cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12319301
title: Figure 2. B

description: Heatmap of genes differentially expressed in VCF and VNCF.
DOI: 10.6084/m9.figshare.12319298.v1
title: Figure 2. A

description: Characterization of VCF and VNCF in culture.
DOI: 10.6084/m9.figshare.12319310.v1
title: Figure 2. C

description: PCA of genes differentially expressed in VCF and VNCF.
DOI: 10.6084/m9.figshare.12319337.v1
title: Comprehensive transcriptome profiling for response to phytohormone-induced signaling in Capsicum annuum L.

description: Additional files generated upon qualification and validation with pepper transcriptome of plant hormone treatment Blast information for GO enrichment analysis.zip --- Blast information from four phytohormones treatment DEG result for each treatment.zip --- DEG information from four phytohormones treatment Gene set enrichment analysis.zip --- Results of GO enrichment analysis from four phytohormones treatment Plant hormone-related gene sets with each phytohormone.zip --- Plant hormone-related gene sets for validation with known genes. Normalized FPKM.xlsx --- Expression profiling of TMM normalized data from four phytohormones treatment Statistical summary of RNA-seq for each treatment.xlsx --- Detailed pepper RNA-seq information used in this study
DOI: 10.6084/m9.figshare.12319292
title: Figure 1. Summary data

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319292.v1
title: Figure 1. Summary data

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319295
title: CDK4/6 inhibition presents as a therapeutic option for pediatric and adult germ cell tumors and induces cell cycle arrest and apoptosis via canonical and non-canonical mechanisms

description: <b>Background: </b>Germ cell tumors (GCTs) are the most common solid malignancies in young men. Although high cure rates at early stages can be achieved, metastases, resistance to cisplatin-based therapy, and late toxicities still represent a lethal threat, arguing for the need of new therapeutic options. In this study, we analyzed the potential of CDK4/6 inhibitors palbociclib and ribociclib (PaRi) as molecular drugs to treat cisplatin-resistant and -sensitive pediatric and adult GCTs.<b>Results:</b> We demonstrate that adult GCTs<i> </i>highly express <i>CDK4</i>, while pediatric GCTs strongly express <i>CDK6</i>instead. Thus, both GCT types are potentially treatable by PaRi. GCTs presented as highly sensitive towards PaRi, which caused a decrease in viability, cell cycle arrest and apoptosis. Although GCTs mainly arrested in G1/G0 phase, some embryonal carcinoma (EC) cell lines were able to bypass the G1/S checkpoint and progressed to G2/M phase. We found that upregulation of <i>CDK3</i> and downregulation of many mitosis-regulation factors, like the <i>HAUS</i> genes, might be responsible for bypassing the G1/S checkpoint and termination of mitosis, respectively. We postulate that GCT cells do not tolerate these alterations in the cell cycle and eventually induce apoptosis. <b>Conclusion:</b> Our study highlights PaRi as therapeutic options for cisplatin-resistant and -sensitive pediatric and adult GCTs.
DOI: 10.6084/m9.figshare.12319301.v1
title: Figure 2. B

description: Heatmap of genes differentially expressed in VCF and VNCF.
DOI: 10.6084/m9.figshare.12319286
title: Figure 1. B

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319337.v2
title: Comprehensive transcriptome profiling for response to phytohormone-induced signaling in Capsicum annuum L.

description: Additional files generated upon qualification and validation with pepper transcriptome of plant hormone treatment Blast information for GO enrichment analysis.zip --- Blast information from four phytohormones treatment DEG result for each treatment.zip --- DEG information from four phytohormones treatment Gene set enrichment analysis.zip --- Results of GO enrichment analysis from four phytohormones treatment Plant hormone-related gene sets with each phytohormone.zip --- Plant hormone-related gene sets for validation with known genes. Normalized FPKM.xlsx --- Expression profiling of TMM normalized data from four phytohormones treatment Statistical summary of RNA-seq for each treatment.xlsx --- Detailed pepper RNA-seq information used in this study
DOI: 10.6084/m9.figshare.12319286.v1
title: Figure 1. B

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319289
title: Figure 1. C

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319289.v1
title: Figure 1. C

description: Expression of markers in VCF.
DOI: 10.6084/m9.figshare.12319337.v3
title: Comprehensive transcriptome resource for response to phytohormone-induced signaling in Capsicum annuum L.

description: <b>Additional files generated upon qualification and validation with pepper transcriptome of plant hormone treatment</b><b><br></b><b>Dataset 1</b> --- Schematic workflow of experimental design and bioinformatics analysis in this study. <b>Dataset 2 </b>--- Detailed pepper RNA-seq information used in this study<b>Dataset 3 -</b>-- Expression profiling of TMM normalized data from four phytohormones treatment<b>Dataset 4 </b>--- Quality assessment metrics for RNA-seq data. <b>Dataset 5 </b>--- DEG information from four phytohormones treatment<b>Dataset 6 </b>--- Plant hormone-related gene sets for validation with known genes.<b>Dataset 7 </b>--- Blast information from four phytohormones treatment<b>Dataset 8 </b>--- Results of GO enrichment analysis from four phytohormones treatment<b>Dataset 9 </b>--- Global expression pattern of plant hormone-related transcriptomes in pepper.
DOI: 10.6084/m9.figshare.12319214
title: tancaite-(Ce) data set. CIF and FCF files

description: CIF file and X-ray diffraction data for the new mineral tancaite-(Ce)
DOI: 10.6084/m9.figshare.12319214.v1
title: tancaite-(Ce) subcell

description: CIF file and X-ray diffraction data for the new mineral tancaite-(Ce)
DOI: 10.6084/m9.figshare.12319214.v3
title: tancaite-(Ce) data set. CIF and FCF files

description: CIF file and X-ray diffraction data for the new mineral tancaite-(Ce)
DOI: 10.6084/m9.figshare.12319337
title: Comprehensive transcriptome resource for response to phytohormone-induced signaling in Capsicum annuum L.

description: <b>Additional files generated upon qualification and validation with pepper transcriptome of plant hormone treatment</b>Data file 1. Schematic workflow of experimental design and bioinformatics analysis in this study<br>Data file 2. Statistical summary of RNA-seq with SRA accession numbers for each treatment --- Detailed pepper RNA-seq information used in this studyData file 3. Quality assessment metrics for RNA-seq data<br>Data file 4. Normalized FPKM --- Expression profiling of TMM normalized data from four phytohormones treatment<br>
DOI: 10.6084/m9.figshare.12319214.v2
title: tancaite-(Ce) subcell

description: CIF file and X-ray diffraction data for the new mineral tancaite-(Ce)
DOI: 10.6084/m9.figshare.12319016
title: Additional file 5 of Correction to: Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming

description: Additional file 5. A zip archive with the R script and necessary input files needed to reproduce all statistical analyses and graphics.
DOI: 10.6084/m9.figshare.12319016.v1
title: Additional file 5 of Correction to: Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming

description: Additional file 5. A zip archive with the R script and necessary input files needed to reproduce all statistical analyses and graphics.
DOI: 10.6084/m9.figshare.12319010
title: Additional file 4 of Correction to: Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming

description: Additional file 4. A zip archive comprising the command line code and necessary input files needed to replicate bioinformatic analysis.
DOI: 10.6084/m9.figshare.12319010.v1
title: Additional file 4 of Correction to: Cropping practices manipulate abundance patterns of root and soil microbiome members paving the way to smart farming

description: Additional file 4. A zip archive comprising the command line code and necessary input files needed to replicate bioinformatic analysis.
DOI: 10.11583/dtu.12318917
title: Appendix F - Results of the evaluation of Circular Economy Business Model patterns by experts

description: This dataset supports the Appendix F of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies".<br>The dataset summarises the results for the evaluation of the Circular Economy Business Model patterns by academic experts.
DOI: 10.11583/dtu.12318914
title: Appendix E - Results of the evaluation of the stage ‘Transform’ of the Circular Economy Business Modelling/Innovation process model

description: This dataset supports the Appendix E of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies". <br>The dataset summarises the results for the evaluation of the stage ‘Transform’ (activities 8, 9 and 10) of the Circular Economy Business Modelling/Innovation process model by manufacturing companies.
DOI: 10.11583/dtu.12318917.v2
title: Appendix F - Results of the evaluation of Circular Economy Business Model patterns by experts

description: This dataset supports the Appendix F of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies".<br>The dataset summarises the results for the evaluation of the Circular Economy Business Model patterns by academic experts.
DOI: 10.11583/dtu.12318917.v1
title: Appendix F - Evaluation of Circular Economy Business Model patterns by experts

description: This dataset supports the Appendix F of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies".<br>The dataset summarises the results for the evaluation of the Circular Economy Business Model patterns by academic experts.
DOI: 10.11583/dtu.12318914.v2
title: Appendix E - Results of the evaluation of the stage ‘Transform’ of the Circular Economy Business Modelling/Innovation process model

description: This dataset supports the Appendix E of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies". <br>The dataset summarises the results for the evaluation of the stage ‘Transform’ (activities 8, 9 and 10) of the Circular Economy Business Modelling/Innovation process model by manufacturing companies.
DOI: 10.11583/dtu.12318914.v1
title: Appendix E - Evaluation of the stage ‘Transform’ of the Circular Economy Business Modelling/Innovation process model

description: This dataset supports the Appendix E of the PhD thesis "Circular Economy Business Modelling: decoupling value creation from resource consumption within manufacturing companies". <br>The dataset summarises the results for the evaluation of the stage ‘Transform’ (activities 8, 9 and 10) of the Circular Economy Business Modelling/Innovation process model by manufacturing companies.
DOI: 10.6084/m9.figshare.12860270
title: Functionality investigation

description: This dataset provides step by step the methodology followed to examine the functionality of the 5 milk samples by shotgun metagenome analysis. <br>First the NSLAB present in the 5 milk samples were annotated.Then the genes from the annotated scaffolds were used against a reference microorganism in KEGG (for further details read the related manuscript) for the 15 pathways related to proteolysisFinally redundancy and uniqueness of genes related to the pathways is provided per sample.<br><br>
DOI: 10.6084/m9.figshare.12318848
title: Large Tridactyl Dinosaur Tracks from the Early Jurassic Upper Moyeni, Lesotho, southern Africa

description: The data included here are the photogrammetric models that are supplemental to the following paper: Abrahams, M., Sciscio L., Reid, M., Haupt, T. & Bordy, E. M., 2020. Large tridactyl dinosaur tracks from the Early Jurassic of southern Gondwana - uppermost Elliot Formation, Upper Moyeni, Lesotho. Annales Societatis Geologorum Poloniae, 90:https://doi.org/10.14241/asgp.2020.07 <br><b>Abstract</b>: A new ichnosite in southwest Lesotho (Upper Moyeni; Quthing District) is located within the uppermost part of the highly fossiliferous Elliot Formation, ~ 35 m below the conformably overlying Clarens Formation and ~ 65 m above the world-renowned Lower Moyeni ichnosite. While the Lower Moyeni site preserves diverse Early Jurassic ichnofossils, the ichnites at the Upper Moyeni comprise one vertebrate burrow and ~ 50 tridactyl tracks with footprint lengths between 15 and 51 cm. Many of the tracks preserve digital pad impressions, claw marks and displacement rims, all related to substrate conditions. The morphometric parameters of the Upper Moyeni tracks are consistent with <i>Grallator</i>, <i>Eubrontes </i>and<i> Kayentapus</i>. Several larger tracks with footprint lengths &gt; 40 cm are <i>Kayentapus</i>-like and <i>Eubrontes</i>-like, and are comparable to previously described very large theropods tracks with lengths &gt; 50 cm from the uppermost Elliot and Clarens Formations. Based on sedimentological and ichnological evidence, the Upper Moyeni ichnofossils were formed in a palaeolandscape with small rivers and shallow lakes by burrowing tetrapods and a variety of bipedal dinosaurs (theropods), some of which were up to 7–8 m in body length. The Upper Moyeni tracks together with the other very large tracks from coeval locations in southern Africa collectively highlight the tendency towards increasing diversity in size of tridactyl tracks, and by extension trackmaker body size, which runs in tandem to the increasing diversity of non-sauropod sauropodomorph body fossils in the Sinemurian-Pliensbachian of southern Gondwana.<br>
DOI: 10.6084/m9.figshare.12860270.v1
title: Functionality investigation

description: This dataset provides step by step the methodology followed to examine the functionality of the 5 milk samples by shotgun metagenome analysis. <br>First the NSLAB present in the 5 milk samples were annotated.Then the genes from the annotated scaffolds were used against a reference microorganism in KEGG (for further details read the related manuscript) for the 15 pathways related to proteolysisFinally redundancy and uniqueness of genes related to the pathways is provided per sample.<br><br>
DOI: 10.6084/m9.figshare.12318848.v1
title: Large Tridactyl Dinosaur Tracks from the Early Jurassic Upper Moyeni, Lesotho, southern Africa

description: The data included here are the photogrammetric models that are supplemental to the following paper: Abrahams, M., Sciscio L., Reid, M., Haupt, T. & Bordy, E. M., 2020. Large tridactyl dinosaur tracks from the Early Jurassic of southern Gondwana - uppermost Elliot Formation, Upper Moyeni, Lesotho. Annales Societatis Geologorum Poloniae, 90:https://doi.org/10.14241/asgp.2020.07 <br><b>Abstract</b>: A new ichnosite in southwest Lesotho (Upper Moyeni; Quthing District) is located within the uppermost part of the highly fossiliferous Elliot Formation, ~ 35 m below the conformably overlying Clarens Formation and ~ 65 m above the world-renowned Lower Moyeni ichnosite. While the Lower Moyeni site preserves diverse Early Jurassic ichnofossils, the ichnites at the Upper Moyeni comprise one vertebrate burrow and ~ 50 tridactyl tracks with footprint lengths between 15 and 51 cm. Many of the tracks preserve digital pad impressions, claw marks and displacement rims, all related to substrate conditions. The morphometric parameters of the Upper Moyeni tracks are consistent with <i>Grallator</i>, <i>Eubrontes </i>and<i> Kayentapus</i>. Several larger tracks with footprint lengths &gt; 40 cm are <i>Kayentapus</i>-like and <i>Eubrontes</i>-like, and are comparable to previously described very large theropods tracks with lengths &gt; 50 cm from the uppermost Elliot and Clarens Formations. Based on sedimentological and ichnological evidence, the Upper Moyeni ichnofossils were formed in a palaeolandscape with small rivers and shallow lakes by burrowing tetrapods and a variety of bipedal dinosaurs (theropods), some of which were up to 7–8 m in body length. The Upper Moyeni tracks together with the other very large tracks from coeval locations in southern Africa collectively highlight the tendency towards increasing diversity in size of tridactyl tracks, and by extension trackmaker body size, which runs in tandem to the increasing diversity of non-sauropod sauropodomorph body fossils in the Sinemurian-Pliensbachian of southern Gondwana.<br>
DOI: 10.6084/m9.figshare.12318728
title: S1_Raw_Images

description: Raw blot data with molecular markers.
DOI: 10.6084/m9.figshare.12318728.v1
title: S1_Raw_Images

description: Raw blot data with molecular markers.
DOI: 10.25392/leicester.data.12318695
title: Appendix I: PCR Design

description: PhD thesis: PRDM9 Diversity, Recombination Landscapes and Childhood Leukaemia by Ihthisham Ali <br><br>This appendix includes PCR designs for the recombination hotspot crossover assays done in the DNA3 and newly described AA hotspots in the MHCII, duplex PCR for screening for K-ZnF containing PRDM9 alleles in a British ALL cohort and Sanger sequencing as carried out in this thesis. PCR primer characteristics, PCR cycling conditions, PCR strategy for target regions and sequence context of target regions, AA hotspot morphology analysis are included. <br>A. DNA3 and AA hotspotsB. ALL K-ZnF Screening duplex PCRC. PCR product for Sanger Sequencing PRDM9 ZnF array templateD. AA Hotspot ASP DesignE. AA Hotspot Universal Primer DesignF. DNA3 Hotspot Universal Primer DesignG. AA Hotspot Linkage PhasingH. d257 (20) RC mapping resolved by plates and series
DOI: 10.25392/leicester.data.12318695.v1
title: Appendix I: PCR Design

description: PhD thesis: PRDM9 Diversity, Recombination Landscapes and Childhood Leukaemia by Ihthisham Ali <br><br>This appendix includes PCR designs for the recombination hotspot crossover assays done in the DNA3 and newly described AA hotspots in the MHCII, duplex PCR for screening for K-ZnF containing PRDM9 alleles in a British ALL cohort and Sanger sequencing as carried out in this thesis. PCR primer characteristics, PCR cycling conditions, PCR strategy for target regions and sequence context of target regions, AA hotspot morphology analysis are included. <br>A. DNA3 and AA hotspotsB. ALL K-ZnF Screening duplex PCRC. PCR product for Sanger Sequencing PRDM9 ZnF array templateD. AA Hotspot ASP DesignE. AA Hotspot Universal Primer DesignF. DNA3 Hotspot Universal Primer DesignG. AA Hotspot Linkage PhasingH. d257 (20) RC mapping resolved by plates and series
DOI: 10.6084/m9.figshare.12318653.v1
title: Projected losses of ecosystem services due to coastal erosion in Europe

description: This dataset provides projections of losses to coastal ecosystem services induced by coastal erosion in Europe for years 2050 and 2100. It is particularly based on Corine Land Cover 2018 and probabilistic erosion projections by the European Commission - Joint Research Centre
DOI: 10.6084/m9.figshare.12854990
title: Protein_sequences

description: Protein sequencence generated from translations of CoDing Sequence (CDS) derived from gene predictions (Nucleotides_sequences files).
DOI: 10.6084/m9.figshare.12854990.v1
title: Protein_sequences

description: Protein sequencence generated from translations of CoDing Sequence (CDS) derived from gene predictions (Nucleotides_sequences files).
DOI: 10.6084/m9.figshare.12318644.v1
title: Data source for real time dispatch model considering frequency regulation behaviors.zip

description: We use IEEE 30-bus system and practical 661-bus utility system to verify the effectiveness of the proposed real rime dispatch model. The data of the IEEE 30-bus system has been uploaded. Due to the data privacy, we have not uploaded the data source of practical 661-bus utility system.
DOI: 10.6084/m9.figshare.12318590
title: Dataset for Biederman et al. 2020. Precipitation contributes to plant height, but not reproductive effort, for Platanthera praeclara Sheviak & Bowles; evidence from herbarium records

description: These data are extracted from photos of herbarium sheets containing Platanthera praeclara (western prairie fringed orchid). This is for the manuscript " Precipitation contributes to plant height, but not reproductive effort, for <i>Platanthera</i> <i>praeclara </i>Sheviak & Bowles; evidence from herbarium records". Methods for creation of data set available in manuscript.R code is not annotated, but is the final version<br>
DOI: 10.6084/m9.figshare.12318653.v2
title: Projected losses of ecosystem services due to coastal erosion in Europe

description: This dataset provides projections of losses to coastal ecosystem services induced by coastal erosion in Europe for years 2050 and 2100. It is particularly based on Corine Land Cover 2018 and probabilistic erosion projections by the European Commission - Joint Research Centre
DOI: 10.6084/m9.figshare.12318590.v2
title: Dataset for Biederman et al. 2020. Precipitation contributes to plant height, but not reproductive effort, for Platanthera praeclara Sheviak & Bowles; evidence from herbarium records

description: These data are extracted from photos of herbarium sheets containing Platanthera praeclara (western prairie fringed orchid). This is for the manuscript " Precipitation contributes to plant height, but not reproductive effort, for <i>Platanthera</i> <i>praeclara </i>Sheviak & Bowles; evidence from herbarium records". Methods for creation of data set available in manuscript.R code is not annotated, but is the final version<br>
DOI: 10.6084/m9.figshare.12318590.v1
title: Dataset for Biederman et al. 2020. Precipitation contributes to plant height, but not reproductive effort, for Platanthera praeclara Sheviak & Bowles; evidence from herbarium records

description: These data are extracted from photos of herbarium sheets containing Platanthera praeclara (western prairie fringed orchid). This is for the manuscript " Precipitation contributes to plant height, but not reproductive effort, for <i>Platanthera</i> <i>praeclara </i>Sheviak & Bowles; evidence from herbarium records". Methods for creation of data set available in manuscript.R code is not annotated, but is the final version<br>
DOI: 10.6084/m9.figshare.12318458.v1
title: DPRS_with_HMs

description: Raw data and scripts to reproduce the results in our paper entitled "Revealing taxon-specific heavy metal resistance mechanisms in denitrifying phosphorus removal sludge using genome-centric metaproteomics"
DOI: 10.6084/m9.figshare.12318458.v2
title: DPRS_with_HMs

description: Raw data and scripts to reproduce the results in our paper entitled "Revealing taxon-specific heavy metal resistance mechanisms in denitrifying phosphorus removal sludge using genome-centric metaproteomics"
DOI: 10.6084/m9.figshare.12318458.v3
title: Denitrifying phosphorus removal sludge treated by heavy metals

description: Raw data and source codes to reproduce the results in our paper entitled "Revealing taxon-specific heavy metal resistance mechanisms in denitrifying phosphorus removal sludge using genome-centric metaproteomics". Following the codes, readers can follow the metagenomic and metaproteomic pipelines used in this study.
DOI: 10.6084/m9.figshare.12317861
title: Additional file 8 of Hippocampal transcriptome analysis following maternal separation implicates altered RNA processing in a mouse model of fetal alcohol spectrum disorder

description: Additional file 8: Supplementary Table 6. Differentially expressed gene lists for Ethanol, Stress, and Ethanol + Stress as compared to controls via the HISAT2-featureCounts-DESeq2 pipeline, filtered by significance (p &lt; 0.01).