bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ecological dynamics of the gut microbiome in response to dietary fiber
Authors: Liu Hongbin , Liao Chen , Wu Lu , Tang Jinhui , Chen Junyu , Lei Chaobi , Zheng Linggang , Zhang Chenhong , Liu Yang-Yu , Xavier Joao , Dai Lei 
Published: May 2022

Abstract
Dietary fibers are generally thought to benefit intestinal health. Their impacts on the composition and metabolic function of the gut microbiome, however, vary greatly across individuals. Previous research showed that each individual’s response to fibers depends on their baseline gut microbiome, but the ecology driving microbiota remodeling during fiber intake remained unclear. Here, we studied the long-term dynamics of the gut microbiome and short-chain fatty acids (SCFAs) in isogenic mice with distinct microbiota baselines fed with the fermentable fiber inulin and resistant starch compared to the non-fermentable fiber cellulose. We found that inulin produced a generally rapid response followed by gradual stabilization to new equilibria, and those dynamics were baseline-dependent. We parameterized an ecology model from the time-series data, which revealed a group of bacteria whose growth significantly increased in response to inulin and whose baseline abundance and interspecies competition explained the baseline dependence of microbiome density and community composition dynamics. Fecal levels of SCFAs, such as propionate, were associated with the abundance of inulin responders, yet inter-individual variation of gut microbiome impeded the prediction of SCFAs by machine learning models. We showed that our methods and major findings were generalizable to dietary resistant starch. Finally, we analyzed time-series data of synthetic and natural human gut microbiome in response to dietary fiber and validated the inferred interspecies interactions in vitro. This study emphasizes the importance of ecological modeling to understand microbiome responses to dietary changes and the need for personalized interventions.
Gene-expression profiles of pretreatment biopsies predict complete response of rectal cancer patients to preoperative chemoradiotherapy
Authors: Emons Georg , Auslander Noam , Jo Peter , Kitz Julia , Azizian Azadeh , Hu Yue , Hess Clemens F. , Roedel Claus , Sax Ulrich , Salinas Gabriela , Stroebel Philipp , Kramer Frank , Beissbarth Tim , Grade Marian , Ghadimi Michael , Ruppin Eytan , Ried Thomas , Gaedcke Jochen 
Published: May 2022

Abstract
Purpose
Preoperative (neoadjuvant) chemoradiotherapy (CRT) and total mesorectal excision is the standard treatment for rectal cancer patients (UICC stage II/III). Up to one-third of patients treated with CRT achieve a pathological complete response (pCR). These patients could be spared from surgery and its associated morbidity and mortality, and assigned to a “watch and wait” strategy. However, reliably identifying pCR based on clinical or imaging parameters remains challenging.

Experimental design
We generated gene-expression profiles of 175 patients with locally advanced rectal cancer enrolled in the CAO/ARO/AIO-94 and -04 trials. One hundred and sixty-one samples were used for building, training and validating a predictor of pCR using a machine learning algorithm. The performance of the classifier was validated in three independent cohorts, comprising 76 patients from (i) the CAO/ARO/AIO-94 and -04 trials (n = 14), (ii) a publicly available dataset (n = 38) and (iii) in 24 prospectively collected samples from the TransValid A trial.

Results
A 21-transcript signature yielded the best classification of pCR in 161 patients (Sensitivity: 0.31; AUC: 0.81), when not allowing misclassification of non-complete-responders (False-positive rate = 0). The classifier remained robust when applied to three independent datasets (n = 76).

Conclusion
The classifier can identify >1/3 of rectal cancer patients with a pCR while never classifying patients with an incomplete response as having pCR. Importantly, we could validate this finding in three independent datasets, including a prospectively collected cohort. Therefore, this classifier could help select rectal cancer patients for a “watch and wait” strategy.

Translational relevance
Forgoing surgery with its associated side effects could be an option for rectal cancer patients if the prediction of a pathological complete response (pCR) after preoperative chemoradiotherapy would be possible. Based on gene-expression profiles of 161 patients a classifier was developed and validated in three independent datasets (n = 76), identifying over 1/3 of patients with pCR, while never misclassifying a non-complete-responder. Therefore, the classifier can identify patients suited for “watch and wait”.
Coexisting charge density wave and ferromagnetic instabilities in monolayer InSe
Authors: Stepanov Evgeny A. , Harkov Viktor , Rösner Malte , Lichtenstein Alexander I. , Katsnelson Mikhail I. , Rudenko Alexander N. 
Published: May 2022

AbstractRecently fabricated InSe monolayers exhibit remarkable characteristics that indicate the potential of this material to host a number of many-body phenomena. In this work, we systematically describe collective electronic effects in hole-doped InSe monolayers using advanced many-body techniques. To this end, we derive a realistic electronic-structure model from first principles that takes into account the most important characteristics of this material, including a flat band with prominent van Hove singularities in the electronic spectrum, strong electron–phonon coupling, and weakly screened long-ranged Coulomb interactions. We calculate the temperature-dependent phase diagram as a function of band filling and observe that this system is in a regime with coexisting charge density wave and ferromagnetic instabilities that are driven by strong electronic Coulomb correlations. This regime can be achieved at realistic doping levels and high enough temperatures, and can be verified experimentally. We find that the electron–phonon interaction does not play a crucial role in these effects, effectively suppressing the local Coulomb interaction without changing the qualitative physical picture.
Datasets on South Korean manufacturing factories’ electricity consumption and demand response participation
Authors: Lee Eunjung , Baek Keon , Kim Jinho 
Published: May 2022

AbstractThis study describes the release of electricity consumption data of some manufacturing factories located in South Korea that participate in the demand response (DR) market. The data (in kilowatt) comprise individual factories’ total power usage details that were acquired using advanced metering infrastructures. They further contain details on the manufacture types, DR participation dates, mandatory reduction capacities, and response capacities of the factories. For data acquisition, 10 manufacturing companies are representatively selected according to the process regularity and company size standard of this study. Entire datasets are newly collected and available at one-minute intervals for seven months from 1 March to 30 September 2019. These datasets can be used in a variety of ways to contribute to the functioning of power systems and markets, including the conduction of industrial load characteristic analysis for load flexibility, estimation of demand-side considerations for virtual power plant design, and determination of energy markets and incentives to achieve carbon neutrality targets at the national level.
Influence of Pholiota adiposa on gut microbiota and promote tumor cell apoptosis properties in H22 tumor-bearing mice
Authors: Wang Xiao-yan , Zhang Ying , Liu Fang-fang 
Published: May 2022

AbstractHepatocellular carcinoma (HCC) is a common type of cancer—prevalent worldwide—and one of the causes of cancer-related deaths. In this study, ethanol extracts from Pholiotaadiposa (EPA) were used to identify possible targets for HCC treatment and their effects on intestinal microflora were analyzed. Methods: Male mice were randomly assigned to groups—the model group, cyclophosphamide (25 mg/kg/d), and EPA groups, in which the mice were categorized based on the different concentrations of each compound (100, 200, and 300 mg/kg/day). Relevant biochemical indicators were detected using ELISA, H&E staining, and TUNEL assay. Four tumor apoptosis-related proteins and genes, Cleaved Caspases, BAX, Bcl-2, and VEGF, were detected by immunohistochemical staining, western blotting, and RT-PCR. The total genomic DNA was obtained from the contents of the small intestine and colon and was sequenced. The V3 + V4 regions of bacterial 16 s rDNA (from 341 to 806) were amplified. Results: The tests revealed that EPA exhibited antitumor activity in vivo by promoting apoptosis and inhibiting angiogenesis. Moreover, EPA treatment could increase beneficial and decrease harmful microflorae. These results demonstrate that EPA may be a potential therapy for HCC.
Design of a cryptographically secure pseudo random number generator with grammatical evolution
Authors: Ryan Conor , Kshirsagar Meghana , Vaidya Gauri , Cunningham Andrew , Sivaraman R. 
Published: May 2022

AbstractThis work investigates the potential for using Grammatical Evolution (GE) to generate an initial seed for the construction of a pseudo-random number generator (PRNG) and cryptographically secure (CS) PRNG. We demonstrate the suitability of GE as an entropy source and show that the initial seeds exhibit an average entropy value of 7.940560934 for 8-bit entropy,which is close to the ideal value of 8. We then construct two random number generators, GE-PRNG and GE-CSPRNG, both of which employ these initial seeds. We use Monte Carlo simulations to establish the efficacy of the GE-PRNG using an experimental setup designed to estimate the value forpi, in which 100,000,000 random numbers were generated by our system. This returned the value ofpiof 3.146564000, which is precise up to six decimal digits for the actual value ofpi. We propose a new approach calledcontrol_flow_incrementorto generate cryptographically secure random numbers. The random numbers generated with CSPRNG meet the prescribed National Institute of Standards and Technology SP800-22 and the Diehard statistical test requirements. We also present a computational performance analysis of GE-CSPRNG demonstrating its potential to be used in industrial applications.
Heterogeneous SARS-CoV-2 humoral response after COVID-19 vaccination and/or infection in the general population
Authors: Carrat Fabrice , Villarroel Paola Mariela Saba , Lapidus Nathanael , Fourié Toscane , Blanché Hélène , Dorival Céline , Nicol Jérôme , Deleuze Jean-François , Robineau Olivier ,   SAPRIS-SERO Study Group, Carrat Fabrice , Zins Marie , Severi Gianluca , Touvier Mathilde , Blanché Hélène , Deleuze Jean-François , de Lamballerie Xavier , Lusivika-Nzinga Clovis , Pannetier Gregory , Lapidus Nathanael , Goderel Isabelle , Dorival Céline , Nicol Jérôme , Robineau Olivier , Kab Sofiane , Renuy Adeline , Le-Got Stéphane , Ribet Céline , Pellicer Mireille , Wiernik Emmanuel , Goldberg Marcel , Artaud Fanny , Gerbouin-Rérolle Pascale , Enguix Mélody , Laplanche Camille , Gomes-Rima Roselyn , Hoang Lyan , Correia Emmanuelle , Barry Alpha Amadou , Senina Nadège , Allegre Julien , de Edelenyi Fabien Szabo , Druesne-Pecollo Nathalie , Esseddik Younes , Hercberg Serge , Deschasaux Mélanie , Blanché Hélène , Sébaoun Jean-Marc , Beaudoin Jean-Christophe , Gressin Laetitia , Morel Valérie , Ouili Ouissam , Deleuze Jean-François , Ninove Laetitia , Priet Stéphane , Villarroel Paola Mariela Saba , Fourié Toscane , Ali Souand Mohamed , Amroun Abdenour , Seston Morgan , Ayhan Nazli , Pastorino Boris , Touvier Mathilde , Severi Gianluca , Zins Marie , de Lamballerie Xavier 
Published: May 2022

AbstractAssessment of the intensity, dynamics and determinants of the antibody response after SARS-CoV-2 infection or vaccination in the general population is critical to guide vaccination policies. This study characterized the anti-spike IgG titers in 13,971 participants included in a French multicohort population-based serological survey on COVID-19 between April and October 2020 and followed-up with serological testing between May and October 2021. Eight follow-up profiles were defined depending on SARS-CoV-2 infection (0, 1 or 2) and COVID-19 vaccination (0, 1, 2 or 3). The anti-spike titer was lower in adults with no vaccination even in case of infection or reinfection, while it was higher in adults with infection followed by vaccination. The anti-spike titer was negatively correlated with age in vaccinated but uninfected adults, whereas it was positively correlated with age in unvaccinated but infected adults. In adults with 2 vaccine injections and no infection, the vaccine protocol, age, gender, and time since the last vaccine injection were independently associated with the anti-spike titer. The decrease in anti-spike titer was much more rapid in vaccinated than in infected subjects. These results highlight the strong heterogeneity of the antibody response against SARS-CoV-2 in the general population depending on previous infection and vaccination.
Downwelling longwave radiation and sensible heat flux observations are critical for surface temperature and emissivity estimation from flux tower data
Authors: Thakur Gitanjali , Schymanski Stanislaus J. , Mallick Kaniska , Trebs Ivonne , Sulis Mauro 
Published: May 2022

AbstractLand surface temperature (LST) is a preeminent state variable that controls the energy and water exchange between the Earth’s surface and the atmosphere. At the landscape-scale, LST is derived from thermal infrared radiance measured using space-borne radiometers. In contrast, plot-scale LST estimation at flux tower sites is commonly based on the inversion of upwelling longwave radiation captured by tower-mounted radiometers, whereas the role of the downwelling longwave radiation component is often ignored. We found that neglecting the reflected downwelling longwave radiation leads not only to substantial bias in plot-scale LST estimation, but also have important implications for the estimation of surface emissivity on which LST is co-dependent. The present study proposes a novel method for simultaneous estimation of LST and emissivity at the plot-scale and addresses in detail the consequences of omitting down-welling longwave radiation as frequently done in the literature. Our analysis uses ten eddy covariance sites with different land cover types and found that the LST values obtained using both upwelling and downwelling longwave radiation components are 0.5–1.5 K lower than estimates using only upwelling longwave radiation. Furthermore, the proposed method helps identify inconsistencies between plot-scale radiometric and aerodynamic measurements, likely due to footprint mismatch between measurement approaches. We also found that such inconsistencies can be removed by slight corrections to the upwelling longwave component and subsequent energy balance closure, resulting in realistic estimates of surface emissivity and consistent relationships between energy fluxes and surface-air temperature differences. The correspondence between plot-scale LST and landscape-scale LST depends on site-specific characteristics, such as canopy density, sensor locations and viewing angles. Here we also quantify the uncertainty in plot-scale LST estimates due to uncertainty in tower-based measurements using the different methods. The results of this work have significant implications for the combined use of aerodynamic and radiometric measurements to understand the interactions and feedbacks between LST and surface-atmosphere exchange processes.
Head biomechanics of video recorded falls involving children in a childcare setting
Authors: Bertocci Gina , Smalley Craig , Brown Nathan , Dsouza Raymond , Hilt Bret , Thompson Angela , Bertocci Karen , McKinsey Keyonna , Cory Danielle , Pierce Mary Clyde 
Published: May 2022

AbstractThe objective of this study was to characterize head biomechanics of video-recorded falls involving young children in a licensed childcare setting. Children 12 to < 36 months of age were observed using video monitoring during daily activities in a childcare setting (in classrooms and outdoor playground) to capture fall events. Sensors (SIM G) incorporated into headbands worn by the children were used to obtain head accelerations and velocities during falls. The SIM G device was activated when linear acceleration was ≥ 12 g. 174 video-recorded falls activated the SIM G device; these falls involved 31 children (mean age = 21.6 months ± 5.6 SD). Fall heights ranged from 0.1 to 1.2 m. Across falls, max linear head acceleration was 50.2 g, max rotational head acceleration was 5388 rad/s2, max linear head velocity was 3.8 m/s and max rotational head velocity was 21.6 rad/s. Falls with head impact had significantly higher biomechanical measures. There was no correlation between head acceleration and fall height. No serious injuries resulted from falls—only 1 child had a minor injury. In conclusion, wearable sensors enabled characterization of head biomechanics during video-recorded falls involving young children in a childcare setting. Falls in this setting did not result in serious injury.
Bioactive xanthones, benzophenones and biphenyls from mangosteen root with potential anti-migration against hepatocellular carcinoma cells
Authors: Choodej Siwattra , Koopklang Kedkarn , Raksat Achara , Chuaypen Natthaya , Pudhom Khanitha 
Published: May 2022

AbstractLiver cancer refers primarily to hepatocellular carcinoma (HCC) accounting for over 90% of cases and is the highest incidence in men in Thailand. Over the past decades, the incidence of HCC dramatically increased with a strong rise of mortality rates. Garcinia mangostana, “Queen of Fruit” of Thailand, is known as a rich source of xanthones with potent cytotoxic properties against various cancer cells. Study on xanthones is provoking not only due to the structural diversity but also a wide variety of pharmacological activities. Hence the aim of the current study is to determine the effects of metabolites from G. mangostana root on cell proliferation and migration of hepatocellular carcinoma cells. Twenty-two metabolites, including two new benzophenones and one new biphenyl, were isolated and characterized. Five xanthones with a prenyl moiety showed significant cytotoxicity against both HCC cells tested; however, only dulxanthone D displayed the most promising activity on the migration of Huh7 HCC cells, comparable to sorafenib, a standard drug. Moreover, the compound dose-dependently induced apoptosis in Huh7 cells via mitochondrial pathway. Accordingly, dulxanthone D held a great potential for development as a novel migration inhibitor for effective HCC treatment.
Hippocampal representations for deep learning on Alzheimer’s disease
Authors: Sarasua Ignacio , Pölsterl Sebastian , Wachinger Christian 
Published: May 2022

AbstractDeep learning offers a powerful approach for analyzing hippocampal changes in Alzheimer’s disease (AD) without relying on handcrafted features. Nevertheless, an input format needs to be selected to pass the image information to the neural network, which has wide ramifications for the analysis, but has not been evaluated yet. We compare five hippocampal representations (and their respective tailored network architectures) that span from raw images to geometric representations like meshes and point clouds. We performed a thorough evaluation for the prediction of AD diagnosis and time-to-dementia prediction with experiments on an independent test dataset. In addition, we evaluated the ease of interpretability for each representation–network pair. Our results show that choosing an appropriate representation of the hippocampus for predicting Alzheimer’s disease with deep learning is crucial, since it impacts performance and ease of interpretation.
Necroptosis-associated classification combined with tumor microenvironment characteristic analysis of cutaneous melanoma
Authors: Hu Gang , Jiang Yan , Ma Jianying , Zhan Hui 
Published: May 2022

AbstractNecroptosis is a mode of programmed cell death that overcomes apoptotic resistance. The accurate prognosis of cutaneous melanoma is complicated to predict due to tumor heterogeneity. Necroptosis contributes to the regulation of oncogenesis and cancer immunity. We comprehensively investigated different necroptosis patterns by the non-negative matrix factorization (NMF) clustering analysis and explored the relationships among necroptosis patterns, infiltered immune cells, and tumor microenvironment (TME) scores. Two different necroptosis patterns were identified, and the two clusters could predict prognosis and immune landscape. A four-gene signature was successfully constructed and validated its predictive capability of overall survival (OS) in cutaneous melanoma patients. The prognostic value of the signature was further enhanced by incorporating other independent prognostic factors such as age and clinicopathological stages in a nomogram-based prediction model. Patients with lower risk scores tended to have better OS, higher TME score, immune checkpoints, immunophenoscore (IPS), and lower Tumor Immune Dysfunction and Exclusion (TIDE), which indicated better responses to immunotherapy. In addition, the pigmentation score of the high-risk group was visibly higher than those of the low-risk group. In conclusion, the necroptosis-related signature indicated favorable predictive performance in cutaneous melanoma patients, which provides guidance for immunotherapy and provide novel insights into precision medicine.
Telephone-based reminder to improve safety after percutaneous coronary intervention
Authors: Chidester Jeffrey , Bennett Daniel , Mathew Chris , Denkins Tiffany , Vigen Rebecca , Addo Tayo , Das Sandeep 
Published: May 2022

AbstractDual antiplatelet therapy (DAPT) is a class I guideline indication after percutaneous coronary intervention (PCI). Our population is high-risk for low medication adherence. With a multidisciplinary team we developed a telephone-based intervention to improve DAPT adherence post-PCI. Patients undergoing PCI at our center were contacted by nursing staff via telephone at 1 week, 30 days, and 60 days post-procedure. Calls included a reminder of the importance of DAPT and elicited any patient concerns. Concerns were relayed to the team who could take appropriate action. For patients filling their medications at any pharmacies within our closed system the proportion of days covered (PDC) was calculated. These were compared to data for patients undergoing PCI in the seven months prior to program initiation. Information on interventions performed as a result of calls was also collected. During the study period, 452 patients underwent PCI. Of these, 70% were contacted and 244 filled their prescription at our system pharmacies. Twelve-month median PDC was 74%, with 45% of patients having PDC > 80%. There was no significant difference when compared to the group prior to the intervention, median PDC 79% and 50% of patients having PDC > 80%. In 26 patients calls led to interventions, removing barriers that would have otherwise prevented continued adherence. A telephone-based reminder system led to directed interventions in nearly 1 in 10 patients contacted. It was not able to significantly improve PDC when compared to a contemporary sample. This highlights the difficulty in using PDC to detect barriers to adherence.