cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30186358.v1
title: Supplementary Material for: The identification and severity staging of chronic obstructive pulmonary disease using quantitative CT parameters, radiomics features, and deep learning features

description: Introduction: To evaluate the value of quantitative CT (QCT) parameters, radiomics features, and deep learning (DL) features based on inspiratory and expiratory CT for the identification and severity staging of chronic obstructive pulmonary disease (COPD).
Methods: This retrospective analysis included 223 COPD patients and 59 healthy controls from the Guangzhou cohort. We stratified the participants into a training cohort and a testing cohort (7:3) and extracted DL features based on VGG-16 method, radiomics features based on pyradiomics package, and QCT parameters based on NeuLungCARE software. The Logistic regression method was employed to construct models for the identification and severity staging of COPD. The Shenzhen cohort was used as the external validation cohort to assess the generalizability of the models.
Results: In the COPD identification models, Model 5-B1 (the QCT combined with DL model in biphasic CT) showed the best predictive performance with AUC of 0.920, and 0.897 in testing cohort and external validation cohort, respectively. In the COPD severity staging models, the predictive performance of Model 4-B2 (the model combining QCT with radiomics features in biphasic CT) and Model 5-B2 (the model combining QCT with DL features in biphasic CT was superior to that of the other models.
Conclusion: This biphasic CT-based multi-modal approach integrating QCT, radiomics, or DL features offers a clinically valuable tool for COPD identification and severity staging.
DOI: 10.6084/m9.figshare.30186361
title: Supplementary Material for: Surrogate endpoints for overall survival in advanced hepatocelluar carcinoma in the era of immunotherapy: a trial level meta-analysis

description: Background: Systemic therapy containing immune checkpoint inhibitors (ICIs) has become the standard of care for patients with advanced hepatocellular carcinoma (HCC). A prior analysis from the pre -ICI era demonstrated a moderate correlation between progression-free survival (PFS) and overall survival (OS). We performed a literature-based meta-analysis to include randomized phase III trials (RCTs) of ICIs to evaluate surrogate endpoints for OS in advanced HCC.
Methods: RCTs evaluating systemic therapies in advanced HCC published/presented between 2007-2024 were identified through a systemic literature search. Hazard ratios (HRs) for OS and PFS were extracted. The change in the overall response rates (ΔORR) was calculated as the difference between experimental and control arms. Pearson correlation and mixed-effects meta-regression analyses were performed. Strength of correlation was determined using the criteria from the Institute for Quality and Efficiency in Health Care (IQWIG). Surrogate threshold effect (STE) was determined for each comparison when possible. Subgroup analysis was performed. A p &lt; 0.05 was considered to be statistically significant.
Results: In total, 21 1st-line and 12 2nd-line RCTs were included. Of 1st-line RCTs, 48% evaluated ICIs either alone or in combination. There was a weak correlation between HR-PFS and HR-OS (n = 18, r = 0.64, 95% confidence interval (CI): 0.25 – 0.85, p = 0.004) and no correlation between ∆ORR and HR-OS (n=21, r = 0.42, 95% CI: : -0.01 – 0.72, p = 0.06). The STE for HR-PFS was 0.68. Subgroup analyses revealed a moderate correlation between HR-PFS and HR-OS in 1st-line RCTs enrolling fewer patients with non-viral etiology (n=9, r = 0.75, 95% CI: 0.17 – 0.94, p = 0.02). There was, however, a strong correlation between HR-PFS and HR-OS in 2nd-line RCTs (n=10, r = 0.90, 95% CI: 0.61 – 0.98, p &lt; 0.001). The STE for HR-PFS in 2nd-line RCTs was 0.87.
Conclusion: The correlation between HR-PFS and HR-OS is weak in 1st-line RCTs in advanced HCC where OS remains the most appropriate endpoint. There is a strong association between HR-PFS and HR-OS for 2nd-line RCTs, suggesting that PFS as a suitable primary endpoint in that setting.
DOI: 10.6084/m9.figshare.30186361.v1
title: Supplementary Material for: Surrogate endpoints for overall survival in advanced hepatocelluar carcinoma in the era of immunotherapy: a trial level meta-analysis

description: Background: Systemic therapy containing immune checkpoint inhibitors (ICIs) has become the standard of care for patients with advanced hepatocellular carcinoma (HCC). A prior analysis from the pre -ICI era demonstrated a moderate correlation between progression-free survival (PFS) and overall survival (OS). We performed a literature-based meta-analysis to include randomized phase III trials (RCTs) of ICIs to evaluate surrogate endpoints for OS in advanced HCC.
Methods: RCTs evaluating systemic therapies in advanced HCC published/presented between 2007-2024 were identified through a systemic literature search. Hazard ratios (HRs) for OS and PFS were extracted. The change in the overall response rates (ΔORR) was calculated as the difference between experimental and control arms. Pearson correlation and mixed-effects meta-regression analyses were performed. Strength of correlation was determined using the criteria from the Institute for Quality and Efficiency in Health Care (IQWIG). Surrogate threshold effect (STE) was determined for each comparison when possible. Subgroup analysis was performed. A p &lt; 0.05 was considered to be statistically significant.
Results: In total, 21 1st-line and 12 2nd-line RCTs were included. Of 1st-line RCTs, 48% evaluated ICIs either alone or in combination. There was a weak correlation between HR-PFS and HR-OS (n = 18, r = 0.64, 95% confidence interval (CI): 0.25 – 0.85, p = 0.004) and no correlation between ∆ORR and HR-OS (n=21, r = 0.42, 95% CI: : -0.01 – 0.72, p = 0.06). The STE for HR-PFS was 0.68. Subgroup analyses revealed a moderate correlation between HR-PFS and HR-OS in 1st-line RCTs enrolling fewer patients with non-viral etiology (n=9, r = 0.75, 95% CI: 0.17 – 0.94, p = 0.02). There was, however, a strong correlation between HR-PFS and HR-OS in 2nd-line RCTs (n=10, r = 0.90, 95% CI: 0.61 – 0.98, p &lt; 0.001). The STE for HR-PFS in 2nd-line RCTs was 0.87.
Conclusion: The correlation between HR-PFS and HR-OS is weak in 1st-line RCTs in advanced HCC where OS remains the most appropriate endpoint. There is a strong association between HR-PFS and HR-OS for 2nd-line RCTs, suggesting that PFS as a suitable primary endpoint in that setting.
DOI: 10.6084/m9.figshare.30186364
title: Supplementary Material for: Multimodal hallucinations in Muslim patients with severe psychotic disorders: The entity experience revisited

description: Introduction: In biomedicine, entity experiences are conceptualised as compound hallucinations featuring living beings. The term ‘experience’ suggests that these have an objective basis in reality, as those perceiving them may maintain. So-called jinn encounters, typically described by Muslims with and without a psychiatric diagnosis, involve the multimodal perception of a spirit that, as described in the Qur’an, was created by Allah.
Methods: We conducted a phenomenological investigation among Muslim patients residing at Parnassia Psychiatric Institute, The Hague, mostly diagnosed with a schizophrenia spectrum disorder. To inquire specifically into multimodal hallucinations featuring jinn or related entities, we used the Hallucination Attribution List (HAL), a tailor-made, semi-structured questionnaire.
Results: Of the 42 interviewees, 35 described multimodal hallucinations of which 22 fulfilled the criteria of entity experiences involving two to six sensory modalities simultaneously. Twelve participants (54.5%) were fully convinced they were dealing with jinn; the others left some room for doubt. Although we did not quantitatively assess the levels of jinn-associated distress, all participants characterised their experiences as impressive and impactful.
Conclusion: Multimodal hallucinations may involve full-blown entity experiences, which in Muslim patients typically take the form of jinn encounters. The way in which these entity experiences are mediated is as yet uncertain. However, since visual, auditory, and tactile hallucinations in our sample were described substantially more frequently than somatic, olfactory, and gustatory ones, we hypothesise that the processes underlying the hallucinations may be driven by a stochastic mechanism in that the first three sensory modalities need to have been engaged before the latter three can be recruited. We highlight several biological models of potential underlying mechanisms as well as two overarching models that may help place the mechanisms in the wider context of personal, social, cultural, religious, philosophical, and evolutionary factors that, conceivably, all play a role in their mediation.
DOI: 10.6084/m9.figshare.30186364.v1
title: Supplementary Material for: Multimodal hallucinations in Muslim patients with severe psychotic disorders: The entity experience revisited

description: Introduction: In biomedicine, entity experiences are conceptualised as compound hallucinations featuring living beings. The term ‘experience’ suggests that these have an objective basis in reality, as those perceiving them may maintain. So-called jinn encounters, typically described by Muslims with and without a psychiatric diagnosis, involve the multimodal perception of a spirit that, as described in the Qur’an, was created by Allah.
Methods: We conducted a phenomenological investigation among Muslim patients residing at Parnassia Psychiatric Institute, The Hague, mostly diagnosed with a schizophrenia spectrum disorder. To inquire specifically into multimodal hallucinations featuring jinn or related entities, we used the Hallucination Attribution List (HAL), a tailor-made, semi-structured questionnaire.
Results: Of the 42 interviewees, 35 described multimodal hallucinations of which 22 fulfilled the criteria of entity experiences involving two to six sensory modalities simultaneously. Twelve participants (54.5%) were fully convinced they were dealing with jinn; the others left some room for doubt. Although we did not quantitatively assess the levels of jinn-associated distress, all participants characterised their experiences as impressive and impactful.
Conclusion: Multimodal hallucinations may involve full-blown entity experiences, which in Muslim patients typically take the form of jinn encounters. The way in which these entity experiences are mediated is as yet uncertain. However, since visual, auditory, and tactile hallucinations in our sample were described substantially more frequently than somatic, olfactory, and gustatory ones, we hypothesise that the processes underlying the hallucinations may be driven by a stochastic mechanism in that the first three sensory modalities need to have been engaged before the latter three can be recruited. We highlight several biological models of potential underlying mechanisms as well as two overarching models that may help place the mechanisms in the wider context of personal, social, cultural, religious, philosophical, and evolutionary factors that, conceivably, all play a role in their mediation.
DOI: 10.6084/m9.figshare.30186367
title: Supplementary Material for: Pneumococcal Vaccine Use and Immunogenicity in Patients with Glomerular Disease: A Scoping Review and Analysis of Healthcare Claims Data

description: Introduction: Streptococcus pneumoniae infections are a preventable cause of morbidity and mortality in individuals with glomerular disease. There is limited immunogenicity data to inform the effectiveness of vaccination in this high-risk patient population. 

Methods: We conducted a scoping review of studies evaluating pneumococcal vaccine immunogenicity in adults and children with idiopathic nephrotic syndrome, focal segmental glomerulosclerosis, IgA vasculitis, or systemic lupus erythematosus with nephritis. We summarize patient characteristics, serotypes assessed, and rates of seroprotection and/or seroconversion. We then used the Merative MarketScan® Commercial Claims & Encounters database to describe rates of adequate, partial, and inadequate pneumococcal vaccination (PCV13 and / or PPSV23) within 12 months of incident glomerular disease diagnosis from 2010-2018. 

Results: A total of 879 citations were screened, of which 63 studies were reviewed for inclusion criteria. A final analytic set included 19 studies. Most studies reported clinically meaningful rates of seroprotection, though definitions varied widely across studies. In the analysis of commercial healthcare claims data, 1,343 children aged 2-11 years and 19,987 individuals aged 12- &lt;65 years with incident of GD were identified. Of those inadequately vaccinated prior to GD diagnosis, 4.0% (38/947) of the 2–11-year group and 6.8% (797/11646) of those in the 12 - &lt;65-year group were partially or adequately vaccinated within 12 months of diagnosis. Demographic and clinical factors more commonly identified in those with pneumococcal vaccination included sex, age, region, and prior influenza vaccination. 

Conclusion: There is limited literature describing pneumococcal vaccine immunogenicity in patients with glomerular disease. Metrics of reporting seroprotection and seroconversion to pneumococcal vaccines would benefit from standardization. Healthcare claims for pneumococcal vaccines following a diagnosis of glomerular disease suggest that efforts to improve timely vaccination are needed.
DOI: 10.6084/m9.figshare.30186367.v1
title: Supplementary Material for: Pneumococcal Vaccine Use and Immunogenicity in Patients with Glomerular Disease: A Scoping Review and Analysis of Healthcare Claims Data

description: Introduction: Streptococcus pneumoniae infections are a preventable cause of morbidity and mortality in individuals with glomerular disease. There is limited immunogenicity data to inform the effectiveness of vaccination in this high-risk patient population. 

Methods: We conducted a scoping review of studies evaluating pneumococcal vaccine immunogenicity in adults and children with idiopathic nephrotic syndrome, focal segmental glomerulosclerosis, IgA vasculitis, or systemic lupus erythematosus with nephritis. We summarize patient characteristics, serotypes assessed, and rates of seroprotection and/or seroconversion. We then used the Merative MarketScan® Commercial Claims & Encounters database to describe rates of adequate, partial, and inadequate pneumococcal vaccination (PCV13 and / or PPSV23) within 12 months of incident glomerular disease diagnosis from 2010-2018. 

Results: A total of 879 citations were screened, of which 63 studies were reviewed for inclusion criteria. A final analytic set included 19 studies. Most studies reported clinically meaningful rates of seroprotection, though definitions varied widely across studies. In the analysis of commercial healthcare claims data, 1,343 children aged 2-11 years and 19,987 individuals aged 12- &lt;65 years with incident of GD were identified. Of those inadequately vaccinated prior to GD diagnosis, 4.0% (38/947) of the 2–11-year group and 6.8% (797/11646) of those in the 12 - &lt;65-year group were partially or adequately vaccinated within 12 months of diagnosis. Demographic and clinical factors more commonly identified in those with pneumococcal vaccination included sex, age, region, and prior influenza vaccination. 

Conclusion: There is limited literature describing pneumococcal vaccine immunogenicity in patients with glomerular disease. Metrics of reporting seroprotection and seroconversion to pneumococcal vaccines would benefit from standardization. Healthcare claims for pneumococcal vaccines following a diagnosis of glomerular disease suggest that efforts to improve timely vaccination are needed.
DOI: 10.6084/m9.figshare.30186370
title: Supplementary Material for: Felt-Presence and Psychosis-Risk in the General Population

description: Objective: Felt presence (FP) is the experience that another entity is present in one’s proximal environment, despite no sensory evidence. Occurrence of FP is linked to psychosis-risk, but qualities of FP in the context of psychosis are not well-understood. We conducted an online, exploratory survey assessing qualities of FP in relation to psychosis-risk in the general population. Method: Three-hundred and seventy-six participants completed an anonymous online survey consisting of validated measures of sensed presence, psychosis-risk, loneliness, trauma, resilience and general mental health. They also responded to questions about perceptual qualities of FP. We investigated the role of the presence and qualities of FP in predicting psychosis-risk, and the qualities of FP in relation to psychosis-risk. We also examined the relationships between qualities of FP, psychosis-risk, and psychosocial variables. Results: FP and anxiety significantly predicted elevated psychosis-risk. FP experience in the high-risk group was more frequent, distressing, vivid, and multisensory than in the low-risk group. Specifically, distress during FP significantly predicted psychosis-risk status over and above demographic and psychiatric covariates (including anxiety). Cumulative trauma was linked with total number of FP experiences as well as increased frequency, distress, vividness, and understandings of FP’s identity. Depression, anxiety, and stress were associated with more physiological sensations and increased distress during FP, as well as knowledge of FP’s identity. Resilience was associated with more frequent and vivid FPs. Conclusions: These results demonstrate strong links between FP and psychosis-risk in the general population and provide preliminary evidence of qualitative markers that differentiate FP from psychosocial factors in the context of psychosis-risk. Assessment and clinical conceptualizations of risk for schizophrenia should consider including experiences of bodily self-disturbance, such as FP.
DOI: 10.6084/m9.figshare.30186370.v1
title: Supplementary Material for: Felt-Presence and Psychosis-Risk in the General Population

description: Objective: Felt presence (FP) is the experience that another entity is present in one’s proximal environment, despite no sensory evidence. Occurrence of FP is linked to psychosis-risk, but qualities of FP in the context of psychosis are not well-understood. We conducted an online, exploratory survey assessing qualities of FP in relation to psychosis-risk in the general population. Method: Three-hundred and seventy-six participants completed an anonymous online survey consisting of validated measures of sensed presence, psychosis-risk, loneliness, trauma, resilience and general mental health. They also responded to questions about perceptual qualities of FP. We investigated the role of the presence and qualities of FP in predicting psychosis-risk, and the qualities of FP in relation to psychosis-risk. We also examined the relationships between qualities of FP, psychosis-risk, and psychosocial variables. Results: FP and anxiety significantly predicted elevated psychosis-risk. FP experience in the high-risk group was more frequent, distressing, vivid, and multisensory than in the low-risk group. Specifically, distress during FP significantly predicted psychosis-risk status over and above demographic and psychiatric covariates (including anxiety). Cumulative trauma was linked with total number of FP experiences as well as increased frequency, distress, vividness, and understandings of FP’s identity. Depression, anxiety, and stress were associated with more physiological sensations and increased distress during FP, as well as knowledge of FP’s identity. Resilience was associated with more frequent and vivid FPs. Conclusions: These results demonstrate strong links between FP and psychosis-risk in the general population and provide preliminary evidence of qualitative markers that differentiate FP from psychosocial factors in the context of psychosis-risk. Assessment and clinical conceptualizations of risk for schizophrenia should consider including experiences of bodily self-disturbance, such as FP.
DOI: 10.15468/dl.hm6w7a
title: Occurrence Download

description: A dataset containing 21 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Helichrysum petiolare",
 "Country is Netherlands",
 "HasCoordinate is true"
 ]
}

 The dataset includes 21 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008092-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h8k9bn
title: Occurrence Download

description: A dataset containing 69 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Thalictrum squarrosum",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 69 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008093-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.k2d9sv
title: Occurrence Download

description: A dataset containing 302 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Juniperus cedrus)",
 "BasisOfRecord is one of (Specimen, Literature Occurrence, Human Observation, Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1991",
 "Year is less than or equal to 2025"
 ]
}

 The dataset includes 302 records from 22 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008095-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.60776/pjhvrx
title: Impact of TiC particles on the process window and temperature evolution during PBF-LB/M manufacturing of aluminum/TiC composites (corresponding raw data)

description: This dataset contains the raw data that was used to create the graphs and figures in the corresponding paper.
DOI: 10.15468/dl.678we4
title: Occurrence Download

description: A dataset containing 80 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Helichrysum petiolare",
 "Country is Portugal",
 "HasCoordinate is true"
 ]
}

 The dataset includes 80 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008096-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.kefy8y
title: Occurrence Download

description: A dataset containing 1000 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Litsea monopetala",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 1000 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008097-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.