cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11775783.v1
title: Additional file 3 of Exploring the role of Luman/CREB3 in regulating decidualization of mice endometrial stromal cells by comparative transcriptomics

description: Additional file 3. Illumina RNA-Seq data of all significantly differentially expressed genes in different categories (Sheet 1, shLuman vs shNC at 0 h decidualization; Sheet 2, shLuman vs shNC at 48 h decidualization; Sheet 3, shLuman vs shNC at 72 h decidualization).
DOI: 10.6084/m9.figshare.23299013
title: Additional file 7 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 7: Data S5. All SNP BSGS discovered across the genome. This file contains information on all genome-wide SNP BSGS discovered from 76 valid breeds.
DOI: 10.6084/m9.figshare.23299016
title: Additional file 8 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 8: Data S6. GS-based breed composition of 452 dogs. This file contains GS-carrying percentages of five most and least similar breeds for each individual dog involved in this study.
DOI: 10.6084/m9.figshare.23299019
title: Additional file 9 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 9: Data S7. All INDEL BSGS discovered across the genome. This file contains information on all genome-wide INDEL BSGS discovered from 76 valid breeds.
DOI: 10.6084/m9.figshare.11775795
title: Additional file 4 of Exploring the role of Luman/CREB3 in regulating decidualization of mice endometrial stromal cells by comparative transcriptomics

description: Additional file 4. List of differentially expressed genes enriched in different signal pathways. (Sheet 1, shLuman vs shNC at 48 h decidualization; Sheet 2, shLuman vs shNC at 72 h decidualization).
DOI: 10.6084/m9.figshare.23299004
title: Additional file 4 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 4: Data S2. SNP GS discovered across the genome. This file contains information on all genome-wide SNP GS discovered from 76 valid breeds.
DOI: 10.6084/m9.figshare.11775795.v1
title: Additional file 4 of Exploring the role of Luman/CREB3 in regulating decidualization of mice endometrial stromal cells by comparative transcriptomics

description: Additional file 4. List of differentially expressed genes enriched in different signal pathways. (Sheet 1, shLuman vs shNC at 48 h decidualization; Sheet 2, shLuman vs shNC at 72 h decidualization).
DOI: 10.6084/m9.figshare.23299007
title: Additional file 5 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 5: Data S3. Basic sample information of the 23 dogs from the lab collection. This file contains basic sample information of newly sequenced dogs.
DOI: 10.6084/m9.figshare.23299025
title: Additional file 11 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 11: Data S9. Detailed list of 10-kb-long genomic block with enriched SNP GS signals. This is the summarized data used for generating Fig 2. Information on genes overlapped with each highlighted 10kb block was presented in the last column.
DOI: 10.6084/m9.figshare.23298959.v1
title: Additional file 4 of ANKRD29, as a new prognostic and immunological biomarker of non–small cell lung cancer, inhibits cell growth and migration by regulating MAPK signaling pathway

description: Supplementary Material 4
DOI: 10.6084/m9.figshare.23298947.v1
title: Additional file 1 of Do ethnic chinese older adults with epithelial ovarian cancer survive a poorer prognosis?

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.22785864
title: The tetrapod fauna of the upper Permian Naobaogou Formation of China: 9. A new species of <i>Gansurhinus</i> (Reptilia: Captorhinidae) and a revision of Chinese captorhinids

description: Two previously studied specimens of <i>Gansurhinus qingtoushanensis</i> are restudied, accompanied by the description of a relatively complete skeleton from the Lopingian Naobaogou Formation of Nei Mongol, China. The new skeleton represents an immature individual of a new species of <i>Gansurhinus</i>, which can be diagnosed by the choana position posterior to the premaxillary teeth, maxillary tooth position numbers of tooth row 5 is about half of tooth row 4, and length of row 5 is much shorter than length of tooth row 4. IVPP V12026 from the Naobaogou Formation is referred to the new species. <i>Gansurhinus</i> is distinguished by a diastema on the upper jaw, five rows of teeth on maxilla and dentary, teeth on the multiple tooth-rowed region bearing cusp-like emargination on the crown, lacking dental tooth wear. The following features could be the diagnostic characters of the genus or autapomorphies of the new species: ectopterygoid present; adductor fossa short relative to the length of lower jaw, with small contribution of surangular to posterolateral border; trapezoidal coronoid eminence with nearly straight dorsal margin; and foramen intermandibularis caudalis absent. <i>Gansurhinus</i> is more closely related to <i>Rothianiscus</i> than <i>Moradisaurus</i>, supporting previous analyses. This study further confirms recent work suggesting that the moradisaurine clade is more diverse than currently recognized.
DOI: 10.6084/m9.figshare.22785864.v1
title: The tetrapod fauna of the upper Permian Naobaogou Formation of China: 9. A new species of <i>Gansurhinus</i> (Reptilia: Captorhinidae) and a revision of Chinese captorhinids

description: Two previously studied specimens of <i>Gansurhinus qingtoushanensis</i> are restudied, accompanied by the description of a relatively complete skeleton from the Lopingian Naobaogou Formation of Nei Mongol, China. The new skeleton represents an immature individual of a new species of <i>Gansurhinus</i>, which can be diagnosed by the choana position posterior to the premaxillary teeth, maxillary tooth position numbers of tooth row 5 is about half of tooth row 4, and length of row 5 is much shorter than length of tooth row 4. IVPP V12026 from the Naobaogou Formation is referred to the new species. <i>Gansurhinus</i> is distinguished by a diastema on the upper jaw, five rows of teeth on maxilla and dentary, teeth on the multiple tooth-rowed region bearing cusp-like emargination on the crown, lacking dental tooth wear. The following features could be the diagnostic characters of the genus or autapomorphies of the new species: ectopterygoid present; adductor fossa short relative to the length of lower jaw, with small contribution of surangular to posterolateral border; trapezoidal coronoid eminence with nearly straight dorsal margin; and foramen intermandibularis caudalis absent. <i>Gansurhinus</i> is more closely related to <i>Rothianiscus</i> than <i>Moradisaurus</i>, supporting previous analyses. This study further confirms recent work suggesting that the moradisaurine clade is more diverse than currently recognized.
DOI: 10.6084/m9.figshare.7570244
title: Additional file 6: of Joint QTL mapping and transcriptome sequencing analysis reveal candidate flowering time genes in Brassica napus L

description: Table S6. Flowering time-related (FTR) genes in B. napus detected using Arabidopsis FTR genes as queries via BLASTP analysis. In total, 1173 genes in B. napus were detected using 306 A. thaliana flowering time genes as queries. (XLSX 67 kb)
DOI: 10.6084/m9.figshare.7045964
title: Protective Effects of Baicalin on Experimental Myocardial Infarction in Rats

description: Abstract Objective: This study aimed to investigate the protective effects of baicalin on myocardial infarction in rats and explore the related mechanisms. Methods: Fifty Sprague Dawley rats were randomly divided into the control, model, and low-, medium- and high-dose baicalin groups. The latter 3 groups were intraperitoneally injected with baicalin, with a dose of 12.5, 25 and 50 mg/kg, respectively. Then, the myocardial infarction model was established. The hemodynamic of rats was tested, the serum lactate dehydrogenase (LDH), creatine kinase-MB (CK-MB), prostacyclin (PGI2) and thromboxane A2 (TXA2) were determined, the myocardial superoxide dismutase (SOD) and malondialdehyde (MDA) levels were detected, and the myocardial B-cell lymphoma-2 (Bcl-2) and Bcl-2 associated X (Bax) protein expressions were determined. Results: Compared with the model group, in the high-dose baicalin group the ST segment height and LVEDP were significantly decreased (P&lt;0.05), the LVSP was significantly increased (P&lt;0.05), the serum LDH, CK-MB and TXA2 levels were significantly decreased (P&lt;0.05), the PGI2 level was significantly increased (P&lt;0.05), the myocardial SOD level was significantly increased (P&lt;0.05), and the myocardial MDA level was significantly decreased (P&lt;0.05); the myocardial Bcl-2 protein level was significantly increased, and the Bax protein level was significantly decreased (P&lt;0.05). Conclusion: Baicalin has protective effects on myocardial infarction in rats. The possible mechanisms may be related to its resistance to oxidative stress, and up-regulation of Bcl-2 protein expression and down-regulation of Bax protein expression in myocardial tissue.
DOI: 10.6084/m9.figshare.7570244.v1
title: Additional file 6: of Joint QTL mapping and transcriptome sequencing analysis reveal candidate flowering time genes in Brassica napus L

description: Table S6. Flowering time-related (FTR) genes in B. napus detected using Arabidopsis FTR genes as queries via BLASTP analysis. In total, 1173 genes in B. napus were detected using 306 A. thaliana flowering time genes as queries. (XLSX 67 kb)
DOI: 10.6084/m9.figshare.7057271
title: Do the children born after assisted reproductive technology have an increased risk of birth defects? A systematic review and meta-analysis

description: <b>Background</b>: Assisted reproductive technologies (ARTs) have made great progress. However, whether tube baby born after ART were at an increased risk of birth defects is not clear. <b>Objective</b>: To assess whether the ART increases the risk of birth defects in children born after ART. <b>Search strategy</b>: Medline, Google Scholar, and the Cochrane Library were searched. <b>Selection criteria</b>: Clinical trials that evaluate the risk of birth defect in children born after <i>in vitro</i> fertilization (IVF)/intracytoplasmic sperm injection (ICSI) and natural conceptions (NC) were included. The primary outcome was the prevalence of birth defects. <b>Data collection and analysis</b>: The relative risk was used as the summary measure with random effects model. We assessed heterogeneity between studies using the <i>I</i><sup>2</sup> index. <b>Main results</b>: Totally 46 studies were included. The pooled relative risk (RR) estimated suggested there was an increased risk of birth defects in ART compared with the NC group (RR: 1.40; 95% CI 1.31–1.49). Twenty and fifteen studies were included to compare the risk of birth defects between NC and IVF/ICSI, respectively. The results indicated that both IVF and ICSI increase the risk of birth defects (IVF: RR 1.25; 95% CI 1.12–1.40; ICSI: RR 1.29; 95% CI 1.14–1.45). When subgroup according to plurality, 22 studies assessed the risk of birth defects after ART or NC in singletons and 15 studies evaluated the risk of birth defects in twins. The pooled RRs were 1.41 (95% CI 1.30–1.52) and 1.18 (95% CI 0.98–1.42), respectively. <b>Conclusions</b>: Children born after ART were at an increased risk of birth defects compared with NC. There was no difference in birth defects risk between ART twins and NC twins.
DOI: 10.6084/m9.figshare.7057271.v1
title: Do the children born after assisted reproductive technology have an increased risk of birth defects? A systematic review and meta-analysis

description: <b>Background</b>: Assisted reproductive technologies (ARTs) have made great progress. However, whether tube baby born after ART were at an increased risk of birth defects is not clear. <b>Objective</b>: To assess whether the ART increases the risk of birth defects in children born after ART. <b>Search strategy</b>: Medline, Google Scholar, and the Cochrane Library were searched. <b>Selection criteria</b>: Clinical trials that evaluate the risk of birth defect in children born after <i>in vitro</i> fertilization (IVF)/intracytoplasmic sperm injection (ICSI) and natural conceptions (NC) were included. The primary outcome was the prevalence of birth defects. <b>Data collection and analysis</b>: The relative risk was used as the summary measure with random effects model. We assessed heterogeneity between studies using the <i>I</i><sup>2</sup> index. <b>Main results</b>: Totally 46 studies were included. The pooled relative risk (RR) estimated suggested there was an increased risk of birth defects in ART compared with the NC group (RR: 1.40; 95% CI 1.31–1.49). Twenty and fifteen studies were included to compare the risk of birth defects between NC and IVF/ICSI, respectively. The results indicated that both IVF and ICSI increase the risk of birth defects (IVF: RR 1.25; 95% CI 1.12–1.40; ICSI: RR 1.29; 95% CI 1.14–1.45). When subgroup according to plurality, 22 studies assessed the risk of birth defects after ART or NC in singletons and 15 studies evaluated the risk of birth defects in twins. The pooled RRs were 1.41 (95% CI 1.30–1.52) and 1.18 (95% CI 0.98–1.42), respectively. <b>Conclusions</b>: Children born after ART were at an increased risk of birth defects compared with NC. There was no difference in birth defects risk between ART twins and NC twins.
DOI: 10.6084/m9.figshare.11775870
title: Additional file 10 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 10: Table S6. Correlation analysis of the DAPs and the corresponding genes
DOI: 10.6084/m9.figshare.11775870.v1
title: Additional file 10 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 10: Table S6. Correlation analysis of the DAPs and the corresponding genes
DOI: 10.6084/m9.figshare.11775897
title: Additional file 13 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 13: Table S7. Summary of primers used in this study.
DOI: 10.6084/m9.figshare.11775897.v1
title: Additional file 13 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 13: Table S7. Summary of primers used in this study.
DOI: 10.6084/m9.figshare.11775900
title: Additional file 1 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 1: Table S1. Numbers of spectra, peptides, and protein species identified in the iTRAQ analysis
DOI: 10.6084/m9.figshare.11775900.v1
title: Additional file 1 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 1: Table S1. Numbers of spectra, peptides, and protein species identified in the iTRAQ analysis
DOI: 10.6084/m9.figshare.11775906
title: Additional file 2 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 2: Table S2. Peptide sequences of the identified protein species (XLS 904 kb)
DOI: 10.6084/m9.figshare.11775906.v1
title: Additional file 2 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 2: Table S2. Peptide sequences of the identified protein species (XLS 904 kb)
DOI: 10.6084/m9.figshare.23298956
title: Additional file 3 of ANKRD29, as a new prognostic and immunological biomarker of non–small cell lung cancer, inhibits cell growth and migration by regulating MAPK signaling pathway

description: Supplementary Material 3
DOI: 10.6084/m9.figshare.11775918
title: Additional file 4 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 4: Table S3. Eight protein species involved in cell cycle control, cell division, chromosome partitioning
DOI: 10.6084/m9.figshare.11775918.v1
title: Additional file 4 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 4: Table S3. Eight protein species involved in cell cycle control, cell division, chromosome partitioning
DOI: 10.6084/m9.figshare.23299013.v1
title: Additional file 7 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 7: Data S5. All SNP BSGS discovered across the genome. This file contains information on all genome-wide SNP BSGS discovered from 76 valid breeds.
DOI: 10.6084/m9.figshare.23299016.v1
title: Additional file 8 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 8: Data S6. GS-based breed composition of 452 dogs. This file contains GS-carrying percentages of five most and least similar breeds for each individual dog involved in this study.
DOI: 10.6084/m9.figshare.22785971
title: A georeferenced dataset of heavy metal occurrence in the soils of the Yangtze River Basin, China (2000-2020)

description:  Understanding the spatial pattern of heavy metals at a fine scale is critical for optimal control of environmental capacity and targeted treatment of pollutants. We summarize the up-to-date dataset on the occurrence of common heavy metals in soils of the Yangtze River Basin, a large basin in China of vital economic and ecological importance, by searching peer-reviewed literatures published between 2000 and 2020. The dataset ensures the accuracy of literature screening through quality control procedures, mainly extracting detailed geographic location and concentration of heavy metal. The dataset includes a total of 7867 records (Zn: 1045, Cu: 1140, Pb: 1261, Cr: 980, Cd: 1242, Ni: 649, As: 821, Hg: 729) of heavy metal occurrence in soils of the Yangtze River Basin, distributed at four scale levels of province, prefecture, county, township or finer. The up-to-date dataset provides the latest status of heavy metal occurrence in soils of the Yangtze River Basin, which can be used as a further ecological and health risk assessment, and as a data basis for the repair and prevention of soil heavy metal pollution in the Yangtze River Basin.  and ecological importance, by searching peer-reviewed literatures published between 2000 and 2020. The dataset ensures the accuracy of literature screening through quality control procedures, mainly extracting detailed geographic location and concentration of heavy metal. The dataset includes a total of 7867 records (Zn: 1045, Cu: 1140, Pb: 1261, Cr: 980, Cd: 1242, Ni: 649, As: 821, Hg: 729) of heavy metal occurrence in soils of the Yangtze River Basin, distributed at four scale levels of province, prefecture, county, township or finer. The up-to-date dataset provides the latest status of heavy metal occurrence in soils of the Yangtze River Basin, which can be used as a further ecological and health risk assessment, and as a data basis for the repair and prevention of soil heavy metal pollution in the Yangtze River Basin.
DOI: 10.6084/m9.figshare.23299022.v1
title: Additional file 10 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 10: Data S8. All STR BSGS discovered across the genome. This file contains information on all genome-wide STR BSGS discovered from 76 valid breeds.
DOI: 10.6084/m9.figshare.11775927
title: Additional file 6 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 6: Table S4. Total list of the differentially abundant protein species (XLS 128 kb)
DOI: 10.6084/m9.figshare.23299028
title: Additional file 12 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 12: Data S10. Detailed list of SNP, INDEL and STR based GS similarity scores for each breed. This zip file contains 76 text files each corresponds to one valid breed involved in this study. Each text file contains detailed pairwise similarity scores calculated using genome-wide SNP, INDEL and STR GS.
DOI: 10.6084/m9.figshare.23299028.v1
title: Additional file 12 of Systematically identifying genetic signatures including novel SNP-clusters, nonsense variants, frame-shift INDELs, and long STR expansions that potentially link to unknown phenotypes existing in dog breeds

description: Additional file 12: Data S10. Detailed list of SNP, INDEL and STR based GS similarity scores for each breed. This zip file contains 76 text files each corresponds to one valid breed involved in this study. Each text file contains detailed pairwise similarity scores calculated using genome-wide SNP, INDEL and STR GS.
DOI: 10.6084/m9.figshare.11775927.v1
title: Additional file 6 of Comparative proteomic and transcriptomic analyses provide new insight into the formation of seed size in castor bean

description: Additional file 6: Table S4. Total list of the differentially abundant protein species (XLS 128 kb)
DOI: 10.6084/m9.figshare.3376264
title: TFEB and TFE3 cooperate in the regulation of the innate immune response in activated macrophages

description: The activation of transcription factors is critical to ensure an effective defense against pathogens. In this study we identify a critical and complementary role of the transcription factors TFEB and TFE3 in innate immune response. By using a combination of chromatin immunoprecipitation, CRISPR-Cas9-mediated genome-editing technology, and in vivo models, we determined that TFEB and TFE3 collaborate with each other in activated macrophages and microglia to promote efficient autophagy induction, increased lysosomal biogenesis, and transcriptional upregulation of numerous proinflammatory cytokines. Furthermore, secretion of key mediators of the inflammatory response (CSF2, IL1B, IL2, and IL27), macrophage differentiation (CSF1), and macrophage infiltration and migration to sites of inflammation (CCL2) was significantly reduced in TFEB and TFE3 deficient cells. These new insights provide us with a deeper understanding of the transcriptional regulation of the innate immune response.