bluuebunny/crossref_metadata_2025_split huggingface dataset:
OrganoidDB: a comprehensive organoid database for the multi-perspective exploration of bulk and single-cell transcriptomic profiles of organoids
Authors: Ma Qinfeng , Tao Haodong , Li Qiang , Zhai Zhaoyu , Zhang Xuelu , Lin Zhewei , Kuang Ni , Pan Jianbo 
Published: October 2022

Abstract
Organoids, three-dimensional in vitro tissue cultures derived from pluripotent (embryonic or induced) or adult stem cells, are promising models for the study of human processes and structures, disease onset and preclinical drug development. An increasing amount of omics data has been generated for organoid studies. Here, we introduce OrganoidDB (http://www.inbirg.com/organoid_db/), a comprehensive resource for the multi-perspective exploration of the transcriptomes of organoids. The current release of OrganoidDB includes curated bulk and single-cell transcriptome profiles of 16 218 organoid samples from both human and mouse. Other types of samples, such as primary tissue and cell line samples, are also integrated to enable comparisons with organoids. OrganoidDB enables queries of gene expression under different modes, e.g. across different organoid types, between different organoids from different sources or protocols, between organoids and other sample types, across different development stages, and via correlation analysis. Datasets and organoid samples can also be browsed for detailed information, including organoid information, differentially expressed genes, enriched pathways and single-cell clustering. OrganoidDB will facilitate a better understanding of organoids and help improve organoid culture protocols to yield organoids that are highly similar to living organs in terms of composition, architecture and function.
Palliative care and end-of-life care in adults with malignant brain tumors
Authors: Koekkoek Johan A F , van der Meer Pim B , Pace Andrea , Hertler Caroline , Harrison Rebecca , Leeper Heather E , Forst Deborah A , Jalali Rakesh , Oliver Kathy , Philip Jennifer , Taphoorn Martin J B , Dirven Linda , Walbert Tobias 
Published: October 2022

AbstractBackgroundThis systematic review provides updated insights, from the published literature in the past 5 years, based on the 2017 European Association of Neuro-Oncology (EANO) guidelines for palliative care in adults with malignant brain tumors. It provides an overview of palliative care options, including during the end-of-life phase for patients with malignant brain tumors.MethodsA systematic literature search was conducted from 2016 to 2021 focusing on four main topics: (1) symptom management, (2) caregiver needs, (3) early palliative care, and (4) care in the end-of-life phase. An international panel of palliative care experts in neuro-oncology synthesized the literature and reported the most relevant updates. A total of 140 articles were included.ResultsNew insights include that: Hippocampal avoidance and stereotactic radiosurgery results in a lower risk of neurocognitive decline in patients with brain metastases; levetiracetam is more efficacious in reducing seizures than valproic acid as first-line monotherapy antiseizure drug (ASD) in glioma patients; lacosamide and perampanel seem well-tolerated and efficacious add-on ASDs; and a comprehensive framework of palliative and supportive care for high-grade glioma patients and their caregivers was proposed. No pharmacological agents have been shown in randomized controlled trials to significantly improve fatigue or neurocognition.ConclusionsSince the 2017 EANO palliative care guidelines, new insights have been reported regarding symptom management and end-of-life care, however, most recommendations remain unchanged. Early palliative care interventions are essential to define goals of care and minimize symptom burden in a timely fashion. Interventional studies that address pain, fatigue, and psychiatric symptoms as well as (the timing of) early palliative care are urgently needed.
Adolescent and young adult glioma: systematic review of demographic, disease, and treatment influences on survival
Authors: Malhotra Armaan K , Karthikeyan Vishwathsen , Zabih Veda , Landry Alexander , Bennett Julie , Bartels Ute , Nathan Paul C , Tabori Uri , Hawkins Cynthia , Das Sunit , Gupta Sumit 
Published: October 2022

Abstract

Background
Prognostic factors in adolescent and young adult (AYA) glioma are not well understood. Though clinical and molecular differences between pediatric and adult glioma have been characterized, their application to AYA populations is less clear. There is a major need to develop more robust evidence-based practices for managing AYA glioma patients.

Methods
A systematic review using PRISMA methodology was conducted using multiple databases with the objective of identifying demographic, clinical, molecular and treatment factors influencing AYA glioma outcomes.

Results
40 Studies met inclusion criteria. Overall survival was highly variable across studies depending on glioma grade, anatomic compartment and cohort characteristics. Thirty-five studies suffered from high risk of bias in at least one domain. Several studies included older adults within their cohorts; few captured purely AYA groups. Despite study heterogeneity, identified favorable prognosticators included younger age, higher functional status at diagnosis, low-grade pathology, oligodendroglioma histology and increased extent of surgical resection. Though isocitrate dehydrogenase (IDH) mutant status was associated with favorable prognosis, validity of this finding within AYA was compromised though may studies including older adults. The prognostic influence of chemotherapy and radiotherapy on overall survival varied across studies with conflicting evidence.

Conclusion
Existing literature is heterogenous, at high risk of bias, and rarely focused solely on AYA patients. Many included studies did not reflect updated pathological and molecular AYA glioma classification. The optimal role of chemotherapy, radiotherapy, and targeted agents cannot be determined from existing literature and should be the focus of future studies.
Giant nonlinear Hall effect in twisted bilayer WSe2
Authors: Huang Meizhen , Wu Zefei , Hu Jinxin , Cai Xiangbin , Li En , An Liheng , Feng Xuemeng , Ye Ziqing , Lin Nian , Law Kam Tuen , Wang Ning 
Published: October 2022

Abstract
The recently discovered nonlinear Hall effect (NHE) in a few non-interacting systems provides a novel mechanism for generating second-harmonic electrical Hall signals under time-reversal-symmetric conditions. Here, we introduce a new approach to engineering an NHE by using twisted moiré structures. We found that the twisted WSe2 bilayer exhibited an NHE when the Fermi level was tuned to the moiré flat bands. When the first moiré band was half-filled, the nonlinear Hall signal exhibited a sharp peak with a generation efficiency that was at least two orders of magnitude greater than those obtained in previous experiments. We discuss the possible origins of the diverging generation efficiency in twisted WSe2 based on resistivity measurements, such as moiré-interface-induced correlation effects and mass-diverging-type continuous Mott transition. This study demonstrates not only how interaction effects can combine with Berry curvature dipoles to produce novel quantum phenomena, but also the potential of NHE measurements as a new tool for studying quantum criticality.
Disparities in Nicotine Addictiveness and Cancer Harm Perceptions Among U.S. Adults: A Trend Analysis Using the Health Information National Trends Survey
Authors: Peterson Emily B , Pitzer Lindsay , Zhao Xiaoquan 
Published: October 2022

AbstractIntroductionRecent research has found widespread misperceptions about nicotine. This study tests perceptions among U.S. adults with respect to nicotine addictiveness and cancer harm, while distinguishing between nicotine misperceptions (ie an incorrect response) and “don’t know” (DK) responses.Aims and MethodsData from three cycles of the Health Information National Trends Survey, fielded in 2015, 2017, and 2019 were merged for analysis. Weighted multinominal logistic regression models were conducted where nicotine addictiveness and cancer harm beliefs (DK, incorrect, and correct responses) were regressed on survey year and demographic variables. We also tested for interactions between survey year and demographic variables to assess if previously identified disparities had evolved during these years.ResultsAnalyses showed lower odds of misperceptions about nicotine addictiveness, but higher odds of misperceptions about nicotine cancer harm in 2019 compared to 2015. There was no change in DK responses during these years. Disparities by sociodemographics and tobacco use status were observed, mostly for cancer harm. Survey year significantly interacted with age in the model for cancer harm, which was driven primarily by increased incorrect responses and decreased DK responses over time among the youngest age group (18–34 years). There were no significant interactions between survey year and race and ethnicity or level of educational attainment.ConclusionsDisparities in nicotine addictiveness and cancer harm perceptions reflect the uneven distribution of knowledge in the U.S. adult population. Nicotine cancer harm misperceptions are increasing and educational efforts to address this misperception are warranted.ImplicationsFuture educational efforts targeting nicotine addictiveness beliefs may benefit by focusing on DK responders. The growing trend of misperceptions of nicotine’s role in cancer harm may negatively impact perceptions about nicotine replacement therapy and low nicotine content cigarettes. Future efforts should focus on correcting nicotine cancer harm misperception, particularly among young adults.
Silicosis after short-term exposure
Authors: Nowak-Pasternak J , Lipińska-Ojrzanowska A , Świątkowska B 
Published: October 2022

Abstract

Background
Silicosis develops after inhalation of dust containing respirable crystalline silica (RCS) and is recognized as an occupational disease. Workers also develop accelerated and acute silicosis after shorter exposure to respirable silica dust at high concentrations.

Aims
The objective of this study is to investigate and identify the occupational groups at the highest risk of silicosis due to short-term RCS exposure.

Methods
All confirmed cases of silicosis reported to the Central Register of Occupational Diseases in Poland between 2000 and 2019 were included. Data analysis covered: gender, age at the time of occupational disease diagnosis, exposure duration to RCS and sector of the national economy.

Results
A total of 2066 confirmed cases of silicosis were analysed. Thirty-two cases occurred after RCS exposure shorter than 5 years. Median age was 50. Seventy-five per cent (n = 24) of these cases were diagnosed in industrial processing workers who were mainly employed in manufacturing of non-metallic mineral products (44%, n = 14) and metal production (19%, n = 6). 16% (n = 5) of cases were associated with employment in mining and quarrying, 6% (n = 2) in conservation of monuments and 3% (n = 1) in construction.

Conclusions
The findings identify occupational groups at risk of silicosis due to short-term silica exposure. Medical professionals should be aware of early silicosis symptoms, and occupational health professionals and employers should improve protective and preventive measures in silica related industries.
Use of Anti-Glycopeptidolipid-Core Antibodies Serology for Diagnosis and Monitoring of Mycobacterium avium Complex Pulmonary Disease in the United States
Authors: Hernandez A G , Brunton A E , Ato M , Morimoto K , Machida S , Henkle E , Winthrop K L 
Published: October 2022

Abstract

Background
There is an unmet need for rapid, accurate, and noninvasive assays for diagnosis and monitoring of Mycobacterium avium complex pulmonary disease (MAC-PD). We evaluated the diagnostic accuracy of an anti-glycopeptidolipid (GPL)-core immunoglobulin A (IgA) antibody test in a US cohort of MAC patients, and we described serial serology changes during antimicrobial therapy.

Methods
We identified serum samples from MAC patients starting treatment at enrollment and control subjects with or without bronchiectasis within OHSU's NTM Biobank. We conducted diagnostic test accuracy. Changes in mean levels of anti-GPL-core IgA antibodies between 0 and 3, 6, or 12 months after treatment start were assessed using the Student's paired t test. Pearson's correlation coefficient was calculated for IgA antibody levels and Student paired t test measures.

Results
We included 25 MAC patients and 18 controls. At baseline, IgA antibody concentrations in MAC patients (3.40 ± 6.77 U/mL) were significantly higher than in controls without bronchiectasis (0.14 ± 0.03 U/mL, P = .02). Sensitivity and specificity for MAC-PD in this population was 48% and 89% (cutoff point 0.7 U/mL), respectively. Among MAC patients starting antimicrobial therapy, mean IgA levels decreased 0.3202 U/mL (P = .86) at month 3, 0.8678 U/mL (P = .47) at month 6, and 1.9816 U/mL (P = .41) at 1 year. Quality of Life-Bronchiectasis Respiratory Symptom Scale improvement correlated with decreasing IgA titers after 12 months of treatment in MAC patients (r = −0.50, P = .06).

Conclusions
Anti-GPL-core IgA antibody levels are relatively specific for MAC-PD and decrease with treatment. Larger studies are warranted to evaluate the role of IgA serology in monitoring treatment response or for disease relapse/reinfection.
Impact of the Coronavirus Disease 2019 Pandemic on the Clinical Features of Pediatric Respiratory Syncytial Virus Infection in Japan
Authors: Ozeki Shoko , Kawada Jun-ichi , Yamashita Daiki , Yasufuku Chika , Akano Takuya , Kato Masahiro , Suzuki Konomi , Tano Chihiro , Matsumoto Kazuki , Mizutani Shu-hei , Mori Ayumi , Nishio Nobuhiro , Kidokoro Hiroyuki , Yasui Yoshihiro , Takahashi Yoshiyuki , Sato Yoshiaki ,   Nagoya Collaborative Clinical Research Team, Shiraki Anna , Ueda Kazuto , Ando Shotaro , Nagai Noriko , Aoshima Tsutomu , Suzuki Michio , Kubota Tetsuo , Suzuki Motomasa , Doi Satoru , Fukumi Daichi , Sugiyama Yuichiro , Morishita Masafumi , Nishimura Naoko , Takagi Mizuki , Kurahashi Hirokazu , Takeuchi Yohei , Kuraishi Kenji , Shinohara Osamu , Kawabe Takashi , Watanabe Nobuhiro , Hasegawa Shinji , Muto Taichiro , Kido Shinji , Hara Shinya , Hoshino Shin 
Published: October 2022

Abstract

Background
Mitigation measures implemented during the coronavirus disease 2019 (COVID-19) pandemic remarkably reduced the incidence of infectious diseases among children. However, a re-emergence of respiratory syncytial virus (RSV) infection was observed in 2021 in Japan. We compared the clinical characteristics of hospitalized patients with RSV infection before and during COVID-19.

Methods
We retrospectively enrolled children aged &lt;6 years who were hospitalized with RSV infection in 18 hospitals and compared their clinical characteristics before (January 2019 to April 2020, 1675 patients) and during COVID-19 (September 2020 to December 2021, 1297 patients).

Results
The mean age of patients with RSV infection was significantly higher during COVID-19 than before (17.4 vs 13.7 months, P &lt; .001). Compared with before COVID-19, a 2.6-fold increase in RSV cases in the 2–5 years age group was observed from sentinel surveillance during COVID-19, whereas a 1.2-fold increase was noted in the same age group among hospitalized patients. On average for all patients, consolidation shadows obtained on radiography were less frequently observed (26.1 vs 29.6%, P = .04), and reduced respiratory assistance (42.2% vs 48.7%, P &lt; .001) and hospitalization stay (5.7 vs 6.0 days, P &lt; .001) was required in patients with RSV infection during COVID-19.

Conclusions
Coronavirus disease 2019 and social activity restriction caused epidemiological changes in pediatric RSV infections, and a majority of patients with RSV infection aged ≥2 years did not develop severe symptoms requiring hospitalization. The RSV symptoms during the COVID-19 outbreak were equivalent to or milder than in the previous seasons.
SUPPRESSOR OF GAMMA RESPONSE 1 plays rice-specific roles in DNA damage response and repair
Authors: Nishizawa-Yokoi Ayako , Motoyama Ritsuko , Tanaka Tsuyoshi , Mori Akiko , Iida Keiko , Toki Seiichi 
Published: October 2022

AbstractLand plants are constantly exposed to environmental stresses and have developed complicated defense systems, including DNA damage response (DDR) and DNA repair systems, to protect plant cells. In Arabidopsis (Arabidopsis thaliana), the transcription factor SUPPRESSOR OF GAMMA RESPONSE1 (SOG1) plays a key role in DDR. Here, we focus on DDR in rice (Oryza sativa)—thought to be a simpler system compared with Arabidopsis due to lack of induction of the endocycle even under DNA damage stress. Rice SOG1 (OsSOG1) and SOG1-like (OsSGL) were identified as putative AtSOG1 orthologs with complete or partial conservation of the serine–glutamine motifs involved in activation via phosphorylation. In addition to OsSOG1 or OsSGL knockout mutants, OsSOG1 nonphosphorylatable mutants (OsSOG1-7A) were generated by homologous recombination-mediated gene targeting. Based on the analysis of DNA damage susceptibility and the effect on the expression of DNA repair-related genes using these mutants, we have demonstrated that OsSOG1 plays a more important role than OsSGL in controlling DDR and DNA repair. OsSOG1-regulated target genes via CTT (N)7 AAG motifs reported previously as AtSOG1 recognition sites. The loss of transcription activity of OsSOG1-7A was not complete compared with OsSOG1-knockout mutants, raising the possibility that other phosphorylation sites might be involved in, or that phosphorylation might not be always required for, the activation of OsSOG1. Furthermore, our findings have highlighted differences in SOG1-mediated DDR between rice and Arabidopsis, especially regarding the transcriptional induction of meiosis-specific recombination-related genes and the response of cell cycle-related genes, revealing rice-specific DDR mechanisms.
Rose WRKY13 promotes disease protection to Botrytis by enhancing cytokinin content and reducing abscisic acid signaling
Authors: Liu Xintong , Zhou Xiaofeng , Li Dandan , Hong Bo , Gao Junping , Zhang Zhao 
Published: October 2022

Abstract
The plant hormones cytokinin (CK) and abscisic acid (ABA) play critical and often opposite roles during plant growth, development, and responses to abiotic and biotic stresses. Rose (Rosa sp.) is an economically important ornamental crop sold as cut flowers. Rose petals are extremely susceptible to gray mold disease caused by the necrotrophic fungal pathogen Botrytis cinerea. The infection of rose petals by B. cinerea leads to tissue collapse and rot, causing severe economic losses. In this study, we showed that CK and ABA play opposite roles in the susceptibility of rose to B. cinerea. Treatment with CK enhanced the disease protection of rose petals to B. cinerea, while ABA promoted disease progression. We further demonstrated that rose flowers activate CK-mediated disease protection via a B. cinerea-induced rose transcriptional repressor, Rosa hybrida (Rh)WRKY13, which is an ortholog of Arabidopsis (Arabidopsis thaliana), AtWRKY40. RhWRKY13 binds to promoter regions of the CK degradation gene CKX3 (RhCKX3) and the ABA-response gene ABA insensitive4 (RhABI4), leading to simultaneous inhibition of their expression in rose petals. The increased CK content and reduced ABA responses result in enhanced protection from B. cinerea. Collectively, these data reveal opposite roles for CK and ABA in the susceptibility of rose petals against B. cinerea infection, which is mediated by B. cinerea-induced RhWRKY13 expression.
Web of Power: How Elite Networks Shaped War and Politics in China
Authors: Bai Ying , Jia Ruixue , Yang Jiaojiao 
Published: October 2022

AbstractScholars have argued that powerful individuals can exert influence on the path of a nation’s development. Yet the process through which people can have an effect on macro-level political economy outcomes remains unclear. This study uses the deadliest civil war in modern history, the Taiping Rebellion (1850–1864), to elucidate how one person—Zeng Guofan—used his personal elite networks to organize an army to suppress the rebellion, and how these networks would affect the nation’s power distribution. Two findings stand out: (i) counties that already had more prewar elites in Zeng’s networks experienced an increase in soldier deaths after he took power; and (ii) postwar political power shifted significantly toward the home counties of these elites, creating a less balanced national-level power distribution. Our findings highlight how micro-level elite networks can influence national politics and societal power distribution, shedding new light on the relationship between elites, war, and the state.
The adjusted Global Anti-Phospholipid Syndrome Score as predictor of damage accrual measured by Damage Index for APS: a longitudinal study
Authors: Barilaro Giuseppe , Della Rocca Carlo , Esteves Alexandra , Cervera Ricard , Espinosa Gerard 
Published: October 2022

Abstract

Objective
To analyse the association between the average ‘adjusted’ Global APS Score (aGAPSS) over time, as a surrogate of disease activity, and change in Damage Index for APS (DIAPS) during follow-up in patients with thrombotic and non-thrombotic APS.

Methods
Two hundred APS patients (138 primary, 62 associated to other autoimmune diseases) were included. DIAPS change was calculated as the difference between basal DIAPS and DIAPS at the end of follow-up. The aGAPSS was calculated for each patient at baseline and on a yearly basis for up to 6 years (minimum 3 years). The average score per patient was computed and considered the reference aGAPSS. Linear regression models were designed to analyse the association between mean aGAPSS and DIAPS change. Moreover, factors associated to high (increase of DIAPS ≥1 during follow-up) vs low (increase of DIAPS &lt;1 during follow-up) damage accrual were assessed.

Results
A higher mean aGAPSS value was associated to a DIAPS increase during follow-up (b = 0.04, P &lt; 0.001) in the multivariate analysis. Higher mean aGAPSS values were found in patients with a DIAPS increase ≥1 during follow-up compared with patients with an increase of &lt;1 point [9.22 (95% CI 7.58, 10.86) vs 6.72 (95% CI 6.0, 7.43), P = 0.003]. aGAPSS increased the odds a DIAPS increment of ≥1 point during follow-up [OR = 1.12 (95% CI 1.04, 1.21), P = 0.003].

Conclusions
Our data support the utility of longitudinal assessing of the aGAPSS score in predicting damage accrual, measured by DIAPS, in APS.