bluuebunny/crossref_metadata_2025_split huggingface dataset:
Predicting gene expression changes upon epigenomic drug treatment
Authors: Agrawal Piyush , Gopalan Vishaka , Hannenhalli Sridhar 
Published: September 2023

Background: Tumors are characterized by global changes in epigenetic modifications such as DNA methylation and histone modifications that are functionally linked to tumor progression. Accordingly, several drugs targeting the epigenome have been proposed for cancer therapy, notably, histone deacetylase inhibitors (HDACi) such as vorinostat and DNA methyltransferase inhibitors (DNMTi) such as zebularine. However, a fundamental challenge with such approaches is the lack of genomic specificity, i.e., the transcriptional changes at different genomic loci can be highly variable, thus making it difficult to predict the consequences on the global transcriptome and drug response. For instance, treatment with DNMTi may upregulate the expression of not only a tumor suppressor but also an oncogene, leading to unintended adverse effect. Methods: Given the pre-treatment transcriptome and epigenomic profile of a sample, we assessed the extent of predictability of locus-specific changes in gene expression upon treatment with HDACi using machine learning. Results: We found that in two cell lines (HCT116 treated with Largazole at eight doses and RH4 treated with Entinostat at 1µM) where the appropriate data (pre-treatment transcriptome and epigenome as well as post-treatment transcriptome) is available, our model distinguished the post-treatment up versus downregulated genes with high accuracy (up to ROC of 0.89). Furthermore, a model trained on one cell line is applicable to another cell line suggesting generalizability of the model. Conclusions: Here we present a first assessment of the predictability of genome-wide transcriptomic changes upon treatment with HDACi. Lack of appropriate omics data from clinical trials of epigenetic drugs currently hampers the assessment of applicability of our approach in clinical setting.
Protocol for the development of a multidisciplinary clinical practice guideline for the care of patients with chronic subdural haematoma
Authors: Stubbs Daniel J , Davies Benjamin M , Dixon-Woods Mary , Bashford Thomas H , Braude Philip , Bulters Diedrik , Camp Sophie , Carr Georgina , Coles Jonathan P , Dhesi Jugdeep , Dinsmore Judith , Edlmann Ellie , Evans Nicholas R , Figaji Anthony , Foster Emily , Lecky Fiona , Kolias Angelos , Joannides Alexis , Moppett Iain , Nathanson Mike , Newcombe Virginia , Owen Nicola , Peterman Lisa , Proffitt Amy , Skiterall Charlotte , Whitfield Peter , Wilson Sally R , Zolnourian Ardalan , Amarouche Meriem , Ansari Akbar , Borg Nick , Brennan Paul M , Brown Charlotte , Corbett Christopher , Dammers Ruben , Das Tilak , Feilding Emily , Galea Marilise , Gillespie Conor , Glancz Laurence , Gooding Felix , Grange Robert , Gray Natalie , Hartley Peter , Hassan Taj , Holl Dana , Jones Julia , Knight Richard , Luoma Val , Mee Harry , Minett Thais , Novak Stephen , Peck George , Ralhan Shvaita , Ramshaw Jennifer , Richardson Davina , Sadek Ahmed-Ramadan , Sheehan Katie , Sheppard Francoise , Shipway David , Singh Navneet , Smith Martin , Sturley Rhonda , Swart Michael , Thomas William , Uprichard James , Yeardley Vickie , Menon David K , Hutchinson Peter J 
Published: September 2023

Introduction: A common neurosurgical condition, chronic subdural haematoma (cSDH) typically affects older people with other underlying health conditions. The care of this potentially vulnerable cohort is often, however, fragmented and suboptimal. In other complex conditions, multidisciplinary guidelines have transformed patient experience and outcomes, but no such framework exists for cSDH. This paper outlines a protocol to develop the first comprehensive multidisciplinary guideline from diagnosis to long-term recovery with cSDH. Methods: The project will be guided by a steering group of key stakeholders and professional organisations and will feature patient and public involvement. Multidisciplinary thematic working groups will examine key aspects of care to formulate appropriate, patient-centered research questions, targeted with evidence review using the GRADE framework. The working groups will then formulate draft clinical recommendations to be used in a modified Delphi process to build consensus on guideline contents. Conclusions: We present a protocol for the development of a multidisciplinary guideline to inform the care of patients with a cSDH, developed by cross-disciplinary working groups and arrived at through a consensus-building process, including a modified online Delphi.
Central Bank Digital Currency and Banking: Macroeconomic Benefits of a Cash-Like Design
Authors: Chiu Jonathan , Davoodalhosseini Seyed Mohammadreza 
Published: August 2023

Many central banks are considering issuing a central bank digital currency (CBDC). How will the CBDC affect the macroeconomy? Will its design matter? To answer these questions, we theoretically and quantitatively assess the effects of a CBDC on consumption, banking, and welfare. Our model captures the competition between different means of payments and incorporates a novel general equilibrium feedback effect from transactions to deposits creation. The general equilibrium effects of a CBDC are decomposed into three channels: payment efficiency, price effects, and bank funding costs. We show that a cash-like CBDC is more effective than a deposit-like CBDC in promoting consumption and welfare. Interestingly, a cash-like CBDC can also crowd in banking, even in the absence of bank market power. In a calibrated model, at the maximum, a cash-like CBDC can increase bank intermediation by 10.2% and welfare by 0.059%, and it can capture up to 23.3% of the payment market. We also discuss some lessons for designing a CBDC. This paper was accepted by Will Cong, Special Section of Management Science: Blockchains and Crypto Economics. Supplemental Material: The data files and online appendix are available at https://doi.org/10.1287/mnsc.2021.02763 .
Equity Market Fragmentation and Capital Investment Efficiency
Authors: Landsman Wayne , Pan Jing , Stubben Stephen 
Published: September 2023

This study examines how equity market fragmentation affects firms’ capital investment decisions. Recent empirical research finds that market fragmentation lowers trading costs and thus improves market quality. We examine whether this increase in market quality translates into greater revelatory price efficiency, where stock prices reveal with greater precision information to managers and/or creditors about firms’ investment opportunities. Consistent with this notion, our findings reveal that the association between capital investment and investment opportunities is increasing in market fragmentation. Additional evidence suggests that (a) market fragmentation increases revelatory price efficiency at least in part by encouraging information acquisition and informed trade by equity investors and (b) the more efficient stock prices inform both managers and creditors about firms’ investment opportunities. Inferences based on difference-in-differences and instrumental variable tests are consistent with those based on our primary findings. This paper was accepted by Suraj Srinivasan, accounting. Funding: The authors are grateful to the Kenan-Flagler Business School, Cox School of Business, Smeal School of Business, and David Eccles School of Business for funding our research. Supplemental Material: The data files and online appendix are available at https://doi.org/10.1287/mnsc.2023.4905 .
Robust Risk Quantification via Shock Propagation in Financial Networks
Authors: Ahn Dohyun , Chen Nan , Kim Kyoung-Kuk 
Published: September 2023

Robust Risk Quantification via Shock Propagation in Financial Networks Despite the significance of risk contagion in financial networks, uncertainties arise in interbank network structures because of limited information. To address this, proposed is a robust optimization approach to estimate worst-case default probabilities and capital requirements for a specific group of banks (e.g., systemically important financial institutions). By applying this tool, we analyze the impact of different incomplete network information structures and gain regulatory insights into gathering actionable network information.
Predicting whether patients will achieve minimal clinically important differences following hip or knee arthroplasty
Authors: Langenberger Benedikt , Schrednitzki Daniel , Halder Andreas M. , Busse Reinhard , Pross Christoph M. 
Published: September 2023

AimsA substantial fraction of patients undergoing knee arthroplasty (KA) or hip arthroplasty (HA) do not achieve an improvement as high as the minimal clinically important difference (MCID), i.e. do not achieve a meaningful improvement. Using three patient-reported outcome measures (PROMs), our aim was: 1) to assess machine learning (ML), the simple pre-surgery PROM score, and logistic-regression (LR)-derived performance in their prediction of whether patients undergoing HA or KA achieve an improvement as high or higher than a calculated MCID; and 2) to test whether ML is able to outperform LR or pre-surgery PROM scores in predictive performance.MethodsMCIDs were derived using the change difference method in a sample of 1,843 HA and 1,546 KA patients. An artificial neural network, a gradient boosting machine, least absolute shrinkage and selection operator (LASSO) regression, ridge regression, elastic net, random forest, LR, and pre-surgery PROM scores were applied to predict MCID for the following PROMs: EuroQol five-dimension, five-level questionnaire (EQ-5D-5L), EQ visual analogue scale (EQ-VAS), Hip disability and Osteoarthritis Outcome Score-Physical Function Short-form (HOOS-PS), and Knee injury and Osteoarthritis Outcome Score-Physical Function Short-form (KOOS-PS).ResultsPredictive performance of the best models per outcome ranged from 0.71 for HOOS-PS to 0.84 for EQ-VAS (HA sample). ML statistically significantly outperformed LR and pre-surgery PROM scores in two out of six cases.ConclusionMCIDs can be predicted with reasonable performance. ML was able to outperform traditional methods, although only in a minority of cases.Cite this article: Bone Joint Res 2023;12(9):512–521.
High-Power Short Duration Microwave Drying of Rice Versus Fissuring and Milling Yields
Authors: Boreddy Sreenivasula Reddy , Luthra Kaushik , Atungulu Griffiths G 
Published: August 2023

Highlights

MW specific energy ranging from 422.5 to 507.0 kJ/kg of rice can dry rice to 12.5% moisture content in a single pass.

Fissuring percentage was significantly lower for lower drying durations as compared to 3 min drying durations for all power levels.

RR dried for one minute with MW at 16-20 kW results in higher head rice yields.

Abstract. The utilization of microwave (MW) drying technology to dry rough rice (RR) is considered a promising method for high-moisture RR drying with high throughput. Milling quality is a significant factor in stakeholders adoption of this method. Therefore, experiments were conducted using an industrial MW dryer operating at 915 MHz to examine the effects of different MW power levels and heating durations on RR drying. Single pass drying was performed using 16, 18, and 20 kW power levels and 1, 2, and 3 min heating durations. A control sample was dried in an environmentally controlled chamber at 25°C and 56% relative humidity (RH). The moisture content, surface temperature, fissuring, and head rice yield (HRY) of RR were measured. The initial moisture content of RR was 21.22% w.b. The moisture content of RR after 3 minutes of drying at the studied power levels was close to the recommended rice milling moisture content of 13%, indicating the feasibility of single pass MW drying. The maximum surface temperature of RR at severe (20 kW for 3 min) and least severe (16 kW and 1 min) treatment conditions was 91.9°C and 62.6°C, respectively. Fissuring percentages of 86.2% and 85.3% were observed in RR drying at 20 kW for 3 min after one day and after seven days of fissure examination, respectively. Fissuring percentages of 84.2% and 84.3% were observed at 16 kW for 3 min drying after one day and after seven days, respectively. The HRY at MW drying conditions of 16-20 kW for 1 min was higher than that of RR gently dried at 25°C and 56% RH. MW drying shows promise for reducing drying duration compared to conventional methods. Keywords: Head rice yield, Microwave drying, Moisture content, Rice drying, Rice fissuring.
In search of cytotoxic abietyl amides
Authors: Heisig Julia , Heise Niels V. , Hoenke Sophie , Al-Harrasi Ahmed , Csuk René 
Published: September 2023

<p><span lang="EN-US">Based on prior research findings with pentacyclic triterpenoids, it was hypothesized that (un)-substituted benzylamides would exhibit enhanced cytotoxic activity compared to parent abietic acid. Conversely, none of these compounds was cytotoxic, but (homo)-piperazinyl amides demonstrated significant cytotoxic activity across multiple cell lines, even at concentrations as low single-digit micromolar levels. Additional staining experiments revealed that the most potent compound (with an EC<sub>50</sub> value of 2.8 </span><span lang="EN-US">m</span><span lang="EN-US">M for HT29 colon carcinoma cells) primarily induced apoptosis rather than necrosis. </span> </p>
It “Goes Both Ways”: The Impact of Peer-Mediated Interventions on Peers
Authors: Travers Hilary E. , Carter Erik W. , Picard Erika T. , Hauptman Lily 
Published: September 2023

Abstract
Peers have a prominent place within peer-mediated interventions (PMI). Understanding how they might benefit from their experiences supporting students with disabilities is an emerging area of much-needed research. This qualitative study was designed to identify the breadth of ways peers report being affected by their diverse experiences. We held eight focus groups with 41 secondary and postsecondary peers involved in PMIs alongside students with intellectual and developmental disabilities. They described nine distinct areas of impact: social impact, personal growth, changes in views, rewarding impact, skill development, advocacy, future intentions, academic impact, and negative impact. We provide recommendations for research and practice aimed at understanding the reciprocal impact of these widely advocated interventions.
Emergency COVID-19 Pandemic Changes to Home- and Community-Based Services for People With Intellectual and Developmental Disabilities
Authors: Friedman Carli 
Published: September 2023

Abstract
The COVID-19 pandemic significantly disrupted Home- and Community-Based Services (HCBS) for people with intellectual and developmental disabilities (IDD). The aim of this study was to examine the emergency amendments states made to their HCBS waivers for people with IDD during the COVID-19 pandemic. To do so, we analyzed 294 Appendix K: Emergency Preparedness and Response Waivers, which states used to amend HCBS 1915(c) waivers for people with IDD. States’ waiver amendments fell into the following categories: access and eligibility, assessments and person-centered planning, services, settings, providers, reimbursement rates, and safeguards and oversight. These temporary changes made to HCBS IDD waivers aimed to ensure people with IDD’s access to services and maintain the quality of those services during the pandemic.
Optical encoding and hiding scheme for a double image based on chaotic fingerprint phase masks and phase-shifting digital holography
Authors: Wang Yonghui , Zhao Qinyu , Xu Wenjun , Li Fei , Yan Jun , Liu Shuaiqi , Su Yonggang 
Published: September 2023

This paper proposes a novel, to the best of our knowledge, double-image hiding scheme based on the chaotic fingerprint phase masks (CFPMs) and three-step phase-shifting digital holography (PSDH). First, the two images to be hidden are encoded into a complex amplitude image, and then with the help of the CFPM located in the Fresnel transform (FrT) domain and the three-step PSDH, the complex amplitude image can be encoded into three noise-like interference holograms. Finally, the three noise-like interference holograms are hidden into the texture part of the host image by the discrete wavelet transform based fusion approach and variational image decomposition technique. This scheme can simultaneously hide two images into one host image, and the invisibility and robustness of the hiding scheme can be well balanced by embedding the secret image in the texture of the host image. Additionally, the introduction of a biometric feature increases the association of the key and the authorized user, and the parameters of the chaotic map and FrT can also provide additional security to the proposed scheme. We have verified the scheme’s feasibility, security, and robustness through extensive experiments.
Secondary vectors of Zika Virus, a systematic review of laboratory vector competence studies
Authors: Bisia Marina , Montenegro-Quinoñez Carlos Alberto , Dambach Peter , Deckert Andreas , Horstick Olaf , Kolimenakis Antonios , Louis Valérie R. , Manrique-Saide Pablo , Michaelakis Antonios , Runge-Ranzinger Silvia , Morrison Amy C. 
Published: August 2023

Background
After the unprecedented Zika virus (ZIKV) outbreak in the western hemisphere from 2015–2018, Aedes aegypti and Ae. albopictus are now well established primary and secondary ZIKV vectors, respectively. Consensus about identification and importance of other secondary ZIKV vectors remain. This systematic review aims to provide a list of vector species capable of transmitting ZIKV by reviewing evidence from laboratory vector competence (VC) studies and to identify key knowledge gaps and issues within the ZIKV VC literature.

Methods
A search was performed until 15th March 2022 on the Cochrane Library, Lilacs, PubMed, Web of Science, WHOLIS and Google Scholar. The search strings included three general categories: 1) “ZIKA”; 2) “vector”; 3) “competence”, “transmission”, “isolation”, or “feeding behavior” and their combinations. Inclusion and exclusion criteria has been predefined and quality of included articles was assessed by STROBE and STROME-ID criteria.

Findings
From 8,986 articles retrieved, 2,349 non-duplicates were screened by title and abstracts,103 evaluated using the full text, and 45 included in this analysis. Main findings are 1) secondary vectors of interest include Ae. japonicus, Ae. detritus, and Ae. vexans at higher temperature 2) Culex quinquefasciatus was not found to be a competent vector of ZIKV, 3) considerable heterogeneity in VC, depending on the local mosquito strain and virus used in testing was observed. Critical issues or gaps identified included 1) inconsistent definitions of VC parameters across the literature; 2) equivalency of using different mosquito body parts to evaluate VC parameters for infection (mosquito bodies versus midguts), dissemination (heads, legs or wings versus salivary glands), and transmission (detection or virus amplification in saliva, FTA cards, transmission to neonatal mice); 3) articles that fail to use infectious virus assays to confirm the presence of live virus; 4) need for more studies using murine models with immunocompromised mice to infect mosquitoes.

Conclusion
Recent, large collaborative multi-country projects to conduct large scale evaluations of specific mosquito species represent the most appropriate approach to establish VC of mosquito species.
Emotional overeating affected nine in ten female students during the COVID-19 university closure: A cross-sectional study in France
Authors: Constant Aymery , Fortier Alexandra , Serrand Yann , Bannier Elise , Moirand Romain , Thibault Ronan , Coquery Nicolas , Godet Ambre , Val-Laillet David 
Published: August 2023

Objectives
To estimate the proportion of female university students reporting overeating (EO) in response to emotions during the COVID-19 university closures, and to investigate social and psychological factors associated with this response to stress.

Design
Online survey gathered sociodemographic data, alcohol/drugs use disorders, boredom proneness and impulsivity using validated questionnaires, and EO using the Emotional Overeating Questionnaire (EOQ) assessing eating in response to six emotions (anxiety, sadness, loneliness, anger, fatigue, happiness), whose structure remains to be determined.

Participants
Sample of 302 female students from Rennes University, France.

Main outcome measure
Frequencies of emotional overeating.

Analysis
The frequency of emotional overeating was expressed for each emotion as percentages. Exploratory Factor analyses (EFA) were used to determine EOQ structure and provide an index of all EOQ items used for further analysis. Linear regression models were used to explore relationships between EO and others covariates.

Results
Nine in ten participants reported intermittent EO in the last 28 days, mostly during 6 to 12 days, in response to Anxiety (75.5%), Sadness (64.5%), Happiness (59.9%), Loneliness (57.9%), Tiredness (51.7%), and to a lesser extent to Anger (31.1%). EFA evidenced a one-factor latent variable reflecting “Distress-Induced Overeating” positively correlated with internal boredom proneness, tobacco use, attentional impulsivity, inability to resist emotional cues, and loss of control over food intake, and negatively with age and well-being. EO was unrelated to body mass index or substance abuse.

Conclusion and implications
Nine in ten female students reported emotional overeating during the COVID-19 university closure. This response to stress was related to eating tendencies typical of young women, but also to personality/behavioral patterns such as boredom and impulsivity proneness. Better understanding of the mechanisms underlying EO in response to stress and lack of external/social stimulation would improve preventive interventions.
Is there an association between intimate partner violence and the prevalence of cervical cancer screening in Jordan?
Authors: Urquhart Grace , Maclennan Sara J. , Guntupalli Aravinda Meera 
Published: August 2023

Background
Major health inequalities exist surrounding the utilisation of cervical cancer screening services globally. Jordan, a low- and middle-income country, has poor screening rates (15.8%), with barriers to accessing services, including lack of education. Emerging studies demonstrate that intimate partner violence (IPV) impacts reproductive health decisions. As a large proportion of Jordanian women have reported experiencing IPV, this study examines the association between IPV and cervical cancer screening in Jordan, the first of its kind using national-level data.

Methods
Using Jordan’s Demographic Health Survey 2017–18, cervical cancer screening awareness and self-reported screening were estimated in participants who answered questions on IPV (n = 6679). After applying sample weights, Heckman’s two-stage probit model determined the association of awareness and utilisation of cervical cancer screening with experience of IPV, adjusting for the socio-economic factors.

Results
Of the women with privacy to answer the IPV module, 180 (3.4%) were found to be victims of sexual violence, 691 of physical violence (12.6%) and 935 (16.2%) of emotional violence. Women subjected to sexual violence were less likely to admit to having awareness of a Pap smear test; however, this did not impact screening rates. Victims of emotional violence were more likely to be screened than non-victims. No association between physical violence and cervical cancer screening was found.

Conclusions
A significant association between cervical screening awareness and IPV demonstrates that cancer screening policies must consider IPV among women to improve screening awareness. The paper further sheds light on the paradoxical association between emotional violence and screening. It is acknowledged this situation may be far worse than reported, as women without autonomy were unlikely to answer IPV questions that may endanger them—targeted surveys on cervical cancer screening warrant further investigation.