cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3706439
title: Synthetic model parameters for the comparison between an equivalent source and a minimum curvature interpolator of aeromagnetic data

description: Parameters of the synthetic case used in Gavazzi et al. (submitted)[1] FILES (ASCII FORMAT) param.txt<br> General parameters of the geomagnetic field<br> Incl. inclination of the geomagnetic field<br> decl. declination of the geomagnetic field sources.txt<br> Localization and magnetization of the simulated sources<br> xs x-position of the sources (in m)<br> ys y-position of the sources (in m)<br> zs z-position of the sources (in m)<br> Ms magnetization of the sources (in A/m) profiles.txt<br> Localization of the simulated acquisition profiles<br> xx x-position of the data<br> yy y-position of the data<br> zz z-position of the data eqsources.txt<br> Localization and magnetization of the equivalent sources<br> xdeq x-position of the sources (in m)<br> ydeq y-position of the sources (in m)<br> zdeq z-position of the sources (in m)<br> JJ magnetization of the sources (in A/m) [1] Gavazzi, B., Bertrand, L., Munschy, M., Mercier de Lépinay, J., Diraison, M. & Géraud, Y. (submitted). On the use of aeromagnetism for geological interpretation part I: comparison of scalar and vector magnetometers for aeromagnetic surveys and an equivalent source interpolator for combining, gridding and transform fixed altitude and draping datasets, Journal of Geophysical Research: Solid Earth.
DOI: 10.5281/zenodo.3706830
title: Dataset related to article "Computed tomography based radiomic signature as predictive of survival and local control after stereotactic body radiation therapy in pancreatic carcinoma"

description: PURPOSE: To appraise the ability of a radiomics signature to predict clinical outcome after stereotactic body radiation therapy (SBRT) for pancreas carcinoma. METHODS: A cohort of 100 patients was included in this retrospective, single institution analysis. Radiomics texture features were extracted from computed tomography (CT) images obtained for the clinical target volume. The cohort of patients was randomly divided into two separate groups for the training (60 patients) and validation (40 patients). Cox regression models were built to predict overall survival and local control. The significant predictors at univariate analysis were included in a multivariate model. The quality of the models was appraised by means of area under the curve and concordance index. RESULTS: A clinical-radiomic signature associated with Overall Survival (OS) was found significant in both training and validation sets (p = 0.01 and 0.05 and concordance index 0.73 and 0.75 respectively). Similarly, a signature was found for Local Control (LC) with p = 0.007 and 0.004 and concordance index 0.69 and 0.75. In the low risk group, the median OS and LC in the validation group were 14.4 and 28.6 months while in the high-risk group were 9.0 and 17.5 months respectively. CONCLUSION: A CT based radiomic signature was identified which correlate with OS and LC after SBRT and allowed to identify low and high-risk groups of patients.
DOI: 10.5281/zenodo.3706829
title: Dataset related to article "Computed tomography based radiomic signature as predictive of survival and local control after stereotactic body radiation therapy in pancreatic carcinoma"

description: PURPOSE: To appraise the ability of a radiomics signature to predict clinical outcome after stereotactic body radiation therapy (SBRT) for pancreas carcinoma. METHODS: A cohort of 100 patients was included in this retrospective, single institution analysis. Radiomics texture features were extracted from computed tomography (CT) images obtained for the clinical target volume. The cohort of patients was randomly divided into two separate groups for the training (60 patients) and validation (40 patients). Cox regression models were built to predict overall survival and local control. The significant predictors at univariate analysis were included in a multivariate model. The quality of the models was appraised by means of area under the curve and concordance index. RESULTS: A clinical-radiomic signature associated with Overall Survival (OS) was found significant in both training and validation sets (p = 0.01 and 0.05 and concordance index 0.73 and 0.75 respectively). Similarly, a signature was found for Local Control (LC) with p = 0.007 and 0.004 and concordance index 0.69 and 0.75. In the low risk group, the median OS and LC in the validation group were 14.4 and 28.6 months while in the high-risk group were 9.0 and 17.5 months respectively. CONCLUSION: A CT based radiomic signature was identified which correlate with OS and LC after SBRT and allowed to identify low and high-risk groups of patients.
DOI: 10.5519/qd.kil4nm1u
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.25345/c5x120
title: MassIVE MSV000085082 - Files for Accalia et al Human Beta Cell Proteomics
title: 34 data files acquired on a timsTOF pro mass spectrometer (Bruker Daltonics) during analysis of human beta cells described in Accalia et al. Glucose-dependent partitioning of arginine to the urea cycle protects b-cells from inflammation.
DOI: 10.18112/openneuro.ds002622.v1.0.0
title: TODO: name of the dataset
DOI: 10.5281/zenodo.3706350
title: Inference of single-cell phylogenies from lineage tracing data with Cassiopeia

description: Synthetic benchmarking data used in our study entitled "Inference of single-cell phylogenies from lineage tracing data with Cassiopeia" published in <em>Genome Biology</em>. Phylogenies were simulated with varying characters, states, experimental durations, mutation rates, dropout rates, and state distributions as described in our manuscript. This dataset includes simulated phylogenies of size 400 and 1000 cells. Each phylogeny is saved as a python Networkx object, pickled for convenience. These objects can be read in using Python version &gt;= 3 with the "pickle" library. For stress testing and simulating additional phylogenies, please refer to our Github: https://github.com/YosefLab/Cassiopeia
DOI: 10.5281/zenodo.3706351
title: Inference of single-cell phylogenies from lineage tracing data with Cassiopeia

description: Synthetic benchmarking data used in our study entitled "Inference of single-cell phylogenies from lineage tracing data with Cassiopeia" published in <em>Genome Biology</em>. Phylogenies were simulated with varying characters, states, experimental durations, mutation rates, dropout rates, and state distributions as described in our manuscript. This dataset includes simulated phylogenies of size 400 and 1000 cells. Each phylogeny is saved as a python Networkx object, pickled for convenience. These objects can be read in using Python version &gt;= 3 with the "pickle" library. For stress testing and simulating additional phylogenies, please refer to our Github: https://github.com/YosefLab/Cassiopeia
DOI: 10.5519/qd.kjw9ij0l
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (66 records)
DOI: 10.25573/data.11919276.v3
title: Post-glacial Sea Level rise on the Isthmus of Panama

description: Digital Object Identifier: 10.25573/data.11919276<br>The Isthmus of Panama is a narrow strip of land that connects the continents of North and South America and separates the Atlantic (Caribbean) and Pacific oceans. It is rich in native biodiversity, with tropical rain and cloud forests, island archipelagos, coral reefs, mangrove and estuarine ecosystems.<br><br>In this study our aim is to model how post-glacial sea-level rise changed the land- and sea-scapes of the Isthmus of Panama. This helps provide more precise historical context to better understand modern biogeographical patterns of both terrestrial and marine ecosystems on the Isthmus. In collaboration with the GIS unit at the Smithsonian Tropical Research Institute we combined bathymetric and topographic data with historical sea level data of the Western Atlantic and Tropical Eastern Pacific to produce digital elevation models, maps, and animated videos showing the changing land and sea-scapes of the Isthmus through time.<br><br>A more detailed description of the project and methods can be found here: https://storymaps.arcgis.com/stories/1d730fe1f6e443eab423a5aeea51dfb9<br>Aaron O'Dea Lab - Max TitcombSmithsonian Tropical Research Institute<br>References: <br>O’Dea A, Aguilera O, Aubry M-P, Berggren WA, Budd AF, Cione AL, Coates AG, Collins LS, Coppard SE, Cozzuol MA, de Queiroz A, Duque-Caro H, Eytan RI, Farris DW, Finnegan S, Gasparini GM, Grossman EL, Johnson KG, Keigwin LD, Knowlton N, Leigh EG, Leonard-Pingel JS, Lessios HA, Marko PB, Norris RD, Rachello-Dolmen PG, Restrepo-Moreno SA, Soibelzon E, Soibelzon L, Stallard RF, Todd JA, Vermeij GJ, Woodburne MO, Jackson JBC. 2016. Formation of the Isthmus of Panama. Science Advances. e1600883.<br><br>Kenneth G. Miller, Michelle A. Kominz, James V. Browning, James D. Wright, Gregory S. Mountain, Miriam E. Katz, Peter J. Sugarman, Benjamin S. Cramer, Nicholas Christie-Blick, Stephen F. Pekar. 2005. The Phanerozoic Record of Global Sea-Level Change. SCIENCE. 10.1126/science.1116412<br><br>Redwood, S. D. 2020. Late Pleistocene to Holocene sea level rise in the Gulf of Panama, Panama, and its influence on early human migration through the Isthmus. Caribbean Journal of Earth Science, 51, 15-31. Geological Society of Jamaica. http://caribjes.com/CJESpdf/CJES51-3-RedwoodPanamaSealevel.pdf<br>
DOI: 10.5281/zenodo.3706841
title: Dataset related to article "Caspofungin for Primary Antifungal Prophylaxis after T cell-replete Haploidentical Stem Cell Transplantation with Post-transplant Cyclophosphamide"

description: OBJECTIVES: T-cell-replete haploidentical stem cell transplantation (Haplo-SCT) with post-transplant cyclophosphamide (PT-Cy) is at high risk of invasive fungal infections (IFI), and anti-mold-active drug is required for primary antifungal prophylaxis (PAP) according to international guidelines. No data are available on the efficacy of caspofungin as PAP in this setting. METHODS: Here, we report our retrospective experience with 103 consecutive patients treated with caspofungin as PAP after Haplo-SCT. Caspofungin was administered only during the pre-engraftment phase. RESULTS: Hundred-day cumulative incidence of proven-probable IFI (PP-IFI) was 8.7% and median day of onset was 19 post-SCT. No patient died of PP-IFI, and overall survival (OS) and non-relapse mortality (NRM) hazard ratio (HR) for patients experiencing IFI were 1.02 (P = 0.9) and 0.7 (P = 0.7), respectively. Three-year overall survival (OS) and 1-year non-relapse mortality (NRM) were 55% and 19%, respectively. By univariate analysis, duration of neutropenic phase and partial remission pre-transplant disease status were associated with increased incidence of IFI, but were not confirmed by multivariate analysis. CONCLUSION: In summary, PAP with caspofungin is an effective strategy for preventing IFI in the context of Haplo-SCT with PT-Cy. Further efforts are required in order to identify more potent strategies able to avoid the occurrence of breakthrough infections.
DOI: 10.5281/zenodo.3706842
title: Dataset related to article "Caspofungin for Primary Antifungal Prophylaxis after T cell-replete Haploidentical Stem Cell Transplantation with Post-transplant Cyclophosphamide"

description: OBJECTIVES: T-cell-replete haploidentical stem cell transplantation (Haplo-SCT) with post-transplant cyclophosphamide (PT-Cy) is at high risk of invasive fungal infections (IFI), and anti-mold-active drug is required for primary antifungal prophylaxis (PAP) according to international guidelines. No data are available on the efficacy of caspofungin as PAP in this setting. METHODS: Here, we report our retrospective experience with 103 consecutive patients treated with caspofungin as PAP after Haplo-SCT. Caspofungin was administered only during the pre-engraftment phase. RESULTS: Hundred-day cumulative incidence of proven-probable IFI (PP-IFI) was 8.7% and median day of onset was 19 post-SCT. No patient died of PP-IFI, and overall survival (OS) and non-relapse mortality (NRM) hazard ratio (HR) for patients experiencing IFI were 1.02 (P = 0.9) and 0.7 (P = 0.7), respectively. Three-year overall survival (OS) and 1-year non-relapse mortality (NRM) were 55% and 19%, respectively. By univariate analysis, duration of neutropenic phase and partial remission pre-transplant disease status were associated with increased incidence of IFI, but were not confirmed by multivariate analysis. CONCLUSION: In summary, PAP with caspofungin is an effective strategy for preventing IFI in the context of Haplo-SCT with PT-Cy. Further efforts are required in order to identify more potent strategies able to avoid the occurrence of breakthrough infections.
DOI: 10.5519/qd.hdabzvzh
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (28 records)
DOI: 10.25387/g3.10028999
title: Supplemental Material for Osorio-Guarín, Berdugo-Cely et al., 2020

description: Table S1 contains the list of the accessions used. The phenotypic data is provided in Table S2. Table S3 contains a summary of the statistics for the sequenced data per individual. The candidate genes under positive selection per chromosome are provided in Table S4. Files S5 and S6 include the vcf files of the SNPs discovered for Criollo and Matina, respectively. Figure S1 exhibits an <i>in silico</i> analysis of the restriction enzymes. Figure S2 presents the number of sequenced reads of each accession. Figure S3 shows the correlation among traits of the entire population. Figure S4 contains the QQ-plots for each evaluated trait. The R script for the detection of common outliers in selective sweeps is available at http://pop-gen.eu/wordpress/wp-content/uploads/2013/12/combined_analysis.zip. The raw sequencing data of the reference samples were downloaded from the BioProject PRJNA486011 (Cornejo <i>et al.</i> 2018), via NCBI. Supplemental material is available at Figshare: https://gsajournals.figshare.com/s/165b88f523482900eb79.<br>
DOI: 10.25387/g3.10028999.v1
title: Supplemental Material for Osorio-Guarín, Berdugo-Cely et al., 2020

description: Table S1 contains the list of the accessions used. The phenotypic data is provided in Table S2. Table S3 contains a summary of the statistics for the sequenced data per individual. The candidate genes under positive selection per chromosome are provided in Table S4. Files S5 and S6 include the vcf files of the SNPs discovered for Criollo and Matina, respectively. Figure S1 exhibits an <i>in silico</i> analysis of the restriction enzymes. Figure S2 presents the number of sequenced reads of each accession. Figure S3 shows the correlation among traits of the entire population. Figure S4 contains the QQ-plots for each evaluated trait. The R script for the detection of common outliers in selective sweeps is available at http://pop-gen.eu/wordpress/wp-content/uploads/2013/12/combined_analysis.zip. The raw sequencing data of the reference samples were downloaded from the BioProject PRJNA486011 (Cornejo <i>et al.</i> 2018), via NCBI. Supplemental material is available at Figshare: https://gsajournals.figshare.com/s/165b88f523482900eb79.<br>
DOI: 10.14469/hpc/6947
title: Bruker IVDr Lipoprotein Subclass Analysis (BILISA) in serum

description: Lipoprotein parameters generated by the Bruker B.I.-LISA (Bruker IVDr Lipoprotein Subclass Analysis) platform from NMR. B.I.-LISA determines cholesterol, free cholesterol, phospholipids, triglycerides, apolipoproteins A1, A2, B and particle numbers for the primary plasma and serum lipoproteins and their subclasses.
DOI: 10.14469/hpc/6946
title: National Phenome Centre Project Data Summary Report for AIRWAVE Samples

description: Analysis report of data provided in this collection
DOI: 10.5519/qd.xloij5ac
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (175 records)
DOI: 10.5519/qd.3z49oxdz
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (80 records)
DOI: 10.5281/zenodo.3706866
title: Restricted Dataset for "Large Scale Crowdsourcing and Characterization of Twitter Abusive Behavior"

description: Restricted Dataset for the "Large Scale Crowdsourcing and Characterization of Twitter Abusive Behavior" paper, published in ICWSM 2018. The full text of the paper can be found here. The Public version of the dataset can be found here hatespeech_text_label_vote_RESTRICTED_100K.csv: contains ~100K raws with tweet text, the associated majority label, and the number of votes for the majority label. The tweets are shuffled so that there is no connection between tweet IDs and texts (in order to be in line with the T&C of Twitter). retweets.csv: contains ~2K rows, where every row consists of the row number in the hatespeech_text_label_vote_RESTRICTED_100K.csv file which is the first occurrence of a Tweet text followed by comma-separated row numbers of all other occurrences of the same Tweet text in the same file. There are ~8K other occurrences due to retweets. Please cite the paper in any published work that uses any of these resources. @inproceedings{founta2018large, <br> title={Large Scale Crowdsourcing and Characterization of Twitter Abusive Behavior}, <br> author={Founta, Antigoni-Maria and Djouvas, Constantinos and Chatzakou, Despoina and Leontiadis, Ilias and Blackburn, Jeremy and Stringhini, Gianluca and Vakali, Athena and Sirivianos, Michael and Kourtellis, Nicolas}, <br> booktitle={11th International Conference on Web and Social Media, ICWSM 2018}, <br> year={2018}, <br> organization={AAAI Press} <br> } For any further questions contact a.m.founta at gmail dot com AND markos.charalambous at eecei dot cut dot ac dot cy
DOI: 10.25925/20200305
title: Multi-laboratory compilation of atmospheric carbon dioxide data for the year 2019; obspack_co2_1_NRT_v5.1.1_2020-03-05

description: A full list of all contributors for this product can be found at www.esrl.noaa.gov/gmd/ccgg/obspack/providerlist/obspack_co2_1_NRT_v5.1.1_2020-03-05.html This product is constructed using the Observation Package (ObsPack) framework [Masarie et al., 2014; www.earth-syst-sci-data.net/6/375/2014/]. The framework is designed to bring together atmospheric greenhouse gas (GHG) observations from a variety of sampling platforms, prepare them with specific applications in mind, and package and distribute them in a self-consistent and well-documented product. ObsPack products are intended to support GHG budget studies and represent a new generation of cooperative value-added GHG data products.
DOI: 10.17632/wrk3krr9hv.1
title: Control of food approach and eating by a GABAergic projection from lateral hypothalamus to dorsal pons

description: Data deposit for the manuscript: "Control of food approach and eating by a GABAergic projection from lateral hypothalamus to dorsal pons"
DOI: 10.17632/bb93hkxxmc.2
title: EFFICACY OF ARTEMETHER LUMEFANTRINE WHEN CO-ADMINISTERED WITH CIPROFLOXACIN IN MALARIA-TYPHOID CO-INFECTED PATIENTS IN UNWANA SOUTH EAST NIGERIA.

description: An assessment of the efficacy of artemether lumefantrine when orally co-administered with ciprofloxacin in the treatment regimen of malaria and typhoid co-infection was carried out in this study. One hundred and nineteen (119) febrile volunteers comprising 55 males and 64 females were distributed into three oral treatment regimen groups: malaria infected individuals treated with AL (Group 1), malaria-typhoid co-infected individuals treated with AL and ciprofloxacin concomitantly (Group 2), and the dose staggered at 2 hours interval (Group 3). Parasitaemia on days 0, 3 and 7 were assessed by thick blood film microscopy. Changes in liver, kidney function and haematological indices on day 7 and day 7 lumefantrine concentration were assessed in the three groups using standard methods. Result: Co-administration treatment regimen (Group 2) was associated with significantly higher (p &lt; 0.05) Late Parasitological Failure (LPF) and mean day 7 blood lumefantrine concentration when compared to AL (Group 1) and staggered dosing (Group 3) treatment regimens. Mean values of liver, kidney function parameters, PCV and haemoglobin were not significantly different (p &gt; 0.05) in Group 3 when compared to Group 1. Conclusion: Oral co-administration of AL with ciprofloxacin is associated with drug-drug interaction but the therapeutic implications for the efficacy of AL remains unclear.
DOI: 10.17632/fvccdd6r4f.1
title: Source Files for tci-gatewaymodule

description: This repository stores all data necessary to reproduce the TCI gateway module for integrating legacy laboratory devices into the network of the digitized laboratory.
DOI: 10.17632/4f3mrkcxvb.3
title: Data for: Power spectrum analysis of Jupiter’s South Pole clouds by Juno/JIRAM data

description: The files SFT_81d7_PSD_ave&STDA, equatorward_PSD.txt and poleward_PSD.txt refer to Figure 2 and 3 respectively of the paper " Turbulence Power Spectra in Regions Surrounding Jupiter's South Polar Cyclones from Juno/JIRAM " submitted to JGR planets. They contain average power spectral densities (PSDs) from JIRAM data acquired at Jupiter's South Pole. The PSDs are computed by means of FFT applied to circular brightness scans extracted from JIRAM images. In the file SFT_81d7_PSD_ave&STDA the wavenumber bin values (column 1), the average PSD (column 2) and the error bars (column 3), related to the equatorward dataset of the Juno’s 4th perijove, are reported. The files equatorward_PSD.txt and poleward_PSD.txt refer to PSDs computed for regions equatorward and poleward the ring of cyclones at Jupiter's South Pole. In both files the first column contains the wavenumber bin values, while in column 2 to column 7 the PSDs from six Juno perijove's passes are reported. Figure 4c.pdf, Figure 4d.png and Figure 4e.png are the single panels of Figure 4 in the paper. They are in sequence: the inverse FFT of the JIR_IMG_RDR_2017033T150327_V01 dataset after high-pass filtering (from the Juno’s 4th perijove), the detail of the region into the black square of Figure 4c and the detail of the region inside the red circle of Figure 4c.
DOI: 10.17632/4f3mrkcxvb.4
title: Data for: Turbulence Power Spectra in Regions Surrounding Jupiter's South Polar Cyclones from Juno/JIRAM

description: The files SFT_81d7_PSD_ave&STDA, equatorward_PSD.txt and poleward_PSD.txt refer to Figure 2 and 3 respectively of the paper " Turbulence Power Spectra in Regions Surrounding Jupiter's South Polar Cyclones from Juno/JIRAM " submitted to JGR planets. They contain average power spectral densities (PSDs) from JIRAM data acquired at Jupiter's South Pole. The PSDs are computed by means of FFT applied to circular brightness scans extracted from JIRAM images. In the file SFT_81d7_PSD_ave&STDA the wavenumber bin values (column 1), the average PSD (column 2) and the error bars (column 3), related to the equatorward dataset of the Juno’s 4th perijove, are reported. The files equatorward_PSD.txt and poleward_PSD.txt refer to PSDs computed for regions equatorward and poleward the ring of cyclones at Jupiter's South Pole. In both files the first column contains the wavenumber bin values, while in column 2 to column 7 the PSDs from six Juno perijove's passes are reported. Figure 4c.pdf, Figure 4d.png and Figure 4e.png are the single panels of Figure 4 in the paper. They are in sequence: the inverse FFT of the JIR_IMG_RDR_2017033T150327_V01 dataset after high-pass filtering (from the Juno’s 4th perijove), the detail of the region into the black square of Figure 4c and the detail of the region inside the red circle of Figure 4c.
DOI: 10.17632/jtp5tck2g9.1
title: Estimation of secondary organic aerosol formation during a photochemical smog episode in Shanghai, China-data

description: Estimation of secondary organic aerosol formation during a photochemical smog episode in Shanghai, China-data
DOI: 10.17632/zdzg6vg8ty.1
title: Maternal characteristics and neonatal outcomes of emergency repeat cesarean deliveries due to early-term spontaneous labor onset

description: Raw data of the participants.