cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.4263972
title: A Single-Cell Tumor Immune Atlas for Precision Oncology

description: <strong>Preprint version of the Single-Cell Tumor Immune Atlas</strong> This upload contains: <strong>TICAtlas.rds:</strong> an rds file containing a Seurat object with the whole Atlas (317111 cells, RNA and integrated assays, PCA and UMAP reductions) <strong>TICAtlas.h5ad:</strong> an h5ad file with the whole Atlas (317111 cells, RNA assay, PCA and UMAP) <strong>TICAtlas_RNA.rds:</strong> an rds file containing a Seurat object of the whole Atlas but only the RNA assay (317111 cells, UMAP embedding) <strong>TICAtlas_downsampled_1000.rds:</strong> an rds file containing a downsampled version of the Seurat object of the whole Atlas (24834 cells, RNA and integrated assay, PCA and UMAP reductions) <strong>TICAtlas_downsampled_1000.h5ad:</strong> an rds file containing a downsampled version of the Seurat object of the whole Atlas (24834 cells, RNA assay, PCA and UMAP reductions) <strong>TICAtlas_metadata.csv: </strong>a comma-separated text file with the metadata for each of the cells For the <strong>h5ad</strong> files, the .X slot contains the normalized data, while the .X.raw slot contains the raw counts as they were in the original datasets. All the files contain the following patient/sample metadata variables: patient: assigned patient identifiers gender: the patient's gender (male/female/unknown) source: dataset of origin subtype: cancer type (abbreviations as indicated in the preprint) cluster_kmeans_k6: patients clusters, NA if filtered out cell_type: annotated cell type for each of the cells If you have any issues with the metadata you can use the <strong>TICAtlas_metadata.csv </strong>file. For more information, read our preprint and check our GitHub. h5ad files can be read with Python using Scanpy, rds files can be read in R using Seurat. For format conversion between AnnData and Seurat we recommend SeuratDisk. For other single-cell data formats you can use sceasy.
DOI: 10.5281/zenodo.4161596
title: Simulated time series and indicators for the Zambezi River Basin case study

description: The archive includes: monthly time series over 2020-2059 time horizon of different physical variables, simulated by the Decision Analytic Framework (DAF) Strategic model of the Zambezi River Basin for the 7 interesting pathways identified in the Negotiation Simulation Lab meeting; a set of evaluation indicators, aggregated at different spatial and temporal scales, for the 7 interesting pathways. More details on physical variables and indicators included are available in the DAFNE Deliverable D7.3. Files are provided in the <em>csv </em>format, one per each physical variable or indicator: the first 13 rows contain metadata, while data starts at row 14 and use as many columns as the pathways considered. Metadata are the following: <em>name</em>, time series or indicaror label <em>author, </em>reference person or team for the specific time series <em>created,</em> timestamp of the file creation <em>description, </em>description of file content <em>unit, </em>unit of measurement <em>origin, </em>description of the simulation <em>time_sampling,</em> whether the variable is sampled at a given point in time (instantaneous) or represents a time interval (interval) <em>frequency, </em>time step of the time series <em>scenario, </em>label of scenario <em>marker_id, </em>label of the related model component <em>id_type, </em>type of time series <em>timestart,timeend,P1,P2,P3,P4,P5,P6,P7 : </em>header row of the data, with time information (in the matlab datenum format) at the beginning and pathways on each column
DOI: 10.5281/zenodo.4161595
title: Simulated time series and indicators for the Zambezi River Basin case study

description: The archive includes: monthly time series over 2020-2059 time horizon of different physical variables, simulated by the Decision Analytic Framework (DAF) Strategic model of the Zambezi River Basin for the 7 interesting pathways identified in the Negotiation Simulation Lab meeting; a set of evaluation indicators, aggregated at different spatial and temporal scales, for the 7 interesting pathways. More details on physical variables and indicators included are available in the DAFNE Deliverable D7.3. Files are provided in the <em>csv </em>format, one per each physical variable or indicator: the first 13 rows contain metadata, while data starts at row 14 and use as many columns as the pathways considered. Metadata are the following: <em>name</em>, time series or indicaror label <em>author, </em>reference person or team for the specific time series <em>created,</em> timestamp of the file creation <em>description, </em>description of file content <em>unit, </em>unit of measurement <em>origin, </em>description of the simulation <em>time_sampling,</em> whether the variable is sampled at a given point in time (instantaneous) or represents a time interval (interval) <em>frequency, </em>time step of the time series <em>scenario, </em>label of scenario <em>marker_id, </em>label of the related model component <em>id_type, </em>type of time series <em>timestart,timeend,P1,P2,P3,P4,P5,P6,P7 : </em>header row of the data, with time information (in the matlab datenum format) at the beginning and pathways on each column
DOI: 10.5281/zenodo.4266560
title: Heterogeneity in transmissibility and shedding SARS-CoV-2 via droplets and aerosols

description: Raw data collected from the systematic review + outputs from analyses and models. The link to these data will be made publicly available upon completion of the peer-review process. For peer reviewers, please request access.
DOI: 10.5519/qd.6idui4il
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (7 records)
DOI: 10.6084/m9.figshare.12130980.v51
title: MOOD Maps of Google community mobility change during the COVID-19 outbreak

description: The MOOD project (MOnitoring Outbreak events for Disease surveillance in a data science context. H2020) has geo-referenced the data Google has published as a series of PDF files presenting reports on national and subnational human mobility levels relative to a baseline data of late January 2020. The details and the PDF files can be found at https://www.google.com/covid19/mobility/.<br>More detail on these files can be found at https://www.moodspatialdata.com/humanmobilityforcovid19 <br>The first set of data were released on April 2 2020 and have been revised weekly since then. The maps now utilise the CSV data released by Google. Please note that the maps figures use a mean of the previous three days, while the Google PDFs use a single days data so there will be differences between values in our maps when compare to the Google PDFs.<br>The authors have extracted the majority of these data into a series of excel spreadsheets. Each worksheet provides the data for % change in numbers of records at various types of location categories illustrated by: retail and recreation, grocery and pharmacy, parks and beaches, transit stations, workplaces and residential (columns f to K). A second set of columns calculates the difference of each value from the mean values for each category (columns L to P) Columns A to E contain geographical details. Column Q contains the names used to link to a mapping file.There are separate worksheets for the date of the data from each dated release (e.g. 2903, 0504 etc.) and separate worksheets calculating the changes between specific dates.<br>A second spreadsheet has been added calculating the 3 day moving mean of each day from the 15th of February. Each day is referenced by the Gregorian calendar day count. So day 48 = Feb 17th.<br>The maps (for EU & Global) display these data. We provide 600 dpi jpegs of the Global (“WD”) and European (“EU”) mapped values at the latest date available, for each of the mobility categories: retail and recreation (“retrec”) , grocery and pharmacy (“grocphar”) , parks (“parks”) , transit stations (“transit”), residential (“resid”) and workplaces (“work”). We also provide maps of the changes from the previous week (“ch”).<br>All data extracting and subsequent processing have been carried out by ERGO (Environmental Research Group Oxford) on behalf of the MOOD H2020 project. Data will be periodically updated. Additional maps can be obtained on request to the authors.
DOI: 10.22021/bbldntz202010
title: The Linked Open British National Bibliography – Books. 1950/2020-10 – N-Triples
DOI: 10.5281/zenodo.4266564
title: Supplementary Files

description: Supplementary Files to the following article: Inflammatory proteins HMGA2 and PRTN3 as drivers of vulvar squamous cell carcinoma progression by: Agnieszka Fatalska, Natalia Rusetska, Elwira Bakuła-Zalewska, Artur Kowalik, Sebastian Zięba, Agnieszka Wroblewska, Kamil Zalewski, Krzysztof Goryca, Dominik Domański, Magdalena Kowalewska
DOI: 10.5281/zenodo.4266563
title: Supplementary Files

description: Supplementary Files to the following article: Inflammatory proteins HMGA2 and PRTN3 as drivers of vulvar squamous cell carcinoma progression by: Agnieszka Fatalska, Natalia Rusetska, Elwira Bakuła-Zalewska, Artur Kowalik, Sebastian Zięba, Agnieszka Wroblewska, Kamil Zalewski, Krzysztof Goryca, Dominik Domański, Magdalena Kowalewska
DOI: 10.34740/kaggle/dsv/1634552
title: US counties COVID 19 dataset
DOI: 10.6084/m9.figshare.13172504
title: ASKCOS generated retrosynthesis pathway data

description: Artificial retrosynthesis pathways for 250k organic compounds generated through the MIT-MLPDS Computer-Aided Synthesis Planning (CASP) tool--ASKCOS.
DOI: 10.21227/275s-b968
title: Model6.2

description: Forest Recover and median distribution prediction
DOI: 10.18709/perscido.2018.11.ds155
title: UV and visible fluorescence images of maize stem: macroscopy and confocal microscopy

description: Fluorescence Macroscopy is a full field imaging system at low magnification. The interest is to rapidly observe large fields of view (~5x5 mm²). Fluorescence filters are used that select excitation and emission ranges of wavelengths. The spectral resolution is low. Confocal microscopy equipped with a spectral detector and several excitation lasers allows to acquire hyperspectral images. The spectral resolution is around 6-10 nm. The field of view is small and is about 500 x500 µm² with a good spatial resolution. The fusion or the multiset analysis of the two kinds of images should provide a link between the two scales of observation and therefore a strategy to develop multiscale acquisition.
DOI: 10.17632/w3cjw46gjw.1
title: Data for: Apatite fission-track dating by LA-Q-ICP-MS mapping

description: Supplementary data tables associated with the "Apatite fission-track dating by LA-Q-ICP-MS mapping" manuscript
DOI: 10.18709/perscido.2018.10.ds133
title: Micro-seismic-monitoring of a floating ice plate to monitor its deformation: Catalog

description: This dataset corresponds to the detected fractures characteristics related to the microseismic monitoring of a floating ice plate.
DOI: 10.18709/perscido.2017.10.ds144
title: DACT: Dataset of Annotated Car Trajectories

description: DACT contains two subsets of annotated car trajectories data. The dataset contains 50 trajectories which cover about 13 hours of driving data.
DOI: 10.5281/zenodo.4266589
title: david-e-rupp/ColdAirPoolingHJA: ColdAirPoolingHJA

description: Temperature Gradients and Inversions in a Forested Cascade Range Basin: Data Release This dataset supports the analysis in Rupp, D. E., Shafer, S. L., Daly, C., Jones, J. A., & Frey, S. J. K. (2020). Temperature gradients and inversions in a forested Cascade Range basin: Synoptic- to local-scale controls. J. Geophys. Res. Atmos. x(x). xx-xx. https://doi.org/10.1029/2020JD032686
DOI: 10.18709/perscido.2017.12.ds166
title: F-TRACT, ATLAS Decembre 2017

description: Connectivity probability with associated p-values as well as features describing fibers biophysical properties, estimated from CCEP data recorded in 213 patients, in the MarsAtlas, Brodmann, AAL and MaxProbMap parcellation schemes. The CCEP features are: peak and onset latency (LatStart), amplitude, integral, duration and the velocity estimated from the onset latency and the fibers distance between the parcels. Features maps : Images representing the connectivity probablility and response features for all the regions in the MarsAtlas parcellation.
DOI: 10.18709/perscido.2018.07.ds225
title: Physical and morphological parameters of two Antarctic polar sites : Dome C and Lock In

description: This dataset contains all parameters measured or determined in Burr, A., Ballot, C., Lhuissier, P., Martinerie, P., Martin, C. L., and Philip, A.: Pore morphology of polar firn around closure revealed by X-ray tomography, The Cryosphere Discuss, 2018. It contains for both Dome C and Lock In sites (Antarctic plateau) various parameters of the pores embedded in firn, and were obtained by X-ray tomography : the closed porosity ratio, connectivity index, specific surface area, surface-to-volume ratio, but also other parameters related to the pore structure. In particular, the connectivity index was used to predict the close-off depth and density.
DOI: 10.18709/perscido.2017.10.ds138
title: F-TRACT, ATLAS June 2017

description: Dataset that contains connectivity probablility and peak latency estimated from CCEP data recorded in 174 patients, only in the MarsAtlas parcellation scheme.
DOI: 10.6084/m9.figshare.11309570
title: Astec-half-Pm1 (Cut at 2-cell stage, half Phallusia mammillata embryo, live SPIM imaging, stages 6-16)

description: Astec-half-Pm1 Live embryonic development of Phallusia mammillata (Phlebobranch ascidian). <br><br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-tdtomato and KTR-Clover into unfertilized egg. The embryo has been live imaged with a MuVi-SPIM for four hours, from the WT equivalent 32-cell stage (Tp 0, St. 6) up to the WT equivalent late Neurula (Tp 150, St. 16), at 18°C. <br><br>Whole cells were segmented using the ASTEC pipeline. <br><br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file).<br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Individual cell geometric properties are shared in pkl formats (properties.tar.gz archive file).
DOI: 10.18709/perscido.2017.10.ds117
title: Sense Embeddings Models

description: This dataset contains the models of sense embeddings, or sense vectors, produced for the article called "Sense Embeddings in Knowledge-Based Word Sense Disambiguation" by Loïc Vial, Benjamin Lecouteux and Didier Schwab, in proceedings of the 12th International Conference on Computational Semantics (IWCS 2017).
DOI: 10.18709/perscido.2017.03.ds55
title: MobileRGBD

description: MobileRGBD is corpus dedicated to low level RGB-D algorithms benchmarking on mobile platform. We reversed the usual corpus recording paradigm. Our goal is to facilitate ground truth annotation and reproducibility of records among speed, trajectory and environmental variations. As we want to get rid of unpredictable human moves, we used dummies in order to play static users in the environment. Interest of dummies resides in the fact that they do not move between two recordings. It is possible to record the same robot move in order to evaluate performance of detection algorithms varying speed. This benchmark corpus is intended for "low level" RGB-D algorithm family like 3D-SLAM, body/skeleton tracking or face tracking using a mobile robot.
DOI: 10.6084/m9.figshare.8235485
title: Astec-Pm10 (Wild type Phallusia mammillata embryo, live SPIM imaging, stages 7-17)

description: Astec-Pm10 Live embryonic development of Phallusia mammillata (Phlebobranch ascidian). <br><br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-tdtomato into unfertilized egg. The embryo has been live imaged with a MuVi-SPIM for five hours, from the 44-cell stage (Tp 1, St. 7) up to the initial tailbud (Tp 162, St. 17), at 18°C. <br><br>Whole cells were segmented using the ASTEC pipeline. Surface meshes provided were produced using the VTK library and MeshLab. <br>The period between time points is 117 seconds after normalization on the average development at 18°C.<br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file). <br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.<br>* Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).
DOI: 10.18709/perscido.2017.10.ds129
title: F-TRACT, ATLAS August 2017

description: Dataset containing connectivity probability with associated p-values as well as features describing fibers biophysical properties, estimated from CCEP data recorded in 174 patients, in the MarsAtlas parcellation scheme. The CCEP features are: peak and onset latency (LatStart), amplitude, integral, duration and the velocity estimated from the onset latency and the Euclidean distance between the parcels.
DOI: 10.18709/perscido.2016.11.ds08
title: Three months sample of Ontology-based student monitoring extracted from the national evaluation system of French Medical Schools

description: This dataset contains a sample of student working session on SIDES platform from April to September 2015: 316803 actions of answer to tests on ECN items for 936 students. The dataset is modeled using RDF paradigm, based on the schema of OntoSides ontology.
DOI: 10.18709/perscido.2016.08.ds04
title: LastFM top-50 artists

description: A set of users and the 50 artists they listen the most to.
DOI: 10.6084/m9.figshare.8235470
title: Astec-Pm6 (Wild type Phallusia mammillata embryo, live SPIM imaging, stages 7-13)

description: Astec-Pm6 Live embryonic development of Phallusia mammillata (Phlebobranch ascidian). <br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-citrine into unfertilized egg. The embryo has been live imaged with a MuVi-SPIM for three hours, from the 44-cell stage (Tp 1, St. 7) up to the late gastrula (Tp 88, St. 13), at 18°C.<br>Whole cells were segmented using the ASTEC pipeline. Surface meshes were produced using the VTK library and MeshLab.<br><br>The period between time points is 115 seconds after normalization on the average development at 18°C.<br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file). <br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.<br>* Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).
DOI: 10.18709/perscido.2016.10.ds06
title: MovieLens+IMDb

description: MovieLens 1M dataset enriched with IMDB on movie attributes.
DOI: 10.18709/perscido.2016.10.ds32
title: DM Authors

description: DM-Authors dataset contains information about 4,906 researchers in the domain of data management. The dataset is a crawling on DBLP in October 2014. For each researcher, demographic attributes (gender, seniority, number of publications and publication rate) and activity attributes (list of venues and keywords that the researcher has contribute to) are provided.
DOI: 10.6084/m9.figshare.8235443
title: Astec-Pm2 (Wild type Phallusia mammillata embryo, live SPIM imaging, stages 8-15)

description: Astec-Pm2 Live embryonic development of Phallusia mammillata (Phlebobranch ascidian). <br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-GFP into unfertilized egg. The embryo has been live imaged with a MuVi-SPIM for three hours, from the 64-cell stage (Tp 1, St. 8) up to the mid neurula (Tp 93, St. 15), at 18°C.<br>Whole cells were segmented using the ASTEC pipeline. Surface meshes were produced using the VTK library and MeshLab.<br><br>The period between time points is 89 seconds after normalization on the average development at 18°C.<br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file).<br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.<br>* Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).
DOI: 10.18709/perscido.2017.11.ds100
title: The VLTS (Very Large Transition Systems) Benchmark Suite

description: The VLTS benchmark suite is a collection of Labelled Transition Systems. Each Labelled Transition System is a directed, connected graph, whose vertices are called states and whose edges are called transitions. There is one distinguished vertex called the initial state. Each transition is labelled by a character string called action or label. There is one distinguished label noted "i" that is used for so-called invisible transitions (also known as hidden transitions or tau-transitions). The VLTS benchmarks have been obtained from various case studies about the modelling of communication protocols and concurrent systems. Many of these case studies correspond to real life, industrial systems.
DOI: 10.6084/m9.figshare.8223890.v1
title: Astec-Pm1 (Wild type Phallusia mammillata embryo, live SPIM imaging, stages 8-17)

description: Astec-Pm1 Live embryonic development of Phallusia mammillata (Phlebobranch ascidian). <br><br>Cell membranes were fluorescently labeled by microinjection of mRNA encoding PH-GFP into unfertilized egg. <br>The embryo has been live imaged with a MuVi-SPIM for six hours, from the 64-cell stage (Tp 1, St. 8) up to the initial tailbud (Tp 180, St. 17). <br><br>Whole cells were segmented using the ASTEC pipeline. Surface meshes were produced using the VTK library and MeshLab.<br><br>The period between time points is 89 seconds after normalization on the average development at 18°C.<br>* Rawdata for 20 disctinct times points are provided in the raw.tar.gz.<br>* The four angle fusion images obtained using the ASTEC pipeline are shared in .inr format (fuse.tar.gz archive file). <br>* Whole cells were segmented using the ASTEC pipeline and shared in .inr format (post.tar.gz archive file).<br>* Surface meshes (.obj) povided in the mesh.tar.gz archive were produced using the VTK library and MeshLab.<br>* Individual cell geometric properties are shared in two different formats, .xml and .pkl (properties.tar.gz archive file).
DOI: 10.18709/perscido.2017.06.ds80
title: SPEECH-COCO

description: SPEECH-COCO is an augmentation of MS-COCO dataset where speech is added to image and text. Speech captions were generated using text-to-speech (TTS) synthesis resulting in 616,767 spoken captions (&gt;600h) paired with images. Disfluencies and speed perturbation were added to the signal in order to sound more natural. Each speech signal (WAV) is paired with a JSON file containing exact timecode for each word/syllable/phoneme in the spoken caption. Such a corpus could be used for Language and Vision (LaVi) tasks including speech input or output instead of text.
DOI: 10.18709/perscido.2017.03.ds31
title: LTTng Execution Traces of 10 Phoronix Benchmarks

description: This dataset contains the execution traces of 10 Phoronix benchmarks (e.g. compress-gzip, ffmpeg, iozone, network-loopback, phpbench, pybench, ramspeed, scimark2, stream, unpack-linux). The traces concern three different tracing configurations, namely kernel, memory and performance counters. They have been obtained on a standard Linux machine and on the Juno platform. Each configuration has been run 32 times on the Linux machine and 1 time on the Juno board.