cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.1249282
title: Quantification of 3D spatial correlations between state variables and distances to the grain boundary network in full-field crystal plasticity spectral method simulations

description: This repository provides supplementary material to our paper: https://doi.org/10.1088/1361-651X/ab7f8c <strong>DAMASKPhenoPowerLaw75x75x75TestCase.zip</strong><br> An exemplary DAMASK simulation and corresponding output, generated from DAMASK v2.0.3. We used this to debug more productively the implementation of the post-processing tools. Furthermore we employed this simulation in the paper to identify why the graph clustering grain reconstruction method in many cases fuses neighboring grains in similar orientation. <strong>DAMASKPhenoPowerLaw256x256x256ProductionRun.zip</strong><br> All input to run the DAMASK simulation that we discussed in the paper. <strong>DAMASKPDTSettings256x256x256ProductionRun.zip</strong><br> All damaskpdt settings files to execute the individual post-processing studies of the paper. <strong>DAMASKPDTSlurmSubmissionScripts256x256x256ProductionRun.zip</strong><br> All SLURM scripts we used to execute the compilation of damaskpdt and post-processing on TALOS. <strong>DAMASKPDTSlurmLogs256x256x256ProductionRun.zip</strong><br> All logs from the SLURM job management system from the individual post-processing runs. <strong>DAMASKPDTSourceCode_USedForAnalyticalDistanceToVoronoiCellFacets.zip</strong><br> The source code to the tool we developed during the revision process of our paper to verify the methods<br> via computing analytically exact distances to the facets of the Poisson-Voronoi tessellation from the<br> DAMASK microstructure instantiation.<br> <br> <strong>DAMASKPDTSourceCode_Production.zip</strong><br> The source code we used to post-process all results from the DAMASK simulations. <strong>GitHub repository:</strong><br> https://github.com/mkuehbach/damaskpdt
description: {"references": ["http://dx.doi.org/10.1088/1361-651X/ab7f8c"]}
DOI: 10.25919/5e785bb9c6b31
title: Parkes observations for project P1032 semester 2019OCTS_16

description: We propose timing observations of southern double neutron star (DNS) systems to obtain precise estimates of the component masses and thus increase the statistics of neutron star mass distribution. The improved sensitivity of the Ultra Wideband Low (UWL) receiver will provide a 3X increase in the precision of the time of arrivals (ToAs) of the pulses compared to the multibeam data. This has the potential to perform quick measurements of masses for a number of binary systems in the next 1-2 years. We will also use MeerKAT observations at crucial orbital phases to increase our chances of mass measurements. Increase in the number of measured NS masses has significant implications for understanding NS internal structure and for stellar and binary evolution physics.
DOI: 10.17632/f4nd9v97fm.2
title: Data for: a Mathematical Model of OECTs with variable internal geometry

description: (1) Excel with the measured data of current and voltage in OECTs implanted in systems with controlled values of solute concentration and internal wet fraction (2) Mathematical model used to decode data
DOI: 10.5519/qd.3s9y10p1
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (41 records)
DOI: 10.21227/fh69-2r36
title: HRSCD - High Resolution Semantic Change Detection Dataset

description: This dataset contains 291 coregistered image pairs of RGB aerial images from IGS's BD ORTHO database. Pixel-level change and land cover annotations are provided, generated by rasterizing Urban Atlas 2006, Urban Atlas 2012, and Urban Atlas Change 2006-2012 maps.
DOI: 10.5281/zenodo.3724060
title: Datasets of virtual subjects: aortic blood pressure and flow waves

description: These datasets contain aortic blood pressure and flow waves for thousands of virtual subjects. They have been simulated using the 2-element and 3-element Windkessel models. The required cardiovascular parameter values have been extracted from the clinical literature for healthy adults. More information is available at: https://github.com/jmariscal-harana/cbp/tree/master/Datasets
DOI: 10.5281/zenodo.3724077
title: R code and radiocarbon dates to reproduce figures and results of our paper "Population dynamics ..."

description: R Codes and dataset to reproduce figures and results of the paper <strong><em>Population dynamics during the Neolithic transition and the onset of megalithism in Portugal according to summed probability distribution of radiocarbon determinations</em>. </strong>
DOI: 10.5281/zenodo.3724078
title: R code and radiocarbon dates to reproduce figures and results of our paper "Population dynamics ..."

description: R Codes and dataset to reproduce figures and results of the paper <strong><em>Population dynamics during the Neolithic transition and the onset of megalithism in Portugal according to summed probability distribution of radiocarbon determinations</em>. </strong>
DOI: 10.5286/isis.e.rb1910621-4
title: H/D isotope effect on enamtiomers: the case of Alanine

description: In the current description of any molecular system based on the Schrodinger equation with a Hamiltonian accounting only for the electromagnetic forces, the structural properties of enantiomers should be perfectly mirror symmetric. A recent study on D-Alanine claims to have revealed dissimilarities in the structural properties of D-alanine compared with L-alanine. The fact that such a study was conducted only on the deuterated specie of one enantiomer without takinginto account the possibility of D/H exchange, give space to questions regarding the revealed dissimilarities. This proposal aims at investigating the H/D isotope effect on both enantiomers of alanine, using neutron diffraction (both powder and single-crystal) and in-situ Raman spectroscopy.
DOI: 10.5281/zenodo.3724098
title: Topoisomerase IIA is essential for maintenance of mitotic chromosome structure

description: Data files for the manuscript #2020-01760 "Topoisomerase IIA is essential for maintenance of mitotic chromosome structure" in press in the journal "Preceedings of the National Academy of Sciences" (PNAS). Abstract Topoisomerase IIa (TOP2A) is a core component of mitotic chromosomes and important for establishing mitotic chromosome condensation. The primary roles of TOP2A in mitosis have been difficult to decipher due to its multiple functions across the cell cycle. To more precisely understand the role of TOP2A in mitosis, we used the auxin inducible degron (AID) system to rapidly degrade the protein at different stages of the human cell cycle. Removal of TOP2A prior to mitosis does not affect prophase timing or the initiation of chromosome condensation. Instead, it prevents chromatin condensation in prometaphase, extends the length of prometaphase and ultimately causes cells to exit mitosis without chromosome segregation occurring. Surprisingly, we find that removal of TOP2A from cells arrested in prometaphase or metaphase cause dramatic loss of compacted mitotic chromosome structure and conclude that TOP2A is crucial for maintenance of mitotic chromosomes. Treatments with drugs used to poison/inhibit TOP2A function, such as etoposide and ICRF-193, does not phenocopy the effects on chromosome structure of TOP2A degradation by AID. Our data, points to a role for TOP2A as a structural chromosome maintenance enzyme component locking in condensation states once sufficient compaction is achieved.
DOI: 10.5281/zenodo.3724099
title: Topoisomerase IIA is essential for maintenance of mitotic chromosome structure

description: Data files for the manuscript #2020-01760 "Topoisomerase IIA is essential for maintenance of mitotic chromosome structure" in press in the journal "Preceedings of the National Academy of Sciences" (PNAS). Abstract Topoisomerase IIa (TOP2A) is a core component of mitotic chromosomes and important for establishing mitotic chromosome condensation. The primary roles of TOP2A in mitosis have been difficult to decipher due to its multiple functions across the cell cycle. To more precisely understand the role of TOP2A in mitosis, we used the auxin inducible degron (AID) system to rapidly degrade the protein at different stages of the human cell cycle. Removal of TOP2A prior to mitosis does not affect prophase timing or the initiation of chromosome condensation. Instead, it prevents chromatin condensation in prometaphase, extends the length of prometaphase and ultimately causes cells to exit mitosis without chromosome segregation occurring. Surprisingly, we find that removal of TOP2A from cells arrested in prometaphase or metaphase cause dramatic loss of compacted mitotic chromosome structure and conclude that TOP2A is crucial for maintenance of mitotic chromosomes. Treatments with drugs used to poison/inhibit TOP2A function, such as etoposide and ICRF-193, does not phenocopy the effects on chromosome structure of TOP2A degradation by AID. Our data, points to a role for TOP2A as a structural chromosome maintenance enzyme component locking in condensation states once sufficient compaction is achieved.
DOI: 10.18716/nmrshiftdb2/76157
title: NMR data for InChI=1S/C13H14N2O4/c16-8-10-13(17,6-7-18-10)12-14-11(19-15-12)9-4-2-1-3-5-9/h1-5,10,16-17H,6-8H2
DOI: 10.5281/zenodo.3724100
title: mGEMS Enterococcus faecalis reference dataset

description: This dataset contains the <em>E. faecalis</em> sequences (all available assemblies from the NCBI as of 2 February 2020 which could be assigned to a multilocus sequence type), their multilocus sequence types inferred with the mlst software (v2.18.1) using the MLST scheme described in 10.1128/JCM.02596-05, and accession numbers used in the mGEMS publication as the reference dataset.
DOI: 10.5281/zenodo.3724101
title: mGEMS Enterococcus faecalis reference dataset

description: This dataset contains the <em>E. faecalis</em> sequences (all available assemblies from the NCBI as of 2 February 2020 which could be assigned to a multilocus sequence type), their multilocus sequence types inferred with the mlst software (v2.18.1) using the MLST scheme described in 10.1128/JCM.02596-05, and accession numbers used in the mGEMS publication as the reference dataset.
DOI: 10.18716/nmrshiftdb2/76155
title: NMR data for 3-bromo-5-(4-nitrophenyl)-1,2,4-oxadiazole
DOI: 10.25345/c5kd8z
title: MassIVE MSV000085134 - Untargeted metabolomics on root exudates
title: This study aims to profile root exudate during root pre-interaction with a fungal pathogen. In response to the presence of both partners, either the plant host or the fungal pathogen might change their metabolic status and produce small bioactive molecules which might be perceived by their interaction partners.
DOI: 10.5281/zenodo.3724112
title: mGEMS Escherichia coli reference dataset

description: This dataset contains the <em>E. coli</em> sequences (assembled with shovill v0.9.0), their sequence type 131 sublineages, and accession numbers used in the mGEMS publication as the reference dataset.
DOI: 10.18716/nmrshiftdb2/76165
title: NMR data for (Z)-2-diazonio-1-methoxy-2-(3-methyl-1,2,4-thiadiazol-5-yl)ethenolate
DOI: 10.18716/nmrshiftdb2/76163
title: NMR data for 3-bromo-5-cyclopropyl-1,2,4-oxadiazole
DOI: 10.5281/zenodo.3695360
title: Data_Figure 2_Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration

description: Data of figure 2 from Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration Dataset (doi: 10.1007/s00018-019-03227-w) contains the original figure as TIF-format (10.1007_s00018-019-03227-w_CMLS_Fig2). Corresponding raw data obtained from a) Migration potential as four files in CSV format (31003A-179400_ date_examiner_17BHSD12_16_1_1-4. b) mRNA content analyzed by RT-PCR provided as ten files in CSV format (31003A-179400_date_examiner_17BHSD12_1_1-2_1-6) and proliferation investigation on xCELLigence provided as six files in CSV format (31003A-179400_date_examiner_17BHSD12_9_2_1-6). All further experiment related information and subsequent data analysis provided as four meta-data-files (31003A-179400_ date_examiner_17BHSD12_16/1/9_dataset_M_1) as TXT format.
DOI: 10.5281/zenodo.3695361
title: Data_Figure 2_Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration

description: Data of figure 2 from Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration Dataset (doi: 10.1007/s00018-019-03227-w) contains the original figure as TIF-format (10.1007_s00018-019-03227-w_CMLS_Fig2). Corresponding raw data obtained from a) Migration potential as four files in CSV format (31003A-179400_ date_examiner_17BHSD12_16_1_1-4. b) mRNA content analyzed by RT-PCR provided as ten files in CSV format (31003A-179400_date_examiner_17BHSD12_1_1-2_1-6) and proliferation investigation on xCELLigence provided as six files in CSV format (31003A-179400_date_examiner_17BHSD12_9_2_1-6). All further experiment related information and subsequent data analysis provided as four meta-data-files (31003A-179400_ date_examiner_17BHSD12_16/1/9_dataset_M_1) as TXT format.
DOI: 10.5281/zenodo.3724130
title: Dataset related to article "Donor-Specific Anti-HLA Antibodies in Haploidentical Stem Cell Transplantation with Post-Transplantation Cyclophosphamide: Risk of Graft Failure, Poor Graft Function, and Impact on Outcomes."

description: The presence of donor-specific anti-HLA antibodies (DSA) is associated with a 10-fold increased risk of graft failure in haploidentical stem cell transplantation (haplo-SCT). Consensus guidelines from the European Society for Blood and Marrow Transplantation set a mean fluorescence intensity (MFI) &gt;1000 as a cutoff for DSA positivity. In the absence of an alternative donor, it is recommended that patients undergo desensitization therapy, especially with high DSA levels (&gt;5000 MFI). The aim of this study was to analyze the impact of DSA on risk of graft failure and poor graft function, as well as on major outcomes in a consecutive cohort of patients who were systematically screened for DSA before haplo-SCT. A total of 141 consecutive patients were candidates for unmanipulated haplo-SCT with post-transplantation cyclophosphamide (PT-Cy) at our center between January 2012 and January 2018, and 135 were analyzed for the presence of HLA antibodies. Of these 134 patients underwent haplo-SCT. HLA antibodies were detected in 40 patients, including 19 with DSA and 21 without DSA. Ten of the 19 patients with DSA underwent transplantation using that donor, whereas 2 underwent a desensitization program before transplantation. Only 2 patients experienced primary graft failure (1.4 %), both of whom were without DSA. Twenty patients developed a poor graft function (15%). The 3-year overall survival (OS), 3-year progression-free survival (PFS), and 1-year nonrelapse mortality (NRM) were analyzed according to the presence or absence of DSA. No statistically significant difference was found. No impact of the presence of DSA on the risk of developing graft failure and poor graft function was revealed. Major outcomes of transplantation were analyzed separately in patients with poor graft function and those with good graft function. The 3-year OS, 3-year PFS, and 1-year NRM in good graft function and poor graft function populations were 62% versus 20% (P &lt; .0001), 53% versus 20% (P &lt; .0001), and 12% versus 40% (P = .009), respectively. The presence of low-level DSA in the absence of desensitization did not correlate with the risk of developing graft failure and poor graft function. Patients who experienced poor graft function had worse outcomes than patients with good graft function.
DOI: 10.5281/zenodo.3724131
title: Dataset related to article "Donor-Specific Anti-HLA Antibodies in Haploidentical Stem Cell Transplantation with Post-Transplantation Cyclophosphamide: Risk of Graft Failure, Poor Graft Function, and Impact on Outcomes."

description: The presence of donor-specific anti-HLA antibodies (DSA) is associated with a 10-fold increased risk of graft failure in haploidentical stem cell transplantation (haplo-SCT). Consensus guidelines from the European Society for Blood and Marrow Transplantation set a mean fluorescence intensity (MFI) &gt;1000 as a cutoff for DSA positivity. In the absence of an alternative donor, it is recommended that patients undergo desensitization therapy, especially with high DSA levels (&gt;5000 MFI). The aim of this study was to analyze the impact of DSA on risk of graft failure and poor graft function, as well as on major outcomes in a consecutive cohort of patients who were systematically screened for DSA before haplo-SCT. A total of 141 consecutive patients were candidates for unmanipulated haplo-SCT with post-transplantation cyclophosphamide (PT-Cy) at our center between January 2012 and January 2018, and 135 were analyzed for the presence of HLA antibodies. Of these 134 patients underwent haplo-SCT. HLA antibodies were detected in 40 patients, including 19 with DSA and 21 without DSA. Ten of the 19 patients with DSA underwent transplantation using that donor, whereas 2 underwent a desensitization program before transplantation. Only 2 patients experienced primary graft failure (1.4 %), both of whom were without DSA. Twenty patients developed a poor graft function (15%). The 3-year overall survival (OS), 3-year progression-free survival (PFS), and 1-year nonrelapse mortality (NRM) were analyzed according to the presence or absence of DSA. No statistically significant difference was found. No impact of the presence of DSA on the risk of developing graft failure and poor graft function was revealed. Major outcomes of transplantation were analyzed separately in patients with poor graft function and those with good graft function. The 3-year OS, 3-year PFS, and 1-year NRM in good graft function and poor graft function populations were 62% versus 20% (P &lt; .0001), 53% versus 20% (P &lt; .0001), and 12% versus 40% (P = .009), respectively. The presence of low-level DSA in the absence of desensitization did not correlate with the risk of developing graft failure and poor graft function. Patients who experienced poor graft function had worse outcomes than patients with good graft function.
DOI: 10.18716/nmrshiftdb2/76172
title: NMR data for 5-(trifluoromethyl)-3H-1,3,4-oxadiazol-2-one
DOI: 10.5281/zenodo.3695379
title: Data_Figure 3_Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration

description: Data of figure 3 from Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration Dataset (doi: 10.1007/s00018-019-03227-w) contains the original figure as TIF-format (10.1194_jlr.M092908_Fig. 3). Corresponding raw data obtained from a) cellomics HTC array scan analysis provided as three files in CSV format (31003A-179400_Date_examiner_17BHSD12_8_2_1-3). Migration potential as three files in CSV format (31003A-179400_ date_examiner_17BHSD12_16_2_1-3); b) mRNA content analyzed by RT-PCR provided as six files in CSV format (31003A-179400_date_examiner_17BHSD12_1_3_1-6); c) western blot and densitometry provided as eight files in CSV format 31003A-179400_date_examiner_2_1-2_1-8). All further experiment related information protocols and subsequent data analysis provided as meta-data-files (31003A-179400_date_examiner_17BHSD12_8/16/1_dataset_M_1) as TXT format and (31003A-179400_date_examiner_17BHSD12_2_dataset_M_2-3) as PNG format.
DOI: 10.5281/zenodo.3695380
title: Data_Figure 3_Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration

description: Data of figure 3 from Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration Dataset (doi: 10.1007/s00018-019-03227-w) contains the original figure as TIF-format (10.1194_jlr.M092908_Fig. 3). Corresponding raw data obtained from a) cellomics HTC array scan analysis provided as three files in CSV format (31003A-179400_Date_examiner_17BHSD12_8_2_1-3). Migration potential as three files in CSV format (31003A-179400_ date_examiner_17BHSD12_16_2_1-3); b) mRNA content analyzed by RT-PCR provided as six files in CSV format (31003A-179400_date_examiner_17BHSD12_1_3_1-6); c) western blot and densitometry provided as eight files in CSV format 31003A-179400_date_examiner_2_1-2_1-8). All further experiment related information protocols and subsequent data analysis provided as meta-data-files (31003A-179400_date_examiner_17BHSD12_8/16/1_dataset_M_1) as TXT format and (31003A-179400_date_examiner_17BHSD12_2_dataset_M_2-3) as PNG format.
DOI: 10.5281/zenodo.3724134
title: mGEMS Staphylococcus aureus reference dataset

description: This dataset contains the <em>S. aureus</em> sequences (assembled with shovill v0.9.0), their sequence type 22 clades, and accession numbers used in the mGEMS publication as the reference dataset.
DOI: 10.5281/zenodo.3724135
title: mGEMS Staphylococcus aureus reference dataset

description: This dataset contains the <em>S. aureus</em> sequences (assembled with shovill v0.9.0), their sequence type 22 clades, and accession numbers used in the mGEMS publication as the reference dataset.
DOI: 10.5281/zenodo.3695395
title: Data_Figure 4_Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration

description: Data of figure 4 from Impact of 17β‑HSD12, the 3‑ketoacyl‑CoA reductase of long‑chain fatty acid synthesis, on breast cancer cell proliferation and migration Dataset (doi: 10.1007/s00018-019-03227-w) contains the original figure as TIF-format (10.1194_jlr.M092908_Fig. 4). Corresponding raw data obtained from: a1/2) Migration potential as five files in CSV format (31003A-179400_date_examiner_17BHSD12_16_3_1-5); b 1/2) Migration potential as four files in CSV format (31003A-179400_date_examiner_17BHSD12_16_4_1-4); c1/2/3) mRNA content analyzed by RT-PCR provided as four files in CSV format (31003A-179400_date_examiner_17BHSD12_1_4_1-4); cellomics HTC array scan analysis provided as three files in CSV format (31003A-179400_Date_examiner_17BHSD12_8_3-4_1-4); d) Migration potential as five files in CSV format (31003A-179400_ date_examiner_17BHSD12_16_5_1-5); e) mRNA content analyzed by RT-PCR provided as six files in CSV format (31003A-179400_date_examiner_17BHSD12_1_5_1-6); f) Migration potential as four files in CSV format (31003A-179400_date_examiner_17BHSD12_16_6_1-4), cellomics HTC array scan analysis provided as three files in CSV format (31003A-179400_Date_examiner_17BHSD12_8_5_1-5); g) ELISA measurement provided as four files in CSV format (31003A-179400_date_examiner_17BHSD12_20_1_1-4). All further experiment related information protocols and subsequent data analysis provided as 10 meta-data-files (31003A-179400_date_examiner_17BHSD12_8/16/1/20_dataset_M_1) as TXT format.