cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/jkjkpvgxyd.1
title: Mutagenesis in POLH KO and wt RPE1 cell line

description: We generated POLH knockouts in RPE-1 cell line and treated them with UVA, UVC, and KBrO3 to better understand mutagenesis in xeroderma pigmentosum variant (XP-V) patients. The dataset contains filtered VCF files from the experiments (GRCh37 reference genome). FASTQ raw data is available on NCBI under accession number PRJNA940340.
DOI: 10.5281/zenodo.7319485
title: Bielefeld Molecular Organic Glasses (BIMOG) Database

description: The Bielefeld Molecular Organic Glasses (BIMOG) Database is based on a compiled dataset of experimental glass transition temperatures (Tg). The BIMOG database is the basis for our machine learning model for predicting the glass transition temperature of molecular organic compounds. For this purpose, we extended the previously unpublished data set from <strong>Koop et al. 2011</strong> with further data from the literature. All experimental data are listed with their respecitve source. Further information is provided here: <strong>https://tgml.chemie.uni-bielefeld.de</strong> To expand the database, we welcome the submission of further experimental data from the community. To do so, please follow this <strong>link</strong>.
description: If you use any of these data in your scientific work or in the resulting publications, please cite the corresponding original publication.
DOI: 10.5281/zenodo.7319484
title: Bielefeld Molecular Organic Glasses (BIMOG) Database

description: The Bielefeld Molecular Organic Glasses (BIMOG) Database is based on a compiled dataset of experimental glass transition temperatures (Tg). The BIMOG database is the basis for our machine learning model for predicting the glass transition temperature of molecular organic compounds. For this purpose, we extended the previously unpublished data set from <strong>Koop et al. 2011</strong> with further data from the literature. All experimental data are listed with their respecitve source. Further information is provided here: <strong>https://tgml.chemie.uni-bielefeld.de</strong> To expand the database, we welcome the submission of further experimental data from the community. To do so, please follow this <strong>link</strong>.
description: If you use any of these data in your scientific work or in the resulting publications, please cite the corresponding original publication.
DOI: 10.5281/zenodo.6412307
title: Age and Masculinities During the Neo-Assyrian Period Data

description: Files accompanying the article 'Age and Masculinities During the Neo-Assyrian Period'. All files relating to the creation of the textual corpus, PMI measurement, Gephi visualisations, and analysis are included. Version 2. It is recommended to read the ReadMe.txt and Workflow.txt files first, and then explore the folders according to the stage of the method you are interested in. Please cite as Bennett, E. 2023. "Age and Masculinities During the Neo-Assyrian Period Data".
DOI: 10.5281/zenodo.7677174
title: Age and Masculinities During the Neo-Assyrian Period Data

description: Files accompanying the article 'Age and Masculinities During the Neo-Assyrian Period'. All files relating to the creation of the textual corpus, PMI measurement, Gephi visualisations, and analysis are included. The most recent version is the .zip file called 'AgeMascFeb2023.zip'. It is recommended to read the ReadMe.txt and Workflow.txt files first, and then explore the folders according to the stage of the method you are interested in. Please cite as Bennett, E. 2023. "Age and Masculinities During the Neo-Assyrian Period Data".
DOI: 10.6084/m9.figshare.22269073
title: Interviews Transcripts

description: This excel spreadsheet contains the full answers given and later corrected by respondents to the original questionnaire applied in the case study of the work: "Design Thinking for Requirements Engineering: Problems and Opportunities on Non-functional Requirements".
DOI: 10.6084/m9.figshare.22269073.v1
title: Interviews Transcripts

description: This excel spreadsheet contains the full answers given and later corrected by respondents to the original questionnaire applied in the case study of the work: "Design Thinking for Requirements Engineering: Problems and Opportunities on Non-functional Requirements".
DOI: 10.5281/zenodo.5821975
title: Planet Microbe Functional and Taxonomic annotation of Illumina WGS Prokaryotic Fraction for Semantic Web Analysis

description: Functional and Taxonomic annotations computed from a subset of Illumina Whole-Genome Sequencing samples from the prokaryotic fraction of the Planet Microbe database. Data was computed using the pipeline available from https://github.com/hurwitzlab/planet-microbe-functional-annotation/, and post processing scripts from https://github.com/hurwitzlab/planet-microbe-semantic-web-analysis. Files contain total annotation counts of Interpro, GO and NCBITaxon annotations, as well as additional sample metadata. See readme.txt file for more information.
DOI: 10.5281/zenodo.5821976
title: Planet Microbe Functional and Taxonomic annotation of Illumina WGS Prokaryotic Fraction for Semantic Web Analysis

description: Functional and Taxonomic annotations computed from a subset of Illumina Whole-Genome Sequencing samples from the prokaryotic fraction of the Planet Microbe database. Data was computed using the pipeline available from https://github.com/hurwitzlab/planet-microbe-functional-annotation/, and post processing scripts from https://github.com/hurwitzlab/planet-microbe-semantic-web-analysis. Files contain total annotation counts of Interpro, GO and NCBITaxon annotations, as well as additional sample metadata.
DOI: 10.5281/zenodo.7732373
title: eb668cce-4f38-4543-96ae-411af6aea734

description: These data sets are one of the workflows in manabuishii/yevis-getting-started.
DOI: 10.5281/zenodo.7732372
title: eb668cce-4f38-4543-96ae-411af6aea734

description: These data sets are one of the workflows in manabuishii/yevis-getting-started.
DOI: 10.5281/zenodo.7729165
title: Experimental determination of the gadolinium L subshells fluorescence yields and Coster-Kronig transition probabilities

description: Data associated with the two main tables of the publication "Experimental determination of the gadolinium L subshells fluorescence yields and Coster-Kronig transition probabilities". There are two .txt files containing tabulator-separated values: <em>tabl01_ck.txt: </em>Data associated with Table 1 of the publication. This file contains the L subshell Coster-Kronig (CK) factors and their respective uncertainties. <em>tabl02_fy.txt: </em>Data associated with Table 2 of the publication. This file contains the experimentally determined Gd L subshell fluorescence yields in comparison to available literature sources and their respective uncertainties. For more details see the original Open Access publication: Kayser, Y., Hönicke, P., Wansleben, M., Wählisch, A., Beckhoff, B., <em>X-Ray Spectrom</em> 2022, 1. https://doi.org/10.1002/xrs.3313
description: Parts of this research was performed within the EMPIR project 19ENV08 AEROMET II. This project has received funding from the EMPIR program co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation program. This projecthas received funding from the ECSEL Joint Undertaking (JU) IT2 under grant agreement No 875999. The JU receives support from the European Union's Horizon2020 research and innovation program and Netherlands, Belgium, Germany, France, Austria, Hungary, United Kingdom, Romania, and Israel.
DOI: 10.5281/zenodo.7729166
title: Experimental determination of the gadolinium L subshells fluorescence yields and Coster-Kronig transition probabilities

description: Data associated with the two main tables of the publication "Experimental determination of the gadolinium L subshells fluorescence yields and Coster-Kronig transition probabilities". There are two .txt files containing tabulator-separated values: <em>tabl01_ck.txt: </em>Data associated with Table 1 of the publication. This file contains the L subshell Coster-Kronig (CK) factors and their respective uncertainties. <em>tabl02_fy.txt: </em>Data associated with Table 2 of the publication. This file contains the experimentally determined Gd L subshell fluorescence yields in comparison to available literature sources and their respective uncertainties. For more details see the original Open Access publication: Kayser, Y., Hönicke, P., Wansleben, M., Wählisch, A., Beckhoff, B., <em>X-Ray Spectrom</em> 2022, 1. https://doi.org/10.1002/xrs.3313
description: Parts of this research was performed within the EMPIR project 19ENV08 AEROMET II. This project has received funding from the EMPIR program co-financed by the Participating States and from the European Union's Horizon 2020 research and innovation program. This projecthas received funding from the ECSEL Joint Undertaking (JU) IT2 under grant agreement No 875999. The JU receives support from the European Union's Horizon2020 research and innovation program and Netherlands, Belgium, Germany, France, Austria, Hungary, United Kingdom, Romania, and Israel.
DOI: 10.5258/soton/d2555
title: Data for thesis titled: Understanding, developing and evaluating a blended training approach for drivers of automated vehicles which require shared control and human input

description: Study data for the two studies that were conducted in this thesis in Chapters 9 and 10 and the complete TNA for Chapter 6.
DOI: 10.5281/zenodo.7732337
title: HETEAC – The Hybrid End-To-End Aerosol Classification model for EarthCARE: Look-Up Table (LUT) for aerosol mixtures

description: The dataset contains the look-up table (LUT) of EarthCARE’s Hybrid End-To-End Aerosol Classification (HETEAC) model. The LUT contains optical and radiative parameters for four pure aerosol components (fine mode weakly absorbing, fine mode strongly absorbing, coarse mode spherical and coarse mode non-spherical) and their mixtures. In total, 314 aerosol mixtures are considered. The LUT returns the mixing state of an aerosol mixture based on the lidar ratio and the particle linear depolarization ratio at 355 nm. The mixing state is expressed in terms of relative volume contribution of the four pure aerosol components. Additionally, the LUT returns the effective radius, the asymmetry parameter, the single scattering albedo (at 355, 532, 550, 670, 865, 1064, 1650 and 2210 nm) and the Angstrom exponent (at 28 wavelength combinations) of the aerosol mixture. The lidar ratio and the particle linear depolarization ratio is also provided at 532, 550, 670, 865, 1064, 1650 and 2210 nm. The datafile contains two top-level groups: the HeaderData, which contains the header variables, and the ScienceData with the variables. The latter contains two groups, the AerosolComponents, which includes the aerosol-component-related optical and microphysical variables, and the LookUpTable, which contains the HETEAC LUT variables. The variables included in the datafile are listed below. For each variable, a full description is provided in the long_name attribute. HeaderData angstrom_exponent_header ScienceData AerosolComponents backscatter effective_radius extinction logarithmic_width mode_radius_number mode_radius_volume particle_linear_depolarization_ratio refractive_index_imaginary refractive_index_real scattering LookUpTable angstrom_exponent asymmetry_parameter effective_radius lidar_ratio particle_linear_depolarization_ratio relative_volume_contribution single_scattering_albedo radiation_wavelength Contact For any further clarifications or expression of interest with respect to the EarthCARE LUT, please contact Ulla Wandinger (ulla.wandinger@tropos.de) and/or Athena Augusta Floutsi (floutsi@tropos.de).
description: This work was funded by ESA grants 4000112018/14/NL/CT (APRIL) and 4000134661/21/NL/AD (CARDINAL).
description: {"references": ["https://doi.org/10.5194/egusphere-2022-1241"]}
DOI: 10.6084/m9.figshare.22269151
title: Sample metadata for the study " A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health"

description: This is the metadata for the study " <strong>A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health</strong> ", in which containing two figshare data: (1) Li, Yin (2023): RNA-seq expression matrix for "A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health". figshare. https://doi.org/10.6084/m9.figshare.22267006.v1 (2023) ; (2) Li, Yin (2023): The metabolomic data set for "A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health". figshare. Dataset. https://doi.org/10.6084/m9.figshare.22268290.v1 (2023) .
DOI: 10.6084/m9.figshare.22269151.v1
title: Sample metadata for the study " A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health"

description: This is the metadata for the study " <strong>A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health</strong> ", in which containing two figshare data: (1) Li, Yin (2023): RNA-seq expression matrix for "A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health". figshare. https://doi.org/10.6084/m9.figshare.22267006.v1 (2023) ; (2) Li, Yin (2023): The metabolomic data set for "A multi-omic resource of wheat seed tissues for nutrient deposition and improvement for human health". figshare. Dataset. https://doi.org/10.6084/m9.figshare.22268290.v1 (2023) .
DOI: 10.5281/zenodo.7686801
title: An Exploratory Study on the Occurrence of Self-Admitted Technical Debt in Android Apps

description: This is the code and dataset that accompanies the study: "<strong>An Exploratory Study on the Occurrence of Self-Admitted Technical Debt in Android Apps</strong>." This study has been accepted for publication at the 2023 International Conference on Technical Debt. <strong><em>Following is the abstract of the study:</em></strong> Technical debt describes situations where developers write less-than-optimal code to meet project milestones. However, this debt accumulation often results in future developer effort to live with or fix these quality issues. To better manage this debt, developers may document their sub-optimal code as comments in the code (i.e., self-admitted technical debt or SATD). While prior research has investigated the occurrence and characteristics of SATD, this research has primarily focused on non-mobile systems. With millions of mobile applications (apps) in multiple genres available for end-users, there is a lack of research on sub-optimal code developers intentionally implement in mobile apps. In this study, we examine the occurrence and characteristics of SATD in 15,614 open-source Android apps. Our findings show that even though such apps contain occurrences of SATD, the volume per app (a median of 4) is lower than in non-mobile systems, with most debt categorized as Code Debt. Additionally, we identify typical elements in an app that are prone to intentional sub-optimal implementations. We envision our findings supporting researchers and tool vendors with building tools and techniques to support app developers with app maintenance.
DOI: 10.5281/zenodo.7686802
title: An Exploratory Study on the Occurrence of Self-Admitted Technical Debt in Android Apps

description: This is the code and dataset that accompanies the study: "<strong>An Exploratory Study on the Occurrence of Self-Admitted Technical Debt in Android Apps</strong>." This study has been accepted for publication at the 2023 International Conference on Technical Debt. <strong><em>Following is the abstract of the study:</em></strong> Technical debt describes situations where developers write less-than-optimal code to meet project milestones. However, this debt accumulation often results in future developer effort to live with or fix these quality issues. To better manage this debt, developers may document their sub-optimal code as comments in the code (i.e., self-admitted technical debt or SATD). While prior research has investigated the occurrence and characteristics of SATD, this research has primarily focused on non-mobile systems. With millions of mobile applications (apps) in multiple genres available for end-users, there is a lack of research on sub-optimal code developers intentionally implement in mobile apps. In this study, we examine the occurrence and characteristics of SATD in 15,614 open-source Android apps. Our findings show that even though such apps contain occurrences of SATD, the volume per app (a median of 4) is lower than in non-mobile systems, with most debt categorized as Code Debt. Additionally, we identify typical elements in an app that are prone to intentional sub-optimal implementations. We envision our findings supporting researchers and tool vendors with building tools and techniques to support app developers with app maintenance.
DOI: 10.5281/zenodo.7732369
title: Seed weight of Erodium cicutarium in its native and two invaded ranges

description: This dataset provides seed weights of the plant <em>Erodium cicutarium </em>in its native range in Germany as well as two invaded ranges, California (US) and Chile. The dataset is related to the following publication: Heger, T., Nikles, G., & Jacobs, B. S. (2018). Differentiation in native as well as introduced ranges: Germination reflects mean and variance in cover of surrounding vegetation. Aob Plants, ply009-ply009. https://doi.org/10.1093/aobpla/ply009
DOI: 10.5281/zenodo.7732368
title: Seed weight of Erodium cicutarium in its native and two invaded ranges

description: This dataset provides seed weights of the plant <em>Erodium cicutarium </em>in its native range in Germany as well as two invaded ranges, California (US) and Chile. The dataset is related to the following publication: Heger, T., Nikles, G., & Jacobs, B. S. (2018). Differentiation in native as well as introduced ranges: Germination reflects mean and variance in cover of surrounding vegetation. Aob Plants, ply009-ply009. https://doi.org/10.1093/aobpla/ply009
DOI: 10.5281/zenodo.7499282
title: Impact of Passive Voice in Requirements Engineering

description: This repository contains instrumentation material and results for the experiment described in the paper "On The Impact of Passive Voice Requirements on Domain Modelling" by Henning Femmer, Jan Kucera, and Antonio Vetrò from Technische Universität München.
description: This repository was disclosed with the explicit permission of the first author of the work, Henning Femmer. It is a data recovery since the original hosting (https://www.in.tum.de/i04/~femmer/data/passives_experiment.zip) has become unavailable.
description: {"references": ["Femmer, H., Ku\u010dera, J., & Vetr\u00f2, A. (2014, September). On the impact of passive voice requirements on domain modelling. In Proceedings of the 8th ACM/IEEE International Symposium on Empirical Software Engineering and Measurement (pp. 1-4)."]}
DOI: 10.5281/zenodo.7499283
title: Impact of Passive Voice in Requirements Engineering

description: This repository contains instrumentation material and results for the experiment described in the paper "On The Impact of Passive Voice Requirements on Domain Modelling" by Henning Femmer, Jan Kucera, and Antonio Vetrò from Technische Universität München.
description: This repository was disclosed with the explicit permission of the first author of the work, Henning Femmer. It is a data recovery since the original hosting (https://www.in.tum.de/i04/~femmer/data/passives_experiment.zip) has become unavailable.
description: {"references": ["Femmer, H., Ku\u010dera, J., & Vetr\u00f2, A. (2014, September). On the impact of passive voice requirements on domain modelling. In Proceedings of the 8th ACM/IEEE International Symposium on Empirical Software Engineering and Measurement (pp. 1-4)."]}
DOI: 10.6084/m9.figshare.22269124
title: 22269124

description: <strong>Objective: </strong>To analyse the proteomic profile of thrombi in ischemic stroke (IS) patients, in order to gain insights into disease pathogenesis. <strong>Approach and results: </strong>Thrombi from an exploratory cohort of stroke patients were obtained by thrombectomy and analysed by SWATH-MS. Unsupervised k-means clustering analysis was performed to stratify stroke patients. The proteomic profile was associated with both, the neurological function (NIHSS) and the cerebral involvement (ASPECTS) prior to thrombectomy and the clinical status of patients at 3 months using the modified Rankin scale (mRS90). In an independent cohort of 210 stroke patients, the potential role of neutrophils in stroke severity was interrogated. Proteomic analysis identified 580 proteins in thrombi, which were stratified in 4 groups: haemostasis; proteasome and neurological diseases; structural proteins; and innate immune system and neutrophils. The thrombus proteome identified 3 clusters of patients with distinctive severity, prognosis and aetiology of the stroke. A protein signature clearly distinguished atherothrombotic and cardioembolic strokes. Several proteins were significantly correlated with the severity of the stroke (NIHSS and ASPECTS). Functional proteomic analysis highlighted the prominent role of neutrophils in the stroke severity. This was in line with the association of neutrophils activation markers and count with NIHSS, ASPECTS and mRS90. <strong>Conclusions: </strong>The use of the SWATH-MS in thrombi from IS patients has provided new insights of pathways and players involved in its aetiology, severity and prognosis. The prominent role of the innate immune system identified might pave the way for the development of new biomarkers and therapeutic approaches in this disease.
DOI: 10.6084/m9.figshare.22269124.v2
title: 22269124

description: <strong>Objective: </strong>To analyse the proteomic profile of thrombi in ischemic stroke (IS) patients, in order to gain insights into disease pathogenesis. <strong>Approach and results: </strong>Thrombi from an exploratory cohort of stroke patients were obtained by thrombectomy and analysed by SWATH-MS. Unsupervised k-means clustering analysis was performed to stratify stroke patients. The proteomic profile was associated with both, the neurological function (NIHSS) and the cerebral involvement (ASPECTS) prior to thrombectomy and the clinical status of patients at 3 months using the modified Rankin scale (mRS90). In an independent cohort of 210 stroke patients, the potential role of neutrophils in stroke severity was interrogated. Proteomic analysis identified 580 proteins in thrombi, which were stratified in 4 groups: haemostasis; proteasome and neurological diseases; structural proteins; and innate immune system and neutrophils. The thrombus proteome identified 3 clusters of patients with distinctive severity, prognosis and aetiology of the stroke. A protein signature clearly distinguished atherothrombotic and cardioembolic strokes. Several proteins were significantly correlated with the severity of the stroke (NIHSS and ASPECTS). Functional proteomic analysis highlighted the prominent role of neutrophils in the stroke severity. This was in line with the association of neutrophils activation markers and count with NIHSS, ASPECTS and mRS90. <strong>Conclusions: </strong>The use of the SWATH-MS in thrombi from IS patients has provided new insights of pathways and players involved in its aetiology, severity and prognosis. The prominent role of the innate immune system identified might pave the way for the development of new biomarkers and therapeutic approaches in this disease.