cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.9796124.v1
title: Evaluation of three superior oblique surgical weakening procedures for A-pattern strabismus

description: ABSTRACT Purpose: To evaluate three superior oblique surgical weakening procedures for correcting A-pattern strabismus: tenectomy, superior oblique hang-back recession, and that involving the use of superior oblique suture spacers. Methods: The inclusion criteria were A-pattern strabismus ≥10Δ and horizontal deviation ≥10Δ, with no other ocular abnormality and a follow-up period of ≥6 months. The 24 patients (mean age, 16.3 ± 8.1 years; mean postoperative follow-up, 9.63 ± 3.11 months) were randomly divided into three groups of 8 patients each. Sigmascan® Pro 5.0 software was used to measure the degree of torsion pre- and postoperatively. Results: Preoperatively, the mean angles of A-pattern deviation were 19.33Δ° ± 3.53Δ° (tenectomy group), 15.71Δ° ± 1.11Δ° (hang-back recession group), and 14.62Δ° ± 1.18Δ° (suture spacers group); these values did not differ significantly. At the final follow-up examination, the mean angles of A-pattern deviation were 4.67Δ° ± 0.67Δ° (tenectomy group), 6.29Δ° ± 1.48Δ° (hang-back recession group), and 4.38Δ° ± 1.03Δ° (suture spacers group), with no statistically significant difference in the correction in A-pattern strabismus among the three groups. Preoperatively, the mean torsional angles were +5.4° ± 3.9° (tenectomy group), +5.6° ± 4.9° (hang-back recession group), and +6.0° ± 3.3° (suture spacers group); these values did not differ significantly. At the final follow-up examination, the mean torsional angles were + 0.3° ± 5.6° (tenectomy group), +0.5° ± 4.6° (hang-back recession group), and +0.2° ± 5.2° (suture spacers group), with no statistically significant difference in the intorsion correction among the three groups. Conclusion: All three superior oblique weakening procedures were effective for correcting A-pattern strabismus and fundus intorsion.
DOI: 10.6084/m9.figshare.25249225
title: Supplementary_Table_1.xlsx

description: A. Number of detected stool miRNAs in each sample. B. Results from the differential expression analyses considering the different CRC subgroups. C. List of DE miRNA validated interactions. D. Number of supporting evidence for each DE miRNA-target interaction. E. Results from the enrichment analysis of DE miRNA targets.
DOI: 10.6084/m9.figshare.25249225.v1
title: Supplementary_Table_1.xlsx

description: A. Number of detected stool miRNAs in each sample. B. Results from the differential expression analyses considering the different CRC subgroups. C. List of DE miRNA validated interactions. D. Number of supporting evidence for each DE miRNA-target interaction. E. Results from the enrichment analysis of DE miRNA targets.
DOI: 10.6084/m9.figshare.8223287
title: Additional file 2: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S2. TCGA Clinical data. (XLSX 59â kb) (XLSX 58â kb)
DOI: 10.6084/m9.figshare.8223281
title: Additional file 2: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S4. Protein sequences of YABBY genes in various plants. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.8223287.v1
title: Additional file 2: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S2. TCGA Clinical data. (XLSX 59â kb) (XLSX 58â kb)
DOI: 10.6084/m9.figshare.8223281.v1
title: Additional file 2: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S4. Protein sequences of YABBY genes in various plants. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.8223290
title: Additional file 3: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S5. Annotation of 82 DEGs between WT and GmFILa transgenic Arabidopsis plants. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.16611891
title: A nine-hub-gene signature of metabolic syndrome identified using machine learning algorithms and integrated bioinformatics

description: Early risk assessments and interventions for metabolic syndrome (MetS) are limited because of a lack of effective biomarkers. In the present study, several candidate genes were selected as a blood-based transcriptomic signature for MetS. We collected so far the largest MetS-associated peripheral blood high-throughput transcriptomics data and put forward a novel feature selection strategy by combining weighted gene co-expression network analysis, protein-protein interaction network analysis, LASSO regression and random forest approaches. Two gene modules and 51 hub genes as well as a 9-hub-gene signature associated with metabolic syndrome were identified. Then, based on this 9-hub-gene signature, we performed logistic analysis and subsequently established a web nomogram calculator for metabolic syndrome risk (https://xjtulgz.shinyapps.io/DynNomapp/). This 9-hub-gene signature showed excellent classification and calibration performance (AUC = 0.968 in training set, AUC = 0.883 in internal validation set, AUC = 0.861 in external validation set) as well as ideal potential clinical benefit.
DOI: 10.6084/m9.figshare.8223290.v1
title: Additional file 3: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S5. Annotation of 82 DEGs between WT and GmFILa transgenic Arabidopsis plants. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.16611891.v2
title: A nine-hub-gene signature of metabolic syndrome identified using machine learning algorithms and integrated bioinformatics

description: Early risk assessments and interventions for metabolic syndrome (MetS) are limited because of a lack of effective biomarkers. In the present study, several candidate genes were selected as a blood-based transcriptomic signature for MetS. We collected so far the largest MetS-associated peripheral blood high-throughput transcriptomics data and put forward a novel feature selection strategy by combining weighted gene co-expression network analysis, protein-protein interaction network analysis, LASSO regression and random forest approaches. Two gene modules and 51 hub genes as well as a 9-hub-gene signature associated with metabolic syndrome were identified. Then, based on this 9-hub-gene signature, we performed logistic analysis and subsequently established a web nomogram calculator for metabolic syndrome risk (https://xjtulgz.shinyapps.io/DynNomapp/). This 9-hub-gene signature showed excellent classification and calibration performance (AUC = 0.968 in training set, AUC = 0.883 in internal validation set, AUC = 0.861 in external validation set) as well as ideal potential clinical benefit.
DOI: 10.6084/m9.figshare.8223293
title: Additional file 3: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S3. Candidates selecting process & GO analysis result. (XLSX 49â kb)
DOI: 10.6084/m9.figshare.16611891.v1
title: A nine-hub-gene signature of metabolic syndrome identified using machine learning algorithms and integrated bioinformatics

description: Early risk assessments and interventions for metabolic syndrome (MetS) are limited because of a lack of effective biomarkers. In the present study, several candidate genes were selected as a blood-based transcriptomic signature for MetS. We collected so far the largest MetS-associated peripheral blood high-throughput transcriptomics data and put forward a novel feature selection strategy by combining weighted gene co-expression network analysis, protein-protein interaction network analysis, LASSO regression and random forest approaches. Two gene modules and 51 hub genes as well as a 9-hub-gene signature associated with metabolic syndrome were identified. Then, based on this 9-hub-gene signature, we performed logistic analysis and subsequently established a web nomogram calculator for metabolic syndrome risk (https://xjtulgz.shinyapps.io/DynNomapp/). This 9-hub-gene signature showed excellent classification and calibration performance (AUC = 0.968 in training set, AUC = 0.883 in internal validation set, AUC = 0.861 in external validation set) as well as ideal potential clinical benefit.
DOI: 10.6084/m9.figshare.8223293.v1
title: Additional file 3: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S3. Candidates selecting process & GO analysis result. (XLSX 49â kb)
DOI: 10.6084/m9.figshare.8223296
title: Additional file 4: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S6. The 93 GO terms associated with 82 genes. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.8223296.v1
title: Additional file 4: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S6. The 93 GO terms associated with 82 genes. (XLSX 40 kb)
DOI: 10.6084/m9.figshare.8223302
title: Additional file 4: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S4. P2RX6 IHC analysis of tissues microarray. (XLSX 10â kb) (XLSX 9â kb)
DOI: 10.6084/m9.figshare.8223302.v1
title: Additional file 4: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S4. P2RX6 IHC analysis of tissues microarray. (XLSX 10â kb) (XLSX 9â kb)
DOI: 10.6084/m9.figshare.8223305
title: Additional file 5: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S7. The 25 KEGG pathways associated with 41 genes. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.8223305.v1
title: Additional file 5: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S7. The 25 KEGG pathways associated with 41 genes. (XLSX 39 kb)
DOI: 10.6084/m9.figshare.8223311
title: Additional file 6: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S8. The microarray data (RMA normalized). (XLSX 1398 kb)
DOI: 10.6084/m9.figshare.11369040
title: Genetic adaptations of an island pit-viper to aunique sedentarylife with extreme seasonal food availability

description: Figure
S1 contains estimates of divergence time. File S1 contains codon sequences with evidences of positive selection in FASTA format. File S2 contains protein sequences containing convergent/parallel substitutionsin FASTA format. File S3 contains protein sequences containing multiple amino acid substitutions specific to Shedao pit-viper in FASTA format. File S4 contains codon sequence alignmentsof all single-copy genes used in this study in FASTA format.Table S1 contains genomic data,
assembly version, and data sources used in this study. Table S2 contains calibration
points used in divergence date estimation. Table S3 contains list of genes that bear signals of positive selection
in the Shedao pit-viper. Table S4 contains list of genes that possess sites of
convergent substitutions. Table S5 contains list of genes that possess sites of
parallel substitutions.
DOI: 10.6084/m9.figshare.8223311.v1
title: Additional file 6: of Overexpression of a soybean YABBY gene, GmFILa, causes leaf curling in Arabidopsis thaliana

description: Table S8. The microarray data (RMA normalized). (XLSX 1398 kb)
DOI: 10.6084/m9.figshare.8223314
title: Additional file 6: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S6. P2RX6 m6A in plain text from. (XLSX 15â kb) (XLSX 14â kb)
DOI: 10.6084/m9.figshare.12941906
title: Annotation files for Heiya-14 genome

description: These are the annotation files for the genome assembly of Heiya-14 (Linum usitatissimum L.). The assembled genome has been deposited in NCBI database under assession QMEH00000000.
DOI: 10.6084/m9.figshare.8223314.v1
title: Additional file 6: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S6. P2RX6 m6A in plain text from. (XLSX 15â kb) (XLSX 14â kb)
DOI: 10.6084/m9.figshare.8223317
title: Additional file 7: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S7. Correlation between METTL14 and P2RX6. (XLSX 12â kb) (XLSX 11â kb)
DOI: 10.6084/m9.figshare.8223317.v1
title: Additional file 7: of The m6A-suppressed P2RX6 activation promotes renal cancer cells migration and invasion through ATP-induced Ca2+ influx modulating ERK1/2 phosphorylation and MMP9 signaling pathway

description: Table S7. Correlation between METTL14 and P2RX6. (XLSX 12â kb) (XLSX 11â kb)
DOI: 10.6084/m9.figshare.11369067
title: Aggregation on trees does not elevate inbreeding risk in the Shedao pit vipers Gloydius shedaoensis

description: With the fragmentation of
critical resources (e.g. habitat or foraging site), a number of threatened
species choose to aggregate with many individuals living together. This may
increase their survival, nevertheless, this would also dramatically increases
the likelihood of mating among relatives and aggravate inbreeding risk. Uncovering
the relationship between aggregation and inbreeding risk becomes increasingly urgent,
and it would contribute a lot to the conservation in endangered species. Using one
endangered species pit viper (<i>Gloydius shedaoensis</i>) from “snake
island in China, we examined whether aggregation on
trees increase the inbreeding risk. The genotypes of 45
individual snakes were collected using 17 microsatellite DNA loci.
DOI: 10.6084/m9.figshare.11369115
title: Properties of oil body development and characteristics of <i>OLE</i> gene in herbaceous peony (<i>Paeoinia lactiflora</i> Pall.) seeds

description: Oil bodies (OBs) are organelles of lipid storage in plants. In order to clarify the properties of OBs development in herbaceous peony (<i>Paeonia lactiflora</i> Pall.) seeds, this research had studied anatomical structures, particle size, zeta potential, the stability of OBs and characteristics of oleosin gene (<i>OLE</i>). It showed that OB particle size increased gradually during seed development, OBs accumulated in the endosperm cells, and their zeta potential firstly decreased and then increased. Temperature had not affected the stability of OBs, they could be maintained stably under the conditions of neutral and alkaline pH and less than 50 mM NaCl. Subsequently, <i>P. lactiflora OLE</i> was isolated, it had 824 bp in full-length and a 435-bp open reading frame encoding 144 amino acids with isoelectric point 9.40, which had three transmembrane domain and did not has a signal peptide, and belonged to the stable protein. Alpha helix was the main part of the secondary structure, no glycosylation site and 14 potential phosphorylation sites were found. Additionally, the express level of <i>OLE</i> initially increased and then decreased, and reached the highest on 60 days after flowering. These results could contribute to understand the properties of OBs development and characteristics of <i>OLE</i> in <i>P. lactiflora</i> seeds.
DOI: 10.6084/m9.figshare.11369115.v1
title: Properties of oil body development and characteristics of <i>OLE</i> gene in herbaceous peony (<i>Paeoinia lactiflora</i> Pall.) seeds

description: Oil bodies (OBs) are organelles of lipid storage in plants. In order to clarify the properties of OBs development in herbaceous peony (<i>Paeonia lactiflora</i> Pall.) seeds, this research had studied anatomical structures, particle size, zeta potential, the stability of OBs and characteristics of oleosin gene (<i>OLE</i>). It showed that OB particle size increased gradually during seed development, OBs accumulated in the endosperm cells, and their zeta potential firstly decreased and then increased. Temperature had not affected the stability of OBs, they could be maintained stably under the conditions of neutral and alkaline pH and less than 50 mM NaCl. Subsequently, <i>P. lactiflora OLE</i> was isolated, it had 824 bp in full-length and a 435-bp open reading frame encoding 144 amino acids with isoelectric point 9.40, which had three transmembrane domain and did not has a signal peptide, and belonged to the stable protein. Alpha helix was the main part of the secondary structure, no glycosylation site and 14 potential phosphorylation sites were found. Additionally, the express level of <i>OLE</i> initially increased and then decreased, and reached the highest on 60 days after flowering. These results could contribute to understand the properties of OBs development and characteristics of <i>OLE</i> in <i>P. lactiflora</i> seeds.
DOI: 10.6084/m9.figshare.9796313
title: Expression of specificity protein 1 and collagen I in primary pterygial tissues

description: ABSTRACT Purpose: To determine the expression profiles of the transcription factor specificity protein 1 and collagen I in primary pterygial and normal conjunctival tissues, and to explore the role of specificity protein 1 and collagen I in pterygial development. Methods: The pterygial tissues of 20 patients who underwent resection of primary pterygial tissue in our hospital from June 2016 to December 2017 and the conjunctival tissues of 10 patients with enucleation due to trauma were collected. Reverse transcription quantitative-po lymerase chain reaction and western blot analyses were used to detect the relative expression levels of specificity protein 1 and type I collagen at the mRNA and protein levels. Results: The content of specificity protein 1 and collagen I mRNA and protein was significantly greater in primary pterygial tissue than it was in conjunctival tissue (p&lt;0.05). There was a positive correlation between the mRNA and protein levels of specificity protein 1 and collagen I in primary pterygial tissues (protein: r=1, p&lt;0.05; mRNA: r=1, p&lt;0.05). Conclusion: Specificity protein 1 and collagen I are expressed in normal conjunctival and pterygial tissues, but expression is significantly greater in the latter. Specificity protein 1 and collagen I may be involved in the regulation of the development of primary pterygium.
DOI: 10.6084/m9.figshare.9796313.v1
title: Expression of specificity protein 1 and collagen I in primary pterygial tissues

description: ABSTRACT Purpose: To determine the expression profiles of the transcription factor specificity protein 1 and collagen I in primary pterygial and normal conjunctival tissues, and to explore the role of specificity protein 1 and collagen I in pterygial development. Methods: The pterygial tissues of 20 patients who underwent resection of primary pterygial tissue in our hospital from June 2016 to December 2017 and the conjunctival tissues of 10 patients with enucleation due to trauma were collected. Reverse transcription quantitative-po lymerase chain reaction and western blot analyses were used to detect the relative expression levels of specificity protein 1 and type I collagen at the mRNA and protein levels. Results: The content of specificity protein 1 and collagen I mRNA and protein was significantly greater in primary pterygial tissue than it was in conjunctival tissue (p&lt;0.05). There was a positive correlation between the mRNA and protein levels of specificity protein 1 and collagen I in primary pterygial tissues (protein: r=1, p&lt;0.05; mRNA: r=1, p&lt;0.05). Conclusion: Specificity protein 1 and collagen I are expressed in normal conjunctival and pterygial tissues, but expression is significantly greater in the latter. Specificity protein 1 and collagen I may be involved in the regulation of the development of primary pterygium.
DOI: 10.6084/m9.figshare.8223455
title: Metabolomics reveals the effect of valproic acid on MCF-7 and MDA-MB-231 cells

description: 1. Breast cancer is one of the most common malignancies in women worldwide. Metabolomics has been shown to be a promising strategy to elucidate the underlying pathogenesis of cancer and identify new targets for cancer diagnosis and therapy. Valproic acid (VPA), a histone deacetylase inhibitor, is a potential new drug in tumor therapy. This work used metabolomics to examine the effect of VPA on metabolism in breast cancer cells. 2. Based on UPLC-MS/MS, we identified 3137 differential metabolites in human breast cancer MCF-7 cells and 2472 differential metabolites in human breast cancer MDA-MB-231 cells after VPA treatment. 3. We selected 63 differential metabolites from MCF-7 samples and 61 differential metabolites from MDA-MB-231 cells with the more conspicuous changing trend. Furfural was up-regulated after VPA treatment in both cell lines. In both samples, VPA exerted an effect on the beta-alanine metabolism pathway and the taurine and hypotaurine metabolism pathway. 4. This study identified the effect of VPA on metabolites and metabolic pathways in breast cancer cells, and these findings may contribute to the identification of new targets for breast cancer treatment.
DOI: 10.6084/m9.figshare.8223455.v1
title: Metabolomics reveals the effect of valproic acid on MCF-7 and MDA-MB-231 cells

description: 1. Breast cancer is one of the most common malignancies in women worldwide. Metabolomics has been shown to be a promising strategy to elucidate the underlying pathogenesis of cancer and identify new targets for cancer diagnosis and therapy. Valproic acid (VPA), a histone deacetylase inhibitor, is a potential new drug in tumor therapy. This work used metabolomics to examine the effect of VPA on metabolism in breast cancer cells. 2. Based on UPLC-MS/MS, we identified 3137 differential metabolites in human breast cancer MCF-7 cells and 2472 differential metabolites in human breast cancer MDA-MB-231 cells after VPA treatment. 3. We selected 63 differential metabolites from MCF-7 samples and 61 differential metabolites from MDA-MB-231 cells with the more conspicuous changing trend. Furfural was up-regulated after VPA treatment in both cell lines. In both samples, VPA exerted an effect on the beta-alanine metabolism pathway and the taurine and hypotaurine metabolism pathway. 4. This study identified the effect of VPA on metabolites and metabolic pathways in breast cancer cells, and these findings may contribute to the identification of new targets for breast cancer treatment.