cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.22598594
title: Additional file 2 of Aberrant JAK-STAT signaling-mediated chromatin remodeling impairs the sensitivity of NK/T-cell lymphoma to chidamide

description: Additional file 2. Tables S1-10. Table S1. List of primers used for ChIP-qPCR. Table S2. List of primers used for RT–qPCR. Table S3. Demographic and clinical characteristics of the 28 relapsed/refractory NKTL patients. Table S4. Patient characteristics at baseline. Table S5. List of GAIN and LOSS regions identified in both resistant and sensitive samples. Table S6. List of motifs in GAIN regions. Table S7. List of GAIN and LOSS regions overlapping with nearest genes identified in both resistant and sensitive samples. Table S8. List of differentially expressed genes overlapping with GAIN and LOSS regions in sensitive versus resistant samples. Table S9. Differentially expressed genes from JAK-STAT pathway in sensitive versus resistant samples. Table S10. Differentially expressed genes in HANK1 treated with DMSO, tofacitinib or ruxolitinib.
DOI: 10.6084/m9.figshare.22598749.v1
title: Additional file 4 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 4.
DOI: 10.6084/m9.figshare.22598743
title: Additional file 2 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 2.
DOI: 10.6084/m9.figshare.22598746.v1
title: Additional file 3 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 3.
DOI: 10.6084/m9.figshare.22598743.v1
title: Additional file 2 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 2.
DOI: 10.6084/m9.figshare.22598746
title: Additional file 3 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 3.
DOI: 10.6084/m9.figshare.22598752
title: Additional file 5 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 5.
DOI: 10.6084/m9.figshare.13685824.v1
title: Snake slough in birds’ nests acts as a nest predator deterrent

description: The use of snake slough as nest material by birds is considered an adaptive behavior to avoid nest predation. Here, we conducted predation experiments to test the hypothesis that the snake slough in nests of crested mynas (<i>Acridotheres cristatellus</i>) had anti-predatory effects. We put snake slough and white-rumped munia (<i>Lonchura striata</i>) eggs in the nest boxes to compare egg predation by Swinhoe’s striped squirrels (<i>Tamiops swinhoei</i>), one of the main predators of cavity-nesting birds. In addition, we conducted experiments to examine if Swinhoe’s striped squirrels identified the snake sloughs in the nest by vision or olfaction, and if the length of snake sloughs has effect on the predation rate. Our results showed that in the anti-predatory experiment, the egg predation rate (on days 3, 6) and the predation rate at which the squirrels first arrived the nest box were significantly lower in the experimental group than in the control group. In the olfaction experiment, there was no significant difference in both the predation rate (on days 1, 3, 6) and the predation rate at which the squirrels first arrived the nest box between the two groups. In the vision experiment, the predation rate at which the squirrels first arrived the nest box was significantly lower in the experimental group (hung snake slough) than in the control group (hung cotton strip). In the slough length experiment, the length of snake slough did not have a significant effect on the predation rate. These results suggest that the snake sloughs in bird nests can effectively deter nest predators, mainly via visual effect. Our study provided strong experimental evidence for the hypothesis that snake slough in birds’ nests acts as a nest predator deterrent.
DOI: 10.6084/m9.figshare.22598749
title: Additional file 4 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 4.
DOI: 10.6084/m9.figshare.22598752.v1
title: Additional file 5 of Analysis of gut microbiota diversity in Hashimoto’s thyroiditis patients

description: Additional file 5.
DOI: 10.4121/858e4b36-895b-4c84-928a-d1cdcf0920d6.v1
title: Supplementary data for the paper 'External human-machine interfaces: Gimmick or necessity?'

description: The last few years have seen a wealth of research on external human–machine interfaces (eHMIs). It has been argued that eHMIs are vital because they fill the social interaction void that arises with the introduction of automated vehicles (AVs). However, there is still much discussion about whether eHMIs are needed. The present article surveys arguments for and against eHMIs. We list three arguments against eHMIs: (1) Implicit communication dominates pedestrian-AV interaction, and there is no social interaction void to be filled, (2) There is a large variety of eHMI concepts and a lack of standardization and consensus, and (3) eHMIs may elicit various negative effects such as distraction, confusion, and overreliance. Next, we present five reasons why eHMIs may be useful or required: (1) eHMIs can make planned actions of the AV visible, thereby increasing the efficiency of pedestrian-AV interaction, (2) Participants value an eHMI compared to no eHMI, (3) eHMIs do not have to be limited to showing instructions or the AV’s planned actions; showing the AV mode or the AV’s cooperative or detection capabilities are other uses of eHMIs, (4) Recent research shows that driver eye contact is important in traffic, and a social interaction void thus exists, and (5) A large portion of pedestrian-vehicle accidents in current traffic is caused by unclear implicit communication, suggesting that pedestrians may benefit from explicit eHMIs. It is hoped that this article contributes to the critical discussion of whether eHMIs are needed and how they should be designed.
DOI: 10.6084/m9.figshare.25158242
title: Supplementary Material for: Mortality of Peritoneal Dialysis versus Hemodialysis in Older Adults: An Updated Systematic Review and Meta-Analysis

description: Introduction. The optimal choice of dialysis modality remains contentious in older adults threatened by advanced age and high risk of comorbidities.
Methods. We conducted a systematic review and meta-analysis of cohort and case-control studies to assess mortality risk between peritoneal dialysis (PD) and hemodialysis (HD) in older adults using PubMed, Embase, and the Cochrane Library database from inception to June 1, 2022. The outcome of interest is all-cause mortality.
Results. Thirty-one eligible studies with &gt;774,000 older patients were included. Pooled analysis showed that PD had a higher mortality rate than HD in older dialysis population (HR 1.17, 95% CI 1.10-1.25). When stratified by co-variables, our study showed an increased mortality risk of PD versus HD in older patients with diabetes mellitus or comorbidity, who underwent longer dialysis duration (more than 3 years), or who started dialysis before 2010. However, definitive conclusions were constrained by significant heterogeneity.
Conclusion. From the survival point of view, caution is needed to employ peritoneal dialysis for long-term use in older populations with diabetes mellitus or comorbid conditions. However, a tailored treatment choice needs to take account of what matters to older adults at an individual level, especially in the context of limited survival improvements and loss of quality of life. Further research is still awaited to conclude this topic.
DOI: 10.6084/m9.figshare.13161678.v1
title: Additional file 1 of Research on aircraft route planning optimization problem with multi-constraints and dual-targets

description: Supplementary information (ZIP 80 kB)
DOI: 10.6084/m9.figshare.13161681.v1
title: Additional file 2 of Research on aircraft route planning optimization problem with multi-constraints and dual-targets

description: Supplementary information (ZIP 84 kB)
DOI: 10.5519/qd.he45upvd
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (2602 records)
DOI: 10.6084/m9.figshare.13161681
title: Additional file 2 of Research on aircraft route planning optimization problem with multi-constraints and dual-targets

description: Supplementary information (ZIP 84 kB)
DOI: 10.34740/kaggle/dsv/7579364
title: Personall
DOI: 10.6084/m9.figshare.25152260
title: Datasets_UAV_Early_Warning

description: Datasets created within the study "Early detection of bark beetles by drone images differs in endemic and epidemic populations". The aim of the research is to compare the appearance and the detectability of early symptoms in endemic and epidemic bark beetle populations using high-resolution UAV multispectral imagery. Results show that high population density triggers a more rapid and intense response regarding the emergence of symptoms, allowing an earlier detection of the infestation.The datasets include: the median values of the vegetational indices calculated for every identified tree; the tree condition (infested, healthy or other), the survey dates, the experimental site identity, the trees identity (as described in the Materials and Methods section of the study).
DOI: 10.6084/m9.figshare.25152260.v1
title: Datasets_UAV_Early_Warning

description: Datasets created within the study "Early detection of bark beetles by drone images differs in endemic and epidemic populations". The aim of the research is to compare the appearance and the detectability of early symptoms in endemic and epidemic bark beetle populations using high-resolution UAV multispectral imagery. Results show that high population density triggers a more rapid and intense response regarding the emergence of symptoms, allowing an earlier detection of the infestation.The datasets include: the median values of the vegetational indices calculated for every identified tree; the tree condition (infested, healthy or other), the survey dates, the experimental site identity, the trees identity (as described in the Materials and Methods section of the study).
DOI: 10.6084/m9.figshare.22598813
title: Additional file 1 of Estimation of average treatment effect based on a multi-index propensity score

description: Additional file 1: Fig. S1. The distribution of the estimated average treatment effect for kernel-based MiPS estimator and artificial neural network-based MiPS estimator in 1000 simulated data sets. The range of the y-axis is restricted from -1.4 to 0.6 given that the kernel-based MiPS estimator yields highly biased estimation under some model specifications. The dashed line denotes the true average treatment effect. Table S1. Estimation results for scenario with both continuous and discrete covariates under 50% treated based on 1000 replications. Table S2. Estimation results of multi-index propensity score estimator incorporating extra incorrect models under scenario with both continuous and discrete covariates. Table S3. Sensitivity analysis of ANN.MiPS estimator with different tuning parameters selection for ANN under scenario of all continuous covariates and 50% treated.
DOI: 10.6084/m9.figshare.22598813.v1
title: Additional file 1 of Estimation of average treatment effect based on a multi-index propensity score

description: Additional file 1: Fig. S1. The distribution of the estimated average treatment effect for kernel-based MiPS estimator and artificial neural network-based MiPS estimator in 1000 simulated data sets. The range of the y-axis is restricted from -1.4 to 0.6 given that the kernel-based MiPS estimator yields highly biased estimation under some model specifications. The dashed line denotes the true average treatment effect. Table S1. Estimation results for scenario with both continuous and discrete covariates under 50% treated based on 1000 replications. Table S2. Estimation results of multi-index propensity score estimator incorporating extra incorrect models under scenario with both continuous and discrete covariates. Table S3. Sensitivity analysis of ANN.MiPS estimator with different tuning parameters selection for ANN under scenario of all continuous covariates and 50% treated.
DOI: 10.6084/m9.figshare.22598782
title: Additional file 2 of Molecular subtypes based on cuproptosis-related genes and tumor microenvironment infiltration characteristics in pancreatic adenocarcinoma

description: Additional file 2: Table S1. Primers used in this study. Table S2. The association between CRG expression and drug sensitivity. Table S3. Data set information included in this study for cuproptosis classification. Table S4. Univariate Cox regression analysis of CRGs in PAAD patients. Table S5. Univariate Cox regression analysis of differentially expressed genes (DEGs) in PAAD patients. Table S6. Multivariate Cox regression analysis for the cuproptosis signature based on 10 DEGs. Table S7. The activation states of biological pathways between the two cuproptosis score group by GSVA enrichment analysis. Table S8. Gene set enrichment KEGG analysis results based on the signature in the TCGA cohort. Table S9. Correlations between DLAT expression and clinicopathologic characteristics of PAAD patients. Table S10. Univariate and multivariate Cox regression analyses of prognostic variables in PAAD patients.
DOI: 10.6084/m9.figshare.22598824.v1
title: Additional file 1 of Transcriptome analysis reveals the key pathways and candidate genes involved in salt stress responses in Cymbidium ensifolium leaves

description: Additional file 1: SupplementaryFigure 1.Annotation statistics of the DEGs in C. ensifolium leaves in differentdatabases.
DOI: 10.6084/m9.figshare.22598818.v1
title: Additional file 2 of LncRNA ANRIL promotes HR repair through regulating PARP1 expression by sponging miR-7-5p in lung cancer

description: Additional file 2: Supplementary Table 2. Prediction of target genes for miR-7-5p by targetscan, miRDB and starbase bioinformatics website.
DOI: 10.6084/m9.figshare.22598815.v1
title: Additional file 1 of LncRNA ANRIL promotes HR repair through regulating PARP1 expression by sponging miR-7-5p in lung cancer

description: Additional file 1: Supplementary Table 1. miRanda v3.3a software predicts ANRIL-binding miRNAs.
DOI: 10.6084/m9.figshare.22598815
title: Additional file 1 of LncRNA ANRIL promotes HR repair through regulating PARP1 expression by sponging miR-7-5p in lung cancer

description: Additional file 1: Supplementary Table 1. miRanda v3.3a software predicts ANRIL-binding miRNAs.
DOI: 10.6084/m9.figshare.22598818
title: Additional file 2 of LncRNA ANRIL promotes HR repair through regulating PARP1 expression by sponging miR-7-5p in lung cancer

description: Additional file 2: Supplementary Table 2. Prediction of target genes for miR-7-5p by targetscan, miRDB and starbase bioinformatics website.
DOI: 10.21253/dmu.25152068
title: TENOR22.zip

description: Dataset of five digital scores commissioned by the Digital Score project at the TENOR conference in 2022. The pieces commissioned were My Mother is a Fish by Micha Seidenberg, Villanelles de Voyelles by Sandeep Bhagwati, Machine à sons by Jonathan Bell, The Legionnaires by Christian Klinkenberg and Casual Causality by Greg Beller.These pieces were performed by an established contemporary vocal ensemble Neue Vocalsolisten, thus our data reflects their experience of interacting with the digital scores.<br>
DOI: 10.21253/dmu.25152068.v1
title: TENOR22.zip

description: Dataset of five digital scores commissioned by the Digital Score project at the TENOR conference in 2022. The pieces commissioned were My Mother is a Fish by Micha Seidenberg, Villanelles de Voyelles by Sandeep Bhagwati, Machine à sons by Jonathan Bell, The Legionnaires by Christian Klinkenberg and Casual Causality by Greg Beller.These pieces were performed by an established contemporary vocal ensemble Neue Vocalsolisten, thus our data reflects their experience of interacting with the digital scores.<br>
DOI: 10.6084/m9.figshare.16305423.v1
title: Additional file 12 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 12. Sequences for primers
DOI: 10.6084/m9.figshare.16305429
title: Additional file 2 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 2. Differentially methylated sites of vulnerable and non-vulnerable plaques
DOI: 10.6084/m9.figshare.22598824
title: Additional file 1 of Transcriptome analysis reveals the key pathways and candidate genes involved in salt stress responses in Cymbidium ensifolium leaves

description: Additional file 1: SupplementaryFigure 1.Annotation statistics of the DEGs in C. ensifolium leaves in differentdatabases.
DOI: 10.6084/m9.figshare.13161678
title: Additional file 1 of Research on aircraft route planning optimization problem with multi-constraints and dual-targets

description: Supplementary information (ZIP 80 kB)
DOI: 10.6084/m9.figshare.16305429.v1
title: Additional file 2 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 2. Differentially methylated sites of vulnerable and non-vulnerable plaques
DOI: 10.57967/hf/1751
title: frenchNER_4entities
DOI: 10.6084/m9.figshare.25158419
title: mutational analysis in Corynebacterium stationis MFS transporters for improving nucleotide bioproduction v2

description: mutational analysis in Corynebacterium stationis MFS transporters for improving nucleotide bioproduction
DOI: 10.6084/m9.figshare.16305420.v1
title: Additional file 11 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 11. Distribution of SYM plaques, ASYM plaques, and LIMAs between Human Infinium Methylation 450K and MethylationEPIC BeadChip
DOI: 10.6084/m9.figshare.16305423
title: Additional file 12 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 12. Sequences for primers
DOI: 10.6084/m9.figshare.16305435
title: Additional file 4 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 4. GO analysis of the genes differentially hypomethylated in SYM and ASYM plaques
DOI: 10.6084/m9.figshare.16305435.v1
title: Additional file 4 of DNA methylome profiling reveals epigenetic regulation of lipoprotein-associated phospholipase A2 in human vulnerable atherosclerotic plaque

description: Additional file 4. GO analysis of the genes differentially hypomethylated in SYM and ASYM plaques
DOI: 10.6084/m9.figshare.20499805.v1
title: Additional file 11 of Nutrition or nature: using elementary flux modes to disentangle the complex forces shaping prokaryote pan-genomes

description: Additional file 11: Table S6. Correlation of variables related to panEFM, pan-reactomes, and metagenomes
DOI: 10.6084/m9.figshare.6870356.v1
title: Additional file 1: of Lower respiratory tract microbial composition was diversified in Pseudomonas aeruginosa ventilator-associated pneumonia patients

description: Figure S1. Rarefaction curve of samples collected from P. aeruginosa VAP patients and control subjects. Control, control group; PA VAP, Pseudomonas aeruginosa VAP group. Figure S2. The LRT microbiota was different between P. aeruginosa VAP patients and control subjects. The unweighted unifrac distance between the LRT microbiota of each sample was calculated and it was shown as a Pcoa two-dimensional map. Each dot represents one sample. Control, control group; PAVAP, Pseudomonas aeruginosa VAP group. Figure S3. The LRT microbiota and hierarchical clustering of P. aeruginosa VAP patients at genus level. Initial samples were analyzed. The Bray curtis distance matrix (in genus level) was used to construct a dendrogram including 36 P. aeruginosa VAP patients. Clusters were separated by black dotted line originating from the top of the dendrogram. The microbial composition at genus level was visualized as bar charts. Patient number is indicated at the left of each bar. Each bar represents 100% of the OTUs detected per patient; OTUs are color-coded according to genus. LRT lower respiratory tract; VAP, ventilator-associated pneumonia; OTUs, operational taxonomic units. Figure S4. The Shannon diversity between different time points was stable in LRT samples from P. aeruginosa VAP patients. Comparison of the Shannon diversity between day1 (initial samples) and day7 (A), day1 and day14 (B) were conducted by paired non-parametric test (both Pâ &gt;â 0.05). Figure S5. The variety of the relative abundance of Pseudomonas, Lactobacillus and Bifidobacterium in acute phase and improvement phase of P. aeruginosa VAP patients. Pseudomonas (A) showed a decreased trend while Lactobacillus (B) and Bifidobacterium (C) showed an increased trend when the P. aeruginosa VAP patients obtained clinical improvement. Figure S6. The LRT microbiota of survivors of P. aeruginosa VAP patients had no significant difference compared to that of the non-survivors. Samples from day1 were collected for analysis. The unweighted unifrac distance between the survivors and non-survivors was calculated and it was shown as a Pcoa two-dimensional map. Each dot represents one sample. Table S1. Baseline characteristics of control subjects and P. aeruginosa VAP patients. Table S2. Conventional culture of endotracheal aspiration samples from P. aeruginosa VAP patients. Table S3. Antibiotic use before one week sampling of P. aeruginosa VAP patients. Table S4. Antibiotics statistics of P. aeruginosa VAP patients before sampling. Table S5. Antibiotic use during the dynamic observation period of P. aeruginosa VAP patients. Table S6. Negative correlation between genus of P. aeruginosa VAP and SOFA score. (ZIP 1314 kb)
DOI: 10.6084/m9.figshare.13161887.v3
title: Sequential Scaled Sparse Factor Regression

description: Large-scale association analysis between multivariate responses and predictors is of great practical importance, as exemplified by modern business applications including social media marketing and crisis management. Despite the rapid methodological advances, how to obtain scalable estimators with free tuning of the regularization parameters remains unclear under general noise covariance structures. In this article, we develop a new methodology called sequential scaled sparse factor regression (SESS) based on a new viewpoint that the problem of recovering a jointly low-rank and sparse regression coefficient matrix can be decomposed into several univariate response sparse regressions through regular eigenvalue decomposition. It combines the strengths of sequential estimation and scaled sparse regression, thus sharing the scalability and the tuning free property for sparsity parameters inherited from the two approaches. The stepwise convex formulation, sequential factor regression framework, and tuning insensitiveness make SESS highly scalable for big data applications. Comprehensive theoretical justifications with new insights into high-dimensional multi-response regressions are also provided. We demonstrate the scalability and effectiveness of the proposed method by simulation studies and stock short interest data analysis.
DOI: 10.6084/m9.figshare.23647535.v1
title: Additional file 4 of Genome-wide systematic characterization of the NRT2 gene family and its expression profile in wheat (Triticum aestivum L.) during plant growth and in response to nitrate deficiency

description: Additional file 4. The raw data of transcriptome in root under nitrogen deficiency condition.