cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15048924.v1
title: Identification of the RP11-21C4.1/SVEP1 gene pair associated with FAT2 mutations as a potential biomarker in gastric cancer

description: Gastric cancer (GC) is one of the most common malignancies worldwide. Despite rapid advances in systemic therapy, GC remains the third leading cause of cancer-related deaths. We aimed to identify a novel prognostic signature associated with FAT2 mutations in GC. We analyzed the expression levels of FAT2-mutant and FAT2-wildtype GC samples obtained from The Cancer Genome Atlas (TCGA). The Kaplan–Meier survival curve showed that patients with FAT2 mutations showed better prognosis than those without the mutation. Sixteen long non-coding RNAs (lncRNAs) and 62 messenger RNAs (mRNAs) associated with FAT2 mutations were correlated with the prognosis of GC. We then constructed a 4-mRNA signature and a 5-lncRNA signature for GC. Finally, we identified the most relevant <i>RP11-21 C4.1/SVEP1</i> gene pair as a prognostic signature of GC that exhibited superior predictive performance in comparison with the 4-mRNA or 5-lncRNA signature by weighted gene correlation network analysis (WGCNA) and Cox proportional hazards regression analysis. In this study, we constructed a prognostic signature of GC by integrative genomics analysis, which also provided insights into the molecular mechanisms linked to FAT2 mutations in GC.
DOI: 10.6084/m9.figshare.21340387.v1
title: Additional file 8 of CEF3 is involved in membrane trafficking and essential for secondary cell wall biosynthesis and its mutation enhanced biomass enzymatic saccharification in rice

description: Additional file 8: The primers used for DNA constructs and Real-time analysis in this study.
DOI: 10.6084/m9.figshare.9809066
title: Additional file 20: of NAL8 encodes a prohibitin that contributes to leaf and spikelet development by regulating mitochondria and chloroplasts stability in rice

description: Table S4. Primers used in this study. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.9809066.v1
title: Additional file 20: of NAL8 encodes a prohibitin that contributes to leaf and spikelet development by regulating mitochondria and chloroplasts stability in rice

description: Table S4. Primers used in this study. (XLSX 13 kb)
DOI: 10.6084/m9.figshare.21340387
title: Additional file 8 of CEF3 is involved in membrane trafficking and essential for secondary cell wall biosynthesis and its mutation enhanced biomass enzymatic saccharification in rice

description: Additional file 8: The primers used for DNA constructs and Real-time analysis in this study.
DOI: 10.6084/m9.figshare.16621765.v1
title: Transcriptome analysis and genetic diversity of <i>Allium victorialis</i> germplasms from the Changbai Mountains

description: The Changbai Mountains comprise one of the main distribution areas of <i>A. victorialis</i> in China, and this species is endangered owing to habitat changes and overexploitation. However, <i>A. victorialis</i> germplasms have not been systematically collected and studied. The aims of this study were to obtain some detailed genetic information, analyze the genetic diversity, and further promote the protection of <i>A. victorialis</i> germplasms from the Changbai Mountains. Transcriptomic analysis was performed with six <i>A. victorialis</i> samples collected from the Changbai Mountains. At least 146,759 genes for each sample were obtained after performing <i>de novo</i> assembly of the RNA-seq data, and at least 92% of these genes were found to have only one mRNA isoform. These sequences and their functional annotations provided a large-scale genetic resource of this species. Phylogenetic analysis showed that <i>A. victorialis</i> was genetically distant from some related species, e.g. <i>Allium sativum</i>, <i>Allium fistulosum</i>, and <i>Allium cepa</i>, but genetically close to <i>Allium tuberosum</i>. The two <i>A. victorialis</i> var. <i>listera</i> samples were phylogenetically separated from the other four samples, and these two samples should be regarded as <i>Allium listera</i>. In addition, two KASP markers for discriminating the Dongfeng samples from the other four <i>A</i>. <i>victorialis</i> samples were successfully developed. This study lays the foundation for future studies on the genetic diversity and evolution of <i>Allium</i> species, as well as for the conservation of <i>A. victorialis</i> germplasms from the Changbai Mountains and other populations of this species.
DOI: 10.6084/m9.figshare.9809099
title: Additional file 6: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S6. The public DEGs of parents in RNA-seq. (XLSX 974 kb)
DOI: 10.6084/m9.figshare.9809099.v1
title: Additional file 6: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S6. The public DEGs of parents in RNA-seq. (XLSX 974 kb)
DOI: 10.6084/m9.figshare.9809105
title: Additional file 7: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S7. The specific DEGs of LA1698 in RNA-seq. (XLSX 271 kb)
DOI: 10.6084/m9.figshare.9809105.v1
title: Additional file 7: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S7. The specific DEGs of LA1698 in RNA-seq. (XLSX 271 kb)
DOI: 10.6084/m9.figshare.12951835
title: Spatial-temporal variation of satellite-based gross primary production estimation in wheat-maize rotation area during 2000–2015

description: North China Plain is the largest agricultural production center in China and wheat-maize rotation is a widespread cultivation practice in this area. As gross primary production (GPP) is a proxy of land productivity, research on its spatial-temporal dynamics helps understand the variation of grain production in wheat-maize rotation. Here, Moderate Resolution Imaging Spectroradiometer (MODIS) data and ground observation data were combined to drive Vegetation Photosynthesis Model (VPM) in GPP estimation over wheat-maize rotation area during 2000–2015. Annual GPP has increased by 540.95 g C m<sup>−2 </sup>year<sup>−1</sup> from 2000 to 2015, while total annual GPP has grown ∼150% than that of 2000. Moreover, annual GPP showed an increasing trend in the consecutively wheat-maize rotation area between 2000 and 2015. A strong linear relationship between GPP estimates and grain production demonstrated the potential of using VPM model to evaluate grain production in wheat-maize rotation area of Henan province, China.
DOI: 10.6084/m9.figshare.9809111
title: Additional file 8: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S8. The specific DEGs of LA2093 in RNA-seq. (XLSX 319â kb) (XLSX 319 kb)
DOI: 10.6084/m9.figshare.9809111.v1
title: Additional file 8: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S8. The specific DEGs of LA2093 in RNA-seq. (XLSX 319â kb) (XLSX 319 kb)
DOI: 10.6084/m9.figshare.9809117
title: Additional file 9: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S9. The DEGs detected in major QTLs. (XLSX 41.6â kb) (XLSX 44 kb)
DOI: 10.6084/m9.figshare.9809117.v1
title: Additional file 9: of Identification of heat-tolerance QTLs and high-temperature stress-responsive genes through conventional QTL mapping, QTL-seq and RNA-seq in tomato

description: Table S9. The DEGs detected in major QTLs. (XLSX 41.6â kb) (XLSX 44 kb)
DOI: 10.6084/m9.figshare.9809174
title: Additional file 10: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Figure S3. Validation of the 20 random genes in transcriptome sequencing with qRT-PCR. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.17149208
title: CRISPR/Cas12a-based assay for the rapid and high-sensitivity detection of Streptococcus agalactiae colonization in pregnant women with premature rupture of membrane.xlsx

description:   
<strong>Background: </strong><em>Streptococcus agalactiae</em> or group B <em>Streptococcus</em> (GBS) is a leading infectious cause of neonatal morbidity and mortality. It is essential to establish a robust method for the rapid and ultra-sensitive detection of GBS in pregnant women with premature rupture of membrane (PROM).
<strong>Methods: </strong>This study developed a CRISPR-GBS assay that combined the advantages of the recombinase polymerase amplification (RPA) and CRISPR/Cas12a system for GBS detection. The clinical performance of the CRISPR-GBS assay was assessed using vaginal or cervical swabs that were collected from 179 pregnant women with PROM, compared in parallel to culture-based matrix-assisted laser desorption ionization time-of-flight mass spectrometry (culture-MS) method and real-time quantitative polymerase chain reaction (qPCR) assay.
<strong>Results:</strong> The CRISPR-GBS assay can be completed within 35 minutes and the limit of detection was as low as 5 copies μL<sup>-1</sup>. Compared with the culture-MS, the CRISPR-GBS assay demonstrated a sensitivity of 96.64% (144/149, 95% confidence interval [CI] = 92.39–98.56%) and a specificity of 100% (30/30, 95% CI = 88.65–100%). It also had a high concordance rate of 98.88% with the qPCR assay. 
<strong>Conclusions:</strong> The established CRISPR-GBS platform can detect GBS in a rapid, accurate, easy-to-operate, and cost-efficient manner. It offered a promising tool for the intrapartum screening of GBS colonization.
DOI: 10.6084/m9.figshare.9809174.v1
title: Additional file 10: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Figure S3. Validation of the 20 random genes in transcriptome sequencing with qRT-PCR. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809186
title: Additional file 12: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S9. Information for 196 upland cotton accessions [89]. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.9809186.v1
title: Additional file 12: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S9. Information for 196 upland cotton accessions [89]. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.9809198
title: Additional file 14: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S10. All the specific primers for the selected genes and the intro-reference gene UBQ7. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9809198.v1
title: Additional file 14: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S10. All the specific primers for the selected genes and the intro-reference gene UBQ7. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.9809204
title: Additional file 1: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S1. Descriptive statistics of the salt tolerance index of 10 salt tolerance-related traits. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809204.v1
title: Additional file 1: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S1. Descriptive statistics of the salt tolerance index of 10 salt tolerance-related traits. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809207
title: Additional file 2: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S2. Correlation analysis among 10 traits related to salt tolerance. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9809207.v1
title: Additional file 2: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S2. Correlation analysis among 10 traits related to salt tolerance. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9809228
title: Additional file 4: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S3. Characteristics, contribution rates, and weights of two principal components at the germination stage. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9809228.v1
title: Additional file 4: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S3. Characteristics, contribution rates, and weights of two principal components at the germination stage. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.9809246
title: Additional file 6: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S4. Comprehensive evaluation values (D) and K-mean cluster analysis of salt tolerance. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9809246.v1
title: Additional file 6: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S4. Comprehensive evaluation values (D) and K-mean cluster analysis of salt tolerance. (XLSX 20 kb)
DOI: 10.6084/m9.figshare.9809255
title: Additional file 7: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S5. Summary of SNPs, PIC, gene diversity, and LD decay in Yuan et al. (2018) [89]. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809255.v1
title: Additional file 7: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S5. Summary of SNPs, PIC, gene diversity, and LD decay in Yuan et al. (2018) [89]. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809264
title: Additional file 8: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S6. Annotation of genes located within candidate QTL regions. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9809264.v1
title: Additional file 8: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S6. Annotation of genes located within candidate QTL regions. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9809273
title: Additional file 9: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S7. Summary of sequencing data quality. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809273.v1
title: Additional file 9: of Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

description: Table S7. Summary of sequencing data quality. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.9809291
title: Additional file 1: of Development and validation of a pre-scoring system for nonspecific low back pain among general population in Guangzhou: a cross-sectional study

description: Excel S1 A Scoring System for Nonspecific LBP among the general Population in Guangzhou. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9809291.v1
title: Additional file 1: of Development and validation of a pre-scoring system for nonspecific low back pain among general population in Guangzhou: a cross-sectional study

description: Excel S1 A Scoring System for Nonspecific LBP among the general Population in Guangzhou. (XLSX 25 kb)
DOI: 10.6084/m9.figshare.9809336
title: Additional file 1: of Comparative analysis of proso millet (Panicum miliaceum L.) leaf transcriptomes for insight into drought tolerance mechanisms

description: Table S1. Information on the primers involved in the qRT-PCR experiments. Table S2. Germination rates of 37 core Chinese proso millet cultivars. Table S3. Information on the pathways with the most quantities of DEGs in different KEGG classes. Table S4. Information on the top 30 GO categories with the most quantities of DEGs in the three major GO classes in both cultivars. Table S5. Information on the DEGs involved in the KEGG pathways in both cultivars. Table S6. Level 3 GO annotations of the DEGs in three major GO classes in both cultivars. Table S7. Profiles of the top 10 pathways with the most quantities of DEGs and photosynthesis pathway based on KEGG pathway enrichment analysis. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.9809336.v1
title: Additional file 1: of Comparative analysis of proso millet (Panicum miliaceum L.) leaf transcriptomes for insight into drought tolerance mechanisms

description: Table S1. Information on the primers involved in the qRT-PCR experiments. Table S2. Germination rates of 37 core Chinese proso millet cultivars. Table S3. Information on the pathways with the most quantities of DEGs in different KEGG classes. Table S4. Information on the top 30 GO categories with the most quantities of DEGs in the three major GO classes in both cultivars. Table S5. Information on the DEGs involved in the KEGG pathways in both cultivars. Table S6. Level 3 GO annotations of the DEGs in three major GO classes in both cultivars. Table S7. Profiles of the top 10 pathways with the most quantities of DEGs and photosynthesis pathway based on KEGG pathway enrichment analysis. (XLSX 36 kb)
DOI: 10.6084/m9.figshare.9809342
title: Additional file 2: of Comparative analysis of proso millet (Panicum miliaceum L.) leaf transcriptomes for insight into drought tolerance mechanisms

description: JS6 and NM5 were treated with 20% PEG-6000 solution for 6 (JS6T6 and NM5T6, respectively) and 24â h (JS6T24 and NM5T24, respectively) or with water (control group; JS6CK and NM5CK, respectively). Figure S1. DEGs involved in photosynthesis in JS6 and NM5 in the presence and absence of drought treatments. a Euler diagram of the DEGs involved in photosynthesis from comparisons between the control and T6 treatment groups, including up- and down-regulated genes in JS6T6 and NM5T6. b Euler diagram of the DEGs involved in photosynthesis from comparisons between the T6 and T24 treatment groups, including up- and down-regulated genes. c Euler diagram of the DEGs involved in photosynthesis from comparisons between the control and T24 treatment groups, including up- and down-regulated genes in JS6T24 and NM5T24. Figure S2. Chlorophyll content-related genes in JS6 and NM5 differentially expressed in the presence and absence of drought treatments. a Euler diagram of the DEGs related to chlorophyll from comparisons between the control and T6 treatment groups, including up- and down-regulated genes in JS6T6 and NM5T6. b Euler diagram of the DEGs related to chlorophyll from comparisons between T6 and T24 treatment groups, including up- and down-regulated genes. c Euler diagram of the DEGs related to chlorophyll from comparisons between the control and T24 treatment groups, including up- and down-regulated genes in JS6T24 and NM5T24. (ZIP 544 kb)
DOI: 10.6084/m9.figshare.9809342.v1
title: Additional file 2: of Comparative analysis of proso millet (Panicum miliaceum L.) leaf transcriptomes for insight into drought tolerance mechanisms

description: JS6 and NM5 were treated with 20% PEG-6000 solution for 6 (JS6T6 and NM5T6, respectively) and 24â h (JS6T24 and NM5T24, respectively) or with water (control group; JS6CK and NM5CK, respectively). Figure S1. DEGs involved in photosynthesis in JS6 and NM5 in the presence and absence of drought treatments. a Euler diagram of the DEGs involved in photosynthesis from comparisons between the control and T6 treatment groups, including up- and down-regulated genes in JS6T6 and NM5T6. b Euler diagram of the DEGs involved in photosynthesis from comparisons between the T6 and T24 treatment groups, including up- and down-regulated genes. c Euler diagram of the DEGs involved in photosynthesis from comparisons between the control and T24 treatment groups, including up- and down-regulated genes in JS6T24 and NM5T24. Figure S2. Chlorophyll content-related genes in JS6 and NM5 differentially expressed in the presence and absence of drought treatments. a Euler diagram of the DEGs related to chlorophyll from comparisons between the control and T6 treatment groups, including up- and down-regulated genes in JS6T6 and NM5T6. b Euler diagram of the DEGs related to chlorophyll from comparisons between T6 and T24 treatment groups, including up- and down-regulated genes. c Euler diagram of the DEGs related to chlorophyll from comparisons between the control and T24 treatment groups, including up- and down-regulated genes in JS6T24 and NM5T24. (ZIP 544 kb)
DOI: 10.57745/tredau
title: Guaiccol-JSR_FI05.tab

description: Species profiles for combustion of guaicol in perfectly strired reactor
DOI: 10.57745/9p6tul
title: Guaiccol-JSR_FI1.tab

description: Species profiles for combustion of guaicol in perfectly strired reactor
DOI: 10.6084/m9.figshare.15052299
title: Climate warming promotes pesticide resistance through expanding overwintering range of a global pest

description: Data associated with “Climate warming promotes pesticide resistance 
through expanding overwintering range of a global pest” published in <i>Nature Communications.</i><br><br>Data
 have been uploaded in an excel file. First sheet includes cold survival
 data in laboratory test, the second sheet includes the cold survival 
data in field test, and the third sheet includes the pesticide 
resistance data for meta-analysis.
DOI: 10.6084/m9.figshare.15048966
title: Additional file 4 of A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.)

description: Additional file 4: Table 2. QTLs detected in the F1 population.
DOI: 10.6084/m9.figshare.15048966.v1
title: Additional file 4 of A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.)

description: Additional file 4: Table 2. QTLs detected in the F1 population.
DOI: 10.6084/m9.figshare.15048963.v1
title: Additional file 3 of A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.)

description: Additional file 3: Table 1. Data generated during resequencing.
DOI: 10.6084/m9.figshare.15048963
title: Additional file 3 of A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.)

description: Additional file 3: Table 1. Data generated during resequencing.
DOI: 10.6084/m9.figshare.15048972
title: Additional file 6 of A consensus and saturated genetic map provides insight into genome anchoring, synteny of Solanaceae and leaf- and fruit-related QTLs in wolfberry (Lycium Linn.)

description: Additional file 6: Table 4. Annotation of differentially expressed genes underlying QTLs for fruit-related traits.