cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.28451060
title: Supplementary Material for: Supplement-induced acute kidney injury reproduced in kidney organoids

description: Introduction: Acute kidney injury (AKI) associated with the consumption of Beni-koji CholesteHelp supplements, which contain red yeast rice (Beni-Koji), has become a significant public health concern in Japan. While renal biopsy findings from several case reports have suggested tubular damage, no definitive causal relationship has been established, and the underlying mechanisms of kidney injury remain poorly understood. The complexity of identifying toxic substances in supplements containing various bioactive compounds makes conventional investigative approaches both time-consuming and challenging. This highlights an urgent need to establish a reliable platform for assessing organ-specific toxicity in such supplements. In this study, we utilized a kidney organoid model derived from adult rat kidney stem cells (KS cells) to assess the potential tubular toxicity of these supplements. Methods: KS cell clusters were cultured in three-dimensional system supplemented with growth factors to promote kidney organoids. The organoids were subsequently exposed to Beni-koji CholesteHelp supplements or cisplatin, followed by histological and molecular analyses to evaluate structural and molecular impacts. Results: Established organoids had the kidney-like structures including tubular-like structures and glomerulus-like structures at the tips of multiple tubules. Treatment with Beni-koji CholesteHelp supplements induced significant tubular damage in the organoids, characterized by epithelial cell thinning, structural disruption, and increase in cleaved caspase-3-positive apoptotic tubular cells, similar to the organoids treated with cisplatin. Conclusions: These findings provide the first evidence suggesting that certain toxicants in specific batches of Beni-koji CholesteHelp supplements cause direct renal tubular injury. This KS cell-based organoid system represents a cost-effective, reproducible, and technically simple platform for nephrotoxicity screening.
DOI: 10.6084/m9.figshare.28451063
title: Supplementary Material for: TXK Functional Variants Contribute to Asthma by Regulating Th1 and Th17 Cytokine Pathways

description: Introduction
TXK is involved in the regulation of IFN-γ expression and T helper (Th)1 cell-mediated inflammation that underlies the development of neutrophilic asthma, however, its implication in asthma pathogenesis remains uncertain. This study aims to characterize the functional role of TXK single nucleotide polymorphism (SNP) contributing to asthma.
Methods
This study belongs to a part of an ongoing Singapore/Malaysia cross-sectional genetics and epidemiological study (SMCSGES). Associations of TXK transcript expression with asthma phenotype, the transcript expression of IFN-γ and IL23A, and SNP genotype were assessed in peripheral blood mononuclear cell (PBMC) samples from n=658 individuals of the SMCSGES sub-cohort. Genetic associations of TXK SNPs with asthma were assessed in a case-control cohort of n=2407 individuals from the SMCSGES population. Functional effects of asthma-associated SNPs on TXK promoter activity were evaluated by in vitro promoter luciferase assay in THP-1 cells.
Results
We identified significant associations of upregulated TXK transcript expression with increased asthma risk (p&lt;0.05) and the increased transcript expressions of both IFN-γ (p&lt;0.0001) and IL23A (p&lt;0.0001) in PBMC. A significant association between tag-SNP rs2661532 and TXK transcript expression was detected in PBMC: the allele “T” was significantly associated with a higher TXK expression than allele “C” (false discovery rate-adjusted p&lt;0.05). The major allele “T” of rs2661532 is also significantly associated with a higher risk of asthma (p=0.0346, odds ratio=1.171, 95% confidence interval=1.011-1.357). The in vitro promoter luciferase assay showed the major alleles of rs6819804 and rs74513879 (tagged by rs2661532) are significantly associated with higher TXK promoter activity (p&lt;0.05).
Conclusion
This study identified multiple TXK functional variants associated with asthma by regulating the transcript expression of TXK and downstream Th1 and Th17 cell-mediated inflammatory pathways. Our findings indicated the potential involvement of TXK functional variants in the development of neutrophilic asthma.
DOI: 10.6084/m9.figshare.28451066
title: Supplementary Material for: A review of sex differences in neurodegeneration and psychological comorbidities in MS and related disorders

description: Multiple sclerosis (MS) and neuromyelitis optica spectrum disorder (NMOSD) are chronic neuroinflammatory conditions that disproportionately affect women, with a 2:1 ratio in MS and up to 8.9:1 in NMOSD. Cognitive impairment is one of the earliest and most debilitating symptoms of MS, while mood disorders are common and significantly impact the quality of life and disease prognosis. Understanding sex differences in disease progression, particularly the potential differences in the mechanisms behind disability, is critical for advancing patient care. This review synthesizes current knowledge of sex-specific differences in MS and NMOSD, with a focus on neuroinflammation and neurodegeneration, as well as cognitive symptoms, and psychiatric comorbidities. The current state of research highlights the role of hormonal changes over the patient lifespan, such as estrogen and testosterone, as well as their role in modulating neuroinflammatory responses and subsequent neurodegeneration. Lastly, we discuss implications for disease monitoring and furthering knowledge in the field with a sex-specific lens, including recommendations for evaluating sex differences and personalized care in MS and NMOSD.
DOI: 10.6084/m9.figshare.28451066.v1
title: Supplementary Material for: A review of sex differences in neurodegeneration and psychological comorbidities in MS and related disorders

description: Multiple sclerosis (MS) and neuromyelitis optica spectrum disorder (NMOSD) are chronic neuroinflammatory conditions that disproportionately affect women, with a 2:1 ratio in MS and up to 8.9:1 in NMOSD. Cognitive impairment is one of the earliest and most debilitating symptoms of MS, while mood disorders are common and significantly impact the quality of life and disease prognosis. Understanding sex differences in disease progression, particularly the potential differences in the mechanisms behind disability, is critical for advancing patient care. This review synthesizes current knowledge of sex-specific differences in MS and NMOSD, with a focus on neuroinflammation and neurodegeneration, as well as cognitive symptoms, and psychiatric comorbidities. The current state of research highlights the role of hormonal changes over the patient lifespan, such as estrogen and testosterone, as well as their role in modulating neuroinflammatory responses and subsequent neurodegeneration. Lastly, we discuss implications for disease monitoring and furthering knowledge in the field with a sex-specific lens, including recommendations for evaluating sex differences and personalized care in MS and NMOSD.
DOI: 10.6084/m9.figshare.28451069
title: Supplementary Material for: Repeated delayed bleeding following treatment for a pancreatic pseudocyst during lumen-apposing metal stent placement: A case report

description: Introduction: Lumen-apposing metal stent (LAMS) is a novel prosthesis for fistula formation between the gastrointestinal and cyst walls. Bleeding complications occur in 10% of cases mostly during LAMS placement. We present a case of recurrent bleeding following LAMS placement.
Case Presentation: A 47-year-old male was admitted to a local hospital for acute pancreatitis and subsequently referred for endoscopic drainage because of an enlarging pseudocyst near the tail of the pancreas. Treatment involved LAMS and endoscopic ultrasound-guided transmural drainage (EUS-TD). Post-treatment computed tomography revealed cyst shrinkage; however, upper gastrointestinal bleeding was noted after discharge. Endoscopy identified bleeding within the fistula, which was controlled by spraying an absorbable local hemostatic agent into the cavity. After ensuring the absence of recurrent bleeding for approximately one month, the LAMS was removed under endoscopy. Following LAMS removal, arterial bleeding was observed within the cavity, prompting an emergency angiography. Angiography revealed bleeding from a pseudoaneurysm of the splenic artery, which was treated with coil embolization. No rebleeding occurred after the procedure. 
Conclusion: Bleeding complications occur in 10% of LAMS placements, primarily during the procedure. Bleeding one week after placement or during removal is rare. However, following LAMS placement, there is a risk of bleeding until removal, with arterial bleeding often occurring at the time of removal. Therefore, it is necessary to establish a system that allows for prompt vascular embolization treatment.
DOI: 10.15468/dl.w4xsas
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cephalorhynchus heavisidii (Gray, 1828)",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 46 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003146-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.24340/o5kj-wbagjt
title: CSC Sensitive Dataset o5kj-wbagjt
DOI: 10.6084/m9.figshare.28451072
title: Supplementary Material for: Involvement of the AVP/OT system and lateral septum in the modulation of anxiety/depression caused by 14-week and 20-week social isolation

description: Introduction: Chronic social isolation (CSI) stress leads to numerous maladaptive changes in physiology and psychology, however, very little is known about the effects of longer time-scale CSI and there are divergent views regarding the underlying mechanisms. This study aimed to elucidate the common neuroendocrine mechanisms underlying the maladaptive changes caused by 14-week (14wk-) and 20-week (20wk-) CSI. Methods: We investigated the impacts of 14wk- and 20wk- CSI on anxiety/depression-like behaviors in male C57BL/6N mice with classical behavioral tests, and the immunofluorescence method was used for quantification of the arginine vasopressin (AVP)/Oxytocin (OT) positive neurons in the PVN and screening out the differential activation brain regions (DABrs) on exposure of tail suspension. The expression of Avpr1a and Oxtr in the lateral septum dorsal (LSD) was assessed by quantitative RT-PCR (qPCR), and the function of LSD Avpr1a+/+ neurons in emotion regulation was verified with pharmacological approaches. The concentration of AVP/OT in plasma was examined with the Enzyme-linked immunosorbent assay (ELISA). Results: 14wk- and 20wk- CSI increased anxiety/depression-like behaviors and altered levels of exploratory locomotion in opposite directions, which are likely due to an imbalance of the AVP/OT system within the PVN and peripheral plasma, differential activation of LSD and thalamic brain regions, and abnormal expression of Avpr1a in LSD. Pharmacological results demonstrated that Avpr1a receptor in the LSD were involved in emotion regulation. Conclusion: This study suggests that the imbalance of the AVP/OT system and the dysfunction of Avpr1a+/+ neurons in the LSD were engaged in common neuroendocrinology mechanisms for anxiety/depression induced by long-term CSI.
DOI: 10.6084/m9.figshare.28451072.v1
title: Supplementary Material for: Involvement of the AVP/OT system and lateral septum in the modulation of anxiety/depression caused by 14-week and 20-week social isolation

description: Introduction: Chronic social isolation (CSI) stress leads to numerous maladaptive changes in physiology and psychology, however, very little is known about the effects of longer time-scale CSI and there are divergent views regarding the underlying mechanisms. This study aimed to elucidate the common neuroendocrine mechanisms underlying the maladaptive changes caused by 14-week (14wk-) and 20-week (20wk-) CSI. Methods: We investigated the impacts of 14wk- and 20wk- CSI on anxiety/depression-like behaviors in male C57BL/6N mice with classical behavioral tests, and the immunofluorescence method was used for quantification of the arginine vasopressin (AVP)/Oxytocin (OT) positive neurons in the PVN and screening out the differential activation brain regions (DABrs) on exposure of tail suspension. The expression of Avpr1a and Oxtr in the lateral septum dorsal (LSD) was assessed by quantitative RT-PCR (qPCR), and the function of LSD Avpr1a+/+ neurons in emotion regulation was verified with pharmacological approaches. The concentration of AVP/OT in plasma was examined with the Enzyme-linked immunosorbent assay (ELISA). Results: 14wk- and 20wk- CSI increased anxiety/depression-like behaviors and altered levels of exploratory locomotion in opposite directions, which are likely due to an imbalance of the AVP/OT system within the PVN and peripheral plasma, differential activation of LSD and thalamic brain regions, and abnormal expression of Avpr1a in LSD. Pharmacological results demonstrated that Avpr1a receptor in the LSD were involved in emotion regulation. Conclusion: This study suggests that the imbalance of the AVP/OT system and the dysfunction of Avpr1a+/+ neurons in the LSD were engaged in common neuroendocrinology mechanisms for anxiety/depression induced by long-term CSI.
DOI: 10.6084/m9.figshare.28451075
title: Supplementary Material for: The Clinical and Pathological Characteristics of Patients with Proliferative Glomerulonephritis with Monoclonal Immunoglobulin Deposits.

description: Introduction: Proliferative glomerulonephritis with monoclonal immunoglobin (Ig) deposits (PGNMID) is a rare form of kidney disease associated with low monoclonal protein detection rates and poor renal outcomes. The lack of effective therapy is partly due to limited data and understanding of its pathogenesis.

Methods: We conducted a retrospective analysis of 18 patients with PGNMID from the Cleveland Clinic Kidney Biopsy Epidemiology Project from January 2015 to March 2023.
 
Results: PGNMID was more predominant among males (67%), and whites (78%), with median age of 60 years. Over 2/3rd of patients presented with hypertension, renal insufficiency, and hematuria, while 26% of patients had nephrotic syndrome. Mean serum creatinine and proteinuria at biopsy were 3.2 mg/dl and 4.3 gm/gm respectively. A detectable monoclonal (M) protein was detected in 28% of cases, however, only 3 patients had underlying hematologic disorders (Multiple Myeloma, CLL, and B cell lymphoma). An endocapillary hypercellularity/membranoproliferative pattern (72%), IgG/Kappa (83%), and IgG3 (56%) were predominant findings on kidney pathology. Eight patients (44%) progressed to ESKD, with a median onset of 7.5 months after the initial kidney biopsy. While 6 patients achieved complete remission primarily with clone directed therapy.

Conclusion: Despite monoclonal protein deposition on kidney biopsy, 28% patients with PGNMID had a detectable monoclonal protein. Unlike other forms of paraproteinemic kidney diseases, renal outcomes for patients with PGNMID are poor, with 44% progressing to ESKD (median time 7.5 months) after kidney biopsy in our cohort. Clone-directed therapy to improve outcomes remains the mainstay of treatment, despite the absence of detectable clone in most cases. Thus, further investigation into the pathogenesis of PGNMID is warranted to guide future treatment discovery and clinical trials.
DOI: 10.6084/m9.figshare.28451081
title: Supplementary Material for: Recurrent Spontaneous Tumor Lysis Syndrome in Undiagnosed Follicular T-Cell Lymphoma

description: Introduction
Spontaneous tumor lysis syndrome (TLS) is a rare, life-threatening metabolic complication that typically occurs in malignancies with high tumor burden. Early recognition is critical, even in the absence of a known malignancy, to prevent severe outcomes.
Case Presentation
We report the case of an 89-year-old male with a history of chronic kidney disease, hyperparathyroidism, and myasthenia gravis, who experienced three episodes of TLS within one month. Initially, his metabolic disturbances were misattributed to dehydration. During his second admission, imaging revealed extensive lymphadenopathy, and a lymph node biopsy confirmed follicular helper T-cell lymphoma before his third hospitalization. Despite aggressive treatment, he developed metabolic encephalopathy and lost his decision-making capacity, while his family declined palliative care discussions.
Conclusion
This case highlights the importance of considering TLS in patients with unexplained hyperkalemia, hyperuricemia, and hyperphosphatemia, even in the absence of a malignancy diagnosis. Early diagnosis and multidisciplinary care are essential to improve outcomes.
DOI: 10.15468/dl.5h95mw
title: Occurrence Download

description: A dataset containing 245 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Abramites hypselonotus (Günther, 1868)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 245 records from 44 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003148-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aukjxa
title: Occurrence Download

description: A dataset containing 8 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Convallaria majalis L.",
 "Geometry POLYGON((-4.57907617500001 39.884719509, -4.57907617500001 41.165844755, -3.05298331400002 41.165844755, -3.05298331400002 39.884719509, -4.57907617500001 39.884719509))"
 ]
}

 The dataset includes 8 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003147-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.27929481
title: The envelopes and amplitude fluctuations of consonant intervals and chords, and their inversions, arising in different tuning systems

description: A key feature of musical consonances is the absence of beats or roughness. In this paper, the envelopes of consonant intervals and chords, and their inversions, are obtained considering pure tones in just intonation with appropriate phases. In just intonation, the phases are constant, while in the other tuning systems they vary with time. The corresponding envelopes, here called static and dynamic, respectively, are approximated by accurate mathematical models. They exhibit ripples with respect to the phases or time, which define the characteristics of the beats. The ripple periodicities are obtained analytically, while their amplitudes are computed numerically and have proved to be a good measure of the degree of consonance of the corresponding notes. Examples are given for Pythagorean tuning, quarter- and third-comma meantone temperaments, and 12-TET. The corresponding audios are provided as supplemental material, which can also be used for conducting auditory surveys or for educational purposes.
DOI: 10.6084/m9.figshare.27929481.v1
title: The envelopes and amplitude fluctuations of consonant intervals and chords, and their inversions, arising in different tuning systems

description: A key feature of musical consonances is the absence of beats or roughness. In this paper, the envelopes of consonant intervals and chords, and their inversions, are obtained considering pure tones in just intonation with appropriate phases. In just intonation, the phases are constant, while in the other tuning systems they vary with time. The corresponding envelopes, here called static and dynamic, respectively, are approximated by accurate mathematical models. They exhibit ripples with respect to the phases or time, which define the characteristics of the beats. The ripple periodicities are obtained analytically, while their amplitudes are computed numerically and have proved to be a good measure of the degree of consonance of the corresponding notes. Examples are given for Pythagorean tuning, quarter- and third-comma meantone temperaments, and 12-TET. The corresponding audios are provided as supplemental material, which can also be used for conducting auditory surveys or for educational purposes.
DOI: 10.15468/dl.dwfvd5
title: Occurrence Download

description: A dataset containing 99 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Cephalorhynchus hectori (P.-J.van Bénéden, 1881)",
 "HasCoordinate is true",
 "DecimalLatitude is greater than -90",
 "DecimalLongitude is greater than -180",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1950",
 "Year is less than or equal to 2014"
 ]
}

 The dataset includes 99 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003151-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.28450991
title: Crosby et al. (2025) Dataset

description: Dataset associated with Crosby et al. (2025)
DOI: 10.15468/dl.pzqwpr
title: Occurrence Download

description: A dataset containing 1049 species occurrences available in GBIF matching the query:
{
 "and" : [
 "GadmGid is DEU.3_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Polygonia c-album (Linnaeus, 1758)"
 ]
}

 The dataset includes 1049 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003152-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pey2xu
title: Occurrence Download

description: A dataset containing 522550 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Continent is North America",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is one of (Bombus impatiens Cresson, 1863, Bombus bimaculatus Cresson, 1863, Bombus terricola Kirby, 1837, Bombus ternarius Say, 1837, Bombus griseocollis (De Geer, 1773), Bombus perplexus Cresson, 1863, Bombus vagans Smith, 1854, Bombus sandersoni Franklin, 1913)"
 ]
}

 The dataset includes 522550 records from 139 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003133-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.p7fq5j
title: Occurrence Download

description: A dataset containing 707 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ageneiosus inermis (Linnaeus, 1766)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 10000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 707 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003154-250218110819086/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.