cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.29039051
title: SPP1 is associated with glioma malignancy and immunosuppressive regulation in 916 samples

description: Glioma is a disease typically characterized by immunosuppression, which explains its poor prognosis. Therefore, it is urgent to elucidate new molecular mechanisms of immune-supervised escape to improve the efficacy of immunotherapy. Recent studies have identified secreted phosphoprotein 1(SPP1) as a pro-inflammatory and chemokine in macrophages that mediates crosstalk between the innate immune system and tumor cells. We aimed to detect the role of SPP1 in immunomodulation in glioma. We enrolled 916 patients from different ethnic groups, including 603 patients from The Cancer Genome Atlas (TCGA) database and 313 patients from the Chinese Glioma Genome Atlas (CGGA) database. We performed enrichment analysis and used GSVA to calculate the immune pathway and immune cell infiltration scores of SPP1.In addition, we investigated the correlation between SPP1 and immune checkpoint genes as well as inflammation-related genes. The expression of SPP1 is significantly elevated in IDH wild-type gliomas and high-grade gliomas, particularly in the mesenchymal subtype, and it serves as an independent prognostic factor for overall survival (OS) in glioma patients. SPP1 influences macrophage activation, cytokine secretion, and polarization and exhibits a strong association with various lymphocytes, including T, B and NK cells. Furthermore, SPP1 is strongly correlated not only with immune checkpoint genes but also with various inflammation-related genes. In conclusion, SPP1 expression is tightly linked to the molecular pathology of gliomas and is highly correlated with immune checkpoints. It contributes to glioma immune evasion, positioning SPP1 as a promising new target for immunotherapy in glioma.
DOI: 10.6084/m9.figshare.29039051.v1
title: SPP1 is associated with glioma malignancy and immunosuppressive regulation in 916 samples

description: Glioma is a disease typically characterized by immunosuppression, which explains its poor prognosis. Therefore, it is urgent to elucidate new molecular mechanisms of immune-supervised escape to improve the efficacy of immunotherapy. Recent studies have identified secreted phosphoprotein 1(SPP1) as a pro-inflammatory and chemokine in macrophages that mediates crosstalk between the innate immune system and tumor cells. We aimed to detect the role of SPP1 in immunomodulation in glioma. We enrolled 916 patients from different ethnic groups, including 603 patients from The Cancer Genome Atlas (TCGA) database and 313 patients from the Chinese Glioma Genome Atlas (CGGA) database. We performed enrichment analysis and used GSVA to calculate the immune pathway and immune cell infiltration scores of SPP1.In addition, we investigated the correlation between SPP1 and immune checkpoint genes as well as inflammation-related genes. The expression of SPP1 is significantly elevated in IDH wild-type gliomas and high-grade gliomas, particularly in the mesenchymal subtype, and it serves as an independent prognostic factor for overall survival (OS) in glioma patients. SPP1 influences macrophage activation, cytokine secretion, and polarization and exhibits a strong association with various lymphocytes, including T, B and NK cells. Furthermore, SPP1 is strongly correlated not only with immune checkpoint genes but also with various inflammation-related genes. In conclusion, SPP1 expression is tightly linked to the molecular pathology of gliomas and is highly correlated with immune checkpoints. It contributes to glioma immune evasion, positioning SPP1 as a promising new target for immunotherapy in glioma.
DOI: 10.6084/m9.figshare.28945165
title: Identification of Alzheimer’s disease susceptibility genes by the integration of genomics and transcriptomics

description: Alzheimer’s disease (AD) is a progressive neurodegenerative disease. With the deepening of clinical and genomic research, a series of biomarkers and risk factors related to AD have been identified. However, the exact molecular mechanism of AD is not completely understood. By combining expression quantitative trait loci (eQTLs) analysis with the results of genome-wide association studies (GWAS), the candidate genes (CG) related to AD were screened out accurately. We identified that intersection genes of differentially expressed genes (DEGs) and CG are the key genes. Then, GO, KEGG, and GSEA were utilized for functional enrichment analysis. Finally, we predicted AD responses to immunotherapy by the single sample gene set enrichment analysis (ssGSEA). A total of 253 DEGs were identified. The three key genes (VASP, SURF2, and TARBP1) were identified by taking the intersection of DEGs and CG. Through Mendelian randomization (MR) analysis, it was found that the risk of AD was significantly increased when VASP expression increased (OR = 0.1.046), while the risk of AD was significantly decreased when SURF2 (OR = 0.897) and TARBP1(OR = 0.920) expression increased. Subsequently, the functional analysis indicated that the core genes were mainly enriched in Leukocyte Transendothelial Migration, cGMP-PKG signaling pathway, and Rap1 signaling pathway. Through ssGSEA analysis showed that all three core genes were significantly related to M2 macrophages. Three core genes were screened by integrating eQTLs data, GWAS data and transfer group data, and the potential mechanism of diagnosis and treatment of AD was revealed.
DOI: 10.6084/m9.figshare.28945165.v1
title: Identification of Alzheimer’s disease susceptibility genes by the integration of genomics and transcriptomics

description: Alzheimer’s disease (AD) is a progressive neurodegenerative disease. With the deepening of clinical and genomic research, a series of biomarkers and risk factors related to AD have been identified. However, the exact molecular mechanism of AD is not completely understood. By combining expression quantitative trait loci (eQTLs) analysis with the results of genome-wide association studies (GWAS), the candidate genes (CG) related to AD were screened out accurately. We identified that intersection genes of differentially expressed genes (DEGs) and CG are the key genes. Then, GO, KEGG, and GSEA were utilized for functional enrichment analysis. Finally, we predicted AD responses to immunotherapy by the single sample gene set enrichment analysis (ssGSEA). A total of 253 DEGs were identified. The three key genes (VASP, SURF2, and TARBP1) were identified by taking the intersection of DEGs and CG. Through Mendelian randomization (MR) analysis, it was found that the risk of AD was significantly increased when VASP expression increased (OR = 0.1.046), while the risk of AD was significantly decreased when SURF2 (OR = 0.897) and TARBP1(OR = 0.920) expression increased. Subsequently, the functional analysis indicated that the core genes were mainly enriched in Leukocyte Transendothelial Migration, cGMP-PKG signaling pathway, and Rap1 signaling pathway. Through ssGSEA analysis showed that all three core genes were significantly related to M2 macrophages. Three core genes were screened by integrating eQTLs data, GWAS data and transfer group data, and the potential mechanism of diagnosis and treatment of AD was revealed.
DOI: 10.6084/m9.figshare.28945502
title: Deciphering diabetic neuropathy: immune cell causality revealed

description: This study assessed the causal effects of immune cell phenotypes on diabetic neuropathy (DN) using Mendelian randomization (MR) analysis. Datasets of immune cell phenotypes and DN were collected from the European Bioinformatics Institute and FinnGen. Single nucleotide polymorphisms that met the specified criteria were subjected to a stepwise selection based on the hypotheses of association, independence, and exclusivity. Inverse variance weighted was employed as the main tool for MR analysis. Horizontal pleiotropy, heterogeneity, and robustness of the MR results were evaluated using the MR-Egger intercept, Cochran’s Q, and leave-one-out sensitivity analyses, respectively. MR analysis revealed that CD24+CD27+ %lymphocyte (odds ratio [OR]: 1.043, 95% confidence interval [CI]: 1.007‒1.080, <i>p</i> = 0.018, false discovery rate [FDR] = 0.998), CD24+CD27+ AC (OR: 1.041, 95% CI: 1.004‒1.079, <i>p</i> = 0.030, FDR = 0.998), CD28–CD127–CD25++CD8br %T cell (OR: 1.069, 95% CI: 1.003‒1.140, <i>p</i> = 0.042, FDR = 0.998), CD28–CD25++CD8br AC (OR: 1.095, 95% CI: 1.019‒1.177, <i>p</i> = 0.014, FDR = 0.998), CD33–HLA DR – AC (OR: 1.079, 95% CI: 1.007‒1.156, <i>p</i> = 0.031, FDR = 0.998), CD8 on CM CD8br (OR: 1.135, 95% CI: 1.012‒1.273, <i>p</i> = 0.030, FDR = 0.998), and naïve CD4+ �4+ (OR: 1.119, 95% CI: 1.030‒1.215, <i>p</i> = 0.008, FDR = 0.787) were associated with increased genetic susceptibility to DN. The MR-Egger intercept analysis indicated the absence of horizontal pleiotropy (<i>p</i> ≥ 0.05) and Cochran’s Q test showed that the results were not heterogeneous (<i>p</i> ≥ 0.05). This MR analysis revealed seven immune cell phenotypes associated with increased genetic susceptibility to DN. These findings are preliminary and warrant further experimental validation in different populations to confirm their significance.
DOI: 10.6084/m9.figshare.28945502.v1
title: Deciphering diabetic neuropathy: immune cell causality revealed

description: This study assessed the causal effects of immune cell phenotypes on diabetic neuropathy (DN) using Mendelian randomization (MR) analysis. Datasets of immune cell phenotypes and DN were collected from the European Bioinformatics Institute and FinnGen. Single nucleotide polymorphisms that met the specified criteria were subjected to a stepwise selection based on the hypotheses of association, independence, and exclusivity. Inverse variance weighted was employed as the main tool for MR analysis. Horizontal pleiotropy, heterogeneity, and robustness of the MR results were evaluated using the MR-Egger intercept, Cochran’s Q, and leave-one-out sensitivity analyses, respectively. MR analysis revealed that CD24+CD27+ %lymphocyte (odds ratio [OR]: 1.043, 95% confidence interval [CI]: 1.007‒1.080, <i>p</i> = 0.018, false discovery rate [FDR] = 0.998), CD24+CD27+ AC (OR: 1.041, 95% CI: 1.004‒1.079, <i>p</i> = 0.030, FDR = 0.998), CD28–CD127–CD25++CD8br %T cell (OR: 1.069, 95% CI: 1.003‒1.140, <i>p</i> = 0.042, FDR = 0.998), CD28–CD25++CD8br AC (OR: 1.095, 95% CI: 1.019‒1.177, <i>p</i> = 0.014, FDR = 0.998), CD33–HLA DR – AC (OR: 1.079, 95% CI: 1.007‒1.156, <i>p</i> = 0.031, FDR = 0.998), CD8 on CM CD8br (OR: 1.135, 95% CI: 1.012‒1.273, <i>p</i> = 0.030, FDR = 0.998), and naïve CD4+ �4+ (OR: 1.119, 95% CI: 1.030‒1.215, <i>p</i> = 0.008, FDR = 0.787) were associated with increased genetic susceptibility to DN. The MR-Egger intercept analysis indicated the absence of horizontal pleiotropy (<i>p</i> ≥ 0.05) and Cochran’s Q test showed that the results were not heterogeneous (<i>p</i> ≥ 0.05). This MR analysis revealed seven immune cell phenotypes associated with increased genetic susceptibility to DN. These findings are preliminary and warrant further experimental validation in different populations to confirm their significance.
DOI: 10.6084/m9.figshare.29039063
title: Investigating the causal association between coffee and migraine using Mendelian randomization analysis

description: <b>Background</b>: Migraine is a chronic neurological disorder influenced by various risk factors, including inadequate medication, anxiety, sleep disorders, depression, and stress-inducing events. Coffee is well-known for its diverse bioactive properties and may help relieve acute migraine symptoms; however, stopping long-term coffee consumption can unexpectedly trigger migraines. While some migraine sufferers view caffeine as a potential trigger, research suggests it may also have preventive effects. The complex physiological and pharmacological mechanisms behind coffee and its active components are not fully understood.  <b>Objective</b>: This study aims to clarify the relationship between coffee consumption and its components and the risk of developing migraines. <b>Methods</b>: We conducted a Mendelian randomization (MR) analysis, using genetic variants as proxies for exposure to reduce confounding factors and biases. <b>Results</b>: Our results show a significant inverse relationship between coffee intake and migraine risk, consistent with previous epidemiological studies that indicate coffee may protect against headache disorders. The MR analysis also found that 7-methylxanthine is linked to a lower risk of migraines, while caffeic acid sulfate is associated with a higher risk. Sensitivity analyses showed no heterogeneity in SNP selection for all components, except for trigonelline, and both MR-Egger and MR-PRESSO tests did not indicate horizontal pleiotropy or outliers. Our research highlights the significant impact of coffee and its components on migraine risk, providing valuable dietary recommendations. The protective effect of coffee may be closely related to adenosine receptor antagonism, which warrants further investigation to better understand the underlying mechanisms.
DOI: 10.6084/m9.figshare.29039063.v1
title: Investigating the causal association between coffee and migraine using Mendelian randomization analysis

description: <b>Background</b>: Migraine is a chronic neurological disorder influenced by various risk factors, including inadequate medication, anxiety, sleep disorders, depression, and stress-inducing events. Coffee is well-known for its diverse bioactive properties and may help relieve acute migraine symptoms; however, stopping long-term coffee consumption can unexpectedly trigger migraines. While some migraine sufferers view caffeine as a potential trigger, research suggests it may also have preventive effects. The complex physiological and pharmacological mechanisms behind coffee and its active components are not fully understood.  <b>Objective</b>: This study aims to clarify the relationship between coffee consumption and its components and the risk of developing migraines. <b>Methods</b>: We conducted a Mendelian randomization (MR) analysis, using genetic variants as proxies for exposure to reduce confounding factors and biases. <b>Results</b>: Our results show a significant inverse relationship between coffee intake and migraine risk, consistent with previous epidemiological studies that indicate coffee may protect against headache disorders. The MR analysis also found that 7-methylxanthine is linked to a lower risk of migraines, while caffeic acid sulfate is associated with a higher risk. Sensitivity analyses showed no heterogeneity in SNP selection for all components, except for trigonelline, and both MR-Egger and MR-PRESSO tests did not indicate horizontal pleiotropy or outliers. Our research highlights the significant impact of coffee and its components on migraine risk, providing valuable dietary recommendations. The protective effect of coffee may be closely related to adenosine receptor antagonism, which warrants further investigation to better understand the underlying mechanisms.
DOI: 10.5281/zenodo.18336545
title: Terahertz spin-orbit torque as a drive of spin dynamics in insulating antiferromagnet Cr2O3

description: Data set for the article "Terahertz spin-orbit torque as a drive of spin dynamics in insulating antiferromagnet Cr2O3"
DOI: 10.5281/zenodo.18336546
title: Terahertz spin-orbit torque as a drive of spin dynamics in insulating antiferromagnet Cr2O3

description: Data set for the article "Terahertz spin-orbit torque as a drive of spin dynamics in insulating antiferromagnet Cr2O3"
DOI: 10.5281/zenodo.18298770
title: Differing traits and phylogeny of ornamental woody plants across the invasion continuum

description: Database for the article "Differing traits of ornamental woody plants across the invasion continuum". We include references for the data that we recovered manually.

The metadata describing all variables is publicly available.Access to the full dataset is restricted while analyses are ongoing.
DOI: 10.5281/zenodo.18298771
title: Differing traits and phylogeny of ornamental woody plants across the invasion continuum

description: Database for the article "Differing traits of ornamental woody plants across the invasion continuum". We include references for the data that we recovered manually.

The metadata describing all variables is publicly available.Access to the full dataset is restricted while analyses are ongoing.
DOI: 10.5281/zenodo.18336592
title: O'QUVCHILARDA MA'NAVIY-AXLOQIY SIFATLARNI TARBIYALASHDA XALQ OG'ZAKI IJODIDAN FOYDALANISH

description: Ushbu maqolada o‘quvchilarda ma’naviy-axloqiy sifatlarni shakllantirish jarayonida xalq og‘zaki ijodining pedagogik imkoniyatlari ilmiy manbalar asosida tahlil qilinadi. Maqolada maqol, matal, ertak, doston va afsonalarning tarbiyaviy ahamiyati yoritilib, ularning o‘quvchilarning axloqiy ongini rivojlantirishdagi o‘rni ko‘rsatib beriladi. Xalq og‘zaki ijodi namunalari orqali vatanparvarlik, halollik, mehnatsevarlik, kattaga hurmat, kichikka izzat kabi sifatlarni shakllantirishning samaradorligi ilmiy-pedagogik adabiyotlar asosida asoslab beriladi. Tadqiqotda mavjud ilmiy manbalar tahlili asosiy metod sifatida qo‘llanilgan.
DOI: 10.5281/zenodo.18336593
title: O'QUVCHILARDA MA'NAVIY-AXLOQIY SIFATLARNI TARBIYALASHDA XALQ OG'ZAKI IJODIDAN FOYDALANISH

description: Ushbu maqolada o‘quvchilarda ma’naviy-axloqiy sifatlarni shakllantirish jarayonida xalq og‘zaki ijodining pedagogik imkoniyatlari ilmiy manbalar asosida tahlil qilinadi. Maqolada maqol, matal, ertak, doston va afsonalarning tarbiyaviy ahamiyati yoritilib, ularning o‘quvchilarning axloqiy ongini rivojlantirishdagi o‘rni ko‘rsatib beriladi. Xalq og‘zaki ijodi namunalari orqali vatanparvarlik, halollik, mehnatsevarlik, kattaga hurmat, kichikka izzat kabi sifatlarni shakllantirishning samaradorligi ilmiy-pedagogik adabiyotlar asosida asoslab beriladi. Tadqiqotda mavjud ilmiy manbalar tahlili asosiy metod sifatida qo‘llanilgan.
DOI: 10.5281/zenodo.18324963
title: Digital elevation model of Santa Maria volcano, Guatemala, using tri-stereo photogrammetry

description: Digital elevation model of the Santa Maria volcano including the Santiaguito lava dome. The model was built using tri-stereo images acquired on the 15th January 2017 by the Pléiades satellite mission. Processing was done using the photogrammetry workflow in Erdas imagine and a height correction and hole-filling in QGIS.

The final model is downloadable here in geotiff format with an approximate 1m resolution. Please note a major gap of the summit of Santa Maria due to cloud cover. This data is a resampled version of the DEM used by Zorn et al. (2020) for map visualization and georeferencing purposes. As a derivative product it may be used under the CC-BY-NC 4.0 License excluding any commercial use.
DOI: 10.5281/zenodo.18324964
title: Digital elevation model of Santa Maria volcano, Guatemala, using tri-stereo photogrammetry

description: Digital elevation model of the Santa Maria volcano including the Santiaguito lava dome. The model was built using tri-stereo images acquired on the 15th January 2017 by the Pléiades satellite mission. Processing was done using the photogrammetry workflow in Erdas imagine and a height correction and hole-filling in QGIS.

The final model is downloadable here in geotiff format with an approximate 1m resolution. Please note a major gap of the summit of Santa Maria due to cloud cover. This data is a resampled version of the DEM used by Zorn et al. (2020) for map visualization and georeferencing purposes. As a derivative product it may be used under the CC-BY-NC 4.0 License excluding any commercial use.
DOI: 10.15468/dl.vf74gb
title: Occurrence Download

description: A dataset containing 1944893 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Euphorbia prostrata, Lepidium virginicum, Plantago virginica, Sphagneticola trilobata, Paspalum distichum, Amaranthus retroflexus, Ipomoea indica, Solanum aculeatissimum, Alternanthera philoxeroides, Phytolacca americana, Pistia stratiotes, Bidens bipinnata, Erigeron canadensis, Chenopodium ficifolium, Chamaecrista mimosoides, Mimosa diplotricha, Bromus catharticus, Datura stramonium, Senna occidentalis, Chenopodiastrum hybridum, Senecio vulgaris, Lolium temulentum, Datura innoxia, Paspalum dilatatum, Portulaca pilosa)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 1944893 records from 5034 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004631-260120142942310/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.adh8uy
title: Occurrence Download

description: A dataset containing 566538 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Pakistan, Afghanistan)",
 "GadmGid is one of (AFG, PAK)",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 566538 records from 525 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001156-250424135625364/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ssdv8p
title: Occurrence Download

description: A dataset containing 2387300 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Spain",
 "GadmGid is ESP.6.2_1",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 2387300 records from 463 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013688-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dxc2fy
title: Occurrence Download

description: A dataset containing 29794 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 Platysace Bunge"
 ]
}

 The dataset includes 29794 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013722-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.79nznc
title: Occurrence Download

description: A dataset containing 7004 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Continent is South America",
 "Country is Argentina",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "TaxonKey is Chiroptera"
 ]
}

 The dataset includes 7004 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009697-250515123054153/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc298qdq
title: CCDC 2123543: Experimental Crystal Structure Determination

description: Related Article: Stanzin Chuskit, Sunil Kumar, Dinabandhu Das|2025|CrystEngComm|27|3247|doi:10.1039/D5CE00242G
description: Related Article: Bhavna Dwivedi, Sunil Kumar, Dinabandhu Das|2022|CrystEngComm|24|1161|doi:10.1039/D1CE01569A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.