cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.dvxgx5
title: Occurrence Download

description: A dataset containing 61591 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Genista sagittalis"
 ]
}

 The dataset includes 61591 records from 609 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0008587-250827131500795/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.24403/jp.1323285
title: Jurzitza, G.: Anatomie der Samenpflanzen. - Stuttgart und New York : Georg Thieme Verlag, 1987 / [rezensiert von] H. Manitz
DOI: 10.24403/jp.1323290
title: Taxonomisch-nomenklatorische Notiz zur Gattung Picea A. DIETR. / Peter A. Schmidt
DOI: 10.6084/m9.figshare.7479200
title: Additional file 10: of Comparative transcriptome analysis revealed key factors for differential cadmium transport and retention in roots of two contrasting peanut cultivars

description: Table S8. List of enriched pathways for DEGs in four comparisons. Pathways with a corrected P-value â ¤Â 0.01 were regard as significantly enriched pathways in DEGs. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.7479212
title: Additional file 14: of Comparative transcriptome analysis revealed key factors for differential cadmium transport and retention in roots of two contrasting peanut cultivars

description: Table S12. The DEGs involved in cell wall metabolism and Cd chelating in two peanut cultivars. Items highlighted in red mean up-regulated, while in green mean down-regulated. (XLSX 71 kb)
DOI: 10.6084/m9.figshare.7479221.v1
title: Additional file 1: of Comparative transcriptome analysis revealed key factors for differential cadmium transport and retention in roots of two contrasting peanut cultivars

description: Table S1. Overview of raw and clean reads in Cd-free (CK) and Cd-treated (Cd) for two peanut cultivars. (XLSX 10 kb)
DOI: 10.24403/jp.1323292
title: Eine neue Tillandsia aus Argentinien / Lieselotte Hromadnik und Peter Schneider
DOI: 10.6084/m9.figshare.7479227
title: Additional file 3: of Comparative transcriptome analysis revealed key factors for differential cadmium transport and retention in roots of two contrasting peanut cultivars

description: Table S3. Summary of novel transcripts. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.7479236.v1
title: Additional file 6: of Comparative transcriptome analysis revealed key factors for differential cadmium transport and retention in roots of two contrasting peanut cultivars

description: Table S5. List of differentially expressed genes in four groups based on pairwise comparisons. (XLSX 27764 kb)
DOI: 10.6084/m9.figshare.23732227
title: The complete chloroplast genome and phylogenetic analysis of <i>Jacobaea maritima</i> (Asteraceae)

description: <i>Jacobaea maritima</i> is an important horticulture plant in the genus <i>Jacobaea.</i> Here, we assembled the complete chloroplast genome of <i>J. maritima</i>. The chloroplast genome was 153,857 bp in length, with a pair of inverted repeat regions (IRs) (27,936 bp) separated by a large single-copy region (LSC) (82,771 bp) and a small single-copy region (SSC) (15,214 bp). The complete chloroplast genome contained 112 unique genes, including 79 protein-coding genes, 29 tRNA genes, and 4 rRNA genes. The phylogenetic analysis showed <i>Jacobaea</i> was more closely related to <i>Senecio</i>, <i>Crassocephalum</i> and <i>Gynura</i>. The chloroplast genome of <i>J. maritima</i> can provide data to support future phylogenetic studies of <i>Jacobaea</i>.
DOI: 10.6084/m9.figshare.23732227.v1
title: The complete chloroplast genome and phylogenetic analysis of <i>Jacobaea maritima</i> (Asteraceae)

description: <i>Jacobaea maritima</i> is an important horticulture plant in the genus <i>Jacobaea.</i> Here, we assembled the complete chloroplast genome of <i>J. maritima</i>. The chloroplast genome was 153,857 bp in length, with a pair of inverted repeat regions (IRs) (27,936 bp) separated by a large single-copy region (LSC) (82,771 bp) and a small single-copy region (SSC) (15,214 bp). The complete chloroplast genome contained 112 unique genes, including 79 protein-coding genes, 29 tRNA genes, and 4 rRNA genes. The phylogenetic analysis showed <i>Jacobaea</i> was more closely related to <i>Senecio</i>, <i>Crassocephalum</i> and <i>Gynura</i>. The chloroplast genome of <i>J. maritima</i> can provide data to support future phylogenetic studies of <i>Jacobaea</i>.
DOI: 10.6084/m9.figshare.6955070
title: Discovery of novel candidate genes for coat colour in Wuzhishan pigs by integrating SNP and mRNA expression analyses

description: SNP and phenotype data of 215 Wuzhishan pigs were uploaded here. You can download the data by yourself. If you want to use our data and publish paper, please get our agreement in the first. This is my email:xuqiao987@163.com<strong>.</strong><strong> Thanks for your reading.<br></strong>
DOI: 10.6084/m9.figshare.19533929
title: Additional file 1 of CircUBE2Q2 promotes differentiation of cattle muscle stem cells and is a potential regulatory molecule of skeletal muscle development

description: Additional file 1: Figure S1. Isolation, culture and differentiation of Guangxi cattle muscle stem cells (A) Cattle fetus around 3 months old. (B) Primary muscle stem cells cultured in vitro for 48 hours. (C) GM sample (proliferation) of MuSCs. (D) DM sample (differentiation) of MuSCs. (scale bars = 100/200 μm). Figure S2. The workflow of RNA-seq. Figure S3. Cluster analysis of differentially expressed RNA in MuSCs.(A–D) Volcano plots (below) displaying the differentially expressed transcripts and the hierarchical cluster analysis is shown above of each panel which displays the differential expression of RNAs in three DM samples and three GM samples of MuSCs. (A) mRNAs, (B) miRNAs, (C) lncRNAs and (D) circRNAs. The blue and yellow dots represent downregulated and upregulated RNAs in DM of MuSCs respectively, when compared with GM. The grey dots indicate no significant difference. Figure S4. Characteristics of circular RNA in MuSCs of Guangxi Cattle. (A) Distribution of genomic regions from where the detected circRNAs were derived. (B) Chromosomal distribution of circRNAs. (C) Distribution of the number of circRNAs per gene. (D) Distribution of sample expression for circRNAs. (E) Length distribution of cricRNAs. (F) SRPBM distribution of circRNAs. Figure S5-B. Cell transfection of overexpression vector pK25-circUBE2Q2 and visualization of the efficiency of circUBE2Q2. Figure S6. Vector construction of plasmids. Figure S7. Identification results of candidate miRNAs. Figure S8. The culture and adipogenic differentiation of SVFs. Figure S9. Validation of RNAs identified from RNA-seq in cattle MuSCs. Table S1. The information of differential RNAs. Table S2. a primers for RT-PCR. b primers for RT-qPCR. c primers for PCR. d primers for vector construction.
DOI: 10.6084/m9.figshare.19533929.v1
title: Additional file 1 of CircUBE2Q2 promotes differentiation of cattle muscle stem cells and is a potential regulatory molecule of skeletal muscle development

description: Additional file 1: Figure S1. Isolation, culture and differentiation of Guangxi cattle muscle stem cells (A) Cattle fetus around 3 months old. (B) Primary muscle stem cells cultured in vitro for 48 hours. (C) GM sample (proliferation) of MuSCs. (D) DM sample (differentiation) of MuSCs. (scale bars = 100/200 μm). Figure S2. The workflow of RNA-seq. Figure S3. Cluster analysis of differentially expressed RNA in MuSCs.(A–D) Volcano plots (below) displaying the differentially expressed transcripts and the hierarchical cluster analysis is shown above of each panel which displays the differential expression of RNAs in three DM samples and three GM samples of MuSCs. (A) mRNAs, (B) miRNAs, (C) lncRNAs and (D) circRNAs. The blue and yellow dots represent downregulated and upregulated RNAs in DM of MuSCs respectively, when compared with GM. The grey dots indicate no significant difference. Figure S4. Characteristics of circular RNA in MuSCs of Guangxi Cattle. (A) Distribution of genomic regions from where the detected circRNAs were derived. (B) Chromosomal distribution of circRNAs. (C) Distribution of the number of circRNAs per gene. (D) Distribution of sample expression for circRNAs. (E) Length distribution of cricRNAs. (F) SRPBM distribution of circRNAs. Figure S5-B. Cell transfection of overexpression vector pK25-circUBE2Q2 and visualization of the efficiency of circUBE2Q2. Figure S6. Vector construction of plasmids. Figure S7. Identification results of candidate miRNAs. Figure S8. The culture and adipogenic differentiation of SVFs. Figure S9. Validation of RNAs identified from RNA-seq in cattle MuSCs. Table S1. The information of differential RNAs. Table S2. a primers for RT-PCR. b primers for RT-qPCR. c primers for PCR. d primers for vector construction.
DOI: 10.6084/m9.figshare.14816055.v2
title: Nickel (ii) effects on Anammox reaction: reactor performance, dehydrogenase, sludge morphology and microbial community changes

description: Nickel (ii) (Ni<sup>2+</sup>) is considered as one of the necessary trace elements in the process of Anammox culture, but it may have toxic effects at high concentration. This study explored the long-term influence of Ni<sup>2+</sup> on the denitrification efficiency of Anammox bioreactors. The results showed that when the concentration of Ni<sup>2+</sup> was 0.5 mg/L, the bioreactor had the highest denitrification efficiency, while the removal efficiency of ammonia nitrogen and nitrite nitrogen gradually decreased at concentrations higher than 2 mg/L, and the removal rates of ammonia nitrogen and nitrite nitrogen were 26% and 39.81% at the end of the experiment, respectively. The NRR was decreased from 7.47 kg N/m<sup>3</sup> d to 3.28 kg N/m<sup>3</sup> d during the whole process. The highest concentration of microbial dehydrogenase was attained in about 40 days; in the meantime, its ability to consume organic matter was also maximized. The sludge morphology was changed from granular cluster to loose flocculant with a small number of spherical and filamentous bacteria and bacilli distributed on the surface. At the end of the experiment, both species richness and community diversity were reduced, and the proportion of the dominant bacteria <i>Candidatus</i> Kuenenia was also decreased from 59.89% to 36.72%.
DOI: 10.6084/m9.figshare.14815286
title: Emodin alleviates high glucose-induced oxidative stress, inflammation and extracellular matrix accumulation of mesangial cells by the circ_0000064/miR-30c-5p/<i>Lmp7</i> axis

description: Emodin has been shown to exert a renoprotective effect in diabetic nephropathy (DN). In this paper, we investigated whether circular RNAs (circRNAs) might be involved in the renoprotective mechanism of emodin in DN. The levels of malondialdehyde (MDA), reactive oxygen species (ROS), superoxide dismutase (SOD), interleukin-1β (IL-1β), IL-6 and tumor necrosis factor-α (TNF-α) were measured using the corresponding assay kits. The expression levels of circ_0000064, microRNA (miR)-30c-5p, large multifunctional protease 7 (<i>Lmp7</i>), fibronectin (FN), and collagen type I (Col.1) were gauged by quantitative real-time polymerase chain reaction (qRT-PCR) or western blot. Subcellular localization assay was used to assess the cellular localization of circ_0000064. Targeted relationships among circ_0000064, miR-30c-5p and <i>Lmp7</i> were confirmed by dual-luciferase reporter, RNA pull-down and RNA immunoprecipitation (RIP) assays. Our data showed the alleviative effect of emodin on HG-induced oxidative stress, inflammation and extracellular matrix (ECM) accumulation in SV-MES13 cells. Circ_0000064 was an importantly downstream effector of emodin function in HG-induced SV40-MES13 cells. Moreover, circ_0000064 directly targeted miR-30c-5p, and circ_0000064 modulated <i>Lmp7</i> expression through miR-30c-5p. Circ_0000064 silencing alleviated HG-induced cell oxidative stress, inflammation and ECM accumulation <i>via</i> up-regulating miR-30c-5p. The enforced expression of miR-30c-5p attenuated HG-induced oxidative stress, inflammation and ECM accumulation in SV40-MES13 cells by targeting <i>Lmp7</i>. Our findings identified that emodin alleviated HG-induced oxidative stress, inflammation and ECM accumulation in SV40-MES13 cells at least partially by the regulation of the circ_0000064/miR-30c-5p/<i>Lmp7</i> axis.
DOI: 10.6084/m9.figshare.14815286.v1
title: Emodin alleviates high glucose-induced oxidative stress, inflammation and extracellular matrix accumulation of mesangial cells by the circ_0000064/miR-30c-5p/<i>Lmp7</i> axis

description: Emodin has been shown to exert a renoprotective effect in diabetic nephropathy (DN). In this paper, we investigated whether circular RNAs (circRNAs) might be involved in the renoprotective mechanism of emodin in DN. The levels of malondialdehyde (MDA), reactive oxygen species (ROS), superoxide dismutase (SOD), interleukin-1β (IL-1β), IL-6 and tumor necrosis factor-α (TNF-α) were measured using the corresponding assay kits. The expression levels of circ_0000064, microRNA (miR)-30c-5p, large multifunctional protease 7 (<i>Lmp7</i>), fibronectin (FN), and collagen type I (Col.1) were gauged by quantitative real-time polymerase chain reaction (qRT-PCR) or western blot. Subcellular localization assay was used to assess the cellular localization of circ_0000064. Targeted relationships among circ_0000064, miR-30c-5p and <i>Lmp7</i> were confirmed by dual-luciferase reporter, RNA pull-down and RNA immunoprecipitation (RIP) assays. Our data showed the alleviative effect of emodin on HG-induced oxidative stress, inflammation and extracellular matrix (ECM) accumulation in SV-MES13 cells. Circ_0000064 was an importantly downstream effector of emodin function in HG-induced SV40-MES13 cells. Moreover, circ_0000064 directly targeted miR-30c-5p, and circ_0000064 modulated <i>Lmp7</i> expression through miR-30c-5p. Circ_0000064 silencing alleviated HG-induced cell oxidative stress, inflammation and ECM accumulation <i>via</i> up-regulating miR-30c-5p. The enforced expression of miR-30c-5p attenuated HG-induced oxidative stress, inflammation and ECM accumulation in SV40-MES13 cells by targeting <i>Lmp7</i>. Our findings identified that emodin alleviated HG-induced oxidative stress, inflammation and ECM accumulation in SV40-MES13 cells at least partially by the regulation of the circ_0000064/miR-30c-5p/<i>Lmp7</i> axis.
DOI: 10.4121/df349dfc-9668-4169-a7d6-9852d68b4adf.v2
title: Data underlying the publication: Building a Mycenaean chamber tomb catalogue from terrestrial laser scan data

description: The Aidonia cemetery is an archeological site on the Peleponnese Peninsula in Greece. It was constructed in the Late Bronze Age and consists of chamber tombs dug into rock outcrops. In August 2019, a team of researchers from TU Delft and University of Stavanger acquired detailed 3D scan data of the Aidonia site using a Leica P40 laser scanner. The team scanned the site from 51 scan positions. 29 positions were focusing on the chamber tombs while the other 22 positions sampled the overall cemetery setting. The scans were combined in a common coordinate system providing a point cloud consisting of ~5.9 billion points. Analysis of the point cloud notably provided insight in the architectural setting and current status of the different tombs. The data set in this repository consist of the raw, aligned point cloud. A detailed description of the point cloud data and its application in documenting the status of the Aidoinia cemetery can be found in the corresponding publication, at https://doi.org/10.1016/j.daach.2024.e00319.<br>
DOI: 10.6084/m9.figshare.14816055
title: Nickel (ii) effects on Anammox reaction: reactor performance, dehydrogenase, sludge morphology and microbial community changes

description: Nickel (ii) (Ni<sup>2+</sup>) is considered as one of the necessary trace elements in the process of Anammox culture, but it may have toxic effects at high concentration. This study explored the long-term influence of Ni<sup>2+</sup> on the denitrification efficiency of Anammox bioreactors. The results showed that when the concentration of Ni<sup>2+</sup> was 0.5 mg/L, the bioreactor had the highest denitrification efficiency, while the removal efficiency of ammonia nitrogen and nitrite nitrogen gradually decreased at concentrations higher than 2 mg/L, and the removal rates of ammonia nitrogen and nitrite nitrogen were 26% and 39.81% at the end of the experiment, respectively. The NRR was decreased from 7.47 kg N/m<sup>3</sup> d to 3.28 kg N/m<sup>3</sup> d during the whole process. The highest concentration of microbial dehydrogenase was attained in about 40 days; in the meantime, its ability to consume organic matter was also maximized. The sludge morphology was changed from granular cluster to loose flocculant with a small number of spherical and filamentous bacteria and bacilli distributed on the surface. At the end of the experiment, both species richness and community diversity were reduced, and the proportion of the dominant bacteria <i>Candidatus</i> Kuenenia was also decreased from 59.89% to 36.72%.
DOI: 10.6084/m9.figshare.21107437
title: A new technique for Asian nasal tip shaping: "twin tower" folding ear cartilage transplantation

description: Rhinoplasty focuses on the establishment of the structural support of nasal cartilage and the shaping of the nasal tip. The purpose of this study was to explore the application of "double tower" folding ear cartilage transplantation for nasal tip shaping in rhinoplasty.
DOI: 10.6084/m9.figshare.5903236
title: Additional file 11: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S8. Significant pathways of subtype gene signatures of active transcription states and active transcription flanking states. (XLSX 18Â kb)
DOI: 10.6084/m9.figshare.5903254
title: Additional file 12: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S9 Significant upstream regulators of subtype gene signatures of active transcription states and active transcription flanking states. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.5903290
title: Additional file 14: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S6. List of genes with subtype specific repressive polycomb domain states. (XLS 10Â kb)
DOI: 10.6084/m9.figshare.16912508.v1
title: VAP-PLGA Microspheres (VAP-PLGA) Promote Adipose-Derived Stem Cells (ADSCs)-Induced Wound Healing in Chronic Skin Ulcers in Mice via PI3K/Akt/HIF-1α Pathway

description: Chronic skin ulcers are a primary global health problem. Velvet antler polypeptide (VAP) regulates endothelial cell migration and angiogenic sprout. Adipose-derived stem cells (ADSCs) are reported to make pivotal impacts upon wound healing. This study aimed to explore the role of VAP combined with ADSCs in wound healing of chronic skin ulcers. The effect of VAP on phenotypes of ADSCs, and VAP (PLGA microspheres) combining with ADSCs on wound healing of chronic skin ulcers <i>in vivo</i> were evaluated. VAP generally promoted the proliferation, migration and invasion of ADSCs, and ADSC-induced angiogenesis in human umbilical vein endothelial cells (HUVECs) through PI3K/Akt/HIF-1α pathway. VAP-PLGA (PLGA microspheres) enhanced the promoting effect of ADSCs on wound healing, pathological changes and angiogenesis in chronic skin ulcers <i>in vivo</i>. VAP-PLGA intensified the effect of ADSCs on up-regulating the levels of p-PI3K/PI3K, p-Akt/Akt, HIF-1α, vascular endothelial growth factor (VEGF), stromal cell-derived factor-1 (SDF-1), C-X-C motif chemokine receptor 4 (CXCR4), angiopoietin-4 (Ang-4), VEGF receptor (VEGFR), and transforming growth factor-β1 (TGF-β1), and down-regulating the levels of interleukin-1 β (IL-1β), IL-18 and IL-6 in wound tissues in chronic skin ulcers <i>in vivo</i>. Collectively,VAP promoted the growth, migration, invasion and angiogenesis of ADSCs through activating PI3K/Akt/HIF-1α pathway, and VAP-PLGA enhanced the function of ADSCs in promoting wound healing <i>in vivo</i>, which was associated with angiogenesis, inflammation inhibition and dermal collagen synthesis.
DOI: 10.6084/m9.figshare.5903227
title: Additional file 10: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S7. Subtype gene signatures of active transcription states and active transcription flanking states. (XLSX 23Â kb)
DOI: 10.6084/m9.figshare.19533866.v1
title: Additional file 2 of Identification and functional analysis of cation-efflux transporter 1 from Brassica juncea L.

description: Additional file 2: Table S1. The detail information of the primer sequences.
DOI: 10.6084/m9.figshare.21107437.v1
title: A new technique for Asian nasal tip shaping: "twin tower" folding ear cartilage transplantation

description: Rhinoplasty focuses on the establishment of the structural support of nasal cartilage and the shaping of the nasal tip. The purpose of this study was to explore the application of "double tower" folding ear cartilage transplantation for nasal tip shaping in rhinoplasty.
DOI: 10.6084/m9.figshare.19533866
title: Additional file 2 of Identification and functional analysis of cation-efflux transporter 1 from Brassica juncea L.

description: Additional file 2: Table S1. The detail information of the primer sequences.
DOI: 10.6084/m9.figshare.21107437.v2
title: A new technique for Asian nasal tip shaping: "twin tower" folding ear cartilage transplantation

description: Rhinoplasty focuses on the establishment of the structural support of nasal cartilage and the shaping of the nasal tip. The purpose of this study was to explore the application of "double tower" folding ear cartilage transplantation for nasal tip shaping in rhinoplasty.
DOI: 10.6084/m9.figshare.19533960
title: Additional file 1 of Comparative and phylogenetic analyses of six Kenya Polystachya (Orchidaceae) species based on the complete chloroplast genome sequences

description: Additional file 1: Table S1. Taxonomic and GenBank accession information forsamples used for phylogenetic analyses (85). Table S2 and S3. Types of genes annotation and the intron-containing genes within the chloroplastgenomes of six Polystachya species. Table S4. Codonusage within the chloroplast genomes of six Polystachyaspecies. Table S5. Typesand amounts of SSRs within the chloroplast genomes of six Polystachya species. Table S6. Locationof repeat sequences within the chloroplast genomes of six Polystachya species. Table S7. Comparisonof site models for the 68 shared CDSs in the chloroplast genomes of six Polystachyaspecies and results of LRT. Table S8. Positiveselection sites based on BEB analysis in the M8 model detected in thechloroplast genomes of six Polystachya species. Table S9. Theoverall view of all gene alignment in the complete chloroplast genomes of six Polystachyaspecies. Table S10. Phylogenetictree constructed using ML and BI methods, based on the first and second codonpositions of 79 CDSs of whole cp genomes from 85 taxa.
DOI: 10.6084/m9.figshare.5903374
title: Additional file 7: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S5. List of genes with subtype specific active enhancer states. (XLS 212Â kb)
DOI: 10.6084/m9.figshare.5903320
title: Additional file 17: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S10. RNA-seq gene expression read count. (XLSX 8751Â kb)
DOI: 10.6084/m9.figshare.5903344
title: Additional file 2: of Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes

description: Table S1. ChIP-seq sample alignment summary. (XLSX 66Â kb)