bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association Between COVID-19 During Pregnancy and Preterm Birth by Trimester of Infection: A Retrospective Cohort Study Using Longitudinal Social Media Data
Authors: Klein Ari Z. , Kunatharaju Shriya , Golder Su , Levine Lisa D. , Figueiredo Jane C. , Gonzalez-Hernandez Graciela 
Published: November 2023

AbstractBackgroundPreterm birth, defined as birth at <37 weeks of gestation, is the leading cause of neonatal death globally and, together with low birthweight, the second leading cause of infant mortality in the United States. There is mounting evidence that COVID-19 infection during pregnancy is associated with an increased risk of preterm birth; however, data remain limited by trimester of infection. The ability to study COVID-19 infection during the earlier stages of pregnancy has been limited by available sources of data. The objective of this study was to use self-reports in large-scale, longitudinal social media data to assess the association between trimester of COVID-19 infection and preterm birth.MethodsIn this retrospective cohort study, we used natural language processing and machine learning, followed by manual validation, to identify pregnant Twitter users and to search their longitudinal collection of publicly available tweets for reports of COVID-19 infection during pregnancy and, subsequently, a preterm birth or term birth (i.e., a gestational age ≥37 weeks) outcome. Among the users who reported their pregnancy on Twitter, we also identified a 1:1 age-matched control group, consisting of users with a due date prior to January 1, 2020—that is, without COVID-19 infection during pregnancy. We calculated the odds ratios (ORs) with 95% confidence intervals (CIs) to compare the overall rates of preterm birth for pregnancies with and without COVID-19 infection and by timing of infection: first trimester (weeks 1-13), second trimester (weeks 14-27), or third trimester (weeks 28-36).ResultsThrough August 2022, we identified 298 Twitter users who reported COVID-19 infection during pregnancy, a preterm birth or term birth outcome, and maternal age: 94 (31.5%) with first-trimester infection, 110 (36.9%) second-trimester infection, and 95 (31.9%) third-trimester infection. In total, 26 (8.8%) of these 298 users reported preterm birth: 8 (8.5%) were infected during the first trimester, 7 (6.4%) were infected during the second trimester, and 12 (12.6%) were infected during the third trimester. In the 1:1 age-matched control group, 13 (4.4%) of the 298 users reported preterm birth. Overall, the risk of preterm birth was significantly higher for pregnancies with COVID-19 infection compared to those without (OR 2.1, 95% CI 1.06-4.16). In particular, the risk of preterm birth was significantly higher for pregnancies with COVID-19 infection during the third trimester (OR 3.17, CI 1.39-7.21).ConclusionThe results of our study suggest that COVID-19 infection particularly during the third trimester is associated with an increased risk of preterm birth.
Immunity to non-dengue flaviviruses impacts dengue virus IgG ELISA specificity in Cambodia
Authors: Odio Camila , Yek Christina , Hasund Chloe M. , Man Somnang , Ly Piseth , Nhek Sreynik , Chea Sophana , Lon Chanthap , Voirin Charlie , Huy Rekol , Leang Rithea , Huch Chea , Oliveira L. Fabiano , Manning Jessica E. , Katzelnick Leah C. 
Published: November 2023

AbstractSeroprevalence studies are the gold standard for disease surveillance, and serology was used to determine eligibility for the first licensed dengue vaccine. However, expanding flavivirus endemicity, co-circulation, and vaccination complicate serology results. Among 713 healthy Cambodian children, a commonly used indirect dengue virus IgG ELISA (PanBio) had a lower specificity than previously reported (94% vs. 100%). Of those with false positive PanBio results, 46% had detectable neutralizing antibodies against other flaviviruses, with the highest frequency against West Nile virus (WNV). Immunity to non-dengue flaviviruses can impact dengue surveillance and potentially pre-vaccine screening efforts.
scfetch: an R package to access and format single-cell RNA sequencing datasets from public repositories
Authors: Song Yabing , Gao Jiaxin , Wang Jianbin 
Published: November 2023

AbstractSummaryDownloading and reanalyzing the existing single-cell RNA sequencing (scRNA-seq) datasets is an efficient method to gain clues or new insights. However, there is no tool to access diverse scRNA-seq datasets (fastq/bamfiles, count matrices and processed objects) distributed in various repositories, consider features of datasets from different scRNA-seq protocols, and prepare for downstream analysis. Here, we presentscfetch, an R package to download diverse scRNA-seq datasets from SRA, GEO, PanglaoDB, UCSC Cell Browser, Zenodo and CELLxGENE, and load the downloaded datasets toSeurat. scfetchsupports scRNA-seq datasets generated by different protocols such as 10x Genomics and Smart-seq2. Besides,scfetchenables users to convert formats between different scRNA-seq objects, includingSeuratObject, Anndata, SingleCellExperiment, CellDataSet/cell_data_setandloom. Furthermore,scfetchalso supports downloadingfastq/bamfiles and count matrices of bulk RNA-seq from SRA and GEO.Availability and ImplementationThescfetchpackage and vignettes are freely available athttps://github.com/showteeth/scfetchandhttps://showteeth.github.io/scfetch/.Contactgaojx@im.ac.cn,jianbinwang@tsinghua.edu.cn.Supplementary informationSupplementary data are appended.
Proteomic Features of Adolescents and Young Adults with Soft Tissue Tumours
Authors: Tam Yuen Bun , Low Kaan , Hari PS , Chadha Madhumeeta , Burns Jessica , Wilding Christopher P , Arthur Amani , Chen Tom W , Thway Khin , Sadanandam Anguraj , Jones Robin L , Huang Paul H 
Published: November 2023

AbstractAdolescents and young adult (AYA) patients with soft tissue tumours (STT) including sarcomas are an underserved group with disparities in treatment outcomes. To define the molecular features between AYA and older adult (OA) patients, we analysed the proteomic profiles of a large cohort of STT across 10 histological subtypes (AYA n=66, OA n=243). AYA tumours are enriched in proteins involved in mitochondrial metabolism while OA patients have elevated inflammatory and cell cycle signalling. By integrating the patient-level proteomic data with functional genomic profiles from sarcoma cell lines, we show that the mRNA splicing pathway is an intrinsic vulnerability in cell lines from OA patients and that components of the spliceosome complex are independent prognostic factors for metastasis free survival in AYA patients. Our study highlights the importance of performing age-specific molecular profiling studies to identify risk stratification tools and targeted agents tailored for the clinical management of AYA patients.
Action observation intervention using three - dimensional movies improves the usability of hands with distal radius fractures in daily life: a nonrandomized controlled trial in women
Authors: Usuki Kengo , Ueda Hiroaki , Yamaguchi Toshiya , Suzuki Takako , Hamaguchi Toyohiro 
Published: November 2023

AbstractProlonged immobilization of joints after distal radius fracture (DRF) leads to cerebral disuse-dependent plasticity (DDP) and deterioration of upper extremity function. Action observation therapy (AOT) can improve DDP. This nonrandomized controlled trial (UMIN 000039973) tested the hypothesis that AOT improves hand-use difficulties during activities of daily living in patients with DRF. Right-handed women with volar locking plate fixation for DRF were divided into AOT and Non-AOT groups for a 12-week intervention. The primary outcome was the difficulty in using the fractured hand, as examined by the Japanese version of the Patient-Related Wrist Evaluation (PRWE). Secondary outcomes were (1) range of motion (ROM) of the injured side and (2) difference between the measured and patient-estimated ROM. The survey was conducted immediately postoperatively and at 4, 8, and 12 weeks postoperatively. The AOT groups used a head-mounted display and three-dimensional video during ROM exercises, whereas the Non-AOT group used active ROM exercises alone. A generalized linear model (GLM) was used to confirm interactions and main effects by group and time period, and multiple comparisons were performed. In total, 35 patients were assigned to the AOT (n=18, median age 74 years) and Non-AOT (n=17, 70 years) groups. In the GLM, PRWE Total, PRWE Specific, and PRWE Usual scores showed interactions between groups and periods. A post-hoc test showed that the PRWE Specific (z=3.43, p=0.02) and PRWE Usual (z=7.53, p<0.01) scores w ere significantly lower in the AOT group than in the Non-AOT group at 4 weeks postoperatively, whereas PRWE Total s cores (z=3.29, p=0.04) were lower at 8 weeks postoperatively. These results suggest that AOT can improve hand-use difficulties in right-handed women after DRF surgery. AOT positively affects the motor imagery of patients with DRF and can reverse the patient’s perceived difficulty of using the fractured hand during rehabilitation.
Neural Deterioration and Compensation in Visual Short-term Memory Among Individuals with Amnestic Mild Cognitive Impairment
Authors: Xie Ye , Zhang Wei , Li Yunxia , Ku Yixuan 
Published: November 2023

AbstractAmnestic mild cognitive impairment (aMCI) is considered to carry a high risk of progression to Alzheimer’s Disease (AD) and it has been characterized by deficits in visual short-term memory (VSTM). However, the relationship between VSTM deficits and pathological brain damage in individuals with MCI has remained unknown. In the current study, we examined a group of 123 elder adults, including 55 with aMCI and 68 age-matched controls. Participants performed color change-detection VSTM tasks, and structural and functional magnetic resonance images were acquired during rest. Compared to the normal control (NC) group, individuals with aMCI exhibited poorer accuracy and longer reaction time in VSTM tasks, along with reduced VSTM capacity. Additionally, structural atrophy was observed in aMCI participants in several brain regions, including the left medial temporal lobe (MTL), the left thalamus, the right frontal pole (FP) and the right postcentral gyrus (postCG). Interestingly, VSTM accuracy and capacity were found to be associated with the volume of the left MTL in the NC group but not in the aMCI group, suggesting alterations in the relationship between VSTM and brain regions in aMCI. However, VSTM capacity was correlated with the volume of the right FP in both groups, suggesting potential compensatory mechanisms involving the prefrontal cortex in aMCI. Moreover, using the atrophic left MTL as a seed, functional connectivity to the right FP was significantly higher in aMCI compared to NC. Notably, this FP area showed overlap with the atrophic frontal areas in terms of structural abnormalities. Furthermore, for individuals with aMCI who had a larger left MTL, the compensatory involvement of the right FP in VSTM, as assessed by brain-behavior correlations, was diminished. In summary, the present study uncovered a mechanism involving MTL dysfunction and prefrontal compensation in aMCI when performing VSTM tasks. These findings may offer valuable insights into potential intervention targets for individuals with aMCI.
First complete genome characterization of an Indian pigeon pox virus directly from a clinical sample
Authors: Sahu Basanta Pravas , Panda Subhasmita , Singh Ravi Raj , Swain Subrat Kumar , Sahoo Niranjana , Sahoo Anjan Kumar , Nayak Debasis 
Published: November 2023

AbstractAvian pox disease is a highly contagious infection caused by pox virus and has serious consequences on avian species with regards to economic and conservation aspects. This viral genus named as Avipox virus (APV) that infects nearly 300 bird species and lack of enough complete genome information creates hindrance to infer this virus biology. Thus in this study, we have revealed the first complete genome of an Indian pigeon pox virus that belongs to the genus APV followed by comparative genomics analysis. The entire genome of present isolate (PPV/Pur-Od-4b/01/Ind) having 280058 bp nucleotide sequences with the GC content 29.51%. The unique feature of this complete genome revealed the presence of 270 open reading frames (ORFs) circumscribed by inverted terminal repeats (ITRs) of 4,689 bp at each end and lack of recombination events. The concatenated amino acid phylogenetic tree deciphered the present isolate closely related with Feral Pigeon pox virus derived from Africa. The molecular markers, such as microsatellites were ubiquitously distributed throughout the genome and more prevalent within the functional genes.
Effects of virtual fear on real anxiety – A pilot study assessing the effects of exposure in virtual reality and in vivo on anxious healthy participants in narrow rooms
Authors: Renner Vanessa , Witthöft Michael , Hardt Jochen , Conrad Rupert , Petrowski Katja 
Published: November 2023

AbstractIn vivo exposure is a highly effective but rarely implemented treatment for agoraphobia. Most of the patients receive medication or cognitive therapy without exposure because of a high expenditure of money and time for in vivo exposure. Exposure in virtual reality (VR) is easier to implement but the effectiveness of stimulating fear compared to in vivo exposure is still questionable. Therefore, in this study, the effects of in vivo and VR exposure on subjective symptom burden and heart rate variability (HRV) were assessed. 30 healthy individuals with fears in narrow rooms went through in vivo and VR exposure in a randomized order while HRV parameters (RMSSD, HF) and subjective symptom burden was assessed. Linear mixed models were calculated. The effect of condition (VR vs. in vivo), scenario (several narrow rooms) and slot (first 30 seconds, peak, last 30 seconds) on RMSSD and HF was assessed. A random effect for participants (random-intercept term) to allow the intercept to vary across participants was included. Regarding RMSSD and HF, participants showed significantly higher levels during in vivo exposure compared to exposure in VR (RMSSD: p = .005; HF: p < .001), reflecting a stronger activation of the parasympathetic nervous system during in vivo exposure or presumably higher stress levels during VR exposure. This study highlights the necessity of assessing subjective and objective parameters allowing the evaluation of the effectiveness of fear stimulation by exposure approaches. The effectiveness of VR exposure for agoraphobic patients’ needs to be assessed in future studies.
Clinical applicability of the WaveFront Phase Imaging Sensor in the Keratoconus Disease
Authors: Belda-Para Carolina , Velarde-Rodríguez Gonzalo , Velasco-Ocaña Miriam , Trujillo-Sevilla Juan M. , Rodríguez-Méndez Iván , Rodríguez-Martin Javier , Alejandre-Alba Nicolas , Rodríguez-García Silvia , Rodríguez-Ramos José M. 
Published: November 2023

AbstractSignificanceThe analysis of the wavefront phase of keratoconus eyes has become increasingly important due to its impact on the assessment of visual quality loss, irrecoverable with conventional optical treatments, and the understanding of morphological changes in corneal structures.AimThe aim of this work is to quantitatively assess the wavefront phase of keratoconic eyes measured by the novel high-resolution ocular aberrometer t·eyede (based on WaveFront Phase Imaging Sensor).ApproachThe measurements with this device were taken on healthy and keratoconic eyes at the Hospital Universitario Fundación Jiménez Díaz (Madrid, Spain). The wavefront phase recovered is post-processed and displayed in different phase maps, using exclusively the high-pass filter map for this study. From this map, the Root Mean Square, the Peak-to-Valley, and the amplitude value of the predominant obtained from its Fourier Transform are the parameters to distinguish between healthy and keratoconic eyes. Furthermore, the banding pattern observed in most keratoconic eyes is quantitatively analyzed by means of its period and orientation calculated from the Fourier Transform.ResultsThe Control group was composed of 43 healthy eyes, and the Pathological group presented 43 keratoconic eyes. Regarding the first three parameters used to compare both groups, there were significant statistical differences between them in all parameters, where the values obtained with the keratoconic group were higher than those of the healthy group. Although the values cannot be statistically comparable between stages, they tended to increase according to the severity of the disease. On the other hand, analyzing the banding pattern, the mean value of the period was approximately 50 µm, and most orientations were obliquus, tending to be horizontal rather than vertical.ConclusionsThe present study demonstrates that the objective analysis of the high frequencies detected by this wavefront sensor is a potential tool to reliably advise in the keratoconus diagnosis. Furthermore, combining this achievement with the quantitative assessment of the banding pattern would be used to objectively monitor the internal corneal status throughout the disease and its treatment optimization and surgery time.
Governing principles of transcriptional logic out of equilibrium
Authors: Dixit Smruti , Middelkoop Teije C. , Choubey Sandeep 
Published: November 2023

AbstractCells face a myriad of environments and signaling cues. In order to survive, adapt, and desvelop, cells respond to external and internal stimuli, by tightly regulating transcription. Transcriptional regulation involves combinatorial binding of a repertoire of transcription factors (TFs) to DNA, which often results in switch-like binary outputs, akin to logic gates. Recent experimental studies have demonstrated that transcription factor binding to DNA often involves energy expenditure, thereby driving the system out of equilibrium. The governing mechanistic principles of transcriptional logic out of equilibrium remain elusive. To this end, we employ a simple two-input model of transcription that explicitly considers the non-equilibrium binding of TFs to DNA. This simple model can accommodate both equilibrium and non-equilibrium mechanisms and allows for a comparative study of logic operations obtained in the two regimes. We find that, out of equilibrium, the regulatory function of two transcription factors gets altered in a mutually exclusive manner. Such behavior allows non-equilibrium regimes to recreate all the logic operations seen in equilibrium and create new logic operations inaccessible in equilibrium. Our findings demonstrate that cells attain a wider range of decision-making abilities by expending energy.
Subcellular Cavitation Bubbles Induce Cellular Mechanolysis and Collective Wound Healing in Ultrasound-Inflicted Cell Ablation
Authors: Bai Ziyue , Li Zaimeng , Shao Yue 
Published: November 2023

AbstractFocused ultrasound (FUS) has been widely adopted in medical and life science researches. Although various physical and biological effects of FUS have been well-documented, there is still a lack of understanding and direct evidence on the biological mechanism of therapeutic cell ablation caused by high-intensity ultrasound (HIFU) and the subsequent wound healing responses. This study develops an enclosed cell culture device that synergistically combines non-invasive FUS stimulation and real-time, on-the-fly live-cell imaging, providing an in vitro platform to explore short and long-term biological effects of ultrasound. The process, mechanism, and wound healing response of cell ablation induced by HIFU are elucidated, revealing a unique mechanism, termed ultrasound-inflicted cellular mechanolysis, that is mediated by growing subcellular cavitation air bubbles under confined contact with cells. This provides a previously unappreciated mechanism for understanding the biomechanical principles of ultrasound-based ablative therapy. We also reveal a post-ablation phantom layer that serves as a guiding cue for collective cell migration during wound healing, thereby providing a biomimetic model for studying wound healing after HIFU-inflicted damage. Together, this study provides theoretical and technological basis for advancing our understanding of the biological effects of ultrasound-based ablative therapy and inspiring clinically relevant applications in the future.Key Points1)Development of an integrated platform for real-time, on-the-fly imaging of FUS-induced cell ablation and response processes at cellular and subcellular levels2)Focused ultrasound induces cellular mechanolysis through previously unappreciated subcellular cavitation bubbles that grow under confined contact with cells3)Post-ablation phantom cell layer could serve as a guiding cue for collective wound healing after ultrasound-inflicted ablation
Parvalbumin interneuron mGlu5receptors govern sex differences in prefrontal cortex physiology and binge drinking
Authors: Fabian Carly B. , Jordan Nilah D. , Cole Rebecca H. , Carley Lily G. , Thompson Shannon M. , Seney Marianne L. , Joffe Max E. 
Published: November 2023

AbstractDespite established sex differences in the prevalence and presentation of psychiatric disorders, little is known about the cellular and synaptic mechanisms that guide these differences under basal conditions. Proper function of the prefrontal cortex (PFC) is essential for the top-down regulation of motivated behaviors. Activity of the PFC is tightly controlled by parvalbumin-expressing interneurons (PV-INs), a key subpopulation of fast-spiking GABAergic cells that regulate cortical excitability through direct innervations onto the perisomatic regions of nearby pyramidal cells. Recent rodent studies have identified notable sex differences in PV-IN activity and adaptations to experiences such as binge drinking. Here, we investigated the cellular and molecular mechanisms that underlie sex-specific regulation of PFC PV-IN function. Using whole-cell patch clamp electrophysiology and selective pharmacology, we report that PV-INs from female mice are more excitable than those from males. Moreover, we find that mGlu1and mGlu5metabotropic glutamate receptors regulate cell excitability, excitatory drive, and endocannabinoid signaling at PFC PV-INs in a sex-dependent manner. Genetic deletion of mGlu5receptors from PV-expressing cells abrogates all sex differences observed in PV-IN membrane and synaptic physiology. Lastly, we report that female, but not male, PV-mGlu5-/-mice exhibit decreased voluntary drinking on an intermittent access schedule, which could be related to changes in ethanol’s stimulant properties. Importantly, these studies identify mGlu1and mGlu5receptors as candidate signaling molecules involved in sex differences in PV-IN activity and behaviors relevant for alcohol use.
International performance of Latin American companies: institutional and reputational perspectives
Authors: Parente-Laverde Ana-Maria , Martins Izaias , Rojas de Francisco Laura Isabel 
Published: November 2023

PurposeThis study aims to analyze the effect of institutional dimensions and corporate reputation (CR) on the performance of Latin American companies using a study framework built on institutional theory.Design/methodology/approachThe authors used a panel data analysis of 45 companies from the 6 biggest economies in Latin America for 5 years.FindingsThe authors found a positive effect between institutional independence and transparency perception, certifications, social norms, chief executive officer (CEO) international experience, board of directors' networks and CR with international performance (IP) and a negative effect between property rights protection and the perception of corporate social responsibility (CSR) with performance.Originality/valueThe uniqueness of this paper is based on the analysis of institutional and reputational variables on the IP of firms from emerging markets.