cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5124925.v1
title: Supplementary Material for: Equity in Public Health: An Epigenetic Perspective

description: Evidence emerging from the study of epigenetics and epigenomics challenges notions of health by enhancing understanding of disease etiologies and improving awareness of new health risks. New paradigms arising from epigenetic and epigenomic research present challenging cases through which to debate theories of justice in health because they expand the concept of health and, controversially, place value on what was previously assumed to be ‘healthy' individual variance. Discoveries of the dynamic nature of the epigenome and its variable sensitivity towards change in numerous phenomena add further complexity to the assessment of health inequalities. Such evidence can cast doubt on perceptions of justice in health, which in turn raises questions over the suitability of actions taken in pursuit of equity. This article discusses how recent developments in epigenetics and epigenomics may impact upon assessments of equity in health. A review of literature discussing possible health risks associated with acquired yet heritable epigenetic variance is used to highlight the diversity of possible pathways through which health may be influenced. From this context, the consideration of health risk with respect to epigenetics, it is argued, demands a more inclusive concept of health when used in discussions of inequities.
DOI: 10.17632/fdzhc3wywr
title: Digital Terrain Models of Europa from Galileo stereo images

description: Digital Terrain Models (DTMs) of Europa in Geotiff format. The stereo DTMs cover 7 regions of Europa based on Galileo images. Two regions (Conamara Chaos and Yelland) are covered with two different resolutions. For a description of the methodology see Giese et al. 1999. The geological regions are described in Steinbruegge et al. 2020. Please also see Steinbruegge et al. 2020, Table 1 for a list of orthoimages used as stereo-pairs and for the resolution of the individual images and DTMs. References: B. Giese, R. Wagner, G. Neukum., J.M. Moore. The local topography of Europa’s crater Cilix derived from Galileo SSI stereo images. Lunar and Planetary Science Conference 1999;30. G. Steinbrügge, J. R.C. Voigt, D. M. Schroeder, A. Stark, M. S. Haynes, K. M. Scanlan, C. W. Hamilton, D. A. Young, H. Hussmann, C. Grima, D. D. Blankenship. The surface roughness of Europa derived from Galileo stereo images. Icarus 2020. doi:10.1016/j.icarus.2020.113669
DOI: 10.6084/m9.figshare.13077656.v3
title: Achieving Sustainable Development Goals in Bangladesh: An Organizational Analysis

description: To check the progress of achieving the SDGs' related targets, the examination of the organizational level is essential. There was no systematic research on finding organizational improvement in Bangladesh's public sectors though it is indispensable for achieving the SDGs. The study aimed to understand where organizations currently stand about the allocation of business and achievement of the 2030 Agenda targets. Both primary and secondary data were used in this research. Secondary data sources
DOI: 10.6084/m9.figshare.1439749.v11
title: A FreeSurfer view of the cortical transcriptome generated from the Allen Human Brain Atlas

description: The Allen Human Brain Atlas provides an anatomically detailed view of gene expression in the brain. This full transcriptomic dataset contains over 200 million expression values. To facilitate use of this resource, we distilled the data into a matrix of 20,737 genes by 68 cortical regions that represent the automatically segmented FreeSurfer regions (Desikan-Killiany parcellation). In this data report, we describe the Allen-FreeSurfer mapping, sampling information and provide regional values of gene expression. The resulting cortical transcriptome facilitates interpretation of human neuroimaging findings by providing a molecular context. Read the full data report at: http://journal.frontiersin.org/article/10.3389/fnins.2015.00323/full AllenHBA_to_DKRegion_Map.xls - Excel file containing the mapping from Allen Brain Atlas samples to the FreeSurfer cortical regions. Each sample is referenced with a unique identifier by combining the donor ID with the x, y and z MNI152 coordinates (“10021_5.1_27.1_28.6“ for example). DKRegionStatistics.tsv - Tab separated file characterizing the FreeSurfer cortical regions. This file lists how many donors contribute to each region, Allen Brain Atlas samples per region and alternative identifiers. AllenHBA_DK_ExpessionMatrix.tsv - tab separated file containing correlation to the median values across the donors (left hemisphere only, column named ”Average donor correlation to median”) and gene expression values across the 68 FreeSurfer cortical regions (columns). This file can be opened with read.table in R or as a tab separated file in a spreadsheet program. ConsistentGOGroups.tsv – Gene Ontology enrichment analyses results for the consistency measure. InconsistentGOGroups.tsv – Gene Ontology enrichment analyses results for the consistency measure (with high ranked groups showing more inconsistency). CreateExpressionLUT.r - This R script provides the method to load and convert expression values for a specific gene into a color lookup table that can be used to visualize the averaged expression values in FreeSurfer. CreateColorBar.r - This R script will create a color bar to complement the TKSurfer generated images.
DOI: 10.6084/m9.figshare.16843498.v3
title: Phantom T1 Mapping

description: In the project, 8 in vitro phantoms with different T1 values are imaged on a 3T a 1.5 MRI scanner (MAGNETOM Vida, Siemens Healthineers, Germany) using turbo-spin echo inversion recovery sequence, gradient echo (FLASH) with 3 values of flip angle (3T scanner only), Modified Look-Locker Inversion recovery (MOLLI), and T2 and T2* mapping sequences. The 1.5T data were acquired 11 months after the 3T data. The data are provided here. For details please contact radekgalabov@gmail.com<br><br>
DOI: 10.6084/m9.figshare.16923589.v1
title: DDD

description: In the environment with and without obstacles, the distance deviation to the target and the distance deviation to the two nearest neighbors obtained after 30 simulations of 500 steps each time by ADM, LCPSO, SMCH, ADM_VFH, LCPSO_VFH, SMCH_MWF, ADM_VFH_CDTA, ADM_VFH_GDTA, LCPSO_VFH_CDTA, LCPSO_VFH_GDTA, and SMCH_MWF_MSTA algorithms.
DOI: 10.6084/m9.figshare.21966848.v6
title: mast cell quantification raw data.xlsx

description: raw data of a retrospective study done on hypoplastic bone marrows. Quantification of mast cell is done in hypoplastic bone marrow trephine biopsies to differentiate between aplastic anemia and hypoplastic myelodysplastic neoplasm. Presence of increased number of mast cells has been correlated with decreased number of hematopoietuc stem cells. File: rawdata.xlxs this file provides the excel sheet of the collected raw data of all the cases included in the study. key to excel sheet 0: Absent; 1: Present; NA: Not available; D: Decreased, I: Increased; &lt;: Less than; &gt;: More than <br> File: <strong>STROBE_checklist. Mast cell</strong> quantification.xlxs the study follows the guidelines of STROBE for observational studies. the checklist is uploded in this file. <br> File 1.jpg,2.jpg,3.jpg,4.jpg,5.jpg and 6.jpg these files are the original, uncropped, unedited, unannotated and unprocessed microphotographs of the bone marrow biopsy slides under light microscopy. <br> 1.jpg : apalstic anemia, magnification 4X, hematoxylin and eosin staining 2.jpg: metachromatically stained mast cells, magnification 10X, Toluidine Blue staining 3.jpg: metachromatically stained mast cells, magnification 20X, Toluidine Blue staining 4.jpg: metachromatically stained mast cells, magnification 40X, Toluidine Blue staining 5.jpg : MDS-h, hypoplastic marrow, magnification 4X, hematoxylin and eosin staining 6.jpg: metachromatically stained mast cells, magnification 40X, Toluidine Blue staining <br> File: procedure of CD34 IHC staining this file provides the step by step procedure for CD34 IHC satining including te reagents used and time frames. <br>
DOI: 10.6084/m9.figshare.2573629.v1
title: Global compendium of human Zika virus occurrence

description: A global compendium of confirmed occurrences of Zika virus in humans; derived only from cases where patients showed illness (excludes seropositivity in healthy individuals). Each occurrence represents one unique location (point or administrative unit polygon), with at least one or more cases of Zika virus occurring in a given year.
DOI: 10.6084/m9.figshare.27026701.v4
title: <b>Wetland restoration is effective but insufficient to compensate for </b><b>soil organic carbon</b><b> losses from degradation</b>

description: A global dataset of SOC in restored, degraded and natural wetlands (1996–2023)
DOI: 10.6084/m9.figshare.29087423.v3
title: The major analysis workflows for scRNA-seq and spatial transcriptomics

description: Tumorigenesis and Treatment of Craniopharyngioma
DOI: 10.17632/b2xjwr99b9
title: Research data on red tides in Hong Kong.

description: Research data on red tides in Hong Kong.
DOI: 10.17632/zg7db2cbp5
title: Analysis of the validity and reliability of the smartphone goniometer application in patients with patellafemoral pain by comparing it with universal goniometer and digital inclinometer

description: Patellofemoral pain (PFP) is one of the most confusing and clinically challenging chronic diseases. It was planned to determine the validity and reliability of the smartphone goniometer application in patients with PFP by comparing it with universal goniometer and digital inclinometer
DOI: 10.6084/m9.figshare.11369133.v1
title: Datasets.xlsx

description: The dataset for the project and the manuscript.
DOI: 10.6084/m9.figshare.27951270.v1
title: Data associated with manuscript

description: Five databases are included in this file:a sites x species matrix which includes nematode composition;a sites x species matrix which includes plant composition;a species x traits matrix which includes plant traits;a species x traits matrix which includes nematode traits;a sites x environmental factor which includes soil properties and climate facotor
DOI: 10.6084/m9.figshare.28620632.v1
title: ODR of IRF and BCVA

description: The dataset from the study "The Association Between Optical Density Ratio of Intraretinal Fluid and Visual Acuity in Neovascular Age Related Macular Degeneration After 36 Months of Follow Up"
DOI: 10.6084/m9.figshare.29006996.v1
title: RPHMS104A - Robotic Prototype Concept (Preprint).pdf

description: <b>Abstract</b>This paper introduces the RPHMS104A model (Robotic Prototype with Human Mimicry Abilities - 104 Algorithms), a framework for the progressive development of artificial systems capable of emulating human cognitive-behavioral functions. The system is stratified in five ascending levels of algorithmic complexity, from HMS-1 to HMS-5, culminating in the simulation of "Very Complex Skills". RPHMS104A integrates advanced computational techniques, machine learning (ML), deep neural networks (DNNs), and principles from quantum computing and cognitive robotics, proposing a paradigm shift toward a unified computational theory for human-like artificial intelligence.____________________<br><b>References</b>Biamonte, J., Wittek, P., Pancotti, N., Rebentrost, P., Wiebe, N., & Lloyd, S. (2017). Quantum machine learning. Nature, 549(7671), 195–202. [https://doi.org/10.1038/nature23474](https://doi.org/10.1038/nature23474)Garcez, A. d., Lamb, L. C., & Gabbay, D. M. (2019). Neural-symbolic cognitive reasoning. Springer. [https://doi.org/10.1007/978-3-030-03347-3](https://doi.org/10.1007/978-3-030-03347-3)Goertzel, B., & Pennachin, C. (Eds.). (2007). Artificial general intelligence. Springer. [https://doi.org/10.1007/978-3-540-68677-4](https://doi.org/10.1007/978-3-540-68677-4)Goodfellow, I., et al. (2014). Generative adversarial nets. Advances in Neural Information Processing Systems, 27. https://papers.nips.cc/paper\_files/paper/2014/hash/5ca3e9b122f61f8f06494c97b1afccf3-Abstract.html](https://papers.nips.cc/paper_files/paper/2014/hash/5ca3e9b122f61f8f06494c97b1afccf3-Abstract.html)Hawkins, J., & Blakeslee, S. (2004). On Intelligence. Times Books.Hassabis, D., Kumaran, D., Summerfield, C., & Botvinick, M. (2017). Neuroscience-inspired artificial intelligence. Neuron, 95(2), 245–258. [https://doi.org/10.1016/j.neuron.2017.06.011LeCun, Y., Bengio, Y., & Hinton, G. (2015). Deep learning. Nature, 521(7553), 436–444. [https://doi.org/10.1038/nature14539](https://doi.org/10.1038/nature14539)Preskill, J. (2018). Quantum computing in the NISQ era and beyond. Quantum, 2, 79. [https://doi.org/10.22331/q-2018-08-06-79](https://doi.org/10.22331/q-2018-08-06-79)Sun, R. (2004). Desiderata for cognitive architectures. Philosophical Psychology, 17(3), 341–373. [https://doi.org/10.1080/0951508042000286721](https://doi.org/10.1080/0951508042000286721)Vaswani, A., et al. (2017). Attention is all you need. Advances in Neural Information Processing Systems, 30. [https://papers.nips.cc/paper\_files/paper/2017/hash/3f5ee243547dee91fbd053c1c4a845aa-Abstract.html](https://papers.nips.cc/paper_files/paper/2017/hash/3f5ee243547dee91fbd053c1c4a845aa-Abstract.html)<br><br>
DOI: 10.6084/m9.figshare.766363.v1
title: Sedimentation Patterns of the Permian Brushy Canyon Formation, Delaware Basin, Texas and New Mexico

description: This is my 2003 master's thesis from the Colorado School of Mines including all figures and appendices. This project, under the supervision of Dr. Michael Gardner, examined thickness patterns of the Permian Brushy Canyon Formation in west Texas and southeastern New Mexico with an integrated subsurface and outcrop stratigraphic database. Primary data include numerous isopach maps of stratigraphic cycles over a 6500 km^2 area. Data and findings from this thesis were used in this special publication: Gardner, M.H., Borer, J.M., Romans, B.W., Baptista, N., Kling, E.K., Hanggoro, D., Melick, J.J., Wagerle, R.M., Carr, M.M., Amerman, R., and Atan, S., 2008, Stratigraphic models for deep-water sedimentary systems: 28th Annual Gulf Coast Section SEPM Foundation Bob. F. Perkins Research Conference
DOI: 10.6084/m9.figshare.89815.v1
title: Saturation with mutations by Transition/Transversion analysis

description: Transition mutations (G - A, C - T) are more frequent than transversions ( C to A or G, G to C or T, T to A or G, etc) for several biochemical reasons. However there are 2X more possible transversions than transitions, so any two random DNA sequences will have 2X more apparent transversions than transitions. As organisms evolve from a common ancestor (100% sequence identity) to different lineages with less and less identity, the ratio of transisitons:transversions changes to give an indication of how much saturation of silent sites has occurred. This plot show data from complete genomes of Primate Immunodeficiency Viruses (HIVs and SIVs) in comparison to data from Vertebrate (fish, reptiles, mammals, amphibians, birds) complete mitochondrial genomes. Vertebrates shared a common ancestor some 500 million years ago. The primate immunodeficiency viruses are of unknown age, but perhaps as much as 10 million years has passed since their origin.
DOI: 10.17605/osf.io/5a3bz
title: Mathematics achievement gaps in England
DOI: 10.17632/gcgkv6wdf6
title: U-Pb ages of detrital zircons from the Nevado-Filabride Complex (Betic Chain)

description: This dataset include detrital zircon U-Pb zircon age distributions in Paleozoic rocks rocks from the Nevado-Filábride Complex (Betic Cordillera, SE Spain) to test if they from part of the South Iberian paleomargin, or if they are related to the Alpine Allochtonous Internal terranes. The data set show ages in the text, tables, and figures. The ages are quoted as 206Pb/238U dates for zircons younger than 1500 Ma and as 207Pb/206Pb dates for zircons older than 1500 Ma. Figures include the U–Pb concordia and the youngest zircon population plots for the studied samples. Zircons were separated using standard heavy-liquid and magnetic techniques in the Department of Geodynamics of the University of Granada. Zircons grains from the Aulago Fm were hand-picked from the studied samples, several grains of zircon reference standard TEMORA-II (for isotope ratios; Black et al., 2003), one grain of reference standard SL13 zircon (for U concentration, Claoué-Long et al., 1995), plus a few grains of REG zircon (high common lead, for mass calibration) were mounted in a 3.5 cm diameter epoxy mount, polished and examined using optical (reflected and transmitted light) and scanning electron microscopy methods (secondary electrons (SE) and cathodoluminescence (CL)). After extensive cleaning, mounts were coated with ultra-pure gold (8-10 nm) and loaded for SHRIMP analysis. Their U-Th-Pb geochronological analyses were carried out on the SHRIMP IIe/mc instrument of the IBERSIMS lab, University of Granada. Grains from the Tahal Fm were handpicked and mounted in epoxy, polished, cleaned and gold coated for cathodoluminescence (CL) imaging on a Mira3 FESEM instrument at the John de Laeter Centre (JdLC), Curtin University, Perth, Australia. LA-ICP-MS data collection was performed at the GeoHistory Facility, JdLC, Curtin University, Perth, Australia.
DOI: 10.17632/xc9fjz2p3h
title: SC-CoMIcs (Superconductivity Corpus for Materials Infomatics)

description: A corpus of 1000 Materials Informatics abstracts related to superconductivity. Named entities and relations in these text files are separately annotated in *.ann files in the format of the stand-off annotation. Materials Informatics (MI) needs textual datasets to accelerate the studies in this area, but there is no sizable datasets suitable for our superconducting material search. In this respect, we decided to create a new corpus from scratch for MI information extraction. SC-CoMIcs is the corpus that can contribute to the advancement of MI studies, especially in superconductivity. Experiment tools over the dataset can be found at the github linked below. Note that you need to agree with the license displayed here. The set of 1,000 MI abstracts (0001.txt-1000.txt) are specially permitted to share in the research community under Creative Commons BY-NC 3.0 by Elsevier under a written agreement (#200221-005626). This is the strict condition you MUST obey. NB: There is no difference in the dataset per set from version 1.
DOI: 10.6084/m9.figshare.17091512.v1
title: Survey Data

description: Anonymised survey dataset.
DOI: 10.6084/m9.figshare.21673895.v1
title: 32 ecotypes Arabidopsis thaliana genomes, gene annotation, pan-TE library, graph pan-genome, gene family and gene presence/absence matrices files.

description: 32 ecotypes Arabidopsis thaliana genomes, gene annotation, pan-TE library, graph pan-genome, gene family and gene presence/absence matrices files.
DOI: 10.6084/m9.figshare.22291069.v1
title: Comprehensive green growth indicators across countries and territories

description: We construct green growth indicators for 203 economies. A detailed description of the data and the approach used to generate the global data are presented in the Data Descriptor published in Scientific Data under the same title.
DOI: 10.6084/m9.figshare.26352505.v1
title: maltreatment2020

description: Summary statistics from the Psychiatric Genomics Consortium
DOI: 10.6084/m9.figshare.9337469.v3
title: cell differentiation tree(dataset)

description: Every replicates(individual or together) in the 3 datasets H3K4me3, H3K27me3 and H3K36me3 and dataset H3K27ac have a fixed number of cell-types in it. H3K4me3 has two replicates: 1 and 2 . H3K27 holds replicate 1 and replicates 1 and 2 together. Dataset H3K36 has only replicate 1. For combined analysis of H3K4me3 and H3K27me3 we have a folder named H3K4me3-H3K27me3(combined). In each dataset folder there are 4 subfolders named IQA, MLQA ,ML and Overlap representation. Here in the three folders named ML, MLQA and IQA we have included the results from these three cell-type tree generation methods. All the three folders contain cell-type tree in newick format. Estimated quartet files which we generated for MLQA and IQA methods, are given in both MLQA and IQA folders. Finally the overlap representation data for the cell-types are in the folder Overlap representation. In this folder we have a text file named Overlap_datarepresentaion in which the the two numbers in the first row contains the number of cell-types and data length. After that each row identified by t1,t2 etc carries the overlap data. The mapping from t1, t2 etc to original cell-types are provided in file_sequence text file.<br>
DOI: 10.6084/m9.figshare.28856813.v1
title: Source Data for Manuscript

description: While ionic liquids (ILs) have diverse applications, their potential in biomedical applications remains largely untapped due to gaps in systematic understanding of the spectrum of IL biosafety (biocompatibility/toxicity). Here, we establish an IL library and identify an in vitro reduction in biocompatibility (increased toxicity) with increased ILs’ cationic alkyl chain length. Particularly, we present compelling evidence for IL nanoaggregates in aqueous environment, thereby elucidating the mechanisms involved in cell interactions. ILs with short cationic alkyl chains (scILs) are restricted in intracellular vesicles, whereas ILs with long cationic alkyl chains (lcILs) accumulate to the mitochondria for inducing mitophagy and apoptosis. The occurrence of dysfunctional behaviour in lcILs is also observed in vivo, with a positive correlation between the lcIL signal in tissues and mitophagy/apoptotic levels. Irrespective of the administration routes (oral/intramuscular/intravenous), scILs exhibit ~30-80 times greater tolerance than lcILs. The feasibility of scIL nanoaggregates as carriers for insoluble drugs is thus validated, and an enhanced bioavailability over the commercial tablet is acquired. The findings obtained by integrating computational analysis with diverse cell/animal evaluations (from multiple cell lines, cell spheroids, patient-derived organoids to male murine and canine models) offer unique insights into the behaviour, mechanisms, and biomedical application scenarios of IL nanoaggregates.
DOI: 10.6084/m9.figshare.14853843.v1
title: Raw data of migration ability.txt

description: Raw data of migration ability
DOI: 10.6084/m9.figshare.22577536.v2
title: scverse tutorial data: Getting started with AnnData

description: The data is derived from the 3k PBMC data used in scanpy & Seurat tutorials. In comes in the AnnData h5ad format. <br> Processed <em>3k PBMCs from a Healthy Donor</em> from 10x Genomics, available at https://scanpy.readthedocs.io/en/stable/generated/scanpy.datasets.pbmc3k_processed.html Original 10X data available at http://cf.10xgenomics.com/samples/cell-exp/1.1.0/pbmc3k/pbmc3k_filtered_gene_bc_matrices.tar.gz from this website: https://support.10xgenomics.com/single-cell-gene-expression/datasets/1.1.0/pbmc3k <br> The changes made to the original `scanpy.datasets.pbmc3k_processed()` data are described in this github issue: https://github.com/scverse/scverse-tutorials/issues/51 <br> See jupyter notebook for details.
DOI: 10.6084/m9.figshare.23141534.v1
title: Supplementary Figure 13 from Mattila et al. 2023

description: An R script and f-statistics datasets for plotting Supplementary Figure 19 from Mattila et al. 2023 showing evidence for Western and Eastern Hunter-Gatherers in West Eurasian hunter-gatherers.
DOI: 10.6084/m9.figshare.24264646.v3
title: <b>Chromosome-level genome assembly and annotation of rare and endangered tropical bivalve, </b><b><i>Tridacna crocea</i></b>

description: <b>Chromosome-level genome assembly and annotation of rare and endangered tropical bivalve, </b><b><i>Tridacna crocea</i></b>
DOI: 10.6084/m9.figshare.3443129.v1
title: Genotypes file.txt

description: Scomberomorus concolor Microsatellite genotypes for populations in genepop format<br>mtDNA-Cyt b haplotypes for S. concolor