cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11840451
title: Additional file 3 of A novel estimator of between-study variance in random-effects models

description: Additional file 3 Supplementary figures. Figure S1 Plot of the precision under the second hypothesis. Figure S2 Plot of the precision under the third hypothesis. Figure S3 Plot of the accuracy under the second hypothesis. Figure S4 Plot of the accuracy under the third hypothesis. Figure S5 Plot of the FPR under the second hypothesis. Figure S6 Plot of the FPR under the third hypothesis. Figure S7 Plot of the MCC under the second hypothesis. Figure S8 Plot of the MCC under the third hypothesis. Figure S9 Plot of the sensitivity under the second hypothesis. Figure S10 Plot of the sensitivity under the third hypothesis. Figure S11 Plot of the ROC curve and the AUC value under the second hypothesis. Figure S12 Plot of the ROC under the third hypothesis. The DSLD2 method is developed in this paper. Figure S13 Precision-recall plot under the second hypothesis. Figure S14 Precision-recall plot under the third hypothesis. Figure S15 Bias plot of 6 meta-analysis methods when τ2 is set to 1.0 and SMD is chosen as the effect size measure. Figure S16 RMSE plot of 6 meta-analysis methods when τ2 is set to 1.0 and SMD is chosen as the effect size measure. Figure S17 Bias plot of 6 meta-analysis methods when τ2 is set to 1.0 and MD is chosen as the effect size measure. Figure S18 RMSE plot of 6 meta-analysis methods when τ2 is set to 1.0 and MD is chosen as the effect size measure. Figure S19 Mean of I2 plot of 6 meta-analysis methods when τ2 is set to 1.0 and SMD is chosen as the effect size measure. Figure S20 Mean of I2 plot of 6 meta-analysis methods when τ2 is set to 1.0 and MD is chosen as the effect size measure.
DOI: 10.6084/m9.figshare.12364703
title: Additional file 1 of Identification of a new effector-immunity pair of Aeromonas hydrophila type VI secretion system

description: Additional file 1. Primers used in this study. Underlined sequences indicate restriction sites.
DOI: 10.6084/m9.figshare.18132181
title: Additional file 2 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 2: Table S2. Functional enrichment results of GO and Pathway analysis on the 1083 genes.
DOI: 10.6084/m9.figshare.11840715.v1
title: Additional file 2 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 2.Gene expression data from the whole cell transcriptome analysis of A. baumannii ATCC19606 and JU0126 strain, showing mRNA expression levels of eravacycline treated versus control.
DOI: 10.6084/m9.figshare.11840730.v1
title: Additional file 4 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 4.LC/MSâ€“MS proteomic analysis of OMVs from eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.12364733
title: Additional file 1 of IRF4 and STAT3 activities are associated with the imbalanced differentiation of T-cells in responses to inhalable particulate matters

description: Additional file 1: Reagents and Antibodies. Table S1. Primer sequences for qRT-PCR analyses. We designed all the primers using https://sg.idtdna.com/pages/products/custom-dna-rna combine with the NCBI and UCSC websites. Table S2. Chemical characteristics of the PM samples used for functional analyses. Water soluble ions were analyzed by ion chromatography, element measurement by inductivity coupled plasma-mass spectrometry (ICP-MS); and organic carbon (OC) and elemental carbon (EC) fractions by DRI model 2001 carbon analyzer. Figure S1. The average concentration of PM2.5 and PM10 in the three Chinese cities (Beijing, Taiyuan, Shijiazhuang) during the study period. We collected environmental data of 3 weeks preceding the sampling. The actual time period of sampling in the three cities: 10/04/2014–26/04/2014 in Shijiazhuang, Taiyuan: 21/02/2014–01/05/2014 and Beijing: 26/09/2014–16/10/2014. Figure S2. Size distribution and protease activity of the PM sample. A. 20 × microscopic view of PM suspension showing the distribution of PM2.5 and PM10; B. protease activity of the PM samples based on FITC-labeled casein cleavage hydrolysis assay. The protease activities are measured by mean fluorescence level with standard deviation. Figure S3. Expression levels of T-cell related cytokines in mouse serum follow the treatment of PM. Figure S4. Differentiation statuses of T-cell subtypes in mouse lung following the treatment of PM suspension. T-cell differentiation is evaluated by flow cytometry at 18 h, 24 h, 40 h and 72 h after the treatment.
DOI: 10.6084/m9.figshare.7121885
title: Additional file 6 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by MAGNA. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of MAGNA. The forth sheet is the final conserved interactions of the pathway pair. (XLS 14 kb)
DOI: 10.6084/m9.figshare.7121885.v1
title: Additional file 6 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by MAGNA. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of MAGNA. The forth sheet is the final conserved interactions of the pathway pair. (XLS 14 kb)
DOI: 10.6084/m9.figshare.11840547
title: Additional file 2 of C-reactive protein derived from perivascular adipose tissue accelerates injury-induced neointimal hyperplasia

description: Additional file 2. Original proteome profiling significant analysis data.
DOI: 10.6084/m9.figshare.11840733
title: Additional file 5 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 5.Comparative analysis of transcriptome and OMVs proteome of eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.11316107.v1
title: Population Grid for China SSP4RCP6

description: Population Grid for China under SSP4RCP6 from 2010 to 2100
DOI: 10.6084/m9.figshare.11840547.v1
title: Additional file 2 of C-reactive protein derived from perivascular adipose tissue accelerates injury-induced neointimal hyperplasia

description: Additional file 2. Original proteome profiling significant analysis data.
DOI: 10.6084/m9.figshare.12365099
title: Additional file 6 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 6: Table S5. Library pooling and data metrics in group F with seven tea libraries pooled.
DOI: 10.6084/m9.figshare.12365081.v1
title: Additional file 2 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 2: Table S1. Data metrics from sequencing of 14 rice libraries prepared using AIO-seq method.
DOI: 10.6084/m9.figshare.11840715
title: Additional file 2 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 2.Gene expression data from the whole cell transcriptome analysis of A. baumannii ATCC19606 and JU0126 strain, showing mRNA expression levels of eravacycline treated versus control.
DOI: 10.6084/m9.figshare.12365093
title: Additional file 5 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 5: Table S4. Library pooling and data metrics in group E with 32 libraries pooled.
DOI: 10.6084/m9.figshare.12365108.v1
title: Additional file 8 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 8: Table S7. Chi square test in group F with seven tea libraries pooled.
DOI: 10.6084/m9.figshare.12365093.v1
title: Additional file 5 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 5: Table S4. Library pooling and data metrics in group E with 32 libraries pooled.
DOI: 10.6084/m9.figshare.18132255
title: Additional file 4 of A scaffold-level genome assembly of a minute pirate bug, Orius laevigatus (Hemiptera: Anthocoridae), and a comparative analysis of insecticide resistance-related gene families with hemipteran crop pests

description: Additional file 4 Protein sequences of Orius laevigatus insecticide resistance genes. (.xlsx file)
DOI: 10.6084/m9.figshare.12365051.v1
title: Additional file 13 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 13: Table S10. Descriptive statistics and analysis of variation for three traits in 2016 and 2017.
DOI: 10.6084/m9.figshare.12365069.v1
title: Additional file 16 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 16: Table S13. Comparison of the estimated cost between traditional method and simplified AIO-seq for 96 samples.
DOI: 10.6084/m9.figshare.7121894
title: Additional file 7 of Discovering large conserved functional components in global network alignment by graph matching

description: The results produced by L-GRAAL. Each pathway pair has four sheets to describe alignment results. The former two sheets represent retrieving results of two species by APID dataserver [38] respectively. The third sheet is direct alignment results of L-GRAAL. The forth sheet is the final conserved interactions of the pathway pair. (XLS 6 kb)
DOI: 10.6084/m9.figshare.17083742
title: Additional file 3 of Comparative and phylogenetic analyses of eleven complete chloroplast genomes of Dipterocarpoideae

description: Additional file 3: Table S2. Estimates of Evolutionary Divergence between Sequences.
DOI: 10.6084/m9.figshare.12365105.v1
title: Additional file 7 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 7: Table S6. Chi square test in group E with 32 libraries pooled.
DOI: 10.6084/m9.figshare.18132276.v1
title: Additional file 5 of METTL3 promotes colorectal carcinoma progression by regulating the m6A–CRB3–Hippo axis

description: Additional file 5. mRNA methylation level in colorectal carcinoma vs. normal tissue.
DOI: 10.6084/m9.figshare.11840805
title: Additional file 3 of Genome-wide identification and molecular evolution analysis of BPA genes in green plants

description: Additional file 3: Table S3. List of 176 BPA genes identified in representative species.
DOI: 10.6084/m9.figshare.11840805.v1
title: Additional file 3 of Genome-wide identification and molecular evolution analysis of BPA genes in green plants

description: Additional file 3: Table S3. List of 176 BPA genes identified in representative species.
DOI: 10.6084/m9.figshare.6073646
title: S. peregrina transcriptome analyses: OrthoMCL results

description: The dataset contains functional annotations and gene coding sequence annotations for S. peregrina. There are six annotation files: four functional annotation files and two structural annotation files. The four functional annotation files are the GO, KEGG, UniProt database annotation files and OrthoMCL results file of S. peregrina and D. melanogaster.
DOI: 10.6084/m9.figshare.23899337.v1
title: Analysis of the complete plastomes of <i>Albizia kalkora</i> (Roxb.) Prain 1897 (Fabaceae)

description: <i>Albizia kalkora</i> (Roxb.) Prain 1897, belonging to the family Fabaceae, is not only a landscape tree but also a medicinal plant. At present, few plastomes have been reported from <i>Albizia</i>, which delays the in-depth phylogenomic studies and the development of high-resolution discriminating markers for this genus. Herein, we sequenced the first plastome of <i>A. kalkora</i> by NGS technology. The genome is a circular structure (176,158 bp), containing a large single-copy (LSC) region (91,521 bp), a small copy (SSC) region (5237 bp), and two inverted repeat (IR) regions (39,700 bp each). It has 35.45% GC content and encodes 109 unique genes, which are 76 protein-coding, 4 rRNA, and 29 tRNA genes. The genetic distance analysis of the intergenic spacer regions for <i>A. kalkora</i>, <i>A. odoratissima</i> and <i>A. bracteate</i> shows four intergenic regions with very high K2p values, namely, <i>ccs</i>A-<i>ndh</i>D (15.04), <i>ma</i>tK-<i>rps</i>16 (10.77), <i>rps</i>11-<i>rpl</i>36 (17.63) and <i>rps</i>3-<i>rps</i>19 (20.08), which can discriminate the three <i>Albizia</i> species. In addition, we identified ten pairs of regions that could be utilized to design primers to discriminate the three <i>Albizia</i> species. The phylogenetic analysis showed <i>Albizia</i> was closely related to <i>Samanea</i>. The results in this study will provide valuable information to elucidate the classification, identification and evolutionary history of <i>Albizia</i>.
DOI: 10.5281/zenodo.10666441
title: Case studies: Saving reputation from misinformation

description: These five case studies constitute a data set for the article "Saving reputation from misinformation: exploring paracrisis response strategies. The data offers a comprehensive insight into how organizations mitigate reputational risks arising from misinformation, which is increasingly proliferating online. This dataset comprises an extensive longitudinal multiple-case study spanning from 2019 to 2023, unveiling the strategic objectives pursued by companies when selecting and adapting response strategies, elucidating the specific involvement of stakeholders, and elucidating the nature of post-paracrisis initiatives. Drawing upon accounts from managers and their associates who have encountered misinformation paracrises, the case studies present potential effective communication tactics for combating corporate rumors: strategic silence, legal recourse, debunking, media engagement, and humor.
DOI: 10.5281/zenodo.10666442
title: Case studies: Saving reputation from misinformation

description: These five case studies constitute a data set for the article "Saving reputation from misinformation: exploring paracrisis response strategies. The data offers a comprehensive insight into how organizations mitigate reputational risks arising from misinformation, which is increasingly proliferating online. This dataset comprises an extensive longitudinal multiple-case study spanning from 2019 to 2023, unveiling the strategic objectives pursued by companies when selecting and adapting response strategies, elucidating the specific involvement of stakeholders, and elucidating the nature of post-paracrisis initiatives. Drawing upon accounts from managers and their associates who have encountered misinformation paracrises, the case studies present potential effective communication tactics for combating corporate rumors: strategic silence, legal recourse, debunking, media engagement, and humor.
DOI: 10.6084/m9.figshare.17083736
title: Additional file 2 of Comparative and phylogenetic analyses of eleven complete chloroplast genomes of Dipterocarpoideae

description: Additional file 2: Table S1. Codon content of 20 amino acids and stop codons in Dipterocarpoideae.
DOI: 10.6084/m9.figshare.18132178.v1
title: Additional file 1 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 1: Table S1. The features of genes contained or were near to (within 1 Mb) the identified significant SNPs for immunoglobulins.
DOI: 10.6084/m9.figshare.18132181.v1
title: Additional file 2 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 2: Table S2. Functional enrichment results of GO and Pathway analysis on the 1083 genes.
DOI: 10.6084/m9.figshare.12365036
title: Additional file 10 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 10: Table S9. Data metrics from sequencing of a maize BC1F4 population including 116 lines using a simplified AIO-seq method.
DOI: 10.6084/m9.figshare.18132184.v1
title: Additional file 3 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 3. MAP file of SNP data.
DOI: 10.6084/m9.figshare.18132187
title: Additional file 4 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 4. PED file of SNP data.
DOI: 10.6084/m9.figshare.11840730
title: Additional file 4 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 4.LC/MSâ€“MS proteomic analysis of OMVs from eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.18132361.v1
title: Additional file 1 of Artificial intelligence framework identifies candidate targets for drug repurposing in Alzheimer’s disease

description: Additional file 1.
DOI: 10.6084/m9.figshare.11840727
title: Additional file 3 of Integrative analysis of outer membrane vesicles proteomics and whole-cell transcriptome analysis of eravacycline induced Acinetobacter baumannii strains

description: Additional file 3.DEGs of eravacycline treated and control strains of A. baumannii ATCC19606 and JU0126.
DOI: 10.6084/m9.figshare.12365057
title: Additional file 14 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 14: Table S11. Data metrics of two parents in a maize BC1F4 population using a simplified AIO-seq method.
DOI: 10.6084/m9.figshare.12365069
title: Additional file 16 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 16: Table S13. Comparison of the estimated cost between traditional method and simplified AIO-seq for 96 samples.
DOI: 10.6084/m9.figshare.23950798
title: High-resolution spectroscopy of the ν<sub>3</sub> antisymmetric C–H stretch of C<sub>2</sub>H<sub>2</sub><sup>+</sup> using leak-out action spectroscopy

description: The antisymmetric C–H stretching vibration ν3 (2Π←2Π) of ionised acetylene, C2H2+, has been revisited using a cryogenic 22-pole ion trap machine. Two action spectroscopic techniques, the novel leak-out spectroscopy (LOS) method and the more established laser-induced reactions (LIR) method, are applied and compared. Mass selectivity and cryogenic temperatures down to 4 K enabled the observation of uncontaminated spectra in which the Λ-doubling components of this open-shell molecule are mostly well resolved, leading to a slight refinement of the spectroscopic parameters.
DOI: 10.6084/m9.figshare.23950798.v1
title: High-resolution spectroscopy of the ν<sub>3</sub> antisymmetric C–H stretch of C<sub>2</sub>H<sub>2</sub><sup>+</sup> using leak-out action spectroscopy

description: The antisymmetric C–H stretching vibration ν3 (2Π←2Π) of ionised acetylene, C2H2+, has been revisited using a cryogenic 22-pole ion trap machine. Two action spectroscopic techniques, the novel leak-out spectroscopy (LOS) method and the more established laser-induced reactions (LIR) method, are applied and compared. Mass selectivity and cryogenic temperatures down to 4 K enabled the observation of uncontaminated spectra in which the Λ-doubling components of this open-shell molecule are mostly well resolved, leading to a slight refinement of the spectroscopic parameters.
DOI: 10.6084/m9.figshare.22347698
title: Probing radical versus proton migration in the aniline cation with IRMPD spectroscopy

description: Intramolecular radical and proton migration in the gas phase are important processes driving the dissociation reactions underlying common tandem mass spectrometry processes, such as collision-induced and electron-induced dissociation reactions (CID and ExD). Mechanistic insights in these processes requires experiments that probe the molecular structures of ions along the reaction pathways, usually combined with quantum-chemical calculations. The combination of ion trap mass spectrometry with IR laser spectroscopy, pioneered among others by Dieter Gerlich, provides a particularly effective method to explore details of the ion structures. In this work, we employ infrared multiple-photon dissociation (IRMPD) spectroscopy and density functional theory (DFT) calculations to probe the reactant and product ion structures of a homolytic bond cleavage reaction. First, we employ IRMPD spectroscopy to establish that protonation of the 4-bromoaniline precursor occurs on the amine moiety and then that C-Br homolytic cleavage produces the <i>π</i>-radical cation of aniline. Transition-state calculations are performed to compare the various pathways that connect reactant and product ions, including both proton and radical transfer mechanisms.
DOI: 10.6084/m9.figshare.18132187.v1
title: Additional file 4 of Genome-wide association studies for immunoglobulin concentrations in colostrum and serum in Chinese Holstein

description: Additional file 4. PED file of SNP data.
DOI: 10.6084/m9.figshare.12365036.v1
title: Additional file 10 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 10: Table S9. Data metrics from sequencing of a maize BC1F4 population including 116 lines using a simplified AIO-seq method.
DOI: 10.6084/m9.figshare.12365051
title: Additional file 13 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 13: Table S10. Descriptive statistics and analysis of variation for three traits in 2016 and 2017.
DOI: 10.6084/m9.figshare.12365057.v1
title: Additional file 14 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 14: Table S11. Data metrics of two parents in a maize BC1F4 population using a simplified AIO-seq method.
DOI: 10.6084/m9.figshare.12365063
title: Additional file 15 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 15: Table S12. Characteristics of the high-density genetic linkage map.
DOI: 10.6084/m9.figshare.12365108
title: Additional file 8 of All-in-one sequencing: an improved library preparation method for cost-effective and high-throughput next-generation sequencing

description: Additional file 8: Table S7. Chi square test in group F with seven tea libraries pooled.
DOI: 10.6084/m9.figshare.18132492.v1
title: Additional file 11 of Genome-wide identification of the Liriodendron chinense WRKY gene family and its diverse roles in response to multiple abiotic stress

description: Additional file 11: Table S9. Domain sequence and groups of LchiWRKYs.