cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13199077
title: Additional file 2 of Fission yeast condensin contributes to interphase chromatin organization and prevents transcription-coupled DNA damage

description: Additional file 2. Table S2, Hi-C library sequencing read statistics. (CSV 1 kb)
DOI: 10.6084/m9.figshare.16869705
title: Additional file 3 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 3. The calculated pathway from chorismate to pyruvate before adding demand reactions for all carbon-containing metabolites.
DOI: 10.6084/m9.figshare.16869705.v1
title: Additional file 3 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 3. The calculated pathway from chorismate to pyruvate before adding demand reactions for all carbon-containing metabolites.
DOI: 10.23719/1530094
title: Metadata for Pavlovic et al. - Machine Learning Critical Loads

description: This is the metadata associated with Pavlovic et al. (2023) entitled "Empirical nitrogen and sulfur critical loads of U.S. tree species and their uncertainties with machine learning" (https://www.sciencedirect.com/science/article/pii/S0048969722063513). It is not EPA data and the data and associated metadata is already publicly available on the journal website.
DOI: 10.6084/m9.figshare.16869701
title: Additional file 1 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 1. Pathways calculated by FBA between 12 precursors in iML1515.
DOI: 10.6084/m9.figshare.16869703
title: Additional file 2 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 2. Pathways between pyruvate (the seed metabolite) and other metabolites in iML1515
DOI: 10.6084/m9.figshare.16869701.v1
title: Additional file 1 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 1. Pathways calculated by FBA between 12 precursors in iML1515.
DOI: 10.6084/m9.figshare.16869703.v1
title: Additional file 2 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 2. Pathways between pyruvate (the seed metabolite) and other metabolites in iML1515
DOI: 10.6084/m9.figshare.16869711.v1
title: Additional file 6 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 6. Comparison of the bow-tie structures obtained using GBA and FBA methods.
DOI: 10.6084/m9.figshare.16869768.v1
title: Additional file 2 of Transcriptome-wide characterization and functional analysis of Xyloglucan endo-transglycosylase/hydrolase (XTH) gene family of Salicornia europaea L. under salinity and drought stress

description: Additional file 2: Supplementary file 2. The primer sequences used for the RT-qPCR analysis.
DOI: 10.6084/m9.figshare.13199077.v1
title: Additional file 2 of Fission yeast condensin contributes to interphase chromatin organization and prevents transcription-coupled DNA damage

description: Additional file 2. Table S2, Hi-C library sequencing read statistics. (CSV 1 kb)
DOI: 10.6084/m9.figshare.12155379
title: Quantitative species determination based on real time PCR–Can the results be expressed as weight/weight equivalents?

description: Food adulteration is a common challenge in the meat industry. Polymerase chain reaction (PCR) has been used as a method to detect contamination from different species of meat. From a consumer perspective, a PCR method with measurements in terms of weight/weight (w/w) ratios will be more familiar. In this study, the focus was on how to convert the results of quantitative analysis from genome/genome (g/g) to w/w using real-time PCR. The mixtures with different ratios of mutton in pork were analyzed as test samples. The c values of different species, as a reflection of the key conversion factors, were established and evaluated. The effects of heat treatment on w/w conversion of PCR data were also assessed. The results indicated that the c value shows significant variability among individual samples. An average c value was found to cause a bias of more than 7% for mixtures in the range of 20–80%. For individual meat samples with pre-determined c-values, real-time PCR was useful for quantitative analysis of mutton contamination in pork within the range of 20–80%, with a bias of detection of less than 2%. However, this method was shown to have a limit of quantification of 5% with mutton in pork. Furthermore, heat treatment (121°C, 15 min) significantly reduced the accuracy of quantitative analyses. Because the c value is not available for most commercial samples, and some food products are subjected to heat treatment as a method of sterilization, accurate quantitative analysis (w/w) may not be an option for commercial samples using PCR-based technology.
DOI: 10.6084/m9.figshare.16869718
title: Additional file 2 of De novo transcriptome analysis provides insights into the salt tolerance of Podocarpus macrophyllus under salinity stress

description: Additional file 2: Supplementary Dataset 1. Gene co-expression clusters of the upregulated DEGs in P. macrophyllus under LS salt stress.
DOI: 10.5281/zenodo.10625605
title: Endodoncia guiada sobre conductos calcificados utilizando tomografía computarizada

description: Conjunto de datos en excel correspondiente a la revisión sistemática del estudio de artículos científicos relacionados con la endodoncia guiada sobre conductos calcificados utilizando tomografía computarizada. Las fuentes de información consultadas fueron: las bases de datos PudMed, Science Direct, Europe PMC, así como el buscador académico Google Scholar.
DOI: 10.5281/zenodo.10625606
title: Endodoncia guiada sobre conductos calcificados utilizando tomografía computarizada

description: Conjunto de datos en excel correspondiente a la revisión sistemática del estudio de artículos científicos relacionados con la endodoncia guiada sobre conductos calcificados utilizando tomografía computarizada. Las fuentes de información consultadas fueron: las bases de datos PudMed, Science Direct, Europe PMC, así como el buscador académico Google Scholar.
DOI: 10.6084/m9.figshare.16869709
title: Additional file 5 of Global connectivity in genome-scale metabolic networks revealed by comprehensive FBA-based pathway analysis

description: Additional file 5. List of currency metabolites and metabolite pairs.
DOI: 10.6084/m9.figshare.16869720
title: Additional file 3 of De novo transcriptome analysis provides insights into the salt tolerance of Podocarpus macrophyllus under salinity stress

description: Additional file 3: Supplementary Dataset 2. Gene co-expression clusters of the downregulated DEGs in P. macrophyllus under LS salt stress.
DOI: 10.6084/m9.figshare.16869722.v1
title: Additional file 4 of De novo transcriptome analysis provides insights into the salt tolerance of Podocarpus macrophyllus under salinity stress

description: Additional file 4: Supplementary Dataset 3. Transcription factors which were predicted in the assembly transcriptome of P. macrophyllus.
DOI: 10.6084/m9.figshare.16869722
title: Additional file 4 of De novo transcriptome analysis provides insights into the salt tolerance of Podocarpus macrophyllus under salinity stress

description: Additional file 4: Supplementary Dataset 3. Transcription factors which were predicted in the assembly transcriptome of P. macrophyllus.
DOI: 10.23719/1529984
title: No dataset available.

description: The dataset to support the journal article was generated by a cooperative non-EPA research organization. Readers may inquire underlying dataset from the corresponding author as specified in the journal article
DOI: 10.6084/m9.figshare.16869783
title: Additional file 2 of Costs and staffing resource requirements for adaptive clinical trials: quantitative and qualitative results from the Costing Adaptive Trials project

description: Additional file 2. Resource template pre-revision.
DOI: 10.6084/m9.figshare.16869816
title: Additional file 1 of CircCD44 plays oncogenic roles in triple-negative breast cancer by modulating the miR-502–5p/KRAS and IGF2BP2/Myc axes

description: Additional file 1.
DOI: 10.6084/m9.figshare.6388250
title: Effect of bisacodyl on rats with slow transit constipation

description: The effect of bisacodyl on the treatment of rats with slow transit constipation (STC) was studied. Forty-five female Wister rats were divided into control group, STC group, and STC bisacodyl group. The immunohistochemical method was used to determine interstitial cells of Cajal (ICC) and the expression of c-Kit protein. Body mass and the number of defecations were significantly decreased in the STC group compared with the control group on the 100th day after diphenoxylate administration, while dry weight of feces was significantly increased and the intestinal transit time was prolonged. There were significant differences in the number of defecations, dry weight of feces, and intestinal transit time among the three groups. The number of defecations was higher, dry weight of feces was lower, and intestinal transit time was shorter in the STC bisacodyl group compared to the STC group. In addition, ICC basement membrane dissolution occurred in the colon wall of the STC group. The connection between ICC and surrounding cells was destroyed, and the nucleus shrunken to different degrees. Moreover, c-Kit expression in the STC group was significantly lower than the control group. The connection between ICC and surrounding cells in the STC bisacodyl group was significantly stronger than the STC group, and the number of ICC and the expression of c-Kit were increased. Bisacodyl could reduce the severity of STC in rats by increasing the number of ICC and the expression of c-Kit.
DOI: 10.6084/m9.figshare.16869818.v1
title: Additional file 1 of Identification and response analysis of xyloglucan endotransglycosylase/hydrolases (XTH) family to fluoride and aluminum treatment in Camellia sinensis

description: Additional file 1: The CDS of CsXTHs. The coding sequences (CDS) of 14 XTH genes from Camellia sinensis.
DOI: 10.6084/m9.figshare.16869884
title: Additional file 7 of Hsa_circ_0004296 inhibits metastasis of prostate cancer by interacting with EIF4A3 to prevent nuclear export of ETS1 mRNA

description: Additional file 7.
DOI: 10.6084/m9.figshare.12155379.v1
title: Quantitative species determination based on real time PCR–Can the results be expressed as weight/weight equivalents?

description: Food adulteration is a common challenge in the meat industry. Polymerase chain reaction (PCR) has been used as a method to detect contamination from different species of meat. From a consumer perspective, a PCR method with measurements in terms of weight/weight (w/w) ratios will be more familiar. In this study, the focus was on how to convert the results of quantitative analysis from genome/genome (g/g) to w/w using real-time PCR. The mixtures with different ratios of mutton in pork were analyzed as test samples. The c values of different species, as a reflection of the key conversion factors, were established and evaluated. The effects of heat treatment on w/w conversion of PCR data were also assessed. The results indicated that the c value shows significant variability among individual samples. An average c value was found to cause a bias of more than 7% for mixtures in the range of 20–80%. For individual meat samples with pre-determined c-values, real-time PCR was useful for quantitative analysis of mutton contamination in pork within the range of 20–80%, with a bias of detection of less than 2%. However, this method was shown to have a limit of quantification of 5% with mutton in pork. Furthermore, heat treatment (121°C, 15 min) significantly reduced the accuracy of quantitative analyses. Because the c value is not available for most commercial samples, and some food products are subjected to heat treatment as a method of sterilization, accurate quantitative analysis (w/w) may not be an option for commercial samples using PCR-based technology.
DOI: 10.6084/m9.figshare.23689707
title: Additional file 13 of Plastome evolution and phylogenomic insights into the evolution of Lysimachia (Primulaceae: Myrsinoideae)

description: Additional file 13: Table S1. Samples, vouchers, and GenBank accessions used in this study. Table S2. The plastome features of Lysimachia taxa. Table S3. Genes annotated of Lysimachia plastomes. Table S4. Topology tests for ML trees generated by various plastid datasets and constraint tree with the clade III sister to clade II using whole plastid dataset on RAxML. Table S5. The difference in log-likelihoods of 156 plastid loci between the two hypotheses T1 and T5.
DOI: 10.6084/m9.figshare.12679707
title: Additional file 1 of Long noncoding RNA MAPKAPK5-AS1 promotes colorectal cancer progression by cis-regulating the nearby gene MK5 and acting as a let-7f-1-3p sponge

description: Additional file 1: Table S1. List of primers and siRNA/shRNA sequences.
DOI: 10.6084/m9.figshare.6388250.v1
title: Effect of bisacodyl on rats with slow transit constipation

description: The effect of bisacodyl on the treatment of rats with slow transit constipation (STC) was studied. Forty-five female Wister rats were divided into control group, STC group, and STC bisacodyl group. The immunohistochemical method was used to determine interstitial cells of Cajal (ICC) and the expression of c-Kit protein. Body mass and the number of defecations were significantly decreased in the STC group compared with the control group on the 100th day after diphenoxylate administration, while dry weight of feces was significantly increased and the intestinal transit time was prolonged. There were significant differences in the number of defecations, dry weight of feces, and intestinal transit time among the three groups. The number of defecations was higher, dry weight of feces was lower, and intestinal transit time was shorter in the STC bisacodyl group compared to the STC group. In addition, ICC basement membrane dissolution occurred in the colon wall of the STC group. The connection between ICC and surrounding cells was destroyed, and the nucleus shrunken to different degrees. Moreover, c-Kit expression in the STC group was significantly lower than the control group. The connection between ICC and surrounding cells in the STC bisacodyl group was significantly stronger than the STC group, and the number of ICC and the expression of c-Kit were increased. Bisacodyl could reduce the severity of STC in rats by increasing the number of ICC and the expression of c-Kit.
DOI: 10.6084/m9.figshare.12679707.v1
title: Additional file 1 of Long noncoding RNA MAPKAPK5-AS1 promotes colorectal cancer progression by cis-regulating the nearby gene MK5 and acting as a let-7f-1-3p sponge

description: Additional file 1: Table S1. List of primers and siRNA/shRNA sequences.
DOI: 10.6084/m9.figshare.6388289
title: Improved antimelanogenesis and antioxidant effects of polysaccharide from Cuscuta chinensis Lam seeds after enzymatic hydrolysis

description: Cuscuta chinensis polysaccharide (CPS) was extracted using hot water and enzymatically hydrolyzed C. chinensis polysaccharide (ECPS) was produced by the mannase enzymatic hydrolysis process. The purpose of this research was to investigate the antimelanogenic activity of ECPS and CPS in B16F10 melanoma cells. The in vitro antioxidant activity was assessed by their ferric iron reducing power and DPPH free radical scavenging activities. The molecular mass distribution of polysaccharides was determined using SEC-MALLS-RI. CPS was successfully enzymatically degraded using mannase and the weighted average molecular weights of CPS and ECPS were 434.6 kDa and 211.7 kDa. The results of biological activity assays suggested that the enzymatically hydrolyzed polysaccharide had superior antimelanogenic activity and antioxidant effect than the original polysaccharide. ECPS exhibited antimelanogenic activity by down-regulating the expression of tyrosinase, MITF, and TRP-1 without cytotoxic effects in B16F10 melanoma cells. In conclusion, ECPS have the potential to become a skin whitening product.
DOI: 10.6084/m9.figshare.6388259
title: Rhodium(III)-Catalyzed Addition of Indoles with Boc-Imines via C-H Bond Activation

description: A rhodium-catalyzed alkylation reaction of indoles with N-Boc-imines has been developed via C-H activation to afford a series of substituted 2-indolyl-methanamine derivatives with good functional group tolerance and regioselectivity. A wide range of indole-based alkylation products could be obtained in up to 95% yield.
DOI: 10.6084/m9.figshare.23689707.v1
title: Additional file 13 of Plastome evolution and phylogenomic insights into the evolution of Lysimachia (Primulaceae: Myrsinoideae)

description: Additional file 13: Table S1. Samples, vouchers, and GenBank accessions used in this study. Table S2. The plastome features of Lysimachia taxa. Table S3. Genes annotated of Lysimachia plastomes. Table S4. Topology tests for ML trees generated by various plastid datasets and constraint tree with the clade III sister to clade II using whole plastid dataset on RAxML. Table S5. The difference in log-likelihoods of 156 plastid loci between the two hypotheses T1 and T5.
DOI: 10.6084/m9.figshare.21592657.v1
title: Additional file 15 of Trend analysis and prediction of injury death in Xi’an city, China, 2005-2020

description: Additional file 15: Additional Table 10. Motor vehicle traffic accidents mortality prediction in Xi’an
DOI: 10.6084/m9.figshare.21592708.v1
title: Additional file 10 of Endolysins of bacteriophage vB_Sal-S-S10 can naturally lyse Salmonella enteritidis

description: Additional file 10.
DOI: 10.6084/m9.figshare.21592586.v1
title: Additional file 1 of Genome-wide association study and genetic mapping of BhWAX conferring mature fruit cuticular wax in wax gourd

description: Additional file 1. The detailed primer information of markers used in initial genetic mapping and fine mapping of BhWAX, and primers of qRT-PCR used in the study.
DOI: 10.6084/m9.figshare.12679873.v1
title: Additional file 2 of Analysis of long non-coding RNA expression profiles in high-glucose treated vascular endothelial cells

description: Additional file 2: Table S2. The top upregulated and downregulated DELs.
DOI: 10.6084/m9.figshare.12679876.v1
title: Additional file 3 of Analysis of long non-coding RNA expression profiles in high-glucose treated vascular endothelial cells

description: Additional file 3: Table S3. Expression correlations of 715 lncRNA-mRNAs trans-regulatory pairs.
DOI: 10.6084/m9.figshare.23689740
title: Additional file 2 of Flubendazole inhibits PD-1 and suppresses melanoma growth in immunocompetent mice

description: Additional file 2: Table S2. Complete list of DEG following RNA-seq and bioinformatics analysis. RNA-seq was performed with total RNA prepared from Jurkat T cells treated with 10 µM FLU for 4 h.
DOI: 10.6084/m9.figshare.6388259.v1
title: Rhodium(III)-Catalyzed Addition of Indoles with Boc-Imines via C-H Bond Activation

description: A rhodium-catalyzed alkylation reaction of indoles with N-Boc-imines has been developed via C-H activation to afford a series of substituted 2-indolyl-methanamine derivatives with good functional group tolerance and regioselectivity. A wide range of indole-based alkylation products could be obtained in up to 95% yield.
DOI: 10.6084/m9.figshare.12679873
title: Additional file 2 of Analysis of long non-coding RNA expression profiles in high-glucose treated vascular endothelial cells

description: Additional file 2: Table S2. The top upregulated and downregulated DELs.
DOI: 10.6084/m9.figshare.23689743.v1
title: Additional file 3 of Flubendazole inhibits PD-1 and suppresses melanoma growth in immunocompetent mice

description: Additional file 3: Table S3. KEGG pathway analysis of RNA-seq data. RNA-seq was performed with total RNA prepared from Jurkat T cells treated with 10 µM FLU for 4 h. Over-representation of DEG following FLU treatment in specific pathways that were (A) up-regulated and (B) down-regulated
DOI: 10.6084/m9.figshare.6388289.v1
title: Improved antimelanogenesis and antioxidant effects of polysaccharide from Cuscuta chinensis Lam seeds after enzymatic hydrolysis

description: Cuscuta chinensis polysaccharide (CPS) was extracted using hot water and enzymatically hydrolyzed C. chinensis polysaccharide (ECPS) was produced by the mannase enzymatic hydrolysis process. The purpose of this research was to investigate the antimelanogenic activity of ECPS and CPS in B16F10 melanoma cells. The in vitro antioxidant activity was assessed by their ferric iron reducing power and DPPH free radical scavenging activities. The molecular mass distribution of polysaccharides was determined using SEC-MALLS-RI. CPS was successfully enzymatically degraded using mannase and the weighted average molecular weights of CPS and ECPS were 434.6 kDa and 211.7 kDa. The results of biological activity assays suggested that the enzymatically hydrolyzed polysaccharide had superior antimelanogenic activity and antioxidant effect than the original polysaccharide. ECPS exhibited antimelanogenic activity by down-regulating the expression of tyrosinase, MITF, and TRP-1 without cytotoxic effects in B16F10 melanoma cells. In conclusion, ECPS have the potential to become a skin whitening product.
DOI: 10.6084/m9.figshare.12679876
title: Additional file 3 of Analysis of long non-coding RNA expression profiles in high-glucose treated vascular endothelial cells

description: Additional file 3: Table S3. Expression correlations of 715 lncRNA-mRNAs trans-regulatory pairs.
DOI: 10.6084/m9.figshare.23689749
title: Additional file 5 of Flubendazole inhibits PD-1 and suppresses melanoma growth in immunocompetent mice

description: Additional file 5: Table S5. C2 gene sets enriched by FLU. RNA-seq was performed with total RNA prepared from Jurkat T cells treated with 10 µM FLU for 4 h. There were 3058 of 4691 C2 gene sets upregulated in the FLU group, 210 sets significant at FDR &lt; 0.25, and 1633 of the 4691 gene sets correlated with the vehicle group, 345 sets significant at FDR &lt; 0.25.
DOI: 10.6084/m9.figshare.23689746.v1
title: Additional file 4 of Flubendazole inhibits PD-1 and suppresses melanoma growth in immunocompetent mice

description: Additional file 4: Table S4. C7 gene sets enriched by FLU. RNA-seq was performed with total RNA prepared from Jurkat T cells treated with 10 µM FLU for 4 h. There were 3738 of 5082 C7 gene sets upregulated in the FLU group, 605 sets significant at FDR &lt; 0.25, and 1344 of the 5082 gene sets correlated with the vehicle, 381 were significant at FDR &lt; 0.25.
DOI: 10.6084/m9.figshare.21592657
title: Additional file 15 of Trend analysis and prediction of injury death in Xi’an city, China, 2005-2020

description: Additional file 15: Additional Table 10. Motor vehicle traffic accidents mortality prediction in Xi’an
DOI: 10.6084/m9.figshare.11377755
title: MOESM2 of MicroRNA-338-3p suppresses ovarian cancer cells growth and metastasis: implication of Wnt/catenin beta and MEK/ERK signaling pathways

description: Additional file 2. Target genes of miR-338-3p predicted by biomedical database.