cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21942/uva.9778556
title: Data annotation files

description: The names of the annotation files reflect the region and signer pair number (e.g. ber_01 corresponds to signer pair 1 from the region Berlin) to mirror the names used on ling.meine-dgs.de. Since there may sometimes be multiple videos available for one and the same signer pair, I added an additional seven-number code which corresponds to the code displayed on the transcript page when hovering over the transcript names shown in the leftmost column. <br>The procedure for the data annotations created for this project is described in detail in Chapter 2 of my dissertation entitled "Iconicity as a mediator between verb semantics and morphosyntactic structure: A corpus-based study on verbs in German Sign Language", to be made publicly available at the beginning of 2020.
DOI: 10.6084/m9.figshare.9778535
title: Green Lake streets renamed

description: Tabular list of street name changes in the Green Lake neighborhood in north Seattle.<br>Compiled by hand by reviewing plat, fire insurance, and real estate maps.
DOI: 10.6084/m9.figshare.9778538
title: Synthesis, characterization, crystal structure, and electrochemical study of zinc(II) metal-organic framework

description: A zinc(II) metal-organic framework, [Zn (BDC) (MI) (DMF) or Zn-MOF] (BDC=Benzene 1, 4 di-carboxylic acid, MI=Methylimidazole and DMF=N, N-dimethylformamide) has been synthesized by solvothermal method using mixed ligands. The Zn-MOF has been characterized by powder X-ray diffraction, single-crystal X-ray diffraction, Thermo gravimetric analysis, Infrared spectroscopy, and cyclic voltammetry. In Zn-MOF, Zn–N bond lengths were 2.010 (2) and 2.044 (2) Å, Zn–O bond lengths are 1.965 (2) and 1.980 (18) Å and the space group is P-1. These 3 D sheets are connected by Carboxylate groups of bdc and Mi ligands are coordinated to Zn (II) cation in a monodentate manner, forming 3 D frameworks of triclinic geometry. The cyclic voltammetry measurements were performed at different scanning rates (10–100 mVs<sup>−1</sup>) in the potential range is –0.1–0.1 mVs<sup>−1</sup> in 6 M KOH solution.
DOI: 10.6084/m9.figshare.9778535.v1
title: Green Lake streets renamed

description: Tabular list of street name changes in the Green Lake neighborhood in north Seattle.<br>Compiled by hand by reviewing plat, fire insurance, and real estate maps.
DOI: 10.6084/m9.figshare.9778538.v1
title: Synthesis, characterization, crystal structure, and electrochemical study of zinc(II) metal-organic framework

description: A zinc(II) metal-organic framework, [Zn (BDC) (MI) (DMF) or Zn-MOF] (BDC=Benzene 1, 4 di-carboxylic acid, MI=Methylimidazole and DMF=N, N-dimethylformamide) has been synthesized by solvothermal method using mixed ligands. The Zn-MOF has been characterized by powder X-ray diffraction, single-crystal X-ray diffraction, Thermo gravimetric analysis, Infrared spectroscopy, and cyclic voltammetry. In Zn-MOF, Zn–N bond lengths were 2.010 (2) and 2.044 (2) Å, Zn–O bond lengths are 1.965 (2) and 1.980 (18) Å and the space group is P-1. These 3 D sheets are connected by Carboxylate groups of bdc and Mi ligands are coordinated to Zn (II) cation in a monodentate manner, forming 3 D frameworks of triclinic geometry. The cyclic voltammetry measurements were performed at different scanning rates (10–100 mVs<sup>−1</sup>) in the potential range is –0.1–0.1 mVs<sup>−1</sup> in 6 M KOH solution.
DOI: 10.6084/m9.figshare.9778403
title: TRAVERS_Supplemental Data

description: Supplemental Data for Submitted Article<br>
DOI: 10.6084/m9.figshare.9778403.v2
title: TRAVERS_Supplemental Data

description: Supplemental Data for Submitted Article<br>
DOI: 10.6084/m9.figshare.9778403.v1
title: TRAVERS_Supplemental Data

description: Supplemental Data for Submitted Article<br>
DOI: 10.15468/v833px
title: On a small collection of Tetragonicipitidae Lang, 1944 (Copepoda: Harpacticoida) from Mexico: new records and new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Gómez, Samuel, Morales-Serna, Francisco Neptali (2015): On a small collection of Tetragonicipitidae Lang, 1944 (Copepoda: Harpacticoida) from Mexico: new records and new species. Journal of Natural History 49 (45): 2827-2868, DOI: 10.1080/00222933.2015.1038329
DOI: 10.6084/m9.figshare.9778019
title: An Empirical Assessment on Affective Reactions of Novice Developers when Applying Test-Driven Development -- Laboratory Package

description: Contains the experimental material to replicate the experiment by Romano et al. [1].<br><br>Reference:[1] S. Romano, D. Fucci, M. T. Baldassarre, D. Caivano and G. Scanniello: An Empirical Assessment on Affective Reactions of Novice Developers when Applying Test-Driven Development. In proc. of International Conference on Product-Focused Software Process Improvement (PROFES). 2019<br><br>
DOI: 10.6084/m9.figshare.9777938
title: comfa_D2_universal_model.zip

description: This is the universal CoMFA model for dopamine D2 receptor antagonists, constructed using Sybyl-X.<br>
DOI: 10.6084/m9.figshare.9777941
title: Supplementary Material for: Bioinformatics Strategies, Challenges, and Opportunities for Next Generation Sequencing-Based HLA Genotyping

description: The advent of next generation sequencing (NGS) has altered the face of genotyping the human leukocyte antigen (HLA) system in clinical, stem cell donor registry, and research contexts. NGS has led to a dramatically increased sequencing throughput at high accuracy, while being more time and cost efficient than precursor technologies. This has led to a broader and deeper profiling of the key genes in the human immunogenetic make-up. The rapid evolution of sequencing technologies is evidenced by the development of varied short-read sequencing platforms with differing read lengths and sequencing capacities to long-read sequencing platforms capable of profiling full genes without fragmentation. Concomitantly, there has been development of a diverse set of computational analyses and software tools developed to deal with the various strengths and limitations of the sequencing data generated by the different sequencing platforms. This review surveys the different modalities involved in generating NGS HLA profiling sequence data. It systematically describes various computational approaches that have been developed to achieve HLA genotyping to different degrees of resolution. At each stage, this review enumerates the drawbacks and advantages of each of the platforms and analysis approaches, thus providing a comprehensive picture of the current state of HLA genotyping technologies.
DOI: 10.6084/m9.figshare.9777941.v1
title: Supplementary Material for: Bioinformatics Strategies, Challenges, and Opportunities for Next Generation Sequencing-Based HLA Genotyping

description: The advent of next generation sequencing (NGS) has altered the face of genotyping the human leukocyte antigen (HLA) system in clinical, stem cell donor registry, and research contexts. NGS has led to a dramatically increased sequencing throughput at high accuracy, while being more time and cost efficient than precursor technologies. This has led to a broader and deeper profiling of the key genes in the human immunogenetic make-up. The rapid evolution of sequencing technologies is evidenced by the development of varied short-read sequencing platforms with differing read lengths and sequencing capacities to long-read sequencing platforms capable of profiling full genes without fragmentation. Concomitantly, there has been development of a diverse set of computational analyses and software tools developed to deal with the various strengths and limitations of the sequencing data generated by the different sequencing platforms. This review surveys the different modalities involved in generating NGS HLA profiling sequence data. It systematically describes various computational approaches that have been developed to achieve HLA genotyping to different degrees of resolution. At each stage, this review enumerates the drawbacks and advantages of each of the platforms and analysis approaches, thus providing a comprehensive picture of the current state of HLA genotyping technologies.
DOI: 10.6084/m9.figshare.9777911
title: Datasets Transcript 1-4

description: The data contains transcripts of four focus group interviews conducted with trained practice nurses and general practitioners who were experienced in collaborating with trained practice nurses. The data were coded and four major themes were derived from the data. This in order to answer the research question regarding the evaluation of the new postgraduate program for practice nurses in Belgium.
DOI: 10.6084/m9.figshare.9777905
title: Metadata record for: De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups

description: This dataset contains key characteristics about the data described in the Data Descriptor De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <b><br></b><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.9777914
title: The power of combined molecular and morphological analyses for the genus <i>Botrylloides</i>: identification of a potentially global invasive ascidian and description of a new species

description: Botryllids are colonial styelid ascidians for which morphological characters distinguishing genera and species are often difficult to identify and frequently ambiguous. <i>Botrylloides perspicuus</i>, <i>Botrylloides giganteus</i>, and <i>Botrylloides pizoni</i> have similar colony and zooid appearances and over recent years have been found in dispersed localities around the world. In order to determine how many valid <i>Botrylloides</i> species there are, and how they are geographically distributed, we performed both molecular and morphological analyses on fresh and archival museum specimens of these <i>Botrylloides</i> coming from six distant localities: southern Italy, southern California, Brazil, Galapagos Islands, New Zealand, and Australia. Moreover, we re-analysed the morphology of a number of formalin-preserved museum specimens. We concluded that both <i>B. perspicuus</i> and <i>B. giganteus</i> are indeed valid species and report morphological and molecular characters that distinguish these species; <i>B. pizoni</i> is concluded to be a junior synonym of <i>B. giganteus</i>. The geographic distribution, collection dates, and growth substrates of <i>B. giganteus</i> indicate that this species is rapidly spreading worldwide and has traits that may enhance invasiveness (i.e., presence in intertidal regions; high tolerance to air exposure, temperature and salinity variation). Therefore, <i>B. giganteus</i> should be a focus of both researchers and managers concerned with marine biosecurity. Interestingly, the morphological re-analyses of archival museum samples guided by molecular results, led to the taxonomic reassignment of several botryllid specimens as well as to the identification of a new species, <i>Botrylloides conchyliatus</i> sp. nov., which is here described. http://www.zoobank.org/urn:lsid:zoobank.org:pub:0D896E42-F460-45E2-B74C-576A011D9214
DOI: 10.6084/m9.figshare.9777911.v1
title: Datasets Transcript 1-4

description: The data contains transcripts of four focus group interviews conducted with trained practice nurses and general practitioners who were experienced in collaborating with trained practice nurses. The data were coded and four major themes were derived from the data. This in order to answer the research question regarding the evaluation of the new postgraduate program for practice nurses in Belgium.
DOI: 10.6084/m9.figshare.9777905.v2
title: Metadata record for: De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups

description: This dataset contains key characteristics about the data described in the Data Descriptor De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format <b><br></b><br>Versioning Note:Version 2 was generated when the metadata format was updated from JSON to JSON-LD. This was an automatic process that changed only the format, not the contents, of the metadata.<br>
DOI: 10.6084/m9.figshare.9777914.v2
title: The power of combined molecular and morphological analyses for the genus <i>Botrylloides</i>: identification of a potentially global invasive ascidian and description of a new species

description: Botryllids are colonial styelid ascidians for which morphological characters distinguishing genera and species are often difficult to identify and frequently ambiguous. <i>Botrylloides perspicuus</i>, <i>Botrylloides giganteus</i>, and <i>Botrylloides pizoni</i> have similar colony and zooid appearances and over recent years have been found in dispersed localities around the world. In order to determine how many valid <i>Botrylloides</i> species there are, and how they are geographically distributed, we performed both molecular and morphological analyses on fresh and archival museum specimens of these <i>Botrylloides</i> coming from six distant localities: southern Italy, southern California, Brazil, Galapagos Islands, New Zealand, and Australia. Moreover, we re-analysed the morphology of a number of formalin-preserved museum specimens. We concluded that both <i>B. perspicuus</i> and <i>B. giganteus</i> are indeed valid species and report morphological and molecular characters that distinguish these species; <i>B. pizoni</i> is concluded to be a junior synonym of <i>B. giganteus</i>. The geographic distribution, collection dates, and growth substrates of <i>B. giganteus</i> indicate that this species is rapidly spreading worldwide and has traits that may enhance invasiveness (i.e., presence in intertidal regions; high tolerance to air exposure, temperature and salinity variation). Therefore, <i>B. giganteus</i> should be a focus of both researchers and managers concerned with marine biosecurity. Interestingly, the morphological re-analyses of archival museum samples guided by molecular results, led to the taxonomic reassignment of several botryllid specimens as well as to the identification of a new species, <i>Botrylloides conchyliatus</i> sp. nov., which is here described. http://www.zoobank.org/urn:lsid:zoobank.org:pub:0D896E42-F460-45E2-B74C-576A011D9214
DOI: 10.6084/m9.figshare.9777905.v1
title: Metadata record for: De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups

description: This dataset contains key characteristics about the data described in the Data Descriptor De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups. <br> Contents: <br> 1. human readable metadata summary table in CSV format 2. machine readable metadata file in JSON format
DOI: 10.6084/m9.figshare.9777914.v1
title: The power of combined molecular and morphological analyses for the genus <i>Botrylloides</i>: identification of a potentially global invasive ascidian and description of a new species

description: Botryllids are colonial styelid ascidians for which morphological characters distinguishing genera and species are often difficult to identify and frequently ambiguous. <i>Botrylloides perspicuus</i>, <i>Botrylloides giganteus</i>, and <i>Botrylloides pizoni</i> have similar colony and zooid appearances and over recent years have been found in dispersed localities around the world. In order to determine how many valid <i>Botrylloides</i> species there are, and how they are geographically distributed, we performed both molecular and morphological analyses on fresh and archival museum specimens of these <i>Botrylloides</i> coming from six distant localities: southern Italy, southern California, Brazil, Galapagos Islands, New Zealand, and Australia. Moreover, we re-analysed the morphology of a number of formalin-preserved museum specimens. We concluded that both <i>B. perspicuus</i> and <i>B. giganteus</i> are indeed valid species and report morphological and molecular characters that distinguish these species; <i>B. pizoni</i> is concluded to be a junior synonym of <i>B. giganteus</i>. The geographic distribution, collection dates, and growth substrates of <i>B. giganteus</i> indicate that this species is rapidly spreading worldwide and has traits that may enhance invasiveness (i.e., presence in intertidal regions; high tolerance to air exposure, temperature and salinity variation). Therefore, <i>B. giganteus</i> should be a focus of both researchers and managers concerned with marine biosecurity. Interestingly, the morphological re-analyses of archival museum samples guided by molecular results, led to the taxonomic reassignment of several botryllid specimens as well as to the identification of a new species, <i>Botrylloides conchyliatus</i> sp. nov., which is here described. http://www.zoobank.org/urn:lsid:zoobank.org:pub:0D896E42-F460-45E2-B74C-576A011D9214
DOI: 10.6084/m9.figshare.9777725
title: Central nervous system proteins and monoclonal antibodies digested by human cysteine cathepsins S, L and B

description: Analysis of this data can be found in MDPI IJMS article Human Cysteine Cathepsins Degrade Immunoglobulin G In Vitro in a Predictable Manner (https://www.mdpi.com/1422-0067/20/19/4843)<br>Three datasets, containing detected and sequence-aligned peptides after digestion of proteins with human cysteine cathepsins S, L and B, using nano liquid chromotography mass spectrometer. See manuscript for details regarding method (link/reference TBA).<br>1: Recombinant proteins from the human central nervous system (Tau, alpha-synuclein and myelin basic protein isoforms), digested at pH 6. <br><br>2: Therapeutic monoclonal antibodies (adalimumab, alemtuzumab, infliximab, natalizumab, rituximab and ocrelizumab), digested at pH 6. Enzyme to substrate ratio 1:100 for cathepsin S and B, 1:300 for cathepsin L. <br><br>3: Therapeutic monoclonal antibodies (adalimumab and infliximab), digested at pH 4, 5 and 6. Enzyme to substrate ratio 1:100 for all cathepsins. <br><sup>Notes: Contains partly overlapping data with dataset 2 (adalimumab, pH 6). This supplementary set does not include data from negative controls.</sup>
DOI: 10.6084/m9.figshare.9777722
title: Trust Development as an Expectancy-learning Process: Testing Contingency Effects.

description: these data allow per study to reproduce the findings of Trust Development as an Expectancy-learning Process: Testing Contingency Effects.
DOI: 10.6084/m9.figshare.9777653
title: Supplementary Material for: Diffusion-Weighted Imaging Patterns According to the Right-to-Left Shunt Amount in Cryptogenic Stroke

description: <b><i>Background:</i></b> Although patent foramen ovale (PFO) is considered to be the main cause of cryptogenic stroke, it is difficult to define “true” PFO-related stroke. <b><i>Objective:</i></b> In this study, we evaluated comprehensive diffusion-weighted imaging (DWI) findings in patients with cryptogenic stroke according to the right-to-left shunt (RLS) amounts on transcranial Doppler (TCD) sonography. <b><i>Methods:</i></b> We assessed consecutive patients with cryptogenic stroke between October 2010 and 2018. The RLS amount on TCD was assessed according to the International Consensus Criteria (ICC). Massive RLS was defined as the highest category of ICC (Curtain pattern). We assessed DWI findings, including the location of lesions, involved vascular territory, and DWI lesion patterns. <b><i>Results:</i></b> A total of 100 consecutive patients with cryptogenic stroke were assessed, and PFO was found in 59 patients. In multivariable analyses, massive RLS was noted to be positively associated with the presence of cortical lesion (adjusted OR [aOR] 15.75, 95% CI 1.94–127.71, <i>p</i> = 0.010), multiple territory involvement (aOR 5.24, 95% CI 1.57–17.53, <i>p</i> = 0.007), and number of DWI lesions (beta 0.713, 95% CI 0.245 to 1.181, <i>p</i> = 0.003) after adjusting for confounders. Conversely, massive RLS showed inverse correlations with posterior circulation involvement (aOR 0.22, 95% CI 0.06–0.87, <i>p</i>= 0.031) and number of large DWI lesions (beta –0.328, 95% CI –0.629 to –0.026, <i>p</i> = 0.034). <b><i>Conclusions:</i></b> We demonstrated that massive RLS on TCD was associated with multiple, small-scattered cortical lesion in patients with cryptogenic stroke. These DWI pattern is highly suggestive of PFO-related stroke.
DOI: 10.6084/m9.figshare.9777635
title: Supplementary Material for: Health-Related Quality of Life in Patients with Moderate to Severe Ulcerative Colitis: Surgical Intervention versus Immunomodulatory Therapy

description: <b><i>Purpose:</i></b> Ulcerative colitis (UC) can be managed with immunomodulation or surgery. We aimed to understand whether these strategies had a different impact on patients’ health-related quality of life (HRQoL). <b><i>Methods:</i></b> This was a retrospective, cross-sectional study: patients who had a moderate to severe UC episode that prompted the utilization of immunomodulatory drugs or surgery were invited to complete a generic (short form [36] health survey [SF-36]) and a disease-specific (inflammatory bowel disease questionnaire [IBDQ]) survey. <b><i>Results:</i></b> We included 157 patients, 65 (41.4%) surgically treated. The therapeutic procedure had a minimal impact on HRQoL: only the social dimension of the IBDQ and the physical function component of the SF-36 were significantly different between the study arms – lower for the surgically treated patients. The type of surgery had no impact, but the occurrence of pouchitis, namely, in a chronic form, was associated with a lower HRQoL. Regression analysis confirmed surgery as an independent predictor of lower scores in the social dimension of the IBDQ (–4.646, 95% CI –6.953 to –2.339) and in the physical functioning (–9.622, 95% CI –17.061 to –2.183) and physical role functioning (–3.669, 95% CI –7.339 to 0.001) dimensions of the SF36. <b><i>Conclusions:</i></b> Although usually feared by patients, surgery has a limited impact on UC patients HRQoL when compared to medical management with immunomodulatory drugs.
DOI: 10.6084/m9.figshare.9777722.v1
title: Trust Development as an Expectancy-learning Process: Testing Contingency Effects.

description: these data allow per study to reproduce the findings of Trust Development as an Expectancy-learning Process: Testing Contingency Effects.
DOI: 10.6084/m9.figshare.9777629
title: SpearmanCorrelationSkillsNonGSETesters

description: The file contains the result of the correlation analysis for the skills of the software testers working in co-located environments.
DOI: 10.6084/m9.figshare.9777641
title: breakdown_length_anonymised_data

description: Raw for publication submitted to PeerJ; <br>Bovine tuberculosis breakdown duration in cattle herds: an investigation of herd, host, pathogen and wildlife risk factors
DOI: 10.6084/m9.figshare.9777623
title: SpearmanCorrelationSkillsGSETesters

description: The file contains the result of the correlation analysis for the skills of the software testers working in distributed environments.
DOI: 10.6084/m9.figshare.9777623.v1
title: SpearmanCorrelationSkillsGSETesters

description: The file contains the result of the correlation analysis for the skills of the software testers working in distributed environments.
DOI: 10.6084/m9.figshare.9777629.v1
title: SpearmanCorrelationSkillsNonGSETesters

description: The file contains the result of the correlation analysis for the skills of the software testers working in co-located environments.