cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25345/c5qq55
title: MassIVE MSV000085216 - Self-incompatibility triggers irreversible oxidative modification of proteins in incompatible pollen
title: Self-incompatibility (SI) is used by many angiosperms to prevent self-fertilization and inbreeding. In Papaver rhoeas interaction of cognate pollen and pistil S-determinants triggers programmed cell death (PCD) of incompatible pollen. We previously identified that reactive oxygen species (ROS) signals to SI-PCD. ROS induced oxidative post-translational modifications (oxPTMs) can regulate protein structure and function. Here we have identified and mapped oxPTMs triggered by SI in incompatible pollen. Notably, SI-induced pollen had numerous irreversible oxidative modifications; untreated pollen had virtually none. Our data provide the first analysis of the protein targets of ROS in the context of SI-induction and represent a milestone because currently there are few reports of irreversible oxPTMs in plants. Strikingly, cytoskeletal proteins and enzymes involved in energy metabolism are a prominent target. Oxidative modifications to a phosphomimic form of a pyrophosphatase result in a reduction of its activity. Therefore, our results demonstrate irreversible oxidation of pollen proteins during SI and show that this can affect protein function. We suggest that this reduction in cellular activity could lead to PCD.
DOI: 10.5258/soton/d1305
title: Coherent network phase stabilization dataset

description: Dataset file for "Phase stabilization of a coherent fibre network by single-photon counting" in Optics Letters.
DOI: 10.14457/mu.res.1998.14
title: อุปสงค์และอุปทานกำลังแรงงานไทยกับแรงงานข้ามชาติ
DOI: 10.14457/mu.res.1998.15
title: การละเมิดสิทธิมนุษยชนในประเทศพม่าจากผู้ลี้ภัยสู่แรงงานข้ามชาติ
DOI: 10.5258/soton/d0343
title: Dataset: Analysis of microvascular blood flow and oxygenation: discrimination between two haemodynamic steady states using nonlinear measures and multiscale analysis

description: Dataset supports: Thanaj, M., Chipperfield, A. J., & Clough, G. F. (2018). Analysis of microvascular blood flow and oxygenation: Discrimination between two haemodynamic steady states using nonlinear measures and multiscale analysis. Computers in Biology and Medicine, 102, 157-167.
DOI: 10.5281/zenodo.3737880
title: MiSeq data from Henssen et al. Elife 2015 DOI: 10.7554/eLife.10565

description: This data represents the output (FASTQ format) of sequencing FLEA-PCR products, as described in Henssen et al. "Genomic DNA transposition induced by human PGBD5" DOI: 10.7554/eLife.10565 All scripts that were used to analyse this data can be found https://zenodo.org/record/22206#.Xmd-IqhKiUk The annotation of the samples can be found in the attached excel file Summary_MiSeq.xlsx Any questions regarding this dataset should be addressed to kentsisresearchgroup@gmail.com or henssenlab@gmail.com
description: {"references": ["Henssen et al, Elife 2015 DOI: 10.7554/eLife.10565"]}
DOI: 10.5281/zenodo.3737879
title: MiSeq data from Henssen et al. Elife 2015 DOI: 10.7554/eLife.10565

description: This data represents the output (FASTQ format) of sequencing FLEA-PCR products, as described in Henssen et al. "Genomic DNA transposition induced by human PGBD5" DOI: 10.7554/eLife.10565 All scripts that were used to analyse this data can be found https://zenodo.org/record/22206#.Xmd-IqhKiUk The annotation of the samples can be found in the attached excel file Summary_MiSeq.xlsx Any questions regarding this dataset should be addressed to kentsisresearchgroup@gmail.com or henssenlab@gmail.com
description: {"references": ["Henssen et al, Elife 2015 DOI: 10.7554/eLife.10565"]}
DOI: 10.5281/zenodo.3737871
title: Empirical Study of the Relationship between Design Patterns and Code Smells

description: Software systems are often developed in such a way that good practices in the object-oriented paradigm are not met, causing the occurrence of specific disharmonies, which are sometimes called code smells. Design patterns catalogue best practices for developing object-oriented software systems. Although code smells and design patterns are widely divergent, there might be a co-occurrence relation between them. The objective of this paper is to empirically evaluate if the presence of design patterns is related to the presence of code smells at different granularity levels. We performed an empirical replication study using 20 design patterns, and 13 code smells in ten small-size to medium-size, open-source Java-based systems. We applied statistical analysis and association rules. Results confirm that classes participating in design patterns have less smell-proneness and smell frequency than classes not participating in design patterns. We also noticed that every design pattern category act in the same way in terms of smell-proneness in the subject systems. However, we observed, based on the association rules learning and the proposed validation technique, that some patterns may be associated with certain smells in some cases. For instance, Command patterns can co-occur with God Class, Blob and External Duplication smell. <strong>The published data set contains the following:</strong> List of the selected systems (source code files) The P-MARt: the design pattern repository as XML for the selected systems. Data of design patterns and code smells: We processed this data by parsing the design pattern XML file and running the smell detection tool (inFusion). The data of the data mining analysis.
DOI: 10.15129/0e4cc5fc-2f8e-4ff9-98bc-bead040ef5ac
title: Data set for Combined Time of Flight and Photometric Stereo Imaging for Surface Reconstruction

description: The data set contains all the data used to produce the figures displayed in the abstract paper. It contains the image (PNG) and the MP4 video, taken with a Samsung Galaxy Phone, of the sphere and cube for the photometric stereo imaging process. The four images obtained from the video file are provided in the PNG format (LED_1, LED_2, LED_3 and LED_4). These four images are used to calculate the surface normal components of the sphere. The surface normal result is saved in a hdf5 file format under the name "surface_normals". Each surface normal components are also provided in a PNG file format (Nx, Ny, Nz and the Albedo). The final reconstruction of the sphere is given in a PNG file ("z_rec_final" and "z_top") but can also be found in the matlab file "data_set_fused_imaging.mat". All the data used in this abstract are in this matlab file. A description of each variables is given in a text format "matlab_set_description". Matlab format .mat can be read with open softwares, such as Octave. For the Time of Flight imaging, the data can be found in the matlab file but are also given in a PNG file ("surperposition_mask" and "ToF_quanticam") which are respectively the mask obtained with the TCSPC mode of the SPAD camera and the range map.
DOI: 10.5287/bodleian:do1ojkpxk
title: TEM micrographs and EELS images of neutron, proton and self-ion irradiated Fe9Cr
DOI: 10.5287/bodleian:dmrar8agj
title: Upper critical field in a stoichiometric iron-based superconductor, CaKFe4As4
DOI: 10.21227/7h3f-xc81
title: DeepWiPHY: Synthetic and real-world IEEE 802.11ax OFDM symbol dataset

description: This dataset is associated with the paper entitled "DeepWiPHY: Deep Learning-Based IEEE 802.11ax Receiver". It has synthetic and real-word IEEE 802.11ax OFDM symbols. The synthetic dataset has around 110 million OFDM symbols and the real-world dataset has more than 14 million OFDM symbols. Our comprehensive synthetic dataset has specifically considered typical indoor channel models and RF impairments. The real-world dataset was collected under a wide range of signal-to-noise ratio (SNR) levels and at various locations in a large office. To create this real-world dataset, we built a passive sniffing-based data collection testbed with a commercial AP, a Samsung mobile phone and two USRPs.
DOI: 10.21227/t0f7-9j79
title: DeepWiPHY: Synthetic and real-world IEEE 802.11ax OFDM symbol dataset

description: This dataset is associated with the paper entitled "DeepWiPHY: Deep Learning-Based IEEE 802.11ax Receiver". It has synthetic and real-word IEEE 802.11ax OFDM symbols. The synthetic dataset has around 110 million OFDM symbols and the real-world dataset has more than 14 million OFDM symbols. Our comprehensive synthetic dataset has specifically considered typical indoor channel models and RF impairments. The real-world dataset was collected under a wide range of signal-to-noise ratio (SNR) levels and at various locations in a large office. To create this real-world dataset, we built a passive sniffing-based data collection testbed with a commercial AP, a Samsung mobile phone and two USRPs.
DOI: 10.25345/c5kx37
title: MassIVE MSV000085217 - Integrative analysis of proteome and transcriptome dynamics during Bacillus subtilis spore revival
title: Description Bacillus subtilis forms highly resistant, metabolically inactive spores upon nutrient limitation. These endospores pose challenges to the food and medical sectors. Spores reactivate their metabolism upon contact with germinants through germination and outgrowth, and then develop into vegetative cells. However, the mechanism of the activation of the molecular machinery that triggers spore germination and outgrowth is unclear. To gain further insight into spore germination and outgrowth, the transcriptome and proteome changes during Bacillus subtilis spore conversion to vegetative cells were analyzed. The transcriptome analysis also allowed us to trace the different functional groups of genes expressed during this conversion. For each time-point sampled, the change in the spore proteome was quantitatively monitored relative to the reference proteome of 15N metabolically labelled vegetative cells. Of the quantified proteins, 60 percent are common to vegetative cells and spores, indicating that spores have a minimal set of proteins sufficient for the resumption of metabolism upon completion of germination. The shared proteins thus represent the most basic survival kit for spore-based life. Until the phase transition, defined as the completion of germination, we observed no significant change in the proteome or the transcriptome. Our analysis identified 34 abundant mRNA transcripts in the dormant spores, at least 31 of which were rapidly degraded after the phase transition. We observed 3152 differentially expressed genes, and demonstrated with our mass spectrometry analyses the differential expression of 323 proteins. Our data show that 173 proteins from dormant spores, both proteins unique to spores and proteins shared with vegetative cells, are lost after completion of germination. Further analysis is required to functionally interpret the observed protein loss. The observed diverse timing of the synthesis of different protein sets reveals a putative core-strategy of the revival of life starting from the B. subtilis spore.
DOI: 10.5281/zenodo.3736140
title: Dataset of Empirical MOOC Research 2016 - 2017

description: Dataset of Empirical MOOC Research 2016 - 2018
DOI: 10.5281/zenodo.3736141
title: Dataset of Empirical MOOC Research 2016 - 2017

description: Dataset of Empirical MOOC Research 2016 - 2018
DOI: 10.15468/pgucfk
title: A new Stamnodes from the southwestern United States (Lepidoptera, Geometridae, Larentiinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Matson, Tanner A., Wagner, David L. (2020): A new Stamnodes from the southwestern United States (Lepidoptera, Geometridae, Larentiinae). ZooKeys 923: 79-90, DOI: http://dx.doi.org/10.3897/zookeys.923.48290, URL: http://dx.doi.org/10.3897/zookeys.923.48290
DOI: 10.15468/xl4fbh
title: Two freshwater shrimp species of the genus Caridina (Decapoda, Caridea, Atyidae) from Dawanshan Island, Guangdong, China, with the description of a new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Chen, Qing-Hua, Chen, Wen-Jian, Zheng, Xiao-Zhuang, Guo, Zhao-Liang (2020): Two freshwater shrimp species of the genus Caridina (Decapoda, Caridea, Atyidae) from Dawanshan Island, Guangdong, China, with the description of a new species. ZooKeys 923: 15-32, DOI: http://dx.doi.org/10.3897/zookeys.923.48593, URL: http://dx.doi.org/10.3897/zookeys.923.48593
DOI: 10.15468/05kggg
title: New cavernicolous ground beetles from Anhui Province, China (Coleoptera, Carabidae, Trechini, Platynini)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Fang, Jie, Li, Wenbo, Wang, Xinhui, Tian, Mingyi (2020): New cavernicolous ground beetles from Anhui Province, China (Coleoptera, Carabidae, Trechini, Platynini). ZooKeys 923: 33-50, DOI: http://dx.doi.org/10.3897/zookeys.923.47322, URL: http://dx.doi.org/10.3897/zookeys.923.47322
DOI: 10.5281/zenodo.3736493
title: Hierarchical progressive learning of cell identities in single-cell data

description: Aligned PBMC datasets used during the inter-dataset experiment
DOI: 10.5281/zenodo.3727027
title: Hale Crater Mapping Shapefiles

description: These shapefiles have been produced in an effort to map the landforms within the ejecta to the south of Hale Crater. Included are: 1) Linear Depressions 2) Mounds 3) The outlines of Hale Crater Valley 1 (HCV 1), Hale Crater Valley 2 (HCV 2) and the Large Western Linear Depression (LWLD) 4) The outlines of the Rugged Uplands, Eastern Basin and Western Basin The shapefiles are projected in the Mars 2000 coordinate system.
DOI: 10.5525/gla.researchdata.996
title: Assessing Crystallisation Kinetics of Zr Metal-OrganicFrameworks through Turbidity Measurements to Inform RapidMicrowave-Assisted Synthesis
DOI: 10.5281/zenodo.3737997
title: Prototypic SNARE proteins - extra datasets

description: The dataset contains files of phylogenetic trees (.tree files) and accompanying alignments (.fasta). In addition, scanned images of Coomassie-stained gels and raw size exclusion chromatography data (.txt) are available. A description can be found in the ReadMe files.
description: Supported by the Swiss National Science Foundation grant 31003A_182732.
DOI: 10.5281/zenodo.3737986
title: AstroEBSD Superalloy Example Data

description: This is an example dataset for use with AstroEBSD. It is a compressed version of the one found at 10.5281/zenodo.3617455, the data bundle for our paper 'Advancing characterisation with statistics from correlative electron diffraction and X-ray spectroscopy, in the scanning electron microscope' - https://doi.org/10.1016/j.ultramic.2020.112944. The .h5 file contains EBSD patterns and EDS spectra. The zip file contains an example analysis, including EDS spectra quantification in a .xls file, which is required for the EDS post-analysis.
DOI: 10.5281/zenodo.3737987
title: AstroEBSD Superalloy Example Data

description: This is an example dataset for use with AstroEBSD. It is a compressed version of the one found at 10.5281/zenodo.3617455, the data bundle for our paper 'Advancing characterisation with statistics from correlative electron diffraction and X-ray spectroscopy, in the scanning electron microscope' - https://doi.org/10.1016/j.ultramic.2020.112944. The .h5 file contains EBSD patterns and EDS spectra. The zip file contains an example analysis, including EDS spectra quantification in a .xls file, which is required for the EDS post-analysis.
DOI: 10.15468/9amuoc
title: Sphaerillo boninensis Nunomura, 1990 (Crustacea, Isopoda, Oniscidea) is a junior synonym of a pantropical species, Venezillo parvus (Budde-Lund, 1885)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Karasawa, Shigenori (2020): Sphaerillo boninensis Nunomura, 1990 (Crustacea, Isopoda, Oniscidea) is a junior synonym of a pantropical species, Venezillo parvus (Budde-Lund, 1885). ZooKeys 923: 1-14, DOI: http://dx.doi.org/10.3897/zookeys.923.26018, URL: http://dx.doi.org/10.3897/zookeys.923.26018
DOI: 10.15468/rbjo55
title: Diversity of the southern Africa Lacustricola Myers, 1924 and redescription of Lacustricola johnstoni (Guenther, 1894) and Lacustricola myaposae (Boulenger, 1908) (Cyprinodontiformes, Procatopodidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Braganca, Pedro H. N., Zeeventer, Ryan M. van, Bills, Roger, Tweddle, Denis, Chakona, Albert (2020): Diversity of the southern Africa Lacustricola Myers, 1924 and redescription of Lacustricola johnstoni (Guenther, 1894) and Lacustricola myaposae (Boulenger, 1908) (Cyprinodontiformes, Procatopodidae). ZooKeys 923: 91-113, DOI: http://dx.doi.org/10.3897/zookeys.923.48420, URL: http://dx.doi.org/10.3897/zookeys.923.48420
DOI: 10.15468/g6gfyy
title: Two new species of Agaporomorphus Guignot from Suriname (Coleoptera, Adephaga, Dytiscidae, Copelatinae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Miller, Kelly B. (2020): Two new species of Agaporomorphus Guignot from Suriname (Coleoptera, Adephaga, Dytiscidae, Copelatinae). ZooKeys 923: 51-63, DOI: http://dx.doi.org/10.3897/zookeys.923.48337, URL: http://dx.doi.org/10.3897/zookeys.923.48337
DOI: 10.15468/gn7wtd
title: Two new species of Desmopachria Babington, 1841 in the D. convexa species group (Coleoptera, Adephaga, Dytiscidae, Hydroporinae, Hyphydrini)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Miller, Kelly B. (2020): Two new species of Desmopachria Babington, 1841 in the D. convexa species group (Coleoptera, Adephaga, Dytiscidae, Hydroporinae, Hyphydrini). ZooKeys 923: 65-77, DOI: http://dx.doi.org/10.3897/zookeys.923.47104, URL: http://dx.doi.org/10.3897/zookeys.923.47104
DOI: 10.5281/zenodo.3737994
title: Participatory Design of Usability Requirements for Access Control in an Evolutionary-Teal Organization Workshop Data Set

description: In order to enable members of a socio-technical evolutionary-teal organization to design the technical component for access control, we conducted a workshop that structures the requirement engineering with members. The workshop aims to illustrate user needs, challenges and potential solutions that can be used to infer usability requirements for the development of a prototype of the user interface for access control in the form of "problem statements" and clustered mind-maps. The workshop is setup as a standalone, five-and-a-half-hour group discussion. It uses the methods of Design Thinking and Participatory Design.<br> The workshop has been recorded in video and this data set contains a textual German transcript and transcripts of the moderation cards that have been created during the workshop for various guiding topics. We hope that the material can be used to (a) comprehend the interpretation used in our qualitative research, (b) to adapt the workshop model by other volunteers of our case study Viva con Agua de St. Pauli e.V. (https://www.vivaconagua.org/), and (c) investigate other interesting research questions. Some material, such as timetables and storyboard, has been omitted in the publication due to privacy restrictions.
DOI: 10.17037/data.00001593
title: The patient costs of care for those with TB and HIV: a cross-sectional study from South Africa

description: This dataset contains primary data from a cross-sectional study with 148 participants with TB in public primary health care clinics in Ekurhuleni North Sub-District, South Africa. We collected information on visits to health facilities, direct and indirect costs for participants and for their guardians and caregivers. Cost data were collected as part of the MERGE trial, which evaluated the effect of implementing an intervention to optimize/improve TB/HIV integration on morbidity, mortality and retention in care at public primary health care (PHC) clinics (Kufa et al. 2014). Data collection used structured questionnaires at 18 MERGE study clinics between April and October 2013.
description: The study collected information on visits to health facilities, direct and indirect costs for participants and for their guardians and caregivers. Data collection used structured questionnaires at 18 MERGE study clinics between April and October 2013. Cost data were collected as part of the MERGE trial, which evaluated the effect of implementing an intervention to optimize/improve TB/HIV integration on morbidity, mortality and retention in care at public primary health care (PHC) clinics (Kufa et al. 2014).
DOI: 10.5281/zenodo.3738007
title: TTnet - Model validation data

description: This repository contains the raw data collected to validate the <em>TTnet</em> time and energy model, which is described in <strong>Time-Triggered Wireless Architecture</strong><br> Romain Jacob, Licong Zhang, Marco Zimmerling, Samarjit Chakraborty, Lothar Thiele <br> Accepted to ECRTS 2020 <br> arxiv.org/abs/2002.07491 <strong>Leveraging Synchronous Transmissions for the Design of Real-time Wireless Cyber-Physical Systems</strong><br> Romain Jacob<br> Doctoral dissertation , 2020<br> 10.5281/zenodo.3510184 (Chapter 5) The processing of these data is described in detailed in the following GitHub repository:<br> github.com/romain-jacob/TTW-Artifacts
DOI: 10.25405/data.ncl.9849803.v1
title: Tracking the evolution of a single composite particle during redox cycling for application in H2 production

description: Composite materials consisting of metal and metal oxide phases are being researched intensively for application in various energy conversion and storage technologies. In these applications, composites are often expected to operate under redox conditions at elevated temperature. The understanding of the dynamics of composite phase and morphology evolution during redox cycling is still very limited, yet critical to maximising performance and increasing durability. Here we track the microstructural evolution of a single composite particle over 200 redox cycles for hydrogen production by chemical looping, using multi-length scale X-ray computed tomography. We show that redox cycling triggers a centrifugal redispersion of the metal phase and a centripetal clustering of porosity, both seemingly driven by the asymmetric nature of oxygen exchange in composites. We show that initially the particle develops a large amount of internal porosity which boosts activity, but on the long term this facilitates structural and compositional reorganisation and eventually degradation. We also correlate the microstructural data with phase and activity analysis to identify structure-property correlations which not only provide valuable insight into the evolution of composite materials under redox conditions but also for the design of new composite materials with enhanced durability.
DOI: 10.5281/zenodo.3737998
title: Allsky images from a camera in Copenhagen, Denmark.

description: Dark-frame subtracted R G and B images of the night sky from a camera in Copenhagen Denmark. Each file is a tar.gz archive with several files in, each labelled with the Bayer-filter type (R,G or B). Each FITS file in the decompressed archive is the result of subtracting an average darkframe from the average of several sky frames. The dark frames were obtained seconds before the sky image. Each sky image exposure time is 16 seconds. The camera used is a ZWO camera and it obtains its images with a CMOS sensor producing 14-bit RAW images. The FITS files are 16-bit.
DOI: 10.5281/zenodo.3737999
title: Allsky images from a camera in Copenhagen, Denmark.

description: Dark-frame subtracted R G and B images of the night sky from a camera in Copenhagen Denmark. Each file is a tar.gz archive with several files in, each labelled with the Bayer-filter type (R,G or B). Each FITS file in the decompressed archive is the result of subtracting an average darkframe from the average of several sky frames. The dark frames were obtained seconds before the sky image. Each sky image exposure time is 16 seconds. The camera used is a ZWO camera and it obtains its images with a CMOS sensor producing 14-bit RAW images. The FITS files are 16-bit.