cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15785/sbgrid/660
title: X-Ray Diffraction data from Designed repeat protein specifically in complex with Fz7CRD, source of 6NE4 structure

description: native dataset
description: images were processed with XDS and reflections merged with aimless
DOI: 10.15785/sbgrid/659
title: X-Ray Diffraction data from Designed repeat protein in complex with Fz7, source of 6NE2 structure

description: native dataset
description: data were processed with fastdp
DOI: 10.5063/f13t9fjm
title: Identification and type of interactions tested between variables in original papers of a review for the system diversity, productivity, light and nutrients

description: This dataset summarizes the type of interaction that original papers from a review had tested. The columns titles are as follows: AU: authors (et al. used for multiple authors) of original papers usedYear: Year of publication of original papersType of coefficient reported: Type of effect size reported for interactions (definition of effect sizes considered are in Parreño et al 2019 - in review)Other tested interactions: Interactions tested in the papers that don't appear in the rest of the columnsCovariates: Variables considered by the authors as following other main variable changesNumber of independent observations: Number of independent studies within a single paper The rest of the columns states the interactions that were tested in original studies. Effect variables are placed first and response variables second. For example: "Diversity_Nutrients" is the interaction between changes in diversity as an effect variables and responses in nutrient availability. Content of the columns: - Number 1: indicates that this interaction was reported with an effect size- Number 2: indicates that this interaction was reported with a p-value or significance test only- Number 3: indicates that this interaction was not reported even when data was collected during the study- No number in the content (empty cell): indicates that this interaction was not studied in that paper.
DOI: 10.15785/sbgrid/622
title: X-Ray Diffraction data from Dimeric E2C Darpin complex with EpoR, source of 6MOH structure

description: Native dataset
description: Beam center in image header is incorret; used ORGX=   1591.46  ORGY=   1468.55. Images 1-100 from dataset 1421-7_6 and images 1-180 from dataset 1721-6_5 were processed with XDS and scaled together. Data were ellipsoidally truncated with STARAniso for refinement.
DOI: 10.15785/sbgrid/658
title: X-Ray Diffraction data from Chicken egg white lysozyme, source of 6RTA structure

description: Tetragonal crystals grown with 300g/L Ficoll
description: XDS.INP templates given for all data wedges.
DOI: 10.25345/c5kw61
title: MassIVE MSV000083850 - Differential-Nycodenz combined with an orthogonal rate zonal fractionation of M & L differential fractions (TMT_MS3)
title: Differential-Nycodenz fractionation analyzed with an orthogonal fractionation of two combined differential fractions (Heavy and Light mitochondrial (ML)) using rate zonal centrifugation. Analysis is performed using isobaric labeling in TMT-MS3
DOI: 10.25919/5ce7f3814af33
title: Parkes observations for project P1011 semester 2019APRS_03

description: Pulsars with features in their radio spectra, such as curvature or breaks seem to be special cases among the known pulsar population, with only about 20 per cent exhibiting them. Unfortunately, reliable flux density measurements besides at 1.4 GHz are often unavailable, so that their spectral morphologies and features cannot be determined accurately. We propose to utilize the unique capabilities of the newly commissioned UWL receiver at the Parkes telescope, its extremely wide instantaneous frequency coverage from about 700 to 4000 MHz together with its high sensitivity, to determine the spectra of 26 radio pulsars. These have previously been identified to exhibit spectral features or show hints thereof. The new Parkes data are crucial to determine their spectral morphologies in that frequency range, to characterize their spectral features and to resolve these within the recorded bandwidth. Our aim is to understand the physical origin of the features, namely, whether these are perhaps intrinsic to the pulsar emission in these sources, are caused by absorption processes inside the pulsar's magnetosphere, or along the line of sight.
DOI: 10.25919/5ce7f4217354a
title: Parkes observations for project P958 semester 2019APRS_22

description: Fast radio bursts (FRBs) continue to raise more questions than they answer. Until a few months ago, only one burst – the only one known to repeat -  had been localized to a bright radio nebula (either a young supernova remnant or pulsar wind nebulae) in a distant dwarf galaxy.   
Over the last year searches with the Australian Square Kilometre Array Pathfinder (ASKAP) have detected 28 bursts, two of which have been localised to host galaxies at redshifts &gt; 0.3. These bursts and their hosts are very unlike the repeater, suggesting there may be a dichotomy in the population.  Over the next six months we expect to detect another 12 FRBs, which will also have sub-arcsecond localisations.   Here we propose to search this population for repeats.  Our comprehensive sample and a dense monitoring campaign of well localised bursts, at a fluence limit more than 60 times lower than that of their detections, will either confirm the presence of additional repeating FRBs or the uniqueness of FRB 121102 amongst the population.
DOI: 10.5281/zenodo.3228507
title: #39 in MCF-7 and U87MG tumor models at different time points

description: Original CT and PET image files for compound #39 in MCF-7 and U87MG tumor models at different time points.
DOI: 10.5281/zenodo.3228508
title: #39 in MCF-7 and U87MG tumor models at different time points

description: Original CT and PET image files for compound #39 in MCF-7 and U87MG tumor models at different time points.
DOI: 10.17632/bgdg49c7hz.1
title: Data for: Possibilities for wider investment in solar energy implementation
DOI: 10.17632/d64v5mwp4t.2
title: Data for: Simulation study of the liquefaction of low-pressure unconventional natural gas and a novel hybrid liquefaction cycle

description: simulation results of direct liquefaction process, pressure boost liquefaction process and hybrid liquefaction process
DOI: 10.15785/sbgrid/626
title: X-Ray Diffraction data from EpoR complex with E2 DARPin, source of 6MOE structure

description: Native Dataset
description: processed with XDS
DOI: 10.15785/sbgrid/654
title: X-Ray Diffraction data from Chicken egg white lysozyme, source of 6RT1 structure

description: Highly redundant dataset from Cu Ka home source
description: XDS.INP templates included for the 13 wedges composing the dataset
DOI: 10.15785/sbgrid/638
title: X-Ray Diffraction data from Designed repeat binding protein with Frizzled-8 CRD, source of 6NDZ structure

description: Merged datasets for structure solution by MR
description: Merged C13 and C15 datasets
DOI: 10.15785/sbgrid/620
title: X-Ray Diffraction data from EpoR complex with dimeric DARPin ACR5, source of 6MOJ structure

description: native data set
description: after processing in XDS, unmerged reflections were ellipsoidally truncated using STARaniso for refinement.
DOI: 10.25345/c54p79
title: MassIVE MSV000083857 - Coordinate Enhancer Reprogramming by GATA3 and AP1 Promotes Phenotypic Plasticity to Achieve Breast Cancer Endocrine Resistance
title: Phenotypic plasticity has emerged as an important mechanism of therapy resistance in cancers, yet the underlying molecular mechanisms remain unclear. Using an established breast cancer cellular model for endocrine resistance, we show that hormone resistance is associated with enhanced phenotypic plasticity, indicated by a general downregulation of luminal/epithelial differentiation markers and upregulation of basal/mesenchymal invasive markers. Our extensive omics studies, including GRO-seq on enhancer landscapes, demonstrate that the global enhancer gain/loss reprogramming driven by the differential interactions between ER-alpha and other oncogenic transcription factors (TFs), predominantly GATA3 and AP1, profoundly alters breast cancer transcriptional programs. Our functional studies in multiple biological systems support a coordinate role of GATA3 and AP1 in enhancer reprogramming that drives phenotypic plasticity to achieve endocrine resistance or cancer invasive progression. Thus, changes in TF-TF and TF-enhancer interactions can lead to genome-wide enhancer reprogramming, resulting in transcriptional dysregulations that promote plasticity and cancer therapy-resistance progression
DOI: 10.15785/sbgrid/624
title: X-Ray Diffraction data from dimeric DARPin E2C, source of 6MOG structure

description: native dataset
description: Data processed with XDS
DOI: 10.15785/sbgrid/619
title: X-Ray Diffraction data from EpoR complex with monoextended DARPin R12, source of 6MOL structure

description: native dataset
description: after processing in XDS, unmerged reflections were ellipsoidally truncated using STARaniso for refinement.
Only frames 1-800 were used.
DOI: 10.15785/sbgrid/656
title: X-Ray Diffraction data from Chicken egg white lysozyme, source of 6RT3 structure

description: High resolution pass
DOI: 10.17632/m2xfcvh266.1
title: Data for: Opportunistic occupancy-count estimation using sensor fusion: A case study

description: The file contains anonymized data from 173 different sensor records from PIR motion detectors, CO2 sensors, plug loads, lighting loads, electricity use, WiFi access points in a large commercial building with concurrent groundtruth data. The label nomenclature is included in the data file.
DOI: 10.15785/sbgrid/639
title: X-Ray Diffraction data from Designed repeat binding protein with Frizzled-4 CRD, source of 6NE1 structure

description: Native Dataset
description: Data were processed with HKL2000
DOI: 10.15785/sbgrid/657
title: X-Ray Diffraction data from Chicken egg white lysozyme, source of 6RT9 structure

description: Orthorhombic crystals grown with 300g/L sucrose
description: XDS.INP templates are provided for all data wedges.
DOI: 10.15785/sbgrid/621
title: X-Ray Diffraction data from EpoR complex with dimeric DARPin CCR5, source of 6MOI structure

description: Native Dataset
description: Data were processed in XDS
DOI: 10.15785/sbgrid/625
title: X-Ray Diffraction data from EpoR complex with G2 DARPin, source of 6MOF structure

description: Native dataset
description: Frames 1-850 were processed with XDS
DOI: 10.17632/dxfdzdzc2v.1
title: Data for: Who Delegates? Evidence from Dictator Games

description: Data for Gawn and Innes "Who Delegates? Evidence from Dictator Games."
DOI: 10.17632/hzrsn6sbxn.1
title: Data for: Paleomagnetism and rock magnetic cyclostratigraphy of the Ediacaran Doushantuo Formation, South China: Constraints on the remagnetization mechanism and the encoding process of Milankovitch cycles

description: Supplementary data for the manuscript titled "Paleomagnetism and rock magnetic cyclostratigraphy of the Ediacaran Doushantuo Formation, South China: Constraints on the remagnetization mechanism and the encoding process of Milankovitch cycles"
DOI: 10.18739/a2np1wj27
title: Warming and irradiance Measurement (WARM) buoys deployed in Canada Basin and Chukchi Shelf, Arctic Ocean, 2018
DOI: 10.5281/zenodo.3228672
title: Computation-Ready, Experimental Metal–Organic Frameworks

description: Experimentally refined crystal structures for metal–organic frameworks (MOFs) often include solvent molecules and partially occupied or disordered atoms. This creates a major impediment to applying high-throughput computational screening to MOFs. To address this problem, we have constructed a database of MOF structures that are derived from experimental data but are immediately suitable for molecular simulations. 

The development of the CoRE MOF 2014 database is described in “Computation-ready, experimental metal-organic frameworks: A tool to enable high-throughput screening of nanoporous crystals” Chung, Y.G. et al., Chem. Mater. 2014, 26, 6185-6192 (DOI: 10.1021/cm502594j). The CoRE MOF 2014 database was developed through a collaboration of research groups participating in the Nanoporous Materials Genome Center that is supported by the U.S. Department of Energy, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences and Biosciences under Award DE-FG02-12ER16362.
description: U.S. Department of Energy, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences and Biosciences under Award DE-FG02-12ER16362.
DOI: 10.5281/zenodo.3228673
title: Computation-Ready, Experimental Metal–Organic Frameworks

description: Experimentally refined crystal structures for metal–organic frameworks (MOFs) often include solvent molecules and partially occupied or disordered atoms. This creates a major impediment to applying high-throughput computational screening to MOFs. To address this problem, we have constructed a database of MOF structures that are derived from experimental data but are immediately suitable for molecular simulations. 

The development of the CoRE MOF 2014 database is described in “Computation-ready, experimental metal-organic frameworks: A tool to enable high-throughput screening of nanoporous crystals” Chung, Y.G. et al., Chem. Mater. 2014, 26, 6185-6192 (DOI: 10.1021/cm502594j). The CoRE MOF 2014 database was developed through a collaboration of research groups participating in the Nanoporous Materials Genome Center that is supported by the U.S. Department of Energy, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences and Biosciences under Award DE-FG02-12ER16362.
description: U.S. Department of Energy, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences and Biosciences under Award DE-FG02-12ER16362.
DOI: 10.17632/tgpktry2nh.1
title: Data for: Recent distribution, inventories and temporal trends of suspended particulate matter in the St. Lawrence Estuary, Canada
DOI: 10.25919/5ce87b14a6419
title: Parkes observations for project P595 semester 2019APRS_02

description: We propose to continue the PULSE@Parkes project in which high school students from Australia and around the World use the Parkes radio telescope in a remote observing model to observe and analyse pulsar data.  The data from some PULSE@Parkes observations are used to support the FERMI Gamma ray mission, other observations supplement the P456 Pulsar Timing Array project and the remainder were chosen in order to make a detailed analysis of pulsar timing irregularities and intermittency.
DOI: 10.5281/zenodo.3228533
title: #42 dynamic PET scan

description: #42 dynamic PET scan
DOI: 10.5281/zenodo.3228534
title: #42 dynamic PET scan

description: #42 dynamic PET scan
DOI: 10.5281/zenodo.3228916
title: Assessment of cardiovascular risk in post-menopausal women in Ghana

description: <strong>Background</strong>: Cardiovascular diseases (CVD) continue to be major cause of death among post-menopausal women. <strong>Aim:</strong> we sought to assess cardiovascular risk among pre and post-menopausal women living within the Cape Coast Municipality, by comparing the lipid profiles and other emerging biomarkers of CVD i.e. atherogenic index of plasma (AIP), visceral adiposity index (VIA), body adiposity index (BAI) and Castelli index I (CRI-I).

<strong>Method:</strong> A cross section of 150 women (75 pre-menopausal women and 75 post-menopausal women) were randomly recruited into the study. Socio-demographic and clinical characteristics of participants were obtained with the aid of a structured questionnaire. Blood pressure (BP) was measured and Lipid profile was estimated using fasting blood samples. Other markers of cardiovascular risk such as BMI, AIP, VAI, BAI and CRI-I were estimated.

<strong>Results: </strong>We report elevated levels of total cholesterol (TC) (p&lt;0.0001), low density lipoprotein (LDL) (p&lt;0.0001), very low-density lipoprotein (VLDL)(p=<strong>0.0021)</strong>, Triglycerides (TG) (p&lt;0.0001) and non-high-density lipoprotein (non-HDL-C) cholesterol (p&lt;0.0001) in post-menopausal women in contrast to pre-menopausal women. High-density lipoprotein (HDL) (p&lt;0.0001) was however decreased in post-menopausal women. Mean AIP (p<strong>&lt; 0.0001)</strong>, VAI (p<strong>&lt; 0.0001)</strong>, BAI (p&lt;<strong> 0.0038)</strong> and CRI-I (p&lt;<strong>0.0001)</strong> were significantly increased in post-menopausal women compared to pre-menopausal women. We also report a positive correlation of TC, TG, VLDL and NON-HDL with atherogenic markers AIP, VAI and CRI-I in post-menopausal women. A negative correlation of HDL with AIP, VAI, and CR in post-menopausal women was also observed.

<strong>Conclusion:</strong> Menopause could lead to changes in lipid profile to atherogenicity with associated increase in the risk of CVD. Atherogenic markers such as AIP, VAI, BAI, and CR can serve as potential biomarkers for predicting CVD.
DOI: 10.5281/zenodo.3228917
title: Assessment of cardiovascular risk in post-menopausal women in Ghana

description: <strong>Background</strong>: Cardiovascular diseases (CVD) continue to be major cause of death among post-menopausal women. <strong>Aim:</strong> we sought to assess cardiovascular risk among pre and post-menopausal women living within the Cape Coast Municipality, by comparing the lipid profiles and other emerging biomarkers of CVD i.e. atherogenic index of plasma (AIP), visceral adiposity index (VIA), body adiposity index (BAI) and Castelli index I (CRI-I).

<strong>Method:</strong> A cross section of 150 women (75 pre-menopausal women and 75 post-menopausal women) were randomly recruited into the study. Socio-demographic and clinical characteristics of participants were obtained with the aid of a structured questionnaire. Blood pressure (BP) was measured and Lipid profile was estimated using fasting blood samples. Other markers of cardiovascular risk such as BMI, AIP, VAI, BAI and CRI-I were estimated.

<strong>Results: </strong>We report elevated levels of total cholesterol (TC) (p&lt;0.0001), low density lipoprotein (LDL) (p&lt;0.0001), very low-density lipoprotein (VLDL)(p=<strong>0.0021)</strong>, Triglycerides (TG) (p&lt;0.0001) and non-high-density lipoprotein (non-HDL-C) cholesterol (p&lt;0.0001) in post-menopausal women in contrast to pre-menopausal women. High-density lipoprotein (HDL) (p&lt;0.0001) was however decreased in post-menopausal women. Mean AIP (p<strong>&lt; 0.0001)</strong>, VAI (p<strong>&lt; 0.0001)</strong>, BAI (p&lt;<strong> 0.0038)</strong> and CRI-I (p&lt;<strong>0.0001)</strong> were significantly increased in post-menopausal women compared to pre-menopausal women. We also report a positive correlation of TC, TG, VLDL and NON-HDL with atherogenic markers AIP, VAI and CRI-I in post-menopausal women. A negative correlation of HDL with AIP, VAI, and CR in post-menopausal women was also observed.

<strong>Conclusion:</strong> Menopause could lead to changes in lipid profile to atherogenicity with associated increase in the risk of CVD. Atherogenic markers such as AIP, VAI, BAI, and CR can serve as potential biomarkers for predicting CVD.
DOI: 10.25345/c51063
title: MassIVE MSV000083858 - GNPS_Trapped ion mobility spectrometry (TIMS) and parallel accumulation - serial fragmentation (PASEF) enable in-depth lipidomics from minimal sample amounts_Vasilpoulou et al.
title: In this study, we develop a high-sensitivity lipidomics workflow based on nanoflow liquid chromatography and trapped ion mobility spectrometry. Taking advantage of the PASEF principle, we fragmented on average nine precursors in each 100 ms TIMS scans, while maintaining the full mobility resolution of co-eluting isomers. The very high acquisition speed of about 100 Hz allowed us to obtain MS/MS spectra of the vast majority of detected isotope patterns for automated lipid identification. Analyzing 1 uL of human plasma, 100ug of mouse liver and 5e5 HeLa cells PASEF almost doubled the number of identified lipids and reduced the analysis time by a factor of three without loss of coverage. Our single-extraction workflow surpasses the plasma lipid coverage of extensive multi-step protocols in common lipid classes and achieves attomol sensitivity. Building on the high precision and accuracy of TIMS collisional cross section measurements (median CV 0.2%), we compiled 1,329 lipid CCS values from human plasma, mouse liver and human cancer cells.
DOI: 10.5061/dryad.d5hg2tv/1
title: Dryad Item 10.5061/DRYAD.D5HG2TV/1

description: (:tba)
DOI: 10.5281/zenodo.3227975
title: MetaLink - Closure and Error Degree of 556M owl:sameAs statements

description: MetaLink is a dataset that contains metadata for a very large set of owl:sameAs links that are crawled from the LOD Cloud. MetaLink encodes a previously published error metric for each of these links [Raad et al., 2018]. This error degree ranges from 0.0 (most likely correct) till 1.0 (most likely incorrect). The idea is that the more an owl:sameAs link is isolated in the network (of all owl:sameAs links), the higher error degree this link will have. Experiments shows that discarding the 1M owl:sameAs links with an error degree &gt;0.99 can significantly increase the quality of the transitive closure. Also by keeping only the 400M owl:sameAs links with error degree &lt;= 0.4, the resulting closure is 100% precise in several manually evaluated cases. The resulted equivalence classes from these different closures are publicly available online. MetaLink is published in combination with LOD-a-lot, a dataset that is based on a very large crawl of a subset of the LOD Cloud. By combining MetaLink and LOD-a-lot, applications are able to make informed decisions about whether or not to follow specific links on the LOD Cloud. This dataset contains 4,352,602,452 unique triples, and is available in HDT (Header Dictionary Triples) format. It can be navigated online using the TriplyDB Linked Data hosting platform: https://krr.triply.cc/krr/metalink. A figure describing the vocabulary of the MetaLink dataset can be found here. Classes are displayed by circles and properties are displayed by arcs. The MetaLink-specific classes and properties are displayed in red, the blue classes and properties are reused from existing vocabularies.
DOI: 10.5281/zenodo.3227976
title: MetaLink - Closure and Error Degree of 556M owl:sameAs statements

description: MetaLink is a dataset that contains metadata for a very large set of owl:sameAs links that are crawled from the LOD Cloud. MetaLink encodes a previously published error metric for each of these links [Raad et al., 2018]. This error degree ranges from 0.0 (most likely correct) till 1.0 (most likely incorrect). The idea is that the more an owl:sameAs link is isolated in the network (of all owl:sameAs links), the higher error degree this link will have. Experiments shows that discarding the 1M owl:sameAs links with an error degree &gt;0.99 can significantly increase the quality of the transitive closure. Also by keeping only the 400M owl:sameAs links with error degree &lt;= 0.4, the resulting closure is 100% precise in several manually evaluated cases. The resulted equivalence classes from these different closures are publicly available online. MetaLink is published in combination with LOD-a-lot, a dataset that is based on a very large crawl of a subset of the LOD Cloud. By combining MetaLink and LOD-a-lot, applications are able to make informed decisions about whether or not to follow specific links on the LOD Cloud. This dataset contains 4,352,602,452 unique triples, and is available in HDT (Header Dictionary Triples) format. It can be navigated online using the TriplyDB Linked Data hosting platform: https://krr.triply.cc/krr/metalink. A figure describing the vocabulary of the MetaLink dataset can be found here. Classes are displayed by circles and properties are displayed by arcs. The MetaLink-specific classes and properties are displayed in red, the blue classes and properties are reused from existing vocabularies.