cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22698380.v1
title: Genetic risk and gastric cancer: polygenic risk scores in population-based case-control study

description: This study aimed to screen and identify common variants and long noncoding RNA (lncRNA) single nucleotide polymorphisms (SNPs) associated with gastric cancer risk, and construct prediction models based on polygenic risk score (PRS). The risk factors associated with gastric cancer were screened following meta-analysis and bioinformatics, verified by population-based case-control study. We constructed PRS and weighted genetic risk scores (wGRS) derived from the validation data set. Net reclassification improvement (NRI), integrated discrimination improvement (IDI), Akaike information criterion (AIC) and Bayesian information criterion (BIC) were used to evaluate model. The PRS was divided into 10 quantiles, with the 40–60% quantile as a reference. A risk gradient was revealed across quantile of the PRS, the risk of gastric cancer in the highest 10 quantile of PRS was 3.24-fold higher than that in control population (OR = 3.24, 95%CI: 2.07, 5.06). For NRI and IDI, PRS combinations were significantly improved compared to wGRS model combinations (<i>P</i> &lt; 0.001). The model of PRS combined with lncRNA SNPs, smoking, drinking and Helicobacter pylori infection was the best-fitting model (AIC = 117.23, BIC = 122.31). The model based on PRS combined with lncRNA SNPs, H. pylori infection, smoking, and drinking had the optimal predictive ability for gastric cancer risk, which was helpful to distinguish high-risk groups.
DOI: 10.6084/m9.figshare.12736869
title: Additional file 1 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 1: Table 1. The list of 241 maize inbred lines used in the study.
DOI: 10.6084/m9.figshare.12736872
title: Additional file 2 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 2: Table 2. The cost of materials used in PCR for one sample.
DOI: 10.6084/m9.figshare.12736875
title: Additional file 3 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 3: Table 3. The database constructed with the 37 barcode InDel markers in 227 maize lines.
DOI: 10.6084/m9.figshare.12736878
title: Additional file 4 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 4: Table 4. The number of different loci discriminated by the 37 barcode InDel markers among 227 maize lines.
DOI: 10.6084/m9.figshare.12212042.v1
title: Additional file 1 of Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice

description: Additional file 1 Summary details of 63 JcMADS genes encoding MADS-domain proteins in physic nut.
DOI: 10.6084/m9.figshare.20076711.v1
title: Additional file 5 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 5. The cancer gene of LUAD.
DOI: 10.6084/m9.figshare.20076714
title: Additional file 6 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 6. The normal gene of LUAD.
DOI: 10.6084/m9.figshare.20076681.v1
title: Additional file 1 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 1. The cancer gene of BRCA.
DOI: 10.6084/m9.figshare.20076717
title: Additional file 7 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 7. The cancer gene of LUSC.
DOI: 10.6084/m9.figshare.12737054.v1
title: Additional file 2 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 2: Table S2. Per-sample Lactobacilli species abundance.
DOI: 10.6084/m9.figshare.12737057.v1
title: Additional file 3 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 3: Table S3. MetaCyc annotation.
DOI: 10.6084/m9.figshare.20076720
title: Additional file 8 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 8. The normal gene of  LUSC.
DOI: 10.6084/m9.figshare.20076720.v1
title: Additional file 8 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 8. The normal gene of  LUSC.
DOI: 10.6084/m9.figshare.12736808.v1
title: Additional file 3 of Identification and comparison of proteomic and peptide profiles of mung bean seeds and sprouts

description: Additional file 3: Table S3. The potential bioactive peptides in the mung bean seeds and sprouts.
DOI: 10.6084/m9.figshare.14834676
title: The influence of the Ailaoshan-Red River shear zone on the mineralization of the Beiya deposit on the southeastern margin of the Tibetan Plateau revealed by a 3-D magnetotelluric survey

description: The Modular Electromagnetic Inversion system (ModEM; Kelbert et al., 2014) was used for the 3-D inversion. The input is the dataset with MT full impedance tensors and tippers, and the output is the preferred 3-D resistivity model.
DOI: 10.6084/m9.figshare.12737051
title: Additional file 1 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 1: Table S1. Genera abundance.
DOI: 10.6084/m9.figshare.12737060
title: Additional file 4 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 4: Table S4. EC annotation.
DOI: 10.6084/m9.figshare.20076705
title: Additional file 3 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 3. The cancer gene of LIHC.
DOI: 10.6084/m9.figshare.12736869.v1
title: Additional file 1 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 1: Table 1. The list of 241 maize inbred lines used in the study.
DOI: 10.6084/m9.figshare.12737060.v1
title: Additional file 4 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 4: Table S4. EC annotation.
DOI: 10.6084/m9.figshare.20076702
title: Additional file 2 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 2. The normal gene of BRCA.
DOI: 10.6084/m9.figshare.20076702.v1
title: Additional file 2 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 2. The normal gene of BRCA.
DOI: 10.6084/m9.figshare.20076708
title: Additional file 4 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 4. The normal gene of LIHC.
DOI: 10.6084/m9.figshare.20076708.v1
title: Additional file 4 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 4. The normal gene of LIHC.
DOI: 10.6084/m9.figshare.20076711
title: Additional file 5 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 5. The cancer gene of LUAD.
DOI: 10.6084/m9.figshare.20076717.v1
title: Additional file 7 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 7. The cancer gene of LUSC.
DOI: 10.6084/m9.figshare.22698380
title: Genetic risk and gastric cancer: polygenic risk scores in population-based case-control study

description: This study aimed to screen and identify common variants and long noncoding RNA (lncRNA) single nucleotide polymorphisms (SNPs) associated with gastric cancer risk, and construct prediction models based on polygenic risk score (PRS). The risk factors associated with gastric cancer were screened following meta-analysis and bioinformatics, verified by population-based case-control study. We constructed PRS and weighted genetic risk scores (wGRS) derived from the validation data set. Net reclassification improvement (NRI), integrated discrimination improvement (IDI), Akaike information criterion (AIC) and Bayesian information criterion (BIC) were used to evaluate model. The PRS was divided into 10 quantiles, with the 40–60% quantile as a reference. A risk gradient was revealed across quantile of the PRS, the risk of gastric cancer in the highest 10 quantile of PRS was 3.24-fold higher than that in control population (OR = 3.24, 95%CI: 2.07, 5.06). For NRI and IDI, PRS combinations were significantly improved compared to wGRS model combinations (<i>P</i> &lt; 0.001). The model of PRS combined with lncRNA SNPs, smoking, drinking and Helicobacter pylori infection was the best-fitting model (AIC = 117.23, BIC = 122.31). The model based on PRS combined with lncRNA SNPs, H. pylori infection, smoking, and drinking had the optimal predictive ability for gastric cancer risk, which was helpful to distinguish high-risk groups.
DOI: 10.6084/m9.figshare.12736872.v1
title: Additional file 2 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 2: Table 2. The cost of materials used in PCR for one sample.
DOI: 10.6084/m9.figshare.12736875.v1
title: Additional file 3 of A cost-effective barcode system for maize genetic discrimination based on bi-allelic InDel markers

description: Additional file 3: Table 3. The database constructed with the 37 barcode InDel markers in 227 maize lines.
DOI: 10.6084/m9.figshare.12737051.v1
title: Additional file 1 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 1: Table S1. Genera abundance.
DOI: 10.6084/m9.figshare.12737057
title: Additional file 3 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 3: Table S3. MetaCyc annotation.
DOI: 10.6084/m9.figshare.20076681
title: Additional file 1 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 1. The cancer gene of BRCA.
DOI: 10.6084/m9.figshare.20076705.v1
title: Additional file 3 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 3. The cancer gene of LIHC.
DOI: 10.6084/m9.figshare.20076714.v1
title: Additional file 6 of Identifying network biomarkers of cancer by sample-specific differential network

description: Additional file 6. The normal gene of LUAD.
DOI: 10.6084/m9.figshare.25206719.v1
title: 20240213_starrydata2

description: All data on Starrydata2, a database of experimental properties in the field of inorganic materials
DOI: 10.6084/m9.figshare.12212069
title: Additional file 4 of Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice

description: Additional file 4 Levels of expression of the 63 JcMADS genes in the organs detected (root, stem cortex, leaf, and seeds) according to RNA-seq data.
DOI: 10.6084/m9.figshare.12212078.v1
title: Additional file 5 of Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice

description: Additional file 5. Primers used in this study.
DOI: 10.6084/m9.figshare.20076596
title: Additional file 11 of Trial-level characteristics associate with treatment effect estimates: a systematic review of meta-epidemiological studies

description: Additional file 11: Appendix 11. Associations between treatment effect estimates and trial-level characteristics according to different subgroup analyses.
DOI: 10.6084/m9.figshare.12212054
title: Additional file 2 of Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice

description: Additional file 2 Summary of JcMADS proteins, and the reported biological functions of their orthologs in Arabidopsis and rice.
DOI: 10.6084/m9.figshare.12737099
title: Additional file 1 of Molecular characterization of ascaridoid parasites from captive wild carnivores in China using ribosomal and mitochondrial sequences

description: Additional file 1: Table S1. Nucleotide variability of the nuclear ITS and mitochondrial cox2 and nad1 genes of Toxocara/Toxascaris spp. identified in this study. Abbreviations: C, conserved sites; V, variable sites; Pi, parsimony-informative sites; S, singleton sites.
DOI: 10.6084/m9.figshare.12737108.v1
title: Additional file 4 of Molecular characterization of ascaridoid parasites from captive wild carnivores in China using ribosomal and mitochondrial sequences

description: Additional file 4: Table S2. Estimates of evolutionary distance between ascaridoid species recovered from different host species using the nuclear ITS. Evolutionary distances between 11 wild animals included in this study are highlighted in bold for ITS-based estimates. Given almost identical nucleotide sequences of ITS regions in worms from the same host species, 11 representative specimens were used to calculate evolutionary distances using a maximum composite likelihood model.
DOI: 10.6084/m9.figshare.12737099.v1
title: Additional file 1 of Molecular characterization of ascaridoid parasites from captive wild carnivores in China using ribosomal and mitochondrial sequences

description: Additional file 1: Table S1. Nucleotide variability of the nuclear ITS and mitochondrial cox2 and nad1 genes of Toxocara/Toxascaris spp. identified in this study. Abbreviations: C, conserved sites; V, variable sites; Pi, parsimony-informative sites; S, singleton sites.
DOI: 10.6084/m9.figshare.12737112.v1
title: Additional file 1 of Genome-wide characterization of the C2H2 zinc-finger genes in Cucumis sativus and functional analyses of four CsZFPs in response to stresses

description: Additional file 1 Table S1. The types and sub-types of C2H2-ZF domains and their characteristics. Table S2. Detailed information of C2H2 motifs in the classified C2H2-ZFPs. Table S3. The cis-regulatory elements analysis of the promoter region of CsZFPs. Table S4. The detailed information of cis-regulatory elements in the promoter region of CsZFPs. Table S5. The detailed information of miRNAs targeted to CsZFPs. Table S6. RNA-seq analysis of CsZFP genes in cucumber different growth, developmental stages and in response to biotic and abiotic stresses. Table S7. The primer sequences of CsZFP genes for qRT-PCR. Table S8. The primer sequences of pathogen response genes for qRT-PCR.
DOI: 10.6084/m9.figshare.10115477.v3
title: A Bayesian Time-Varying Coefficient Model for Multitype Recurrent Events

description: This article proposes a Bayesian time-varying coefficient model to evaluate the temporal profile of intensity for multitype recurrent events. The model obtains smooth estimates for both time-varying coefficients and the baseline intensity using Bayesian penalized splines. One major challenge in Bayesian penalized splines is that the smoothness of a spline fit is sensitive to the subjective choice of hyperparameters. We establish a procedure to objectively determine the hyperparameters through robust prior specification. To effectively update the high-dimensional spline parameters, we develop a Markov chain Monte Carlo procedure based on the Metropolis-adjusted Langevin algorithms. A joint sampling scheme is used to achieve better convergence and mixing properties. A simulation study confirms satisfactory model performance in estimating time-varying coefficients under different curvature and event rate scenarios. Application to a commercial truck driver naturalistic driving data reveals that drivers with 7-hours-or-less sleep time have a significantly higher safety-critical event intensity after 8 hr of driving and the intensity remains high after taking a break. The findings provide crucial information for the truck driver hours-of-service regulation and fatigue management. The proposed model provides a flexible and robust tool to evaluate the temporal profile of intensity for multitype recurrent events. Supplemental materials for this article are available online.
DOI: 10.6084/m9.figshare.12737054
title: Additional file 2 of Changes in the vaginal microbiota associated with primary ovarian failure

description: Additional file 2: Table S2. Per-sample Lactobacilli species abundance.
DOI: 10.6084/m9.figshare.6445796
title: Geometry-Sensitive Ensemble Mean Based on Wasserstein Barycenters: Proof-of-Concept on Cloud Simulations

description: An ensemble of forecasts generated by different model simulations provides rich information for meteorologists about impending weather such as precipitating clouds. One major form of forecasts presents cloud images created by multiple ensemble members. Common features identified from these images are often used as the consensus prediction of the entire ensemble, while the variation among the images indicates forecast uncertainty. However, the large number of images and the possibly tremendous extent of dissimilarity between them pose cognitive challenges for decision making. In this article, we develop novel methods for summarizing an ensemble of forecasts represented by cloud images and call them collectively the <i>Geometry-Sensitive Ensemble Mean</i> (GEM) toolkit. Conventional pixel-wise or feature-based averaging either loses interesting geometry information or focuses narrowly on some pre-chosen characteristics of the clouds to be forecasted. In GEM, we represent a cloud simulation by a Gaussian mixture model, which captures cloud shapes effectively without making special assumptions. Furthermore, using a state-of-the-art optimization algorithm, we compute the Wasserstein barycenter for a set of distributional entities, which can be considered as the consensus mean or centroid under the Wasserstein metric. Experimental results on two sets of ensemble simulated images are provided. Supplemental materials for the article are available online.
DOI: 10.6084/m9.figshare.12737108
title: Additional file 4 of Molecular characterization of ascaridoid parasites from captive wild carnivores in China using ribosomal and mitochondrial sequences

description: Additional file 4: Table S2. Estimates of evolutionary distance between ascaridoid species recovered from different host species using the nuclear ITS. Evolutionary distances between 11 wild animals included in this study are highlighted in bold for ITS-based estimates. Given almost identical nucleotide sequences of ITS regions in worms from the same host species, 11 representative specimens were used to calculate evolutionary distances using a maximum composite likelihood model.
DOI: 10.6084/m9.figshare.12212078
title: Additional file 5 of Genome-wide analysis of Jatropha curcas MADS-box gene family and functional characterization of the JcMADS40 gene in transgenic rice

description: Additional file 5. Primers used in this study.
DOI: 10.6084/m9.figshare.12737112
title: Additional file 1 of Genome-wide characterization of the C2H2 zinc-finger genes in Cucumis sativus and functional analyses of four CsZFPs in response to stresses

description: Additional file 1 Table S1. The types and sub-types of C2H2-ZF domains and their characteristics. Table S2. Detailed information of C2H2 motifs in the classified C2H2-ZFPs. Table S3. The cis-regulatory elements analysis of the promoter region of CsZFPs. Table S4. The detailed information of cis-regulatory elements in the promoter region of CsZFPs. Table S5. The detailed information of miRNAs targeted to CsZFPs. Table S6. RNA-seq analysis of CsZFP genes in cucumber different growth, developmental stages and in response to biotic and abiotic stresses. Table S7. The primer sequences of CsZFP genes for qRT-PCR. Table S8. The primer sequences of pathogen response genes for qRT-PCR.
DOI: 10.6084/m9.figshare.21125695.v2
title: Immediate effects of wearing textured versus smooth insoles on standing balance and spatiotemporal gait patterns when walking over even and uneven surfaces in people with multiple sclerosis

description: To investigate the immediate effects of wearing novel sensory-stimulating textured insoles on balance and gait in 41 people with multiple sclerosis (pwMS). Assessments of balance (firm/foam surface; eyes open/closed) and walking (when negotiating even/uneven surfaces) were performed wearing textured insoles, smooth insoles, shoes only, and barefoot. Outcome measures were centre of pressure (CoP) movement during standing (elliptical area, sway path velocity) and spatiotemporal gait patterns (stride/step width, stride time, double-limb support time, stride length, velocity). Wearing textured insoles led to reductions in CoP velocity measures when standing on foam with eyes open and closed when compared to barefoot (<i>p</i> values ≤0.02). Textured insoles did not appear to be consistently superior to smooth insoles or shoes only for improving gait. Relative to the insole/shoe conditions, walking barefoot led to poorer gait performance for the even and uneven surface tasks (<i>p</i> values ≤0.03). For pwMS, stimulating the foot with “texture” appears to provide enhanced sensory input with the capacity to improve CoP movement control during standing; offering a potential new treatment option for balance rehabilitation. Further research is needed to identify which individuals may benefit most from textured insoles.Implications for rehabilitationTextured shoe insoles, designed to stimulate plantar mechanoreceptors, are a novel approach to improve standing balance and walking patterns in people with multiple sclerosis (pwMS).Wearing textured insoles for the first time can lead to improvements in centre of pressure movement control when standing on an unstable compliant supporting surface.Textured insoles offer a potential new treatment technique for balance rehabilitation in pwMS who show early signs of diminished foot sensation. Textured shoe insoles, designed to stimulate plantar mechanoreceptors, are a novel approach to improve standing balance and walking patterns in people with multiple sclerosis (pwMS). Wearing textured insoles for the first time can lead to improvements in centre of pressure movement control when standing on an unstable compliant supporting surface. Textured insoles offer a potential new treatment technique for balance rehabilitation in pwMS who show early signs of diminished foot sensation.
DOI: 10.6084/m9.figshare.12737111
title: Additional file 5 of Molecular characterization of ascaridoid parasites from captive wild carnivores in China using ribosomal and mitochondrial sequences

description: Additional file 5: Table S3. Estimates of evolutionary distance between ascaridoid species recovered from different host species using the mitochondrial cox2 (below diagonal) and nad1 (above diagonal). Evolutionary distances between 11 wild animals included in this study are highlighted in bold for cox2- and nad1-based estimates, respectively. Given almost identical nucleotide sequences of cox2 or nad1 gene in worms from the same host species, 11 representative specimens were used to calculate evolutionary distances using a maximum composite likelihood model.