cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3637283_d4.v1
title: Additional file 7: of Accuracy of genomic selection for alfalfa biomass yield in different reference populations

description: List of barcodes, needed for sequence data demultiplexing for data set Me. (TXT 23Â kb)
DOI: 10.6084/m9.figshare.c.3637283_d7.v1
title: Additional file 5: of Accuracy of genomic selection for alfalfa biomass yield in different reference populations

description: List of SNPs, with flanking sequences, detected in Me data set. (ZIP 2658Â kb)
DOI: 10.6084/m9.figshare.c.3637289_d2.v1
title: Additional file 10: Table S8. of 
                     De novo assembly and sex-specific transcriptome profiling in the sand fly Phlebotomus perniciosus (Diptera, Phlebotominae), a major Old World vector of Leishmania infantum

description: Selected PERNI transcripts for qPCR validation of the in silico expression levels. (XLS 26Â kb)
DOI: 10.17863/cam.26383
title: Simulated low frequency vibrational normal modes for the alpha and gamma polymorphic forms of indomethacin.

description: `.xyz' files containing frames of each normal mode that can be loaded into a software package such as VMD or JMol to visualise each vibrational mode calculated for this manuscript.
DOI: 10.17863/cam.6778
title: Audience feedback from performance of Arthur Schnitzler's Professor Bernhardi

description: Pilot of new method of evaluation (impact-related evaluation) from two theatrical performances of Arthur Schnitzler's play Professor Bernhardi. The performances were preceded by talks by literary scholar Annja Neumann and clinical anatomist Cecilia Brassett. Feedback was requested from the audience with the following statement and question: “Arthur Schnitzler’s Professor Bernhardi explores the ethics of care and how they are rooted in different institutional contexts. Did today’s performance change your perspective on how we care for the sick or prompt any thoughts about the role of politics and religion in healthcare?”. Post-it notes on the back of the performance booklet provided space for comments. The audience was asked to leave their comments on a whiteboard after the performance. The feedback was solicited to evaluate the impact the event had on members of the public in the audience, and is deposited here as evidence to support future impact case studies. The image was created with the intention of using it as the basis for an interactive digital version of the feedback whiteboard, which would provide a transcription of the notes (using the project’s transcription tool Transcribo), and enable continued discussion and feedback via comment threads for each note. The performances, which took place on the 28th and 29th October 2016 in the Anatomy Lecture Theatre on the Downing Site, Cambridge, were a collaboration between theatre company [Foreign Affairs] and academics from the AHRC funded Schnitzler Digital Edition Project and the Department of Physiology, Development and Neuroscience. The image is a composite of 15 photos which were aligned and remapped using the panorama software Hugin. The photos were taken in the Anatomy Lecture Theatre following the second performance. Annja Neumann is responsible for the creative concept behind this method of evaluating public engagement as a means of collecting evidence of impact, as well as the question presented to the audience. Hal Blackburn is responsible for the linear (planar) panorama method used to capture the resulting feedback. The comments on the Post-its are the work of anonymous audience members.
DOI: 10.6084/m9.figshare.c.3637307_d7.v1
title: Additional file 2: of Metabolic signatures differentiate ovarian from colon cancer cell lines

description: Supplemental Table 1. Metabolites present in all examined cell lines. Star (*) indicates compounds that have not been officially â  plexedâ   (based on a standard), although we are confident in their identity.
DOI: 10.6084/m9.figshare.c.3637325_d1.v1
title: Additional file 12. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Chloroplast sequence variant data for Oryza species and cultivars in vcf format. (VCF 17719 kb)
DOI: 10.6084/m9.figshare.c.3637325_d2.v1
title: Additional file 1: Table S1. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Sequencing data used for chloroplast sequence based phylogenies. (XLSX 39 kb)
DOI: 10.17863/cam.45031
title: Data Supporting "Switching between coherent and incoherent singlet fission via solvent-induced symmetry-breaking"

description: This data set contains all data necessary to generate the figures in the manuscript. Detailed information on how the data was obtained may be found in the open access manuscript which has been deposited in this repository. Figure 1 - structure and general photo physics of the DT-Mes molecule. Figure 2 - determination of the energy levels of DT-Mes and multiple emissive species. Figure 3 - Transient absorption spectroscopy and excited state evolution. Figure 4 - Transient absorption spectroscopy and varying TT/CT balance. Figure 5 - TT and CT action spectra. Figure 6 - switching between coherent and incoherent singlet fission Figure 7 - multidimensional plot of the surfaces participating in the last part of singlet fission. Figure 8 - summary of singlet fission mechanism.
DOI: 10.6084/m9.figshare.c.3637325_d4.v1
title: Additional file 11. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Sample metadata table corresponding to OTU table in Additional file 10. (TXT 43 kb)
DOI: 10.6084/m9.figshare.c.3637325_d5.v1
title: Additional file 9: Table S8. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Differential representation (over or underrepresentation) in rhizosphere of early-diverged Oryza species. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3637325_d6.v1
title: Additional file 6: Table S5. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Detection of phylogenetic signal in root-associated microbial communities â   Â Mantel tests to assess the correlation between bacterial community distance measures and the plant host species identity. (XLSX 66 kb)
DOI: 10.6084/m9.figshare.c.3637325_d7.v1
title: Additional file 2: Table S2. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Kruskal-Wallis test of differently represented bacterial classes in different sample types. (XLSX 87 kb)
DOI: 10.6084/m9.figshare.c.3637325_d8.v1
title: Additional file 7: Table S6. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: Differentially represented taxa in cultivated vs wild rhizosphere. (XLSX 78 kb)
DOI: 10.6084/m9.figshare.c.3637325_d10.v1
title: Additional file 10. of Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition

description: OTU table for 16S rDNA sequencing data in biom format. (BIOM 44979 kb)
DOI: 10.6084/m9.figshare.c.3637367_d1.v1
title: Additional file 1: Figure S1. of Whole-genome bisulfite sequencing of cell-free DNA identifies signature associated with metastatic breast cancer

description: Analysis of 120 clinically annotated plasma samples from the Komen Tissue Bank, representing 40 samples from Healthy (H) individuals, 40 from disease-free survivors (DFS), and 40 from patients with metastatic breast cancer (MBC). A) Pie chart shows distribution of involved sites of distant metastases in the MBC group. B) Vertical plot shows the number of years disease free in the DFS group. Two clusters are evident. C) Plot shows cfDNA concentrations from three independent extractions obtained after samples were pooled into three groups. D) Vertical plot showing distribution of age at diagnosis for DFS and MBC patients. Age of accrual is represented for H individuals. E) Bar graph depicting the number of samples by race, for H, DFS, and MBC. (ZIP 1052 kb)
DOI: 10.6084/m9.figshare.c.3637367_d4.v1
title: Additional file 6: Figure S4. of Whole-genome bisulfite sequencing of cell-free DNA identifies signature associated with metastatic breast cancer

description: Integrated Genomics Viewer screenshots of WGBS and MiSeq sequencing results shown by gene for GP5 (A), HTR1B (B), PCDH10 (C), and UNC13A (D). The top panel, separated by a thick black line, shows a histogram representing the percent methylation value for each CpG locus in each amplicon for H, DFS, and MBC. In the lower panel, histograms display the percent unmethylated reads (blue) and percent methylated reads (red) at each assayed CpG locus. Below each of these histograms are the individual reads. (ZIP 634 kb)
DOI: 10.6084/m9.figshare.c.3637385_d1.v1
title: Additional file 3: of The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh

description: Per chromosome summary of copy-number variable regions (CNVRs) in the apple genome. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3637385_d2.v1
title: Additional file 4: of The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh

description: List of all gene models found within copy-number variable regions (CNVRs) in the apple genome. (XLSX 50Â kb)
DOI: 10.6084/m9.figshare.c.3637385_d4.v1
title: Additional file 2: of The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh

description: List of copy-number variable regions (CNVRs) identified in the apple genome. (XLSX 41Â kb)
DOI: 10.6084/m9.figshare.c.3637385_d3.v1
title: Additional file 5: of The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh

description: List of resistance (R) gene models located within copy-number variable regions (CNVRs) in the apple genome. (XLSX 10Â kb)
DOI: 10.6084/m9.figshare.c.3637385_d5.v1
title: Additional file 1: of The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh

description: Sequencing and quality control result for the 30 apple varieties. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3637445_d3.v1
title: Additional file 3: of Positionally-conserved but sequence-diverged: identification of long non-coding RNAs in the Brassicaceae and Cleomaceae

description: Long non-coding RNAs specific for the Brassicaceae, genomic. (XLSX 41 kb)
DOI: 10.6084/m9.figshare.c.3637445_d6.v1
title: Additional file 8: Figure S3â  S6. of Positionally-conserved but sequence-diverged: identification of long non-coding RNAs in the Brassicaceae and Cleomaceae

description: Analyses of collinearity and positional conservation of sequentially diversified Aethionemeae LncRNAs. (A) Screenshot from GeVo. GeVo calculates the collinearity of a query sequence with the genome of a subject organism. The query here is the nearest protein coding gene of Ae. arabicum shown in B, the subjects are Ae. arabicum and A. thaliana. The position of the positionally conserved LncRNA is shown with a pink box, while the protein coding genes of A. thaliana and Ae. arabicum are shown with blue boxes. (B) Screenshot from the PLncDB website, shown are the Arabidopsis thaliana LncRNA (pink) and its nearest protein coding gene (blue). (C) Screenshot from the CoGe Blast HSP. Pink is the Aethionema arabicum transcript along the Ae. arabicum genome. Blue is the nearest Ae. arabicum protein coding gene. Figure S7â  S9. Analyses of collinearity and positional conservation of sequentially diversified Cleomaceae LncRNAs. (A) Screenshot from GeVo. GeVo calculates the collinearity of a query sequence with the genome of a subject organism. The query here is the nearest protein coding gene of Taranaya hassleriana, the subjects are T. hassleriana and A. thaliana. The position of the positionally conserved LncRNA is shown with a pink box, while the protein coding genes of A. thaliana and T. hassleriana are shown with blue boxes. (B) Screenshot from the PLncDB website, shown are the Arabidopsis thaliana LncRNA (pink) and its nearest protein coding gene (blue). (ZIP 716 kb)
DOI: 10.17863/cam.21856
title: Locus Tag Quantification (FIJI/ImageJ Macro)

description: This is a FIJI macro that assists with quantifying nuclear size and shape, generating 3D distance maps of nuclei and locating locus tag puncta within the map thus producing a relative radial distance measurement. Example files and updated code will be available here: https://github.com/mjthreesixfive/image-analysis Feel free to contact me if you need help getting this code working, see the comments at the start for instructions regarding the key parameters to change as it is likely your images and nuclei of interest differ from those used in my thesis.
DOI: 10.6084/m9.figshare.c.3637457_d1.v1
title: Additional file 1: of Early BCG vaccine to low-birth-weight infants and the effects on growth in the first year of life: a randomised controlled trial

description: Baseline differences among children measured for growth at 2, 6 and 12 months. Description of the data: A table showing the baseline difference in the randomisation groups among the children measured for growth at 2, 6 and 12 months after inclusion. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3637457_d2.v1
title: Additional file 3: of Early BCG vaccine to low-birth-weight infants and the effects on growth in the first year of life: a randomised controlled trial

description: The effect of early BCG on anthropometric measurements at 6 and 12 months stratified by weight at inclusion, overall and by sex. Description of the data: A table showing the effect of early BCG on anthropometric measurements at 6 and 12 months after inclusions stratified by weight at inclusion (2.00–2.49; 1.50–1.99; &lt;1.50) and sex. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3637457_d3.v1
title: Additional file 2: of Early BCG vaccine to low-birth-weight infants and the effects on growth in the first year of life: a randomised controlled trial

description: Baseline differences in children measured for growth and children never measured for growth. Description of data: A table comparing baseline differences for children measured for growth and children never measured for growth. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3637463_d1.v1
title: Additional file 1: of Prognostic value of anti-CRP antibodies in lupus nephritis in long-term follow-up

description: is a table presenting baseline characteristics and laboratory data of patients with newly diagnosed LN. Data presented as median (5th and 95th percentiles) or number (%), differences compared using the Mannâ  Whitney test unless otherwise stated. *Fisher Exact test. **Expressed as number (%) of patients with erytrocyturia above normal range. ***Ď 2, GFR expressed as clearance of creatinine. Anti-CRP-Ab anti-C-reactive protein antibodies, anti-C1q-Ab anti-C1q antibodies, GFR glomerular filtration rate, hsCRP high-sensitivity C-reactive protein, NS not significant, SLEDAI Systemic Lupus Erythematosus Disease Activity Index. (XLS 17 kb)
DOI: 10.5281/zenodo.13841399
title: A global dataset of specialty crop biomass and N2O emissions

description: We reviewed global field studies of vineyard, orchard, and vegetable cropping systems, which were also included in a meta-analysis (https://doi.org/10.1111/gcb.17233). We narrowed down the studies to those with field measurements of adequate variables (biomass C, N, and N2O) covering at least one growing season. As a result, cumulative N₂O emission measurements (per growing rotation, season, or year), along with biomass data of different plant organs from the same regions, were compiled for grape (Vitis vinifera), almond [Prunus dulcis (Mill.) D.A. Webb], peach (Prunus persica L.), walnut (Juglans regia), lettuce (Lactuca sativa), broccoli (Brassica oleracea var. italica P.), cauliflower (Brassica oleracea var. botrytis L.), and tomato (Lycopersicon esculentum L.) planting system. These observations were collected from fields spanning seven Koppen-Geiger climate types and five countries (the United States, Germany, Spain, France, and Australia). When only dry mass was measured, biomass C content for aboveground vegetable crops and berry fruit was assumed at 43%; nut fruit and woody organs of orchard tree at 48%. Area-weighted averages of N2O emissions were used (tree/vine row and interrow).

 

Corresponding author: Mu Hong (mu.hong@colostate.edu)
DOI: 10.5281/zenodo.14171383
title: A global dataset of specialty crop biomass and N2O emissions

description: We reviewed global field studies of vineyard, orchard, and vegetable cropping systems, which were also included in a meta-analysis (https://doi.org/10.1111/gcb.17233). We narrowed down the studies to those with field measurements of adequate variables (biomass C, N, and N2O) covering at least one growing season. As a result, cumulative N₂O emission measurements (per growing rotation, season, or year), along with biomass data of different plant organs from the same regions, were compiled for grape (Vitis vinifera), almond [Prunus dulcis (Mill.) D.A. Webb], peach (Prunus persica L.), walnut (Juglans regia), lettuce (Lactuca sativa), broccoli (Brassica oleracea var. italica P.), cauliflower (Brassica oleracea var. botrytis L.), and tomato (Lycopersicon esculentum L.) planting system. These observations were collected from fields spanning seven Koppen-Geiger climate types and five countries (the United States, Germany, Spain, France, and Australia). When only dry mass was measured, biomass C content for aboveground vegetable crops and berry fruit was assumed at 43%; nut fruit and woody organs of orchard tree at 48%. Area-weighted averages of N2O emissions were used (tree/vine row and interrow).

 

Corresponding author: Mu Hong (mu.hong@colostate.edu)
DOI: 10.6084/m9.figshare.c.3637481_d1.v1
title: Additional file 1: of The Adolescent Girls Initiative-Kenya (AGI-K): study protocol

description: AGI-K baseline survey. (XLSX 2079Â kb)
DOI: 10.6084/m9.figshare.c.3637484_d3.v1
title: MOESM5 of Effect of helium pre- or postconditioning on signal transduction kinases in patients undergoing coronary artery bypass graft surgery

description: Additional file 5. Raw data of the troponin levels.
DOI: 10.17863/cam.104389
title: Research data supporting 'Impact of the contact-patch gap on sound radiation from a tyre', by W. R. Graham

description: Mesh specifications and numerical data for the results presented in the paper. Please see README file for further details. Abstract from related publication: Depending on location, vibrations on a rolling tyre may vary significantly in the noise they produce. Calculation of their amplification is thus central to tyre-noise prediction. However, the appropriate representation of sound propagation through the contact-patch region remains uncertain. More fundamentally, it is not even known whether this aspect is important. Here, this question is investigated via Boundary Element Method calculations for an idealised geometry, in which the irregular gap in the contact patch is represented by a constant-height channel between the road and the flattened-off portion of a cylinder. Compared to calculations with no gap, the results show attenuation of the high amplification levels in the horn-like region where the tyre nears the road, and introduction of source amplification within the gap. These features are evident for a gap as small as 1% of the cylinder radius (approximately 3mm for a representative tyre). On this basis, it appears that the contact-patch region must indeed be modelled, and that parts of the tyre other than the horn may be significant contributors to the radiated noise.
DOI: 10.6084/m9.figshare.c.3637538_d1.v1
title: Additional file 1: of Comparison of qualitative and semiquantitative strain elastography in breast lesions for diagnostic accuracy

description: Raw data. (XLSX 35Â kb)
DOI: 10.17863/cam.40525
title: Supplementary information for "Quantifying Asthenospheric and Lithospheric Controls on Mafic Magmatism across North Africa"

description: Database of whole-rock analyses accompanying "Quantifying Asthenospheric and Lithospheric Controls on Mafic Magmatism across North Africa" (2019) in Geochemistry, Geophysics and Geosystems. Description of methods of data collection found in accompanying pdf document.
DOI: 10.17863/cam.9457
title: Research data supporting "Lead-Free Polycrystalline Ferroelectric Nanowires with Enhanced Curie Temperature"

description: Figures.zip file contains original SEM images and graphical images included in the main text and the supporting information of the manuscript. The original SEM images contain original scales and beam conditions at which SEM images were taken. SEM images in the manuscript and supporting information may have been taken as a whole or a part of the original images wherever apply. Likewise the scale in the manuscript images have been re‐drawn in order to enhance the clarity of the images, but depict true scale as they were in original. Data Files.zip contains data files for the graphs discussed in the main text and supporting information of the manuscript. Theoretical data. zip contains data file for the XRD plots and DFT theory for figure 5c and figure S1 asap
DOI: 10.15468/dl.548gdx
title: Occurrence Download

description: A dataset containing 5 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Données de Mortalité 2020 parc éolien du Bois Clergeons"
 ]
}

 The dataset includes 5 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037900-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17863/cam.79290
title: Data Supporting "Mid-infrared-perturbed Molecular Vibrational Signatures in Plasmonic Nanocavities"

description: This data set contains the experiment and simulation data for the manuscript. This includes SERS scattering spectra and Finite Difference Time Domain simulations. All files are given in .txt.
DOI: 10.6084/m9.figshare.c.3637667_d2.v1
title: Additional file 1: of Evaluation of medicine retail outlets for sale of typhoid fever vaccine among adults in two urban and rural settings in western Kenya: a proof-of-concept study

description: Outlet keeper baseline data on the types of medicines purchased, customer characteristics and overall volume of sales. (XLSX 114Â kb)
DOI: 10.6084/m9.figshare.c.3637667_d3.v1
title: Additional file 2: of Evaluation of medicine retail outlets for sale of typhoid fever vaccine among adults in two urban and rural settings in western Kenya: a proof-of-concept study

description: Vaccine purchase data. (XLSX 41Â kb)
DOI: 10.6084/m9.figshare.c.3637670_d2.v1
title: Additional file 3 of Tracing regulatory routes in metabolism using generalised supply-demand analysis

description: SBML [ 18 ] version of the pyruvate model. (XML 40 kb)
DOI: 10.6084/m9.figshare.c.3637670_d3.v1
title: Additional file 5 of Tracing regulatory routes in metabolism using generalised supply-demand analysis

description: An IPython notebook file in which the results shown in Figs. 4, 5, 6, 7, 8, 9, 10, 11, 12 and 13, Table 3 and Additional file 6 are generated using PySCeS and PySCeSToolbox. This notebook requires the model files provided in Additional files 1 and 2. Software needed: IPython notebook with PySCeS and PySCeSToolbox as requirements (see https://github.com/PySCeS/PyscesToolbox for full requirements and installation instructions). (IPYNB 5 kb)
DOI: 10.6084/m9.figshare.c.3637670_d5.v1
title: Additional file 4 of Tracing regulatory routes in metabolism using generalised supply-demand analysis

description: JWSOnline ( http://jjj.biochem.sun.ac.za/ ) Copasi ( http://www.copasi.org ) Other SBML-compliant simulators ( http://sbml.org/SBML_Software_Guide/SBML_Software_Matrix ) may also work. (XML 31 kb)