bluuebunny/crossref_metadata_2025_split huggingface dataset:
SCIFER: approach for analysis of LINE-1 mRNA expression in single cells at a single locus resolution
Authors: Stow Emily C. , Baddoo Melody , LaRosa Alexis J. , LaCoste Dawn , Deininger Prescott , Belancio Victoria 
Published: August 2022

Abstract
Background
Endogenous expression of L1 mRNA is the first step in an L1-initiated mutagenesis event. However, the contribution of individual cell types to patterns of organ-specific L1 mRNA expression remains poorly understood, especially at single-locus resolution. We introduce a method to quantify expression of mobile elements at the single-locus resolution in scRNA-Seq datasets called Single Cell Implementation to Find Expressed Retrotransposons (SCIFER). SCIFER aligns scRNA-Seq reads uniquely to the genome and extracts alignments from single cells by cell-specific barcodes. In contrast to the alignment performed using default parameters, this alignment strategy increases accuracy of L1 locus identification by retaining only reads that are uniquely mapped to individual L1 loci. L1 loci expressed in single cells are unambiguously identified using a list of L1 loci manually validated to be expressed in bulk RNA-Seq datasets generated from the same cell line or organ.

Results
Validation of SCIFER using MCF7 cells determined technical parameters needed for optimal detection of L1 expression in single cells. We show that unsupervised analysis of L1 expression in single cells exponentially inflates both the levels of L1 expression and the number of expressed L1 loci. Application of SCIFER to analysis of scRNA-Seq datasets generated from mouse and human testes identified that mouse Round Spermatids and human Spermatogonia, Spermatocytes, and Round Spermatids express the highest levels of L1 mRNA. Our analysis also determined that similar to mice, human testes from unrelated individuals share as much as 80% of expressed L1 loci. Additionally, SCIFER determined that individual mouse cells co-express different L1 sub-families and different families of transposable elements, experimentally validating their co-existence in the same cell.

Conclusions
SCIFER detects mRNA expression of individual L1 loci in single cells. It is compatible with scRNA-Seq datasets prepared using traditional sequencing methods. Validated using a human cancer cell line, SCIFER analysis of mouse and human testes identified key cell types supporting L1 expression in these species. This will further our understanding of differences and similarities in endogenous L1 mRNA expression patterns in mice and humans.
An improved target tracking scheme based on MC-MPMC method for mobile wireless sensor networks
Authors: Lv Chunfeng , Zhu Jianping , Tao Zhengsu , Pi Yihai 
Published: August 2022

AbstractTarget tracking is crucial to many applications in wireless sensor networks (WSNs). Existing tracking schemes used in WSNs can basically be classified two categories, clustering and predicting. Considering network clustering consumes much energy for limited-energy WSNs, a predicting target tracking scheme is proposed called MC-MPMC (measurement compensation-based mixture population Monte Carlo) which tracks the target based on predicted locations in this work. Adaptive mixture PMC model for generating proposals varying from each iteration is proposed to guarantee sampling diversity. And also, extra measurements or observations generating method is introduced to compensate missed prediction locations or false estimations, avoiding tracking behavior degradation. Firstly, samples drawn from the proposals of next iteration can be generated by a mixture method to avoid sample degeneracy. Secondly, sample weights are jointly computed based on adaptive fusion of compensation measurement and true measurements. Thirdly, HTC method is combined to MC-MPMC scheme to decrease energy consumption in WSNs. Then, the proposed method is verified through comprehensive experiments about tracking error, delay and consumption predictions. Moreover, performance comparisons of MC-MPMC with other tracking schemes are also proposed.
Validation of a shortened version of the Eating Attitude Test (EAT-7) in the Arabic language
Authors: Fekih-Romdhane Feten , Obeid Sahar , Malaeb Diana , Hallit Rabih , Hallit Souheil 
Published: August 2022

Abstract
Background
Eating disorders are quite common around the world, disabling, and potentially lethal; but they remain so far under-captured and subject to substantial delays in treatment. We propose through this study to develop and validate a shortened version of the Eating Attitude Test (EAT) in the Arabic language among non-clinical Arabic-speaking Lebanese participants from the general population.

Methods
1175 participants enrolled in this cross-sectional study, based on an online survey. The Eating Attitude Test-26 items, Drunkorexia Motives and Behaviors Scales and Lebanese Anxiety Scale were used to answer our objectives.

Results
Our results confirmed validity and reliability of the questionnaire. Exploratory Factor Analyses showed that all items converged over a one-factor solution, with an excellent Cronbach’s alpha (> 0.9). Confirmatory Factor Analyses found that the 7-item-version yielded excellent model fit. The instrument also revealed strong evidence of divergent validity, being highly correlated with measures of anxiety and drunkorexia motives and behaviors.

Discussion
Findings provided evidence supporting that the Arabic seven-item one-factor structure of the scale (EAT-7) is valid, reliable, and can be used in clinical practice, preventive interventions and future eating disorders research in Arab settings.
Cost-effectiveness of implementing a digital psychosocial intervention for patients with psychotic spectrum disorders in low- and middle-income countries in Southeast Europe: Economic evaluation alongside a cluster randomised trial
Authors: Feng Y. , Roukas C. , Russo M. , Repišti S. , Džubur Kulenović A. , Injac Stevović L. , Konjufca J. , Markovska-Simoska S. , Novotni L. , Ristić I. , Smajić-Mešević E. , Uka F. , Zebić M. , Vončina L. , Bobinac A. , Jovanović N. 
Published: August 2022

Abstract

Background
DIALOG+ is a digital psychosocial intervention aimed at making routine meetings between patients and clinicians therapeutically effective. This study aimed to evaluate the cost-effectiveness of implementing DIALOG+ treatment for patients with psychotic disorders in five low- and middle-income countries in Southeast Europe alongside a cluster randomised trial.

Methods
Resource use and quality of life data were collected alongside the multi-country cluster randomised trial of 468 participants with psychotic disorders. Due to COVID-19 interruptions of the trial’s original 12-month intervention period, adjusted costs and quality-adjusted life years (QALYs) were estimated at the participant level using a mixed-effects model over the first 6 months only. We estimated the incremental cost-effectiveness ratio (ICER) with uncertainty presented using a cost-effectiveness plane and a cost-effectiveness acceptability curve. Seven sensitivity analyses were conducted to check the robustness of the findings.

Results
The average cost of delivering DIALOG+ was €91.11 per participant. DIALOG+ was associated with an incremental health gain of 0.0032 QALYs (95% CI –0.0015, 0.0079), incremental costs of €84.17 (95% CI –8.18, 176.52), and an estimated ICER of €26,347.61. The probability of DIALOG+ being cost-effective against three times the weighted gross domestic product (GDP) per capita for the five participating countries was 18.9%.

Conclusion
Evidence from the cost-effectiveness analyses in this study suggested that DIALOG+ involved relatively low costs. However, it is not likely to be cost-effective in the five participating countries compared with standard care against a willingness-to-pay threshold of three times the weighted GDP per capita per QALY gained.
Modeling Spitz melanoma in zebrafish using sequential mutagenesis
Authors: Mito Jeffrey K. , Weber Margaret C. , Corbin Alexandra , Murphy George F. , Zon Leonard I. 
Published: August 2022

ABSTRACT
Spitz neoplasms are a diverse group of molecularly and histologically defined melanocytic tumors with varying biologic potentials. The precise classification of Spitz neoplasms can be challenging. Recent studies have revealed recurrent fusions involving multiple kinases in a large proportion of Spitz tumors. In this study, we generated a transgenic zebrafish model of Spitz melanoma using a previously identified ZCCHC8-ROS1 fusion gene. Animals developed grossly apparent melanocytic proliferations as early as 3 weeks of age and overt melanoma as early as 5 weeks. By 7 weeks, ZCCHC8-ROS1 induced a histologic spectrum of neoplasms ranging from hyperpigmented patches to melanoma. Given the swift onset of these tumors during development, we extended this approach into adult fish using a recently described electroporation technique. Tissue-specific expression of ZCCHC8-ROS1 in adults led to melanocyte expansion without overt progression to melanoma. Subsequent electroporation with tissue-specific CRISPR, targeting only tp53 was sufficient to induce transformation to melanoma. Our model exhibits the use of sequential mutagenesis in the adult zebrafish, and demonstrates that ZCCHC8-ROS1 induces a spectrum of melanocytic lesions that closely mimics human Spitz neoplasms.
Quality reporting of radiomics analysis in pituitary adenomas: promoting clinical translation
Authors: Won So Yeon , Lee Narae , Park Yae Won , Ahn Sung Soo , Ku Cheol Ryong , Kim Eui Hyun , Lee Seung-Koo 
Published: August 2022

Objective: To evaluate the quality of radiomics studies on pituitary adenoma according to the radiomics quality score (RQS) and Transparent Reporting of a multivariable prediction model for Individual Prognosis Or Diagnosis (TRIPOD). Methods: PubMed MEDLINE and EMBASE were searched to identify radiomics studies on pituitary adenomas. From 138 articles, 20 relevant original research articles were included. Studies were scored based on RQS and TRIPOD guidelines. Results: Most included studies did not perform pre-processing; isovoxel resampling, signal intensity normalization, and N4 bias field correction were performed in only five (25%), eight (40%), and four (20%) studies, respectively. Only two (10%) studies performed external validation. The mean RQS and basic adherence rate were 2.8 (7.6%) and 26.6%, respectively. There was a low adherence rate for conducting comparison to “gold-standard” (20%), multiple segmentation (25%), and stating potential clinical utility (25%). No study stated the biological correlation, conducted a test–retest or phantom study, was a prospective study, conducted cost-effectiveness analysis, or provided open-source code and data, which resulted in low-level evidence. The overall adherence rate for TRIPOD was 54.6%, and it was low for reporting the title (5%), abstract (0%), explaining the sample size (10%), and suggesting a full prediction model (5%). Conclusion: The radiomics reporting quality for pituitary adenoma is insufficient. Pre-processing is required for feature reproducibility and external validation is necessary. Feature reproducibility, clinical utility demonstration, higher evidence levels, and open science are required. Titles, abstracts, and full prediction model suggestions should be improved for transparent reporting. Advances in knowledge: Despite the rapidly increasing number of radiomics researches on pituitary adenoma, the quality of science in these researches is unknown. Our study indicates that the overall quality needs to be significantly improved in radiomics studies on pituitary adenoma, and since the concept of RQS and IBSI is still unfamiliar to clinicians and radiologist researchers, our study may help to reach higher technical and clinical impact in the future study.
The effect of cumulative early life adversities, and their differential mediation through hair cortisol levels, on childhood growth and cognition: Three-year follow-up of a birth cohort in rural India
Authors: Mukherjee Debarati , Bhopal Sunil , Bhavnani Supriya , Sharma Kamal Kant , Roy Reetabrata , Divan Gauri , Mandal Siddhartha , Soremekun Seyi , Kirkwood Betty , Patel Vikram 
Published: August 2022

Background: Early adversities negatively impact children’s growth and development, putatively mediated by chronic physiological stress resulting from these adverse experiences. We aimed to estimate the associations between prospectively measured cumulative early adversities with growth and cognition outcomes in rural Indian preschool children and to explore if hair cortisol concentration (HCC), a measure of chronic physiological stress, mediated the above association. Methods: Participants were recruited from the SPRING cRCT in rural Haryana, India. Adversities experienced through pregnancy and the first year of life were measured in 1304 children at 12-months. HCC was measured at 12-months in 845 of them. Outcome measures were height-for-age-z-score (HAZ), weight-for-age-z-score (WAZ) and cognition, measured in 1124 children followed up at 3-years. Cognition was measured using a validated tablet-based gamified tool named DEEP. Results: Cumulative adversities at 12-months were inversely associated with all outcomes measures at 3-years. Each unit increase in adversity score led to a decrease of 0·08 units [95% confidence interval (CI):-0·11,-0·06] in DEEP-z-score; 0·12 units [-0·14,-0·09] in HAZ and 0·11 units [-0·13,-0·09] in WAZ. 12-month HCC was inversely associated with DEEP-z-score (-0·09 [-0·16,-0·01]) and HAZ (-0·12 [-0·20,-0·04]), but the association with WAZ was not significant (p = 0·142). HCC marginally mediated the association between cumulative adversities and HAZ (proportion mediated = 0·06, p = 0·014). No evidence of mediation was found for the cognition outcome. Conclusions: Cumulative early adversities and HCC measured at 12-months have persistent negative effects on child growth and cognition at 3-years. The association between adversities and these two child outcomes were differentially mediated by HCC, with no evidence of mediation observed for the cognitive outcome. Future studies should focus on other stress biomarkers, and alternate pathways such as the immune, inflammation and cellular ageing pathways, to unpack key mechanisms underlying the established relationship between early adversities and poor child outcomes.
Learning to Successfully Hire in Online Labor Markets
Authors: Kokkodis Marios , Ransbotham Sam 
Published: August 2022

Hiring in online labor markets involves considerable uncertainty: which hiring choices are more likely to yield successful outcomes and how do employers adjust their hiring behaviors to make such choices? We argue that employers will initially explore the value of available information. When employers observe successful outcomes, they will keep reinforcing their hiring strategies; but when the outcomes are unsuccessful, employers will adjust their hiring behaviors. To investigate these dynamics, we propose a two-component framework that links hiring choices with task outcomes. The framework’s first component, a Hidden Markov Model, captures how employers transition from unsuccessful to successful hiring decisions. The framework’s second component, a conditional logit model, estimates employer hiring choices. Analysis of 238,364 hiring decisions from a large online labor market shows that, often, employers initially explore cheaper contractors with a lower reputation. When these options result in unsuccessful outcomes, employers learn and adjust their hiring behaviors to rely more on reputable contractors who are not as cheap. Such hiring tends to be successful, guiding employers to reinforce their hiring processes. As a result, the market observes employers transition from cheaper, lower-reputation options with poorer performance to more expensive reputable options with better performance. We attribute part of this behavior to employer confidence and risk attitude, which can change over time. This work is the first to investigate how employers learn to make successful hiring choices in online labor markets. As a result, it provides platform managers with new knowledge and analytics tools to target employer interventions. This paper was accepted by Anandhi Bharadwaj, information systems. Supplemental Material: The e-companion is available at https://doi.org/10.1287/mnsc.2022.4426 .
Clinical and Dermatoscopic Signs of Micromelanoma - A Review of the Literature
Authors: Reķe Agnese , Balcere Alise 
Published: August 2022

Introduction: Micromelanoma, also called a small-sized melanoma, in the scientific literature is commonly defined as a skin melanoma with a diameter of 3 mm or less, although definitions of 5 mm or less can also be found.
Objectives: The aim of this study was to identify the clinical and dermatoscopic features that characterize skin micromelanomas.
Materials and Methods: The study was carried out by searching relevant articles using keyword “micromelanoma” in the following electronic databases – PubMed, Wiley, Scopus, Web of science, ScienceDirect, EBSCOhost, and Google Scholar. The search was performed in the period from January 20th, 2022, to January 31st, 2022. The search had a limit of English language.
Results: According to the published literature, micromelanomas are most often diagnosed in women, since in reviewed studies 43 – 81.8% of patients were women. People diagnosed with micromelanoma are mostly in the age group of 40 to 59 years. Clinically micromelanomas are most frequently seen as dark or light brown macules in diameter of 3 – 4 mm located on the lower extremities and as lesions that had developed de novo. The most common diagnostic methods used for micromelanoma diagnostics are physical skin examination and dermatoscopy – polarized light and nonpolarized light. The most widely used diagnostic dermatoscopic algorithm is the 7 – point checklist. Diagnostic accuracy shown for dermatoscopic algorithms is in the range of 48.2 – 65.9%, showing that not all micromelanomas can be diagnosed with diagnostic dermatoscopic algorithms and other characteristics must be considered. The dermatoscopic pattern for micromelanomas is variable – spitzoid, globular, reticular, and structureless, of which spitzoid is the most common. The most common melanoma-specific dermatoscopic signs seen in micromelanomas are irregular dots/globules (25.0 – 88.4% of micromelanomas), atypical network (40.0 – 77.0% of micromelanomas), atypical blotches (16.6 – 38.4% of micromelanomas), and pseudopods (3.4 – 46.0% of micromelanomas). Less frequently other melanoma specific dermatoscopic features – regression, blue – white veil and asymmetric multicomponent dermatoscopic pattern can be observed. Micromelanomas often present asymmetry in structure and color and frequently have two colors dermatoscopically. Micromelanomas rarer than larger melanomas have atypical vessels – dotted, linear, or polymorphous (3.8 – 32.0% of micromelanomas).
Conclusions: Micromelanoma can develop in people of any age and gender, but most commonly it develops after the age of 40 and in women. Micromelanoma develops mainly as a de novo lesion on the lower extremities and has a diameter of 1 to 5 mm at the time of presentation. Dermatoscopically, micromelanomas often have melanoma-specific dermatoscopic features, and therefore dermatoscopy aids in diagnosing micromelanoma.
Diversity of Gyrinops versteegii from several agarwood plantation on Lombok Island (Indonesia) as raw material of Gyrinops tea
Authors: WANGIYANA I GDE ADI SURYAWAN , SUPRIADI SUPRIADI , NIKMATULLAH ALUH , SUNARPI SUNARPI , TRIANDINI AGUNG AYU HARI 
Published: August 2022

Abstract. Wangiyana IGAS, Supriadi, Nikmatullah A, Sunarpi, Triandini IGAAH. 2021. Diversity of Gyrinops versteegii from several agarwood plantation on Lombok Island (Indonesia) as raw material of Gyrinops tea. Biodiversitas 23: 178-186. The purpose of this research is to examine the diversity of Gyrinops versteegii as a raw material of agarwood Gyrinops tea based on morphology, phytochemical, and molecular characters. G. versteegii samples were taken from 5 agarwood plantation on Lombok Island: Lingsar, Rarung, Mataram, Kekait, and Pejaring. Variation of G. versteegii stem, leaves, and fruit was the morphology character observed in this study. Qualitative phytochemical screening, quantitative tannin concentration, and the hedonic score of Gyrinops tea were the essential phytochemical character in this study. DNA fingerprinting and RAPD analysis were the molecular characters of this study. All of those characters were used in numeric-phenetics analysis to construct a dendrogram. MVSP program with UPGMA algorithm as clustering method and Simple Matching Coefficient for similarity analysis was used to construct dendrogram. The result has shown variation topology of dendrogram based on morphology, phytochemical, molecular, and combination character. However, all dendrograms had the same number of clusters and cluster members. G. versteegii kekait and G. versteegii Pejaring were grouped to cluster 1 while G. versteegii Rarung and G. versteegii Mataram were grouped to cluster 2. G. versteegii Lingsar was grouped later on the node after cluster 1 or 2. It could be concluded that G. versteegii from Lombok Island Plantation could be divided into three different cluster groups based on the variation of morphology, chemical, and molecular characters.
Pestalotiopsis sp. infection causes leaf fall disease of new arrivals in several clones of rubber plants
Authors: DAMIRI NURHAYATI , PRATAMA YOGA , FEBBIYANTI TRI RAPANI , RAHIM SUPLI E. , ASTUTI DESSY TRI , PURWANTI YANI 
Published: August 2022

Abstract. Damiri N, Pratama Y, Febbiyanti TP, Rahim SE, Astuti DT, Purwanti Y. 2022. Pestalotiopsis sp. infection causes leaf fall disease of new arrivals in several clones of rubber plants. Biodiversitas 23: 3943-3949. This study aims to investigate the response of rubber clones commonly cultivated by farming communities to infection with the new leaf fall pathogen of Pestalotiopsis in rubber plantations. The study was conducted in smallholder rubber plantations, laboratories and greenhouses Department of Pests and Plant Diseases, Faculty of Agriculture, Sriwijaya University. The study consists of two stages. The first stage was a survey of the leaf fall disease of Pestalotiopsis in smallholder rubber plantations in Banyuasin Regency. The second stage was testing the isolates of Pestalotiopsis sp. against several rubber clones in the greenhouse using the Randomized Block Design (RBD) method, with six treatment clones and six replications. Each replication consisted of three polybags. The treatments tested were rubber plant clones aged four months, namely rubber clones PB 260, RRIC 100, IRR 112, IRR 118, BPM 24 and PB 340. The inoculated leaves were rubber leaves aged 10 days after opening. The results showed that Pestalotiopsis leaf fall disease in 10 smallholder rubber plantation areas in the field showed that new leaf fall attacks caused by the Pestalotiopsis fungus on smallholder rubber plants ranged from 80 to 100 percent with a decrease in production between 20 to 50 percent. All clones planted were susceptible to this new disease, which resulted in a very significant reduction in yield. The treatment of Pestalotiopsis sp. inoculation on six rubber clones significantly affected the severity of Pestalotiopsis new leaf fall disease. Effect of Pestalotiopsis sp. the number of rubber leaves that fall is very significant. The rubber clone that experienced the most leaf fall due to disease was PB 340 although the percentage of leaf fall was not significantly different from the treatment of PB 260 but significantly different from the treatment of clones RRIC 100, IRR 112, IRR 118 and BPM 24. The percentage of Pestalotiopsis leaf fall experienced by clones PB 340 reached 47.19% while the RRIC 100 clone was only 4.98%.