cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19978025
title: Supplementary Material for: Childhood Maltreatment and Its Association with Cognitive Ability in Young People Suspected to Be at Clinical High Risk of Psychosis

description: <b><i>Introduction:</i></b> Childhood maltreatment is associated with both reduced cognitive functioning and the development of psychotic symptoms. However, the specific relationship between childhood maltreatment, cognitive abilities and (pre)psychotic symptoms remains unclear. Therefore, the aim of this study was to investigate the association between childhood maltreatment and tasks of verbal memory and processing speed in a help-seeking sample of an early detection of psychosis service. <b><i>Methods:</i></b> A total of 274 participants consisting of 177 clinical high risk (CHR) for psychosis subjects and 97 clinical controls (CC) with subthreshold CHR underwent a battery of neurocognitive assessments measuring the latent variables verbal memory and processing speed. Additionally, the Trauma and Distress Scale (TADS) was administered to assess varying childhood maltreatment subtypes. Structural equation modeling (SEM) was used to examine associations between verbal memory, processing speed, and maltreatment subtypes. Other factors in the model were age, gender, clinical group (CHR or CC), and the presence of different CHR criteria. <b><i>Results:</i></b> Physical abuse was associated with lower scores in verbal memory and processing speed. The explained variance in the SEM reached up to 9.5% for verbal memory and 24.9% for processing speed. Both latent variables were each associated with the presence of cognitive-perceptive basic symptoms. Lower verbal memory was additionally associated with the clinical high-risk group, and processing speed capacity was associated with higher age and female gender. <b><i>Conclusion:</i></b> Childhood physical abuse in particular was associated with poorer performance on verbal memory and processing speed across both groups of CHR and CC with subthreshold CHR symptoms. This adds to the current literature on reduced cognitive abilities when childhood maltreatment had occurred, albeit subtype dependent. Our findings, together with high prevalence rates of childhood maltreatment in patients with psychosis or CHR states, along with the presence of cognitive deficits in these patients, highlight the importance of not only assessing cognition but also childhood maltreatment in managing these patients. Future research should investigate the specific biological mechanisms of childhood maltreatment on verbal memory and processing speed in CHR subjects, as neurobiological alterations might explain the underlying mechanisms.
DOI: 10.6084/m9.figshare.21820677.v2
title: Deuterium content and site occupancy in iron sulphide at high pressure and temperature determined using in situ neutron diffraction measurements - The final structural model for deuterated FeS V - CIF

description: The CIF file of the final structural model of deuterated FeS V (<i>P</i>63/<i>mmc</i>, Z=2) at 6.9 GPa and 960 K. Refined occupancies of D are in positions; <i>6h (0.14</i>) and <i>4f (</i>0.16).The atomic coordinates for the different atoms are: Fe:{0, 0, 0}; S: {1/3, 2/3, 1/4}; D-6h:{0.46(2), 0.54(2), 3/4}; and D-4f:{1/3, 2/3, 0.03(3)}.
DOI: 10.6084/m9.figshare.21996170
title: Supplementary Material for: The value of ultra-high frequency ultrasound for the differentiation between superficial basal cell carcinoma and Bowen's disease

description: Background: The similar visual appearance of superficial basal cell carcinoma (sBCC) and Bowen's disease (BD) may cause confusion for diagnosis. Objective: To investigate the value of ultra-high frequency ultrasound (uHFUS) in differentiating sBCC from BD. Materials and methods: This prospective study included a pilot cohort of 110 patients (73 BDs and 37 sBCCs) from November 2016 to October 2020 and a validation cohort of 42 patients (30 BDs and 12 sBCCs) from July 2021 to December 2021. Clinical and uHFUS features of pathologically confirmed sBCC and BD were assessed. A predictive model was developed based on the HFUS features of the pilot cohort. Subsequently, the model was validated and compared with clinical diagnosis in the validation cohort. Results: uHFUS features with significant differences between sBCC and BD included lesion surface, skin layer involvement, hyperkeratosis, and hyperechoic spots (all p &lt; 0.05). A prediction model based on the above features was established to identify sBCC and BD in the pilot and validation cohorts with the areas under the curve (AUC) of 0.908 and 0.923, sensitivity of 82.3% and 83.3%, specificity of 91.9% and 91.7%, accuracy of 85.5% and 85.7%, respectively, which was significantly higher than those obtained by clinical diagnosis based on photographic pictures of lesions, with the AUC of 0.692, sensitivity of 63.3%, specificity of 75.3%, and accuracy of 66.7% (all p &lt; 0.05). Conclusion: uHFUS provides detailed internal features of sBCC and BD, which facilitates the differentiation between sBCC and BD and its diagnostic performance is superior to clinical diagnosis.
DOI: 10.6084/m9.figshare.22359952
title: Supplementary Material for: Prevalence of Uncontrolled Asthma despite Treatment with Medium- or High-Dose ICS/LABA Using Patient-Reported Outcomes in Japan: The KOCU (KnOwing the Controlled statUs of Asthma in Japan) Study

description: <b><i>Introduction:</i></b> Evidence on the prevalence of uncontrolled asthma upon the standard of care in Japan is scarce and inconsistent. We report the prevalence of uncontrolled asthma using the Japanese Guidelines for Asthma (JGL) 2018 and Global Initiative for Asthma (GINA) 2019 classifications in patients who are currently receiving standard-of-care treatment in a real-life setting. <b><i>Methods:</i></b> In this prospective, 12-week, noninterventional study, patients with asthma aged 20–75 years and continuously treated with medium- or high-dose inhaled corticosteroid (ICS)/LABA, with or without other controller(s), were assessed for their asthma control status. The demographics, clinical characteristics, treatment patterns, health care resource utilization, patient-reported outcomes (PROs), and adherence to prescribed treatments were assessed for patients classified as either controlled or uncontrolled. <b><i>Results:</i></b> Of 454 patients, 53.7% and 36.3% of the patients reported their asthma as uncontrolled based on the JGL and GINA criteria, respectively. Uncontrolled asthma was even higher (JGL, 75.0%; GINA, 63.5%) within the subpopulation of 52 patients receiving long-acting muscarinic antagonists (LAMAs; i.e., ICS/LABA/LAMA subpopulation). Sensitivity analysis by propensity matching identified significant odds ratios of controlled versus uncontrolled asthma for several demographics and clinical characteristics: male; sensitization to animals, fungi, or birch; comorbidities including food allergy or diabetes; and history of exacerbation were associated with the risk of uncontrolled asthma. No significant changes in PROs were observed. <b><i>Conclusion:</i></b> The frequency of uncontrolled asthma in the study population was high, as per JGL and GINA guidelines, despite good adherence to ICS/LABA treatment and other prescribed treatments over 12 weeks.
DOI: 10.6084/m9.figshare.23523597
title: Supplementary Material for: Management of Coats-Like Disease in a Forty-Four-Year-Old Patient with FSHD Type I

description: A forty-four-year-old female patient known for FSHD type I, with unremarkable past ocular history, complained of progressive visual acuity deterioration during a routine ophthalmological visit. Best-corrected visual acuity (BCVA) was 1.0 decimal Snellen equivalent bilaterally. Dilated fundus examination showed evidence of retinal Coats-like disease in the left eye, while the right eye showed significant retinal vascular tortuosity. Multimodal examinations (OCT scans and FA-fluorescein angiography) revealed large areas of retinal ischemia, thus confirming a retinal vascular disorder compatible with the diagnosis of Coats-like disease. Left eye laser photocoagulation of the ischemic areas was performed to avoid neovascular complications that had not been detected during follow-up visits (12 months), and BCVA in the left eye remained stable at 1.0 decimals Snellen equivalent. Coats-like disease in a patient affected by FSHD type I should always be screened even in the absence of any prior ocular diseases. Guidelines concerning the ophthalmological management of adults affected by FSHD are lacking. Based on this case, we recommend performing a yearly complete ophthalmological checkup with dilated fundus examination and retinal imaging. Patients should, furthermore, be encouraged to seek medical attention when noticing deterioration of visual acuity or other visual symptoms in order to avoid missing potential sight-threatening ocular complications.
DOI: 10.18462/iir.tptpr.2021.2038
title: Ice thermal energy storage for electricity peak shaving in a commercial refrigeration/HVAC unit.
DOI: 10.5281/zenodo.8009879
title: UHI dataset

description: These files contains dataset of spatial nocturnal Urban Heat Island (UHI) intensities for 45 French urban agglomerations, at a horizontal resolution of 250 m. The urban influence on air temperature at 2 m above ground level was obtained by coupling the mesoscale atmospheric model Meso-NH with the land surface model SURFEX-TEB. For each agglomeration, two specific local weather situations that favour the development of a strong UHI in summer are simulated and described in a specfic sheet. Simulation results have been postprocessed to 1) identify the time of day when the UHI is the most developed, 2) to merge information from both meteorological situations in order to obtain one synthetic UHI map and 3) a geographical analysis that allows to classify each city among five spatial UHI classes (Concentrated Very High Intensity; Concentrated High Intensity ; Limited Intensity; Dispersed High Intensity; and Dispersed Cool Zones). This dataset can therefore be used for several purposes, from the analysis at the scale of a city to the comparison of the urban agglomerations among them.
DOI: 10.5281/zenodo.8279823
title: TG-CSR: Theoretically-Grounded Commonsense Reasoning Benchmark

description: Achieving machine common sense has been a longstanding problem within Artificial Intelligence. Thus far, benchmark data sets that are grounded in a theory of common sense and can be used to conduct rigorous, semantic evaluations of common sense reasoning (CSR) systems have been lacking. One expectation of the AI community is that neuro-symbolic reasoners can help bridge this gap towards more dependable systems with common sense. We propose a novel benchmark, called <em>Theoretically Grounded common sense Reasoning (TG-CSR)</em>, modeled as a set of question-answering instances, with each instance grounded in a semantic category of common sense, such as space, time, and emotions. The benchmark is few-shot i.e., only a few training and validation examples are provided in the public release to avoid the possibility of overfitting. Results from recent evaluations suggest that TG-CSR is challenging even for state-of-the-art statistical models. Due to its semantic rigor, this benchmark can be used to evaluate the common sense reasoning capabilities of neuro-symbolic systems.
DOI: 10.5441/002/edbt.2019.35
title: Continuous Deployment of Machine Learning Pipelines
DOI: 10.6084/m9.figshare.19961504
title: Supplementary Material for: Comparative neuroanatomy of the mechanosensory subgenual organ complex in the Peruvian stick insect, Oreophoetes peruana

description: The subgenual organ complex in the leg of Polyneoptera (Insecta) consist of several chordotonal organs specialised to detect mechanical stimuli from substrate vibrations and airborne sound. In stick insects (Phasmatodea), the subgenual organ complex contains the subgenual organ and the distal organ located distally to the subgenual organ. The subgenual organ is a highly sensitive detector for substrate vibrations. The distal organ has a characteristic linear organisation of sensilla, and is likely also to respond to substrate vibrations. Despite its unique combination of sensory organs, the neuroanatomy of the subgenual organ complex of only very few species of stick insects has been investigated so far. Phylogenomic analysis has established for Phasmatodea the early branching of the sister groups Oriophasmata, the Old World phasmids, and Occiophasmata, the New World phasmids. The species studied for the sensory neuroanatomy, including the Indian stick insect Carausius morosus, belong to the Old World stick insects. Here, the neuroanatomy of the subgenual organ complex is presented for a first species of the New World stick insects, the Peruvian stick insect Oreophoetes peruana. To document the sensory organs in the subgenual organ complex and their innervation pattern, and to compare these between females and males of this species and to the Old World stick insects, axonal tracing is used. This study documents the same sensory organs for O. peruana, subgenual organ and distal organ, as in other stick insects. Between the sexes of this species, there are no notable differences in the neuroanatomy of their sensory organs. The innervation pattern of tibial nerve branches in O. peruana is identical to other stick insect species, although the innervation pattern of the subgenual organ by a single tibial nerve branch is simpler. The shared organisation of the subgenual organ complex in both groups of Neophasmatodea (Old World and New World stick insects) indicates the sensory importance of the subgenual organ but also of the distal organ. Some variation exists in the innervation of the chordotonal organs in O. peruana though a common innervation pattern can be identified. The findings raise the question for the ancestral neuroanatomical organisation and innervation in stick insects.
DOI: 10.6084/m9.figshare.21687476
title: Supplementary Material for: Association between 19 Allergens and Chronic Constipation in Adults: NHANES 2005–2006

description: <b><i>Introduction:</i></b> There are increasing reports of a link between chronic constipation and allergies in children. However, similar epidemiological evidence is limited in the general adult population. Therefore, in this study, we attempted to assess the association between chronic constipation and allergy in adults aged ≥20 years in the USA. <b><i>Methods:</i></b> We established a logistic regression model to test the relationship between chronic constipation and 19 specific immunoglobulin E (sIgE) types in adults aged ≥20 years using large-sample data from the National Health and Nutrition Examination Survey database (2005–2006). The weekly defecation times of the allergic and non-allergic groups were compared using the <i>t</i> test. <b><i>Results:</i></b> We found that sIgE-sensitized participants had a 0.723 lower risk of chronic constipation than the general population (95% confidence interval (CI) = 0.566–0.923). There was a negative association between chronic constipation and sensitizations to peanut (odds ratio (OR) = 0.579, 95% CI = 0.381–0.935), egg (OR = 0.335, 95% CI = 0.134–0.838), dog (OR = 0.723, 95% CI = 0.522–0.965), and cockroach (OR = 0.540, 95% CI = 0.373–0.784). In addition, the frequency of defecation per week increased significantly in people allergic to peanuts and cockroaches (<i>p</i> &lt; 0.05). <b><i>Discussion/Conclusion:</i></b> The results of this study demonstrate an inverse relationship between sIgE sensitization and chronic constipation in adults. However, the specific association mechanism needs to be further studied.
DOI: 10.6084/m9.figshare.22665196
title: Supplementary Material for: Granulomatosis with Polyangiitis Complicated by Severe Exudative Retinal Detachment and Orbital Granuloma Successfully Controlled with Rituximab: A Case Report

description: We report a rare case of severe exudative retinal detachment with orbital granuloma associated with granulomatosis with polyangiitis (GPA). A 42-year-old man developed bilateral conjunctival hyperemia and eye pain 15 months before presenting to us. Because vitreous cells and retinal detachment were detected in his left eye, he was referred to us for further evaluation. The left eye showed scleral edema, cells in the anterior chamber and anterior vitreous, exudative retinal detachment, and elevated white subretinal lesions from the nasal to the inferior parts of the eye fundus. Orbital contrast-enhanced magnetic resonance imaging revealed a granulomatous lesion, retinal detachment, and fluid retention in the left eyeball. Comprehensive rheumatological evaluation revealed proteinase 3 anti-neutrophil cytoplasmic antibody positivity and a history of otitis media, leading to a GPA diagnosis. Methylprednisolone 1000 mg/day was administered intravenously for 3 days, followed by oral prednisolone and intravenous cyclophosphamide. Although the retinal detachment decreased, scleritis and choroidal detachment relapse were observed in the left eye after the fifth cyclophosphamide administration. After switching from cyclophosphamide to rituximab, the scleritis and choroidal detachment resolved. Remission was successfully maintained with biannual rituximab administration. In this case, we conclude that rituximab was important to re-induce and maintain remission after recurrence. Collaboration with a rheumatologist is essential for proper treatment in related cases. This is the first report of ultra-widefield and multimodal imaging for retinal detachment associated with GPA.
DOI: 10.12751/g-node.n8mnh8
title: Dark Exposure Experiment Data

description: This is the experimental data set containing the neural responses used to analyze whether exposure to dark changes the stability of neurons. Data from each experimental conditions are stored in their own folders (Baseline 1, Baseline 2, Post-DE, and Recovery) Each allsignals file corresponds to data from individual mice.
description: IsSupplementTo: Brian B. Jeon, Thomas Fuchs, Steven M. Chase, Sandra J. Kuhlman. Visual experience has opposing influences on the quality of stimulus representation in adult primary visual cortex. bioRxiv. (https://doi.org/10.1101/2022.05.17.492357)
description: IsSupplementTo: Brian B. Jeon, Thomas Fuchs, Steven M. Chase, Sandra J. Kuhlman. Visual experience has opposing influences on the quality of stimulus representation in adult primary visual cortex. eLife.
DOI: 10.5281/zenodo.4385970
title: Grammatical category and the neural processing of phrases - EEG data

description: EEG data presented in the paper Grammar, lexical category and the neural processing of phrases Amelia Burroughs, Nina Kazanina, Conor Houghton abstract: <br> The interlocking roles of lexical, syntactic and semantic processing in language comprehension has been the subject of longstanding debate. Recently, the cortical response to a frequency-tagged linguistic stimulus has been shown to track the rate of phrase and sentence, as well as syllable, presentation. This could be interpreted as evidence for the hierarchical processing of speech, or as a response to the repetition of grammatical category. To examine the extent to which hierarchical structure plays a role in language processing we record EEG from human participants as they listen to isochronous streams of monosyllabic words. Comparing responses to sequences in which grammatical category is strictly alternating and chosen such that two-word phrases can be grammatically constructed - cold food loud room - or is absent - rough give ill tell - showed cortical entrainment at the two-word phrase rate was only present in the grammatical condition. Thus, grammatical category repetition alone does not yield entertainment at higher level than a word. On the other hand, cortical entrainment was reduced for the mixed-phrase condition that contained two-word phrases but no grammatical category repetition - that word send less - which is not what would be expected if the measured entrainment reflected purely abstract hierarchical syntactic units. Our results support a model in which word-level grammatical category information is required to build larger units. _______________________________ all the corresponding code is at github.com/conorhoughton/NeuralProcessingOfPhrases
description: The code used to analyse this data is at https://github.com/conorhoughton/NeuralProcessingOfPhrases
DOI: 10.6084/m9.figshare.22015151
title: Supplementary Material for: Blood Biomarkers of Neuronal/Axonal and Glial Injury in Human Immunodeficiency Virus-Associated Neurocognitive Disorders

description: <b><i>Introduction:</i></b> Approximately half of the people living with HIV (PLWH) experience HIV-associated neurocognitive disorders (HANDs). However, the neuropathogenesis of HAND is complex, and identifying reliable biomarkers has been challenging. <b><i>Methods:</i></b> This study included 132 participants aged 50 and older from greater San Diego County. The participants were divided into three groups: PLWH with HAND (<i>n</i> = 29), PLWH without HAND (<i>n</i> = 73), and seronegatives without cognitive impairment (<i>n</i> = 30). Peripheral blood was collected at the clinical assessment, and plasma levels of neurofilament light chain (NfL), phosphorylated Tau 181 (pTau181), and glial fibrillary acidic protein (GFAP) were measured by enzyme-linked immunosorbent assay (ELISA). <b><i>Results:</i></b> Plasma levels of NfL (but not pTau181 and GFAP) were significantly associated with HAND at a medium effect size (<i>p</i> = 0.039, Cohen’s <i>d</i> = 0.45 for HAND + vs. HAND−). Notably, higher levels of NfL were significantly associated with HAND diagnosis even after adjusting for sex. <b><i>Discussion:</i></b> Our data suggest that neuronal degeneration (as evidenced by increased levels of NfL), but not tau pathology or glial degeneration, is related to cognitive status in PLWH. Our results corroborate the view that blood NfL is a promising biomarker of cognitive impairment in PLWH.
DOI: 10.6084/m9.figshare.22036262
title: Supplementary Material for: Regional Variation of Erythropoiesis-Stimulating Agent Hyporesponsiveness in the Global Daprodustat Dialysis Study (ASCEND-D)

description: Introduction: Hyporesponsiveness to erythropoiesis-stimulating agents (ESAs) affects 10–15% of the chronic dialysis population. We explored baseline characteristics and predictors of ESA hyporesponsiveness in a global randomized cardiovascular outcomes study comparing an investigational hypoxia-inducible factor prolyl hydroxylase inhibitor (HIF-PHI), daprodustat, with conventional ESA treatment. Methods: ASCEND-D (NCT02879305) recruited 2964 chronic dialysis patients receiving ESA treatment (standardized to weekly intravenous [IV] epoetin) who were iron replete at baseline. The primary ESA hyporesponsiveness definition was an ESA Resistance Index (ERI, ESA Units/kg/week/hemoglobin g/l) ≥2 or IV standardized ESA dose ≥450 Units/kg/week. Predictors of ESA hyporesponsiveness were determined using a multivariable regression model. Alternative hyporesponder definitions were explored. Results: Using the primary definition, 354 (12%) patients were ESA hyporesponsive. Geographic region, notably Latin America, lower baseline body mass index and transferrin saturation, younger age, lower albumin concentration, and a higher baseline IV iron dose were identified as strongly associated (P &lt; 0.001) with ESA hyporesponsiveness. Additional predictors of ESA hyporesponsiveness included female sex (P = 0.010), history of heart failure (P = 0.035), longer dialysis vintage (P = 0.077), smoking status (P = 0.247), aspirin use (P = 0.121), and angiotensin-converting enzyme inhibitor/ angiotensin receptor blocker use (P = 0.214). Conclusion: This is the first global HIF-PHI study to report pre-specified definitions and predictors of ESA hyporesponsiveness. While most of the predictors identified in our study have been previously reported, geographic region stands out as an unexpected finding, meriting further investigation.