bluuebunny/crossref_metadata_2025_split huggingface dataset:
Endobronchial Ultrasound-guided Transbronchial Needle Aspiration in the Diagnosis of Breast Cancer Thoracic Metastases and Detection of Receptor Discordance
Authors: Argento A. Christine , Gilstrap Daniel L. , Shofer Scott , Mahmood Kamran , Blackwell Kimberly , Wahidi Momen M. 
Published: June 2018

Background:
Metastasis of breast cancer to mediastinal lymph nodes is common and biopsy of suspicious lesions can have important diagnostic, prognostic, and therapeutic implications, particularly with respect to tumor receptor status. Our aim was to show that endobronchial ultrasound-guided transbronchial needle aspiration (EBUS-TBNA) can be used for the diagnosis of metastatic breast cancer and demonstrate reliable receptor evaluation that can result in change of therapy.

Methods:
A retrospective review of consecutive adult patients undergoing EBUS-TBNA from May 2007 to September 2012 was performed. Data collected for patients with a history of breast cancer included patient demographics, tumor pathology, receptor analysis, imaging, and bronchoscopy or surgical results.

Results:
Sixty-four patients with a history of breast cancer aged from 31 to 81 years underwent EBUS-TBNA for the evaluation of mediastinal lymphadenopathy of which 16 patients had not been previously treated for their breast cancer with systemic therapy. Eighty suspicious lymph nodes were biopsied measuring 0.8 to 3.1 cm in diameter. Fifty-nine (92%) patients had diagnostic cytology for malignancy or benign lymphoid tissue. Breast malignancy was identified in 33 (52%) patients and 23 (70%) of these had sufficient samples for the evaluation of estrogen, progesterone, and human epidermal growth factor receptor 2 status. Overall 48% of the patients with receptors analyzed had discordance between the primary tumor and metastasis.

Conclusions:
EBUS-TBNA is a useful tool for evaluating mediastinal lymphadenopathy in patients with a history of breast cancer and can provide information on the concordance of receptors status between the primary tumor and metastatic sites in the thorax.
Effectiveness and Cognitive Changes With Ultrabrief Right Unilateral and Other Forms of Electroconvulsive Therapy in the Treatment of Mania
Authors: Wong Vincent Khung Hoon , Tor Phern Chern , Martin Donel M. , Mok Yee Ming , Loo Colleen 
Published: June 2018

Objective
Electroconvulsive therapy (ECT) is an effective treatment in mania. However, there is little evidence regarding the use of ultrabrief right unilateral (RUL-UB) ECT in treatment of acute manic episodes. The aim of this study was to report on the effectiveness and cognitive profile of ECT in bipolar mania, including a sample who received RUL-UB ECT.

Methods
This naturalistic study retrospectively collected data in 33 patients who received ECT with concurrent antipsychotics for mania between October 1, 2014, and July 30, 2016. Electroconvulsive therapy was given using RUL-UB, brief-pulse right unilateral, or brief-pulse bitemporal approaches, dosed according to the patient's seizure threshold. The Brief Psychiatric Rating Scale (BPRS), Young Mania Rating Scale (YMRS) score, and the Montreal Cognitive Assessment (MoCA) were administered to patients before and after the ECT course.

Results
For the whole sample, there was a significant improvement in BPRS (total score and manic subscale), YMRS, and MoCA total scores across the ECT treatment course. The overall BPRS response rate was 84%, and mean scores decreased from 42.1 (SD, 12.0) to 26.0 (SD, 4.0). The 13 patients who received RUL-UB ECT also showed significant improvement in BPRS, YMRS, and MoCA scores over the treatment course.

Conclusions
Electroconvulsive therapy in general and also specifically RUL-UB ECT were effective in treating mania and also led to global cognitive improvement.
De novo genome and transcriptome analyses provide insights into the biology of the trematode human parasite Fasciolopsis buski
Authors: Biswal Devendra K. , Roychowdhury Tanmoy , Pandey Priyatama , Tandon Veena 
Published: June 2018

AbstractMany trematode parasites cause infection in humans and are thought to be a major public health problem. Their ecological diversity in different regions provides challenging questions on evolution of these organisms. In this report, we perform transcriptome analysis of the giant intestinal fluke, Fasciolopsis buski, using next generation sequencing technology. Short read sequences derived from polyA containing RNA of this organism were assembled into 30677 unigenes that led to the annotation of 12380 genes. Annotation of the assembled transcripts enabled insight into processes and pathways in the intestinal fluke, such as RNAi pathway and energy metabolism. The expressed kinome of the organism was characterized by identifying all protein kinases. We have also carried out whole genome sequencing and used the sequences to confirm absence of some of the genes, not observed in transcriptome data, such as genes involved in fatty acid biosynthetic pathway. Transcriptome data also helped us to identify some of the expressed transposable elements. Though many Long Interspersed elements (LINEs) were identified, only two Short Interspersed Elements (SINEs) were visible. Overall transcriptome and draft genome analysis of F. buski helped us to characterize some its important biological characteristics and provided enormous resources for development of a suitable diagnostic system and anti-parasitic therapeutic molecules.
Assessment of the effects of transthyretin peptide inhibitors inDrosophilamodels of neuropathic ATTR
Authors: Saelices Lorena , Pokrzywa Malgorzata , Pawelek Katarzyna , Eisenberg David S. 
Published: June 2018

AbstractTransthyretin amyloidosis (ATTR) is a fatal disease caused by the systemic aggregation and deposition of transthyretin (TTR), a blood transporter that is mainly produced in the liver. TTR deposits are made of elongated amyloid fibrils that interfere with normal tissue function leading to organ failure. The current standard care for hereditary neuropathic ATTR is liver transplantation or stabilization of the native form of TTR by tafamidis. In our previous work, we explored an additional strategy to halt protein aggregation by capping pre-existing TTR fibrils with structure-based designed peptide inhibitors. Our best peptide inhibitor TabFH2 has shown to be effective at inhibiting not only TTR aggregation but also amyloid seeding driven by fibrils extracted from ATTR patients. Here we evaluate the effects of peptide inhibitors in twoDrosophilamodels of neuropathic ATTR and compared their efficacy with diflunisal, a protein stabilizer currently used off-label for the treatment of ATTR. Our peptide inhibitor TabFH2 was found the most effective treatment, which resulted in motor improvement and the reduction of TTR deposition. Ourin vivostudy shows that inhibiting TTR deposition by peptide inhibitors may represent a therapeutic strategy for halting the progression of ATTR.SIGNIFICANCE STATEMENTFamilial Amyloid Polyneuropathy (FAP) is a hereditary condition caused by the deposition of transthyretin (TTR) in nerves. Marked by progressive deficit and disability, FAP has no cure and limited therapeutic options. The replacement of the production source of mutant TTR by liver transplantation and the stabilization of native TTR by compounds, current lines of treatment, often fail to halt disease progression. Previously, we discovered that two segments of TTR drive amyloid deposition, and designed structure-based peptide inhibitors. Here we evaluate these peptide inhibitors in FAP models ofDrosophila. The most efficient inhibitor resulted in an improvement of locomotor abilities and a reduction of TTR deposition. This study points to peptide inhibitors as a potential therapeutic strategy for FAP.
Predicting cellular aging following exposure to adversity: Does accumulation, recency, or developmental timing of exposure matter?
Authors: Marini Sandro , Davis Kathryn A. , Soare Thomas W. , Suderman Matthew J. , Simpkin Andrew J. , Smith Andrew D.A.C. , Wolf Erika J. , Relton Caroline L. , Dunn Erin C. 
Published: June 2018

AbstractExposure to adversity has been linked to accelerated biological aging, which in turn has been shown to predict numerous health problems, including neuropsychiatric disease. In recent years, measures of DNA methylation-based epigenetic age – known as “epigenetic clocks” – have been used to estimate accelerated epigenetic aging. Yet, few studies have been conducted in children. Using data from the Avon Longitudinal Study of Parents and Children (n=973), we explored the prospective association between repeated measures of childhood exposure to seven types of adversity on epigenetic age assessed at age 7 using the Horvath and Hannum epigenetic clocks. With a Least Angle Regression variable selection procedure, we evaluated the effects of the developmental timing, accumulation, and recency of adversity exposure. We found that exposure to sexual or physical abuse, financial stress, or neighborhood disadvantage during sensitive periods in early and middle childhood best explained variability in the deviation of the Hannum epigenetic age from the chronological age. Secondary sex-stratified analyses identified particularly strong sensitive period effects, such that by age 7, girls who were exposed to abuse at age 3.5 were biologically older than their unexposed peers by almost 2 months. These effects were undetected in analyses comparing children “exposed” versus “unexposed” to adversity. Our results suggest that exposure to adversity may alter methylation processes in ways that perturb normal cellular aging and that these effects may be heightened during sensitive periods in development. Research is needed to demonstrate the effect of accelerated epigenetic aging on negative health outcomes following childhood adversity exposure.
Hazard detection with monocular bioptic telescopes in a driving simulator
Authors: Tang Xiaolan , Bronstad P. Matthew , Spano Lauren , Doherty Amy L. , Moharrer Mojtaba , Peli Eli , Bowers Alex R. 
Published: June 2018

ABSTRACTPurpose:Recently we developed a driving simulator paradigm to evaluate detection of road hazards when using a bioptic telescope and conducted an initial study using normally-sighted observers with simulated vision loss. We now extend our investigation to quantifying the extent to which visually impaired bioptic users are able to use their fellow (non-telescope) eye to compensate for the ring scotoma of a monocular bioptic telescope. We tested the hypothesis that detection rates would be higher in binocular viewing (fellow eye could potentially compensate) than monocular viewing (fellow eye patched so it could not compensate) for pedestrian hazards present in the scene only while the telescope was being used.Methods:Sixteen bioptic telescope users (17-80 y) completed six test drives, including three with binocular viewing interleaved between three with monocular viewing. While driving, they used their own monocular bioptic telescopes to read information on highway road signs (n = 71) and pressed the horn when they saw a pedestrian hazard (n = 50). Twenty-six of the pedestrians were programed to appear, run on the road ahead of the driver for 1s within the ring scotoma and then disappear, within the period when participants were reading signs through the bioptic. The timing of the head movement to look into and out of the bioptic was determined and events were then categorized by whether or not the pedestrian hazard was present in the scene only while using the bioptic.Results:When pedestrian hazards were in the scene only while subjects were using the bioptic to read a sign, detection rates were significantly higher in binocular than monocular viewing (68% vs. 40%). However, when pedestrians when subjects had a brief view of the pedestrian either beforeor after looking through the bioptic, then detection rates did not differ in binocular and monocular viewing (78% vs. 79%). By comparison, when not using the bioptic detection rates were higher (> 90%) and reaction times were shorter (without 0.95 s vs. with 1.25 s)Conclusions:Our results suggest that under binocular viewing conditions the fellow eye was able to compensate for the ring scotoma to a certain extent when subjects used a monocular telescope to read road signs; however, performance was not as good as without the bioptic.
SCMarker: ab initio marker selection for single cell transcriptome profiling
Authors: Wang Fang , Liang Shaoheng , Kumar Tapsi , Navin Nicholas , Chen Ken 
Published: June 2018

AbstractSingle-cell RNA-sequencing data generated by a variety of technologies, such as Drop-seq and SMART-seq, can reveal simultaneously the mRNA transcript levels of thousands of genes in thousands of cells. It is often important to identify informative genes or cell-type-discriminative markers to reduce dimensionality and achieve informative cell typing results. We present an ab initio method that performs unsupervised marker selection by identifying genes that have subpopulation-discriminative expression levels and are co- or mutually-exclusively expressed with other genes. Consistent improvements in cell-type classification and biologically meaningful marker selection are achieved by applying SCMarker on various datasets in multiple tissue types, followed by a variety of clustering algorithms. The source code of SCMarker is publicly available at https://github.com/KChen-lab/SCMarker.Author SummarySingle cell RNA-sequencing technology simultaneously provides the mRNA transcript levels of thousands of genes in thousands of cells. A frequent requirement of single cell expression analysis is the identification of markers which may explain complex cellular states or tissue composition. We propose a new marker selection strategy (SCMarker) to accurately delineate cell types in single cell RNA-sequencing data by identifying genes that have bi/multi-modally distributed expression levels and are co- or mutually-exclusively expressed with some other genes. Our method can determine the cell-type-discriminative markers without referencing to any known transcriptomic profiles or cell ontologies, and consistently achieves accurate cell-type-discriminative marker identification in a variety of scRNA-seq datasets.
Insights into the molecular basis of wooden breast based on comparative analysis of fast- and slow-growth broilers
Authors: Marie Hubert Shawna , Williams Travis J. , Athrey Giridhar 
Published: June 2018

AbstractWooden breast has emerged as an important condition in the poultry industry and affects the breast muscle of commercial meat-type chickens (broilers). Thus far, the condition has been classified as a myopathy, confirmed to not have an infectious origin, with molecular data showing the muscle to be under oxidative stress. The objective in this study was to query the functional origins of wooden breast and reveal its molecular similarities to known conditions based on pathway analyses. To carry out an in-depth comparative analysis, we generated RNAseq data from wooden breast affected birds and incorporated breast specific transcriptomic data from previously published studies. The comparative datasets were constructed from a range of commercial fast-growth and slow-growth varieties. Analysis of high-impact variants identified from transcriptome data provided a list of genes important in cell signaling, cell proliferation, cytoskeletal development, and calcium metabolism as being affected by nucleotide changes. Overlaying the lists of significantly differentially expressed genes with the list of high-impact variants produced a list of twenty genes that suggest an association of mechanistic and functional causes for woody breast; supporting a polygenic basis for this condition. Our study demonstrates that wooden breast shows an age-dependent gene expression pattern, with pathway analysis showing enrichment of glycolysis, cell differentiation, tumor suppression and inhibition, further indicating a complex condition with few similarities to myopathies. In summary, our results indicate the existence of a mechanistic, heritable basis for wooden breast, the drivers of which deserve more in-depth investigation. Additionally, they also suggest wooden breast to be a more complex condition than previously reported, potentially involving other organ systems.
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues
Authors: Wang Dongxue , Eraslan Basak , Wieland Thomas , Hallström Björn , Hopf Thomas , Zolg Daniel Paul , Zecha Jana , Asplund Anna , Li Li-hua , Meng Chen , Frejno Martin , Schmidt Tobias , Schnatbaum Karsten , Wilhelm Mathias , Ponten Frederik , Uhlen Mathias , Gagneur Julien , Hahne Hannes , Kuster Bernhard 
Published: June 2018

AbstractGenome-, transcriptome- and proteome-wide measurements provide valuable insights into how biological systems are regulated. However, even fundamental aspects relating to which human proteins exist, where they are expressed and in which quantities are not fully understood. Therefore, we have generated a systematic, quantitative and deep proteome and transcriptome abundance atlas from 29 paired healthy human tissues from the Human Protein Atlas Project and representing human genes by 17,615 transcripts and 13,664 proteins. The analysis revealed that few proteins show truly tissue-specific expression, that vast differences between mRNA and protein quantities within and across tissues exist and that the expression levels of proteins are often more stable across tissues than those of transcripts. In addition, only ~2% of all exome and ~7% of all mRNA variants could be confidently detected at the protein level showing that proteogenomics remains challenging, requires rigorous validation using synthetic peptides and needs more sophisticated computational methods. Many uses of this resource can be envisaged ranging from the study of gene/protein expression regulation to protein biomarker specificity evaluation to name a few.
How national culture influences individuals’ subjective experience with paradoxical tensions
Authors: Keller Joshua , Wen Chen Erica , Leung Angela K.-Y. 
Published: June 2018

Purpose
The purpose of this paper is to examine how national culture influences individuals’ subjective experience of tension when confronting paradoxical demands that arise during their day-to-day organizational experience. The paper further explores two types of paradoxical demands (task oriented and relational oriented) and two mediating mechanisms (tolerance for contradictions and harmony enhancement concerns) that exhibit contrary cultural effects.

Design/methodology/approach
Drawing from a sample of white-collar workers in China and the USA, the authors first inductively generated scenarios with task-oriented and relational-oriented paradoxical demands and then conducted three studies where participants rated the perceived tension from the scenarios. In Study 1, they examined cross-cultural differences in perceived tension and the mediating role of tolerance for contradictions. In Study 2, they primed Americans with proverbs that promoted tolerance for contradictions. In Study 3, they examined the indirect effects of harmony enhancement concerns in China in relational-oriented paradoxical demands.

Findings
The results found that for task-oriented paradoxical demands, Chinese participants were less likely than American participants to experience tension and the effects were mediated by a higher tolerance for contradictions. Americans exposed to proverbs that promoted tolerance for contradictions also experienced less tension. For relational-oriented paradoxical demands, on the other hand, the authors found no cross-cultural differences, as the indirect effects of a tolerance for contradictions were mitigated by negative indirect effects of greater harmony enhancement concerns.

Originality/value
This paper demonstrates that culture can influence the tension that individuals subjectively experience when they confront paradoxical conditions, suggesting that individuals learn implicitly how to cope with tensions associated with paradoxes from their broader cultural environment. However, the authors also found different cultural effects within different paradoxical conditions, suggesting that the knowledge that individuals acquire from their broader cultural environment is multifaceted.
Influence of multiple endorser-product patterns on purchase intention
Authors: Liang Huai-Liang , Lin Ping-I 
Published: June 2018

Purpose
Enterprises must select the best optimal endorser-product fit in order to maximize the limited budget available for endorsements. Previous studies have determined that the influence of athlete endorsers is greater than is that of celebrity endorsers on consumer attitudes toward sport products. However, different endorsers may possess different levels of influence on products. The paper aims to discuss these issues.

Design/methodology/approach
This study developed two field experiments to investigate the influence of endorser-product fits on consumer purchase intentions. Participants in Study 1 were 295 individuals (220 male consumers, 75 female consumers, M age=32 yr) in the two Baseball Stadiums in Taiwan. Participants in Study 2 were 317 EMBA students (204 men, 113 women, M age=34 yr) at a certain university in Taiwan.

Findings
The results determined no significant moderating effect of celebrity endorser-product fit and purchase intention, whereas athlete endorser-product fit enhanced consumers’ purchase intentions in low product involvement scenarios. In high product involvement scenarios, a moderating relationship between endorser-product fit and purchase intentions was observed. These findings can provide a reference regarding endorsers and product patterns for enterprises to maximize the value of endorsers.

Originality/value
Using the multiple endorser-product patterns, this study provides useful findings in terms of the perceived value of endorser-product and purchase intention. The results of this study can help enterprises to choose the most suitable endorser when they are subject to budget constraints. Detailed descriptions of the expected results and discussion are reported in the text.
Impact of behavioral factors on investors’ financial decisions: case of the Egyptian stock market
Authors: Metawa Noura , Hassan M. Kabir , Metawa Saad , Safa M. Faisal 
Published: June 2018

Purpose
This paper aims to investigate the relationship between investors’ demographic characteristics (age, gender, education level and experience) and their investment decisions through behavioral factors (sentiment, overconfidence, overreaction and underreaction and herd behavior) as mediator variables in the Egyptian stock market.

Design/methodology/approach
This paper collects data from a structured questionnaire survey carried out among 384 local Egyptian, foreign, institutional and individual investors. This paper used a partial multiple regression method to analyze the effect of investors’ demographic characteristics on investment decisions through behavioral factors as the mediator variable.

Findings
Investor sentiment, overreaction and underreaction, overconfidence and herd behavior significantly affect investment decisions. Also, age, gender and the level of education have significant positive effects on investment decisions by investors. Experience does not play a significant role in investment decisions, but as investors gain experience, they tend to overlook the emotional factors.

Practical implications
The findings of this paper would help to understand common behavioral patterns of investors and indicate a path toward the growth of the Egyptian stock market.

Originality/value
There is a lack of research in behavioral finance covering Middle East and North African markets. This paper attempts to fulfill the gap by analyzing behavioral factors in the Egyptian market.