cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9698756.v1
title: Data: Telemetry data of juvenile little owls from Experimentally disentangling intrinsic and extrinsic drivers of natal dispersal in a nocturnal raptor

description: Telemetry data of juvenile little owls
DOI: 10.6084/m9.figshare.9698759.v1
title: Data: Dispersal variables of juvenile little owls from Experimentally disentangling intrinsic and extrinsic drivers of natal dispersal in a nocturnal raptor

description: Dispersal variables of juvenile little owls
DOI: 10.6084/m9.figshare.9698732
title: Raw Data from Human-mediated disturbance in multitrophic interactions results in outbreak levels of North America's most venomous caterpillar

description: Supplementa Table 1: Raw data of the number of asp counted in the survey in Houston, Texas, USA in 2015, 2017, and 2018. Noted is the date of the survey, if the tree was netted (Y) or non-netted (N), the number of asp (larvae and pupae) observed on each tree, the location of the survey (TMC = Texas Medical Center; Rice = Rice University; HP = Herman Park; SG = Southgate Neighborhood), the year the survey was conducted, and if the tree of previously netted (Y = previously netted; N = not previously netted).
DOI: 10.6084/m9.figshare.9698732.v1
title: Raw Data from Human-mediated disturbance in multitrophic interactions results in outbreak levels of North America's most venomous caterpillar

description: Supplementa Table 1: Raw data of the number of asp counted in the survey in Houston, Texas, USA in 2015, 2017, and 2018. Noted is the date of the survey, if the tree was netted (Y) or non-netted (N), the number of asp (larvae and pupae) observed on each tree, the location of the survey (TMC = Texas Medical Center; Rice = Rice University; HP = Herman Park; SG = Southgate Neighborhood), the year the survey was conducted, and if the tree of previously netted (Y = previously netted; N = not previously netted).
DOI: 10.5517/ccdc.csd.cc25dnt2
title: CCDC 2008174: Experimental Crystal Structure Determination

description: Related Article: Fei-Long Hu, Zhen Qin, Meng-Fan Wang, Xue Wan Kang, Yong-Li Qin, Yong Wang, Shu-Li Chen, David James Young, Yan Mi|2020|Dalton Trans.|49|10858|doi:10.1039/D0DT02038A
DOI: 10.6084/m9.figshare.9698699
title: Flight Data from The role of humidity and metabolic status on lean mass catabolism in migratory Swainson's thrushes (<i>Catharus ustulatus</i>)

description: Raw flight and body composition data of Swainson's thrushes in the wind tunnel.
DOI: 10.6084/m9.figshare.9698699.v1
title: Flight Data from The role of humidity and metabolic status on lean mass catabolism in migratory Swainson's thrushes (<i>Catharus ustulatus</i>)

description: Raw flight and body composition data of Swainson's thrushes in the wind tunnel.
DOI: 10.6084/m9.figshare.9698642
title: Supplementary material S3 from Novel vascular plexus in the head of a sea snake (Elapidae, Hydrophiinae) revealed by high-resolution computed tomography and histology

description: Measurements and physiology calculations.
DOI: 10.6084/m9.figshare.9698642.v1
title: Supplementary material S3 from Novel vascular plexus in the head of a sea snake (Elapidae, Hydrophiinae) revealed by high-resolution computed tomography and histology

description: Measurements and physiology calculations.
DOI: 10.6084/m9.figshare.9698465
title: Smoldering and flaming biomass wood smoke inhibit respiratory responses in mice

description: <b>Background:</b> Acute and chronic exposures to biomass wildfire smoke pose significant health risks to firefighters and impacted communities. Susceptible populations such as asthmatics may be particularly sensitive to wildfire effects. We examined pulmonary responses to biomass smoke generated from combustion of peat, oak, or eucalyptus in control and house dust mite (HDM)-allergic mice. <b>Methods:</b> Mice were exposed 1 h/d for 2 consecutive days to emissions from each fuel type under smoldering or flaming conditions (∼40 or ∼3.3 mg PM/m<sup>3</sup>, respectively) while maintaining comparable CO levels (∼60–120 ppm). <b>Results:</b> Control and allergic mice reduced breathing frequency during exposure to all biomass emissions compared with pre-exposure to clean air. Smoldering eucalyptus and oak, but not peat, further reduced frequency compared to flaming conditions in control and allergic groups, while also reducing minute volume and peak inspiratory flow in control mice. Several biochemical and cellular markers of lung injury and inflammation were suppressed by all biomass emission types in both HDM-allergic and control mice. Control mice exposed to flaming eucalyptus at different PM concentrations (C) and times (T) with the same C × T product had a greater decrease in breathing frequency with high concentration acute exposure compared with lower concentration episodic exposure. This decrease was ameliorated by PM HEPA filtration, indicating that the respiratory changes were partially mediated by biomass smoke particles. <b>Conclusion:</b> These data show that exposure to smoldering eucalyptus or oak smoke inhibits respiratory responses to a greater degree than peat smoke. Anti-inflammatory effects of CO may possibly contribute to smoke-induced suppression of allergic inflammatory responses.
DOI: 10.6084/m9.figshare.9698465.v1
title: Smoldering and flaming biomass wood smoke inhibit respiratory responses in mice

description: <b>Background:</b> Acute and chronic exposures to biomass wildfire smoke pose significant health risks to firefighters and impacted communities. Susceptible populations such as asthmatics may be particularly sensitive to wildfire effects. We examined pulmonary responses to biomass smoke generated from combustion of peat, oak, or eucalyptus in control and house dust mite (HDM)-allergic mice. <b>Methods:</b> Mice were exposed 1 h/d for 2 consecutive days to emissions from each fuel type under smoldering or flaming conditions (∼40 or ∼3.3 mg PM/m<sup>3</sup>, respectively) while maintaining comparable CO levels (∼60–120 ppm). <b>Results:</b> Control and allergic mice reduced breathing frequency during exposure to all biomass emissions compared with pre-exposure to clean air. Smoldering eucalyptus and oak, but not peat, further reduced frequency compared to flaming conditions in control and allergic groups, while also reducing minute volume and peak inspiratory flow in control mice. Several biochemical and cellular markers of lung injury and inflammation were suppressed by all biomass emission types in both HDM-allergic and control mice. Control mice exposed to flaming eucalyptus at different PM concentrations (C) and times (T) with the same C × T product had a greater decrease in breathing frequency with high concentration acute exposure compared with lower concentration episodic exposure. This decrease was ameliorated by PM HEPA filtration, indicating that the respiratory changes were partially mediated by biomass smoke particles. <b>Conclusion:</b> These data show that exposure to smoldering eucalyptus or oak smoke inhibits respiratory responses to a greater degree than peat smoke. Anti-inflammatory effects of CO may possibly contribute to smoke-induced suppression of allergic inflammatory responses.
DOI: 10.6084/m9.figshare.9698234
title: OME-A interaction (KOE region) dataset

description: This is a supporting dataset for a research about the OME-A interaction and its effect in the Kuroshio-Oyashio extension region. The source of the data is a regional high-resolution air-sea coupled model (CRCM) implemented in Texas A&M University. <br>
DOI: 10.6084/m9.figshare.9698252
title: OME-A interaction dataset

description: The dataset is a supporting material for a research about the OME-A interation and its effect in the Kuroshio-Oyashio extension region. The source of the data is a regional high-resolution air-sea coupled model (CRCM) implemented in Texas A & M University. <br>
DOI: 10.6084/m9.figshare.9698234.v1
title: OME-A interaction (KOE region) dataset

description: This is a supporting dataset for a research about the OME-A interaction and its effect in the Kuroshio-Oyashio extension region. The source of the data is a regional high-resolution air-sea coupled model (CRCM) implemented in Texas A&M University. <br>
DOI: 10.6084/m9.figshare.9698252.v1
title: OME-A interaction dataset

description: The dataset is a supporting material for a research about the OME-A interation and its effect in the Kuroshio-Oyashio extension region. The source of the data is a regional high-resolution air-sea coupled model (CRCM) implemented in Texas A & M University. <br>
DOI: 10.6084/m9.figshare.9698123
title: Additional file 2: of Use of estimated glomerular filtration rate to predict incident chronic kidney disease in patients at risk of cardiovascular disease: a retrospective study

description: Use of estimated glomerular filtration rate to predict incident chronic kidney disease in patients at risk of cardiovascular disease: a retrospective study dataset. ID identification, DM diabetes mellitus, HbA1c glycosylated hemoglobin A1C, CVD cardiovascular disease, HTN hypertension, SBP systolic blood pressure, DBP diastolic blood pressure, BMI body mass index, eGFR estimated glomerular filtration rate, CKD chronic kidney disease. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.9698123.v1
title: Additional file 2: of Use of estimated glomerular filtration rate to predict incident chronic kidney disease in patients at risk of cardiovascular disease: a retrospective study

description: Use of estimated glomerular filtration rate to predict incident chronic kidney disease in patients at risk of cardiovascular disease: a retrospective study dataset. ID identification, DM diabetes mellitus, HbA1c glycosylated hemoglobin A1C, CVD cardiovascular disease, HTN hypertension, SBP systolic blood pressure, DBP diastolic blood pressure, BMI body mass index, eGFR estimated glomerular filtration rate, CKD chronic kidney disease. (XLSX 54 kb)
DOI: 10.6084/m9.figshare.9698039
title: Additional file 18: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S9. Tumor heterogeneity was inferred using â maftoolsâ , with which we clustered variant allele frequenciesÂ (VAF). We also measured the extent of heterogeneity in terms of a numerical value. Mutant-Allele Tumor Heterogeneity (MATH) score is a simple quantitative measure of intra-tumor heterogeneity, which calculates the width of the VAF distribution. (XLSX 86 kb)
DOI: 10.6084/m9.figshare.9698045
title: Additional file 19: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S10. CIBERSORT analysis results depict the fractional representations of 22 hematopoietic cell types present in the gene expression profile of each cytolytic subset in colon (COAD) and rectal (READ) cancers, respectively. Columns represent cell types from the signature genes file and rows represent deconvolution results for each tumor sample in each cytolytic subgroup. Filtering was set at p = 0.05 with 1000 permutations during analysis. All results are reported as relative fractions normalized to 1 across all cell subsets. P-value: Statistical significance of the deconvolution result across all cell subsets; useful for filtering out results with a poor “goodness of fit”. Correlation: Pearson’s correlation coefficient (R), generated from comparing the original mixture with the estimated mixture, the latter of which is calculated using imputed cell fractions and corresponding expression profiles from the signature genes file. Of note, the correlation is restricted to signature genes. RMSE: Root mean squared error between the original mixture and the imputed mixture, restricted to genes in the signature gene file. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9698045.v1
title: Additional file 19: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S10. CIBERSORT analysis results depict the fractional representations of 22 hematopoietic cell types present in the gene expression profile of each cytolytic subset in colon (COAD) and rectal (READ) cancers, respectively. Columns represent cell types from the signature genes file and rows represent deconvolution results for each tumor sample in each cytolytic subgroup. Filtering was set at p = 0.05 with 1000 permutations during analysis. All results are reported as relative fractions normalized to 1 across all cell subsets. P-value: Statistical significance of the deconvolution result across all cell subsets; useful for filtering out results with a poor “goodness of fit”. Correlation: Pearson’s correlation coefficient (R), generated from comparing the original mixture with the estimated mixture, the latter of which is calculated using imputed cell fractions and corresponding expression profiles from the signature genes file. Of note, the correlation is restricted to signature genes. RMSE: Root mean squared error between the original mixture and the imputed mixture, restricted to genes in the signature gene file. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.9698033
title: Additional file 17: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S8. GISTIC (v2.0.22) analysis results for rectal cancers (READ). GISTIC was used to detect recurrent somatic copy number alterations (SCNA) in CYT-high and -low rectum cancers, using MutSigCV (v1) from the Broad Institute’s GenePattern. Each SCNA was assigned a G-score indicative of its amplitude and occurrence across samples. SCNAs in each RED sample within each cytolytic subgroup were counted by taking the sum of segment mean changes ≥ 0.6 and ≤ − 0.4 between somatic and normal samples. Significantly amplified or deleted genomic regions in each cytolytic subgroup with FDR
DOI: 10.6084/m9.figshare.9698039.v1
title: Additional file 18: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S9. Tumor heterogeneity was inferred using â maftoolsâ , with which we clustered variant allele frequenciesÂ (VAF). We also measured the extent of heterogeneity in terms of a numerical value. Mutant-Allele Tumor Heterogeneity (MATH) score is a simple quantitative measure of intra-tumor heterogeneity, which calculates the width of the VAF distribution. (XLSX 86 kb)
DOI: 10.6084/m9.figshare.9698030
title: MOESM2 of Flexible heuristic algorithm for automatic molecule fragmentation: application to the UNIFAC group contribution model

description: Additional file 2. Large database of structures without fragmentations by another methodÂ used to test the capability of the algorithms on more molecules.
DOI: 10.6084/m9.figshare.9698027
title: Additional file 16: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S7. GISTIC (v2.0.22) analysis results for colon cancers (COAD). GISTIC was used to detect recurrent somatic copy number alterations (SCNA) in CYT-high and -low colon cancers, using MutSigCV (v1) from the Broad Institute’s GenePattern. Each SCNA was assigned a G-score indicative of its amplitude and occurrence across samples. SCNAs in each COAD sample within each cytolytic subgroup were counted by taking the sum of segment mean changes ≥ 0.6 and ≤ − 0.4 between somatic and normal samples. Significantly amplified or deleted genomic regions in each cytolytic subgroup with FDR
DOI: 10.6084/m9.figshare.9698033.v1
title: Additional file 17: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S8. GISTIC (v2.0.22) analysis results for rectal cancers (READ). GISTIC was used to detect recurrent somatic copy number alterations (SCNA) in CYT-high and -low rectum cancers, using MutSigCV (v1) from the Broad Institute’s GenePattern. Each SCNA was assigned a G-score indicative of its amplitude and occurrence across samples. SCNAs in each RED sample within each cytolytic subgroup were counted by taking the sum of segment mean changes ≥ 0.6 and ≤ − 0.4 between somatic and normal samples. Significantly amplified or deleted genomic regions in each cytolytic subgroup with FDR
DOI: 10.6084/m9.figshare.9698021
title: MOESM1 of Flexible heuristic algorithm for automatic molecule fragmentation: application to the UNIFAC group contribution model

description: Additional file 1. Â Reference database of structures with fragmentations by the DDBST online fragmentation tool.
DOI: 10.6084/m9.figshare.9698027.v1
title: Additional file 16: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S7. GISTIC (v2.0.22) analysis results for colon cancers (COAD). GISTIC was used to detect recurrent somatic copy number alterations (SCNA) in CYT-high and -low colon cancers, using MutSigCV (v1) from the Broad Institute’s GenePattern. Each SCNA was assigned a G-score indicative of its amplitude and occurrence across samples. SCNAs in each COAD sample within each cytolytic subgroup were counted by taking the sum of segment mean changes ≥ 0.6 and ≤ − 0.4 between somatic and normal samples. Significantly amplified or deleted genomic regions in each cytolytic subgroup with FDR
DOI: 10.6084/m9.figshare.9698030.v1
title: MOESM2 of Flexible heuristic algorithm for automatic molecule fragmentation: application to the UNIFAC group contribution model

description: Additional file 2. Large database of structures without fragmentations by another methodÂ used to test the capability of the algorithms on more molecules.
DOI: 10.6084/m9.figshare.9698018
title: Additional file 15: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S6. Top-upregulated genes in the cytolytic-high (CYT-high) COAD and READ tumors, against their cytolytic-low (CYT-low) counterparts. (XLSX 9165 kb)
DOI: 10.6084/m9.figshare.9698021.v1
title: MOESM1 of Flexible heuristic algorithm for automatic molecule fragmentation: application to the UNIFAC group contribution model

description: Additional file 1. Â Reference database of structures with fragmentations by the DDBST online fragmentation tool.
DOI: 10.6084/m9.figshare.9698015
title: Additional file 14: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S5. Patient IDs and cytolytic activity levels (CYT) for CYT-high and CYT-low cytolytic subgroups of COAD and READ tumors. (XLSX 27546 kb)
DOI: 10.6084/m9.figshare.9698018.v1
title: Additional file 15: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S6. Top-upregulated genes in the cytolytic-high (CYT-high) COAD and READ tumors, against their cytolytic-low (CYT-low) counterparts. (XLSX 9165 kb)
DOI: 10.6084/m9.figshare.9698015.v1
title: Additional file 14: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S5. Patient IDs and cytolytic activity levels (CYT) for CYT-high and CYT-low cytolytic subgroups of COAD and READ tumors. (XLSX 27546 kb)
DOI: 10.6084/m9.figshare.9698000
title: Additional file 13: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S4. Human Protein Atlas (HPA)-derived protein expression analysis shows that in colorectal cancer GZMA is lowly expressed (3/11, 27%) or not detected (8/11, 72.7%) and PRF1 protein is not detected in any of the 12 colorectal cancer samples. (XLSX 71455 kb)
DOI: 10.6084/m9.figshare.9698000.v1
title: Additional file 13: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S4. Human Protein Atlas (HPA)-derived protein expression analysis shows that in colorectal cancer GZMA is lowly expressed (3/11, 27%) or not detected (8/11, 72.7%) and PRF1 protein is not detected in any of the 12 colorectal cancer samples. (XLSX 71455 kb)
DOI: 10.6084/m9.figshare.9697991
title: Additional file 12: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S3. Primer sequences used for RT-qPCR. (XLSX 4938 kb)
DOI: 10.6084/m9.figshare.9697982
title: Additional file 10: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S1. The CRC samples within each dataset (COAD and READ), along with their clinical information and cytolytic levels (CYT). (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9697985
title: Additional file 11: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S2. Microsatellite instability status of all colorectal cancer samples within each TCGA dataset (COAD and READ). The presence of missense mutations in the MMR genes MLH1, MLH3, MSH2, MSH3, MSH4, MSH5, MSH6, PMS1 and PMS2 was used to stratify tumor samples to microsatellite unstable (MSI) or stable (MSS), respectively. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9697982.v1
title: Additional file 10: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S1. The CRC samples within each dataset (COAD and READ), along with their clinical information and cytolytic levels (CYT). (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9697985.v1
title: Additional file 11: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S2. Microsatellite instability status of all colorectal cancer samples within each TCGA dataset (COAD and READ). The presence of missense mutations in the MMR genes MLH1, MLH3, MSH2, MSH3, MSH4, MSH5, MSH6, PMS1 and PMS2 was used to stratify tumor samples to microsatellite unstable (MSI) or stable (MSS), respectively. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.9697991.v1
title: Additional file 12: of Cytolytic activity correlates with the mutational burden and deregulated expression of immune checkpoints in colorectal cancer

description: Table S3. Primer sequences used for RT-qPCR. (XLSX 4938 kb)
DOI: 10.6084/m9.figshare.9697973
title: Additional file 2: of Insufficient uptake of systematic search methods in oncological clinical practice guideline: a systematic review

description: Guidance documents list. List and classification of all the included Guidance Documents. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.9697973.v1
title: Additional file 2: of Insufficient uptake of systematic search methods in oncological clinical practice guideline: a systematic review

description: Guidance documents list. List and classification of all the included Guidance Documents. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.9697943
title: Additional file 6: of Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response

description: Table S2 Integrative annotation for dual role genes. A curation from available datasets of dual role genes. (TXT 2 kb)
DOI: 10.6084/m9.figshare.9697949
title: Additional file 7: of Distinct signatures of lung cancer types: aberrant mucin O-glycosylation and compromised immune response

description: Table S3 Survival analysis. The table contains all the data from the cox regression on the candidate genes. (XLSX 14 kb)