cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14217238
title: The Interplay of Demographic Variables and Social Distancing Scores in Deep Prediction of U.S. COVID-19 Cases

description: With the severity of the COVID-19 outbreak, we characterize the nature of the growth trajectories of counties in the United States using a novel combination of spectral clustering and the correlation matrix. As the United States and the rest of the world are still suffering from the effects of the virus, the importance of assigning growth membership to counties and understanding the determinants of the growth is increasingly evident. For the two communities (faster versus slower growth trajectories) we cluster the counties into, the average between-group correlation is 88.4% whereas the average within-group correlations are 95.0% and 93.8%. The average growth rate for one group is 0.1589 and 0.1704 for the other, further suggesting that our methodology captures meaningful differences between the nature of the growth across various counties. Subsequently, we select the demographic features that are most statistically significant in distinguishing the communities: number of grocery stores, number of bars, Asian population, White population, median household income, number of people with the bachelor’s degrees, and population density. Lastly, we effectively predict the future growth of a given county with a long short-term memory (LSTM) recurrent neural network using three social distancing scores. The best-performing model achieves a median out-of-sample <i>R</i><sup>2</sup> of 0.6251 for a four-day ahead prediction and we find that the number of communities and social distancing features play an important role in producing a more accurate forecasting. This comprehensive study captures the nature of the counties’ growth in cases at a very micro-level using growth communities, demographic factors, and social distancing performance to help government agencies utilize known information to make appropriate decisions regarding which potential counties to target resources and funding to. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.
DOI: 10.6084/m9.figshare.16843072
title: Data from: Body Mass Index and Risk of Diabetic Nephropathy: A Mendelian Randomization Study

description: Supplemental material for "Body Mass Index and Risk of Diabetic Nephropathy: A Mendelian Randomization Study".<b>The associations of obesity and diabetic nephropathy (DN) in type 2 diabetes are inconsistent in observational studies, and causality remains unclear. To explore the causal effect of body mass index (BMI) on DN, estimated glomerular filtration rate (eGFR), and proteinuria in type 2 diabetes by a two-sample Mendelian randomization analysis.Genetic evidence showed that higher BMI levels were causally associated with increased risk of DN and decreased eGFR levels. Moreover, the increase in BMI level had a greater impact on DN risk in women.</b><br>
DOI: 10.6084/m9.figshare.10027355
title: MOESM6 of MAGE-A1 in lung adenocarcinoma as a promising target of chimeric antigen receptor T cells

description: Additional file 6: Table S1. Detailed data of CTA screen.
DOI: 10.6084/m9.figshare.10027355.v1
title: MOESM6 of MAGE-A1 in lung adenocarcinoma as a promising target of chimeric antigen receptor T cells

description: Additional file 6: Table S1. Detailed data of CTA screen.
DOI: 10.6084/m9.figshare.22605710
title: Additional file 9 of Integrated single-cell transcriptomics of cerebrospinal fluid cells in treatment-naïve multiple sclerosis

description: Additional file 9: Table S5. DE genes / Differential expressed genes MS vs Control cell type level 2. Depicted are the differential expressed genes in MS compared to control (Ctrl) for each cluster of cell type level 1 (DE genes). Listed for each gene is the Log fold change (log2-fold change), the p-value und the adjusted p-value (false discovery rate). We used the Welch’s t-test (cellxgene or diffxpy) for the discovery of differentially expressed genes between two groups of cells. A minimum of 10 cells in each group was required for calculation.
DOI: 10.6084/m9.figshare.22602278
title: Additional file 3 of m6A-related lncRNA-based immune infiltration characteristic analysis and prognostic model for colonic adenocarcinoma

description: Additional file 3: Table S3. Table of M6A-related prognostic gene coefficients for model construction.
DOI: 10.6084/m9.figshare.16835110
title: Additional file 3 of Transcriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response

description: Additional file 3: Table S3. List of upregulated DEGs.
DOI: 10.6084/m9.figshare.20508591
title: Additional file 3 of Genome-wide analysis of the DREB family genes and functional identification of the involvement of BrDREB2B in abiotic stress in wucai (Brassica campestris L.)

description: Additional file 3.
DOI: 10.6084/m9.figshare.20508588.v1
title: Additional file 2 of Genome-wide analysis of the DREB family genes and functional identification of the involvement of BrDREB2B in abiotic stress in wucai (Brassica campestris L.)

description: Additional file 2.
DOI: 10.6084/m9.figshare.20508585.v1
title: Additional file 1 of Genome-wide analysis of the DREB family genes and functional identification of the involvement of BrDREB2B in abiotic stress in wucai (Brassica campestris L.)

description: Additional file 1.
DOI: 10.6084/m9.figshare.22602232.v1
title: Additional file 3 of Identification of key module and hub genes in pulpitis using weighted gene co-expression network analysis

description: Additional file 3. Detailed process of GO analysis.
DOI: 10.6084/m9.figshare.22602235.v1
title: Additional file 4 of Identification of key module and hub genes in pulpitis using weighted gene co-expression network analysis

description: Additional file 4. Detailed process of hub gene detection.
DOI: 10.6084/m9.figshare.16835110.v1
title: Additional file 3 of Transcriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response

description: Additional file 3: Table S3. List of upregulated DEGs.
DOI: 10.6084/m9.figshare.10027454
title: MOESM2 of Stochastic processes shape microeukaryotic community assembly in a subtropical river across wet and dry seasons

description: Additional file 2: Table S1. Summary of environmental factors in the Tingjiang River across wet and dry seasons. Table S2. Comparison of environmental factors between wet and dry seasons. Table S3. Diversity, predicted richness and Good’s coverage of microeukaryotic community in the 60 samples. Table S4. The contribution of each taxa category to the microeukaryotic community in the 60 samples at 97% similarity level. Table S5. Mantel tests for the correlations between environmental distance, individual environmental factors and microeukaryotic community compositions in Tingjiang River during wet and dry seasons using Spearman’s coefficients. Table S6. Variation partitioning analysis based on partial RDA illustrating the effects of environmental and directional spatial (AEM) factors on the microeukaryotic communities in Tingjiang River. Table S7. Variation partitioning analysis based on partial RDA illustrating the effects of environmental and spatial (PCNM) factors on the microeukaryotic communities in Tingjiang River. Table S8. Variation partitioning analysis based on partial Mantel test illustrating the effects of environmental and spatial (PCNM) factors on the microeukaryotic communities in Tingjiang River. Table S9. The distinct estimated migration rate of neutral and non-neutral partitions of the metacommunity predicted by Sloan neutral model in different seasons. Table S10. Mantel tests for the correlations between geographical distance, environmental distance, individual environmental factors and different microeukaryotic community partitions predicted by the neutral community model in Tingjiang River during wet and dry seasons using Spearman’s coefficients. Table S11. The distinct estimated migration rate of wet, dry and both seasons’ microeukaryotic supergroups predicted by Sloan neutral model.
DOI: 10.6084/m9.figshare.10027454.v1
title: MOESM2 of Stochastic processes shape microeukaryotic community assembly in a subtropical river across wet and dry seasons

description: Additional file 2: Table S1. Summary of environmental factors in the Tingjiang River across wet and dry seasons. Table S2. Comparison of environmental factors between wet and dry seasons. Table S3. Diversity, predicted richness and Good’s coverage of microeukaryotic community in the 60 samples. Table S4. The contribution of each taxa category to the microeukaryotic community in the 60 samples at 97% similarity level. Table S5. Mantel tests for the correlations between environmental distance, individual environmental factors and microeukaryotic community compositions in Tingjiang River during wet and dry seasons using Spearman’s coefficients. Table S6. Variation partitioning analysis based on partial RDA illustrating the effects of environmental and directional spatial (AEM) factors on the microeukaryotic communities in Tingjiang River. Table S7. Variation partitioning analysis based on partial RDA illustrating the effects of environmental and spatial (PCNM) factors on the microeukaryotic communities in Tingjiang River. Table S8. Variation partitioning analysis based on partial Mantel test illustrating the effects of environmental and spatial (PCNM) factors on the microeukaryotic communities in Tingjiang River. Table S9. The distinct estimated migration rate of neutral and non-neutral partitions of the metacommunity predicted by Sloan neutral model in different seasons. Table S10. Mantel tests for the correlations between geographical distance, environmental distance, individual environmental factors and different microeukaryotic community partitions predicted by the neutral community model in Tingjiang River during wet and dry seasons using Spearman’s coefficients. Table S11. The distinct estimated migration rate of wet, dry and both seasons’ microeukaryotic supergroups predicted by Sloan neutral model.
DOI: 10.6084/m9.figshare.10027469
title: MOESM1 of Correction to: MicroPro: using metagenomic unmapped reads to provide insights into human microbiota and disease associations

description: Additional file 5: Table S4. Taxonomic assignments for each MAG generated from four metagenomic datasets. The corresponding Mash distance, number of matched sketches and the NCBI accession of the best hit are also provided. A MAG with multiple hits in the database is reported in the table only if all of its hits belong to a common microbial species/genus in the taxonomy tree.
DOI: 10.6084/m9.figshare.10027469.v1
title: MOESM1 of Correction to: MicroPro: using metagenomic unmapped reads to provide insights into human microbiota and disease associations

description: Additional file 5: Table S4. Taxonomic assignments for each MAG generated from four metagenomic datasets. The corresponding Mash distance, number of matched sketches and the NCBI accession of the best hit are also provided. A MAG with multiple hits in the database is reported in the table only if all of its hits belong to a common microbial species/genus in the taxonomy tree.
DOI: 10.6084/m9.figshare.22605850.v1
title: Additional file 3 of Letter to the Editor: clinical utility of urine DNA for noninvasive detection and minimal residual disease monitoring in urothelial carcinoma

description: Additional file 3: Supplementary Table 1. Patient characteristics of the training cohort. Supplementary Table 2. Characteristics of the UTUC validation cohort. Supplementary Table 3. Characteristics of the utLIFE-UC MRD cohort. Supplementary Table 4. Mutation used as candidate markers. Supplementary Table 5. AUC of different Cutoff_1 value in the training set. Supplementary Table 6. The diagnostic performance comparing the CNV score model with all autosomes and with specific chromosomes. Supplementary Table 7. Performance of the ML models in modeling cohort. Supplementary Table 8. Performance of TCGA validation cohorts by 3 ML models.
DOI: 10.6084/m9.figshare.14217238.v1
title: The Interplay of Demographic Variables and Social Distancing Scores in Deep Prediction of U.S. COVID-19 Cases*

description: With the severity of the COVID-19 outbreak, we characterize the nature of the growth trajectories of counties in the United States using a novel combination of spectral clustering and the correlation matrix. As the U.S. and the rest of the world are still suffering from the effects of the virus, the importance of assigning growth membership to counties and understanding the determinants of the growth is increasingly evident. For the two communities (faster versus slower growth trajectories) we cluster the counties into, the average between-group correlation is 88.4% whereas the average within-group correlations are 95.0% and 93.8%. The average growth rate for one group is 0.1589 and 0.1704 for the other, further suggesting that our methodology captures meaningful differences between the nature of the growth across various counties. Subsequently, we select the demographic features that are most statistically significant in distinguishing the communities: number of grocery stores, number of bars, Asian population, White population, median household income, number of people with Bachelor’s degrees, and population density. Lastly, we effectively predict the future growth of a given county with a long short-term memory (LSTM) recurrent neural network using three social distancing scores. The best-performing model achieves a median out-of-sample <i>R</i><sup>2</sup> of 0.6251 for a four-day ahead prediction and we find that the number of communities and social distancing features play an important role in producing a more accurate forecasting. This comprehensive study captures the nature of counties’ growth in cases at a very micro-level using growth communities, demographic factors, and social distancing performance to help government agencies utilize known information to make appropriate decisions regarding which potential counties to target resources and funding to.
DOI: 10.6084/m9.figshare.22605850
title: Additional file 3 of Letter to the Editor: clinical utility of urine DNA for noninvasive detection and minimal residual disease monitoring in urothelial carcinoma

description: Additional file 3: Supplementary Table 1. Patient characteristics of the training cohort. Supplementary Table 2. Characteristics of the UTUC validation cohort. Supplementary Table 3. Characteristics of the utLIFE-UC MRD cohort. Supplementary Table 4. Mutation used as candidate markers. Supplementary Table 5. AUC of different Cutoff_1 value in the training set. Supplementary Table 6. The diagnostic performance comparing the CNV score model with all autosomes and with specific chromosomes. Supplementary Table 7. Performance of the ML models in modeling cohort. Supplementary Table 8. Performance of TCGA validation cohorts by 3 ML models.
DOI: 10.6084/m9.figshare.16835107
title: Additional file 2 of Transcriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response

description: Additional file 2: Table S2. Mean TPM values and correlation coefficient values in samples.
DOI: 10.6084/m9.figshare.16835116.v1
title: Additional file 5 of Transcriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response

description: Additional file 5: Table S5. GO enrichment analysis of upregulated and downregulated DEGs.
DOI: 10.6084/m9.figshare.16835122
title: Additional file 7 of Transcriptome analysis of Clavibacter michiganensis subsp. michiganensis-infected tomatoes: a role of salicylic acid in the host response

description: Additional file 7: Table S7. Hypergeometric distribution test of TF genes in upregulated DEG.
DOI: 10.6084/m9.figshare.10027709
title: Additional file 1: of Disruption of PHF21A causes syndromic intellectual disability with craniofacial anomalies, epilepsy, hypotonia, and neurobehavioral problems including autism

description: List of 520 genes in the intellectual disability panel. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.10027709.v1
title: Additional file 1: of Disruption of PHF21A causes syndromic intellectual disability with craniofacial anomalies, epilepsy, hypotonia, and neurobehavioral problems including autism

description: List of 520 genes in the intellectual disability panel. (XLSX 17 kb)
DOI: 10.15129/653fed93-4fbb-4dbb-aa88-84ccc9640a65
title: Data for "Photo-oxidation of poly(diethylene glycol terephthalate) "

description: Spectroscopic data (Infra-red (ATR, DRIFTS) for samples of poly(diethylene glycol terephthalate) photo-oxidised in a Suntest XLS+ Weatherometer (full solar spectrum) and at specific wavelengths of 302 and 365 nm. Files are available as Agilent .a2r files and as more accessible .spc files. Processed data is in the form of Origin .opj files. Folders are organised by degradation conditions (e.g. WO = Weatherometer, Honle 365 = 365 nm, UV = 302 nm) and exposure time.
DOI: 10.6084/m9.figshare.14217238.v2
title: The Interplay of Demographic Variables and Social Distancing Scores in Deep Prediction of U.S. COVID-19 Cases

description: With the severity of the COVID-19 outbreak, we characterize the nature of the growth trajectories of counties in the United States using a novel combination of spectral clustering and the correlation matrix. As the United States and the rest of the world are still suffering from the effects of the virus, the importance of assigning growth membership to counties and understanding the determinants of the growth is increasingly evident. For the two communities (faster versus slower growth trajectories) we cluster the counties into, the average between-group correlation is 88.4% whereas the average within-group correlations are 95.0% and 93.8%. The average growth rate for one group is 0.1589 and 0.1704 for the other, further suggesting that our methodology captures meaningful differences between the nature of the growth across various counties. Subsequently, we select the demographic features that are most statistically significant in distinguishing the communities: number of grocery stores, number of bars, Asian population, White population, median household income, number of people with the bachelor’s degrees, and population density. Lastly, we effectively predict the future growth of a given county with a long short-term memory (LSTM) recurrent neural network using three social distancing scores. The best-performing model achieves a median out-of-sample <i>R</i><sup>2</sup> of 0.6251 for a four-day ahead prediction and we find that the number of communities and social distancing features play an important role in producing a more accurate forecasting. This comprehensive study captures the nature of the counties’ growth in cases at a very micro-level using growth communities, demographic factors, and social distancing performance to help government agencies utilize known information to make appropriate decisions regarding which potential counties to target resources and funding to. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.
DOI: 10.6084/m9.figshare.16843523
title: Neurodevelopmental effects of maternal folic acid supplementation: a systematic review and meta-analysis

description: Folic acid, a water-soluble vitamin B nutrient, plays an important role not only in maintaining a healthy pregnancy but also in offspring brain development and function, however, it remains unclear whether maternal folic acid (FA) supplementation associated with the risk of different postnatal neurodevelopmental outcomes. Here, we performed a systematic review and meta-analysis on the impact of maternal FA supplementation on a wide range of postnatal neurodevelopmental outcomes which include intellectual development, risk of autistic traits, ADHD, behavior, language, and psychomotor problems, using studies extracted from the following databases, including MEDLINE, Web of Science, Cochrane Library, Scopus, EMBASE, and PsychInfo. Thirty-two cohort studies and seven case-control studies were included in this meta-analysis. In the present study, we found that prenatal FA supplementation had a positive impact on offspring’s neurodevelopmental outcomes, including improved intellectual development and reduced risk of autism traits, ADHD, behavioral, and language problems. We also found that FA over-supplementation was not associated with an improvement in offspring’s brain development, and may have a negative impact on offspring’s neurodevelopmental outcomes. This study proved the first panoramic review on the relationship of FA supplementation with offspring’s neurodevelopment. Further studies focusing on different dosages and periods of FA supplementation are needed. Supplemental data for this article is available online at https://doi.org/10.1080/10408398.2021.1993781 .
DOI: 10.6084/m9.figshare.21557338.v1
title: Additional file 11 of Evolution patterns of NBS genes in the genus Dendrobium and NBS-LRR gene expression in D. officinale by salicylic acid treatment

description: Additional file 11.
DOI: 10.6084/m9.figshare.12644425
title: Additional file 1 of A literature-based approach for curating gene signatures in multifaceted diseases

description: Additional file 1: Table S1. LitLab Gene Retriever output of genes retrieved from PMIDs associated with IBD and mucosal immunity, and IDBU in humans.
DOI: 10.24400/527896/a01-2024.001
title: Composite Maps of sargassum Floating Algae Index NFAI (Normalized Floating Algae Index) using MSI instruments onboard Sentinel-2A and B and OLI sensor onboard LANDSAT-8 and 9

description: Sargassum detection index (NFAI) computed at 20m on specific HR geographical areas from images of MSI Sentinel-2A and 2B resolution every 2-3 days, and OLI Landsat-8 and 9 every 8 days at most, and merged in 300m resolution maps after each satellite pass covering the area of interest.
DOI: 10.5285/f1ad3bf6-f32a-4895-9f5f-8fa95c158832
title: UKGEOS Cheshire TH0424 packer testing hydraulic and chemical data

description: This data pack contains processed data from straddle packer pump testing of TH0424 ground investigation borehole at the UK Geoenergy Observatory at Thornton Science Park, Cheshire during October 2022.  TH0424 (BGS borehole reference NG47NW249) is located at NGR Easting: 344965 Northing: 375857 and drilled to a depth of 101.14 mbgl. Full meta data for the test borehole is included in the borehole information pack (https://doi.org/10.5285/badff3b9-8bc8-4897-b324-7f4653fdd214).  This dataset is accompanied by BGS open report OR/23/037 (https://nora.nerc.ac.uk/id/eprint/536445/) which provides context, description, and analysis of the data.
Data sets included in this data pack:
1)	Groundwater level data as measured by downhole transducers in the isolated packer intervals and outside packer intervals for 20 pump tests at various target depths/zones.  Level data includes raw level readings as well as barometric pressure readings at surface and barometrically compensated level data.
2)	Pump flow rate data during pump tests
3)	Event logs including timestamped events such as packer inflation, pump deployment etc.
4)	Hydrochemical data from on-site parameter measurements and analysed groundwater samples collected during constant rate pump tests.
5)	Coring/drilling log of TH0410 with timestamped coring progress during the pump testing period.  This dataset is included as activities at TH0410 during testing are thought to have significantly impacted data quality.
6)	Logged abstraction events from the Thornton Science Park abstraction borehole (Borehole reference SJ47NW25, NGR 344950 375500, ~350m south of TH0424) by means of a pressure transducer attached to the borehole headworks.  This dataset is included as abstraction of the TSP borehole is known to drawdown groundwater levels in TH0424.