmer Nathan A , Geib Scott M , Sarath Gautam , Heng-Moss Tiffany , Bradshaw Jeffrey D 
Published: February 2019

Abstract
Schizaphis graminum Rondani (Hemiptera: Aphididae) and Sipha flava Forbes (Hemiptera: Aphididae) are two common pests of bioenergy grasses. Despite the fact that they are both considered generalists, they differ in their ability to colonize Panicum virgatum cultivars. For example, S. flava colonizes both P. virgatum cv. Summer and P. virgatum cv. Kanlow whereas S. graminum can only colonize Summer. To study the molecular responses of these aphids to these two switchgrass cultivars, we generated de novo transcriptome assemblies and compared the expression profiles of aphids feeding on both cultivars to profiles associated with feeding on a highly susceptible sorghum host and a starvation treatment. Transcriptome assemblies yielded 8,428 and 8,866 high-quality unigenes for S. graminum and S. flava, respectively. Overall, S. graminum responded strongly to all three treatments after 12 h with an upregulation of unigenes coding for detoxification enzymes while major transcriptional changes were not observed in S. flava until 24 h. Additionally, while the two aphids responded to the switchgrass feeding treatment by downregulating unigenes linked to growth and development, their responses to Summer and Kanlow diverged significantly. Schizaphis graminum upregulated more unigenes coding for stress-responsive enzymes in the Summer treatment compared to S. flava; however, many of these unigenes were actually downregulated in the Kanlow treatment. In contrast, S. flava appeared capable of overcoming host defenses by upregulating a larger number of unigenes coding for detoxification enzymes in the Kanlow treatment. Overall, these findings are consistent with previous studies on the interactions of these two cereal aphids to divergent switchgrass hosts.
A GMM Skewness and Kurtosis Ratio Test for Higher Moment Dependence
Authors: Wong Woon K 
Published: February 2019

AbstractThis article extends the variance ratio test of Lo and MacKinlay (1988) to tests of skewness and kurtosis ratios using the generalized methods of moments. In particular, overlapping observations are used in which dependencies are explicitly modeled to make the tests more powerful and have better size properties. The proposed higher-order ratio tests can be useful in risk management where risk models are estimated using daily data but multiperiod forecasts of tail risks are required for the determination of risk capital. Application of the tests finds significant higher moment dependence in the U.S. stock market returns.
Mapping structure and morphology of amorphous organic thin films by 4D-STEM pair distribution function analysis
Authors: Mu Xiaoke , Mazilkin Andrey , Sprau Christian , Colsmann Alexander , Kübel Christian 
Published: February 2019

AbstractImaging the phase distribution of amorphous or partially crystalline organic materials at the nanoscale and analyzing the local atomic structure of individual phases has been a long-time challenge. We propose a new approach for imaging the phase distribution and for analyzing the local structure of organic materials based on scanning transmission electron diffraction (4D-STEM) pair distribution function analysis (PDF). We show that electron diffraction based PDF analysis can be used to characterize the short- and medium-range order in aperiodically packed organic molecules. Moreover, we show that 4D-STEM-PDF does not only provide local structural information with a resolution of a few nanometers, but can also be used to image the phase distribution of organic composites. The distinct and thickness independent contrast of the phase image is generated by utilizing the structural difference between the different types of molecules and taking advantage of the dose efficiency due to use of the full scattering signal. Therefore, this approach is particularly interesting for imaging unstained organic or polymer composites without distinct valence states for electron energy loss spectroscopy. We explore the possibilities of this new approach using [6,6]-phenyl-C61- butyric acid methyl ester (PC61BM) and poly(3-hexylthiophene-2,5-diyl) (P3HT) as the archetypical and best-investigated semiconductor blend used in organic solar cells, compare our phase distribution with virtual dark-field analysis and validate our approach by electron energy loss spectroscopy.
Treatment-induced brain tissue necrosis: a clinical challenge in neuro-oncology
Authors: Winter Sebastian F , Loebel Franziska , Loeffler Jay , Batchelor Tracy T , Martinez-Lage Maria , Vajkoczy Peter , Dietrich Jorg 
Published: February 2019

Abstract
Cancer therapy-induced adverse effects on the brain are a major challenge in neuro-oncology. Brain tissue necrosis (treatment necrosis [TN]) as a consequence of brain directed cancer therapy remains an insufficiently characterized condition with diagnostic and therapeutic difficulties and is frequently associated with significant patient morbidity.
A better understanding of the underlying mechanisms, improvement of diagnostic tools, development of preventive strategies, and implementation of evidence-based therapeutic practices are pivotal to improve patient management. In this comprehensive review, we address existing challenges associated with current TN-related clinical and research practices and highlight unanswered questions and areas in need of further research with the ultimate goal to improve management of patients affected by this important neuro-oncological condition.
A National Snapshot Detailing the Impact of Parkinson's Disease on the Cost and Outcome Profiles of Fusion Procedures for Cervical Myelopathy
Authors: Martini Michael L , Deutsch Brian C , Neifert Sean N , Caridi John M 
Published: February 2019

Abstract

BACKGROUND
Studies suggest a higher prevalence of cervical deformities in Parkinson's Disease (PD) patients who predispose to cervical myelopathy (CM). Despite the profound effect of CM on function and quality of life, no study has assessed the influence of PD on costs and outcomes of fusion procedures for CM.

OBJECTIVE
To conduct the first national-level study that provides a snapshot of the current outcome and cost profiles for different fusion procedures for CM in PD and non-PD populations.

METHODS
Patients with or without PD who underwent cervical decompression and fusion anteriorly (ACDF), posteriorly (PCDF), or both (Frontback), for CM were identified from the 2013 to 2014 National Inpatient Sample using International Classification of Disease codes.

RESULTS
A total of 75 870 CM patients were identified, with 535 patients (0.71%) also having PD. Although no difference existed between in-hospital mortality rates, overall complication rates were higher in PD patients (38.32% vs 22.05%; P < .001). PD patients had higher odds of pulmonary (P = .002), circulatory (P = .020), and hematological complications (P = .035). Following ACDFs, PD patients had higher odds of complications (P = .035), extended hospitalization (P = .026), greater total charges (P = .003), and nonhome discharge (P = .006). Although PCDFs and Frontbacks produced higher overall complication rates for both populations than ACDFs, PD status did not affect complication odds for these procedures.

CONCLUSION
PD may increase risk for certain adverse outcomes depending on procedure type. This study provides data with implications in healthcare delivery, policy, and research regarding a patient population that will grow as our population ages and justifies further investigation in future prospective studies.
Can planets exist in the habitable zone of 55 Cancri?
Authors: Satyal Suman , Cuntz Manfred 
Published: February 2019

Abstract
The aim of our study is to explore the possible existence of Earth-mass planets in the habitable zone of 55 Cancri, an effort pursued based on detailed orbital stability simulations. This star is known to possess (at least) five planets with masses ranging between super-Earth and Jupiter-type. Additionally, according to observational constraints, there is a space without planets between ∼0.8 au and ∼5.7 au, and it is noted that the inner part of this gap largely coincides with 55 Cnc’s habitable zone—a sincere motivation for the search of potentially habitable planets. It has previously been argued that terrestrial habitable planets are able to exist in the 55 Cnc system, including a planet at ∼1.5 au. We explore this possibility through employing sets of orbital integrations and assuming an integration time of 50 Myr. We found that the possibility of Earth-mass planets in the system’s habitable zone strongly depends on the adopted system parameters, notably the eccentricity of 55 Cnc-f, which is controversial as both a high value (e ∼ 0.32) and a low value (e ∼ 0.08) have previously been deduced. In the case where the low value, the more plausible and most recent value, is adopted (together with other updates for the system parameters), Earth-mass planets would be able to exist in the gap between 1.0 au and 2.0 au, thus implying the possibility of habitable system planets. Thus, 55 Cnc should be considered a favorable target for future habitable planet search missions.