cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25824/redu/rmsuz4
title: Base de Dados (Variações Internacionais e Nacionais d'A Distinção).tab

description: Essa base de dados traz textos selecionados através de um levantamento bibliográfico realizado pela pesquisa de iniciação científica "Variações internacionais d'a Distinção", financiada pela FAPESP entre o primeiro semestre de 2021 e 2023. Este levantamento teve como objetivo levantar textos direta ou indiretamente bourdieusianos da produção nacional da última década, e sua leitura teve como foco o conceito de "capital cultural".
DOI: 10.25824/redu/496icj
title: Variações internacionais e nacionais d'A Distinção

description: Essa base traz dados selecionados através de um levantamento bibliográfico realizado por uma pesquisa de iniciação científica financiada pela FAPESP: 2021/02117-9. Este levantamento teve como objetivo alcançar textos direta ou indiretamente bourdieusianos da produção nacional da última década, e sua leitura final teve como foco o conceito de "capital cultural". O primeiro momento do levantamento foi a análise de 10 textos de três autoras consideradas importantes para a compreensão da produção nacional bourdieusiana: Carolina Pulici, Camila Rosatti e Maria Eduarda da Mota Rocha. O segundo momento do levantamento foi a determinação de palavras chaves: “capital cultural”, “distinção” e “consumo”, que foram lançadas na plataforma de buscas do Periódicos Capes, filtrando aos artigos em português, produzidos nos últimos dez anos (2011-2021) sobre sociologia e temas relacionados como: Bourdieu, elite, cultura, habitus, cidade, classe média e consumo. Dessas buscas foram retirados 100 textos, dos quais 36 foram escolhidos para serem analisados. Desses 46 textos levantados ao todo, escritos entre 2009 e 2019, foram analisadas suas características em diferentes áreas: 1) Em termos metodológicos, a entrevista aprofundada é predominante. 2) Em termos de classe, as classes dominantes são objeto da maioria das pesquisas. 3) Em termos de locus de pesquisa, as cidades brasileiras são as mais pesquisadas, sendo que a cidade que mais se destacou foi São Paulo. Dessa fase da pesquisa foi determinado que a pesquisa deveria se dedicar ao papel dado ao capital cultural pela bibliografia brasileira. Para tanto, foi realizado um terceiro momento do levantamento que foi a análise de 6 textos, todos dedicados a analisar contextos de cidades brasileiras, a maioria voltava-se para as classes dominadas. Ao fim, foi construída uma base 52 textos, somando-se os 3 levantamentos. Finalmente, para a construção da presente base, foram desconsiderados textos escritos em formato mais difuso: transcrição de entrevista, resenha crítica e livros. Assim, a base de dados está composta por 47 textos, apresentando título, nome dos autores, ano de publicação, instituição vinculada aos autores, instituição financiadora das pesquisas apresentadas, teses associadas, grupos de pesquisa a que os autores são vinculados, resumo, palavras chave, tema, metodologias usadas, locus da pesquisa, sua apropriação do capital cultural e link de acesso de cada texto. As opiniões, hipóteses e conclusões ou recomendações expressas neste material são de responsabilidade do(s) autor(es) e não necessariamente refletem a visão da FAPESP.
DOI: 10.5281/zenodo.8155679
title: InSAR dataset for the 2015 and 2023 events in Pamir plateau

description: There are four dataset files for the 2015 Mw 7.2 Tajikstan earthquake, and five dataset files for the 2023 Mw 6.9 Murghob earthquake. All these datasets are associated with a submitted work for the strike-slip activities in the Pamir hinterland. Reference He, P., Wen, Y.M., Wang, X.H., 2023. The N-S direction strike-slip activities in the Pamir hinterland under oblique convergence: the 2015 and 2023 earthquakes.
DOI: 10.5281/zenodo.8155678
title: InSAR dataset for the 2015 and 2023 events in Pamir plateau

description: There are four dataset files for the 2015 Mw 7.2 Tajikstan earthquake, and five dataset files for the 2023 Mw 6.9 Murghob earthquake. All these datasets are associated with a submitted work for the strike-slip activities in the Pamir hinterland. Reference He, P., Wen, Y.M., Wang, X.H., 2023. The N-S direction strike-slip activities in the Pamir hinterland under oblique convergence: the 2015 and 2023 earthquakes.
DOI: 10.5517/ccdc.csd.cc2db7kk
title: CCDC 2214378: Experimental Crystal Structure Determination

description: Related Article: Kui Wang, Tao Ye, Haoyang Du, Xiangyu Jin, Xiaofen Yi, Huiying Gao, Yuan Zhang, Wei Dong, Shihui Liu, Jing Guan, Feng Lin, Debin Xia|2023|Nanoscale Adv.|5|3629|doi:10.1039/D3NA00341H
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2db7ll
title: CCDC 2214379: Experimental Crystal Structure Determination

description: Related Article: Kui Wang, Tao Ye, Haoyang Du, Xiangyu Jin, Xiaofen Yi, Huiying Gao, Yuan Zhang, Wei Dong, Shihui Liu, Jing Guan, Feng Lin, Debin Xia|2023|Nanoscale Adv.|5|3629|doi:10.1039/D3NA00341H
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2dhmzj
title: CCDC 2219568: Experimental Crystal Structure Determination

description: Related Article: Kui Wang, Tao Ye, Haoyang Du, Xiangyu Jin, Xiaofen Yi, Huiying Gao, Yuan Zhang, Wei Dong, Shihui Liu, Jing Guan, Feng Lin, Debin Xia|2023|Nanoscale Adv.|5|3629|doi:10.1039/D3NA00341H
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2f1z8r
title: CCDC 2236224: Experimental Crystal Structure Determination

description: Related Article: Sonu Sheokand, Manali A. Mohite, Dipanjan Mondal, Shalini Rangarajan, Maravanji S. Balakrishna|2023|New J.Chem.|47|13538|doi:10.1039/D3NJ01445B
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fbstd
title: CCDC 2244704: Experimental Crystal Structure Determination

description: Related Article: Rubi Moral, Oiyao Appun Pegu, Gopal Das|2023|Dyes Pigm.|218|111502|doi:10.1016/j.dyepig.2023.111502
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fbsxh
title: CCDC 2244707: Experimental Crystal Structure Determination

description: Related Article: Rubi Moral, Oiyao Appun Pegu, Gopal Das|2023|Dyes Pigm.|218|111502|doi:10.1016/j.dyepig.2023.111502
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fbsyj
title: CCDC 2244708: Experimental Crystal Structure Determination

description: Related Article: Rubi Moral, Oiyao Appun Pegu, Gopal Das|2023|Dyes Pigm.|218|111502|doi:10.1016/j.dyepig.2023.111502
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fjr7z
title: CCDC 2250421: Experimental Crystal Structure Determination

description: Related Article: Haiyan An, Yaohui Huang, Yanhong Chen, Qingshan Zhu, Yuting Wei|2023|New J.Chem.|47|13528|doi:10.1039/D3NJ01441J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fjr80
title: CCDC 2250422: Experimental Crystal Structure Determination

description: Related Article: Haiyan An, Yaohui Huang, Yanhong Chen, Qingshan Zhu, Yuting Wei|2023|New J.Chem.|47|13528|doi:10.1039/D3NJ01441J
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2fs9wf
title: CCDC 2257695: Experimental Crystal Structure Determination

description: Related Article: Kristaps Leškovskis, Anatoly Mishnev, Irina Novosjolova, Burkhard Krumm, Thomas M. Klapötke, Māris Turks|2023|CrystEngComm|25|3866|doi:10.1039/D3CE00563A
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.6084/m9.figshare.23695920
title: Meteorological station information

description: Information for Eurasian meteorological stations.
DOI: 10.6084/m9.figshare.23695920.v1
title: Meteorological stations information

description: Information for Eurasian meteorological stations.
DOI: 10.6084/m9.figshare.22787492
title: Computational exploration of Williamson's method for ether (and epoxide) synthesis

description: Inputs and outputs for all computations described in Pedro Silva (2023) "<strong>Why epoxides can be formed from halohydrins in spite of their elevated ring strain, and other unanswered questions on the explanation of relative reaction rates of inter- and intra-molecular Williamson’s ether syntheses</strong>" submitted to Chemistry Journal of Moldova
DOI: 10.6084/m9.figshare.22787492.v2
title: Computational exploration of Williamson's method for ether (and epoxide) synthesis

description: Inputs and outputs for all computations described in Pedro Silva (2023) "<strong>Why epoxides can be formed from halohydrins in spite of their elevated ring strain, and other unanswered questions on the explanation of relative reaction rates of inter- and intra-molecular Williamson’s ether syntheses</strong>" submitted to Chemistry Journal of Moldova
DOI: 10.5281/zenodo.8156033
title: A triple distinction of cerebellar function for oculomotor learning and fatigue compensation

description: This depository contains the data and modeling code of the publication <em>Masselink J., Cheviet, A., Froment-Tilikete, C., Pélisson, D., & Lappe, M. (2023). A triple distinction of cerebellar function for oculomotor learning and fatigue compensation. PLoS Comput Biol</em> Please see the publication for detailed description of experimental and modeling methods. Data are provided in a mat-file, modeling code is provided in m-files (Matlab).
DOI: 10.5281/zenodo.8156032
title: A triple distinction of cerebellar function for oculomotor learning and fatigue compensation

description: This depository contains the data and modeling code of the publication <em>Masselink J., Cheviet, A., Froment-Tilikete, C., Pélisson, D., & Lappe, M. (2023). A triple distinction of cerebellar function for oculomotor learning and fatigue compensation. PLoS Comput Biol</em> Please see the publication for detailed description of experimental and modeling methods. Data are provided in a mat-file, modeling code is provided in m-files (Matlab).
DOI: 10.5281/zenodo.8152060
title: RustPräzi Replication Package

description: <pre>The replication package contains the following:</pre> - `replication.zip`: the original replication package of http://DrNXs1ALFzzQth4r.github.io - `README`: instructions explaining the contents in `replication.zip` - ``: RustPräzi call-based dependency network.
DOI: 10.5281/zenodo.8152059
title: RustPräzi Replication Package

description: <pre>The replication package contains the following:</pre> - `replication.zip`: the original replication package of http://DrNXs1ALFzzQth4r.github.io - `README`: instructions explaining the contents in `replication.zip` - ``: RustPräzi call-based dependency network.
DOI: 10.5281/zenodo.8156142
title: Negative Sampling Data

description: Data from training graph models with different approaches to negative sampling.
DOI: 10.5281/zenodo.8156141
title: Negative Sampling Data

description: Data from training graph models with different approaches to negative sampling.
DOI: 10.6084/m9.figshare.23696208
title: Biosynthesis, regulation and herbivore defense function of triterpenes from <em>Nicotiana attenuata</em>

description: In this study, the biosynthesis, regulation, and defense function of triterpenes in a wild tobacco plant Nicotiana attenuata were elucidated. We discovered that two oxidosqualene cyclases, NaOSC1 and NaOSC2, are involved in the synthesis of the triterpenoid skeleton in N. attenuata. Moreover, both of these genes participate in the defense against herbivores in N. attenuata. We also found that a specific JAZe/h-MYC2 complex modulates NaOSC1- but not NaOSC2-mediated triterpene biosynthesis in response to the infestation by herbivores
DOI: 10.6084/m9.figshare.23696208.v1
title: Biosynthesis, regulation and herbivore defense function of triterpenes from <em>Nicotiana attenuata</em>

description: In this study, the biosynthesis, regulation, and defense function of triterpenes in a wild tobacco plant Nicotiana attenuata were elucidated. We discovered that two oxidosqualene cyclases, NaOSC1 and NaOSC2, are involved in the synthesis of the triterpenoid skeleton in N. attenuata. Moreover, both of these genes participate in the defense against herbivores in N. attenuata. We also found that a specific JAZe/h-MYC2 complex modulates NaOSC1- but not NaOSC2-mediated triterpene biosynthesis in response to the infestation by herbivores
DOI: 10.5517/ccdc.csd.cc2fbssc
title: CCDC 2244703: Experimental Crystal Structure Determination

description: Related Article: Rubi Moral, Oiyao Appun Pegu, Gopal Das|2023|Dyes Pigm.|218|111502|doi:10.1016/j.dyepig.2023.111502
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.25345/c5x63bg3z
title: MassIVE MSV000092456 - Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in TimsTOF
title: Immunopeptidomics plays a crucial role in identifying targets for immunotherapy and vaccine development. Because the generation of immunopeptides from their parent proteins does not adhere to clear-cut rules, rather than being able to use known digestion patterns, every possible protein subsequence within HLA class-specific length restrictions needs to be considered. This leads to an inflation of the search space and results in lower spectrum annotation rates. Rescoring is a powerful enhancement of standard sequence database searching that boosts the spectrum annotation performance. In the field of immunopeptidomics low abundant peptides often occur, which is why the highly sensitive timsTOF instruments are increasingly gaining popularity. To improve rescoring for immunopeptides measured using timsTOF instruments, we trained a deep learning-based fragment ion intensity prediction model. Over 300,000 synthesized non-tryptic peptides from the ProteomeTools project were analyzed on a timsTOF-Pro to generate a dataset that was used to fine-tune an existing Prosit model. By applying our fragment ion intensity prediction model, we demonstrate up to 3-fold improvement in the identification of immunopeptides. Furthermore, our approach increased detection of immunopeptides even from low input samples.
DOI: 10.15482/usda.adc/1529201
title: UPIC

description: We introduce here the concept of Unique Pattern Informative Combinations (UPIC), a decision tool for the cost-effective design of DNA fingerprinting/genotyping experiments using simple-sequence/tandem repeat (SSR/STR) markers. After the first screening of SSR-markers tested on a subset of DNA samples, the user can apply UPIC to find marker combinations that maximize the genetic information obtained by a minimum or desirable number of markers. This allows a cost-effective planning of future experiments. We have developed Perl scripts to calculate all possible subset combinations of SSR markers, and determine based on unique patterns or alleles, which combinations can discriminate among all DNA samples included in a test. This makes UPIC an essential tool for optimizing resources when working with microsatellites. An example using real data from eight markers and 12 genotypes shows that UPIC detected groups of as few as three markers sufficient to discriminate all 12-DNA samples. Should markers for future experiments be chosen based only on polymorphism-information content (PIC), the necessary number of markers for discrimination of all samples cannot be determined. We also show that choosing markers using UPIC, an informative combination of four markers can provide similar information as using a combination of six markers (23 vs. 25 patterns, respectively), granting a more efficient planning of experiments. Perl scripts with documentation are also included to calculate the percentage of heterozygous loci on the DNA samples tested and to calculate three PIC values depending on the type of fertilization and allele frequency of the organism.
The UPIC zip file contains 2 perl scripts, a README, and sample input and the resulting outputs. We would appreciate citation if you use them.  As of 1 November, 2010, the zip file also contains an beta optimized script (upic_optimum_v1.1.20101101.pl) that produces a comma separated file, with all the markers that discriminate at least one line, which shows which lines have unique patterns.  This allows you to select markers by score & line.
DOI: 10.6084/m9.figshare.23514033
title: Supplementary Material for: Learning-Based Longitudinal Prediction Models for Mortality Risk in Very-Low-Birth-Weight Infants: A Nationwide Cohort Study

description: <b><i>Introduction:</i></b> Prediction models assessing the mortality of very-low-birth-weight (VLBW) infants were confined to models using only pre- and perinatal variables. We aimed to construct a prediction model comprising multifactorial clinical events with data obtainable at various time points. <b><i>Methods:</i></b> We included 15,790 (including 2,045 in-hospital deaths) VLBW infants born between 2013 and 2020 who were enrolled in the Korean Neonatal Network, a nationwide registry. In total, 53 prenatal and postnatal variables were sequentially added into the three discrete models stratified by hospital days: (1) within 24 h (TL-1d), (2) from day 2 to day 7 after birth (TL-7d), (3) from day 8 after birth to discharge from the neonatal intensive care unit (TL-dc). Each model predicted the mortality of VLBW infants within the affected period. Multilayer perception (MLP)-based network analysis was used for modeling, and ensemble analysis with traditional machine learning (ML) analysis was additionally applied. The performance of models was compared using the area under the receiver operating characteristic curve (AUROC) values. The Shapley method was applied to reveal the contribution of each variable. <b><i>Results:</i></b> Overall, the in-hospital mortality was 13.0% (1.2% in TL-1d, 4.1% in TL-7d, and 7.7% in TL-dc). Our MLP-based mortality prediction model combined with ML ensemble analysis had AUROC values of 0.932 (TL-1d), 0.973 (TL-7d), and 0.950 (TL-dc), respectively, outperforming traditional ML analysis in each timeline. Birth weight and gestational age were constant and significant risk factors, whereas the impact of the other variables varied. <b><i>Conclusion:</i></b> The findings of the study suggest that our MLP-based models could be applied in predicting in-hospital mortality for high-risk VLBW infants. We highlight that mortality prediction should be customized according to the timing of occurrence.
DOI: 10.15482/usda.adc/1529202
title: ARS-Media

description: Understanding the ion-specific effects of the mineral elements is a central theme of biology because these ions are fundamental to the composition and maintenance of life. However, experiments concerned with determining ion-specific effects are generally performed with salt, as opposed to ion, manipulations. This means that researchers have had to accept a co-variance in the co-ion of the salt used to manipulate the ion of interest. The result is that the effect of a single ion cannot be determined as it is confounded with the potential combined effects of the other ions that are co-varied. Because of this difficulty, the majority of research studies concerned with determining ion-specific effects exhibit ion confounding.  The software application ARS-Media utilizes a linear programming optimization algorithm to determine the combination of salts, acids, and bases that satisfies any given target solution of ions.  ARS-Media therefore allows researchers to construct experimental designs that use ions, as opposed to salts, as individual factors and, hence, experimentally determine ion-specific effects on biological responses relating to ion type, concentration, and proportion.
ARS-Media for Excel is an ion solution calculator that uses Excel's linear programming optimization add-in Solver.
ARS-Media utilizes Excel’s internal linear programming optimization algorithm to determine the combination of salts, acids, and bases that satisfy any given target solution of ions.  The spreadsheet is designed for the formulation of nutrient media used in such applications as plant tissue culture, hydroponics, algal culture, fertilizer formulations, microbial culture, and any application that requires the definition of a specific culture media by its ion composition.  The spreadsheet is formula-based and uses no macros that can sometimes conflict with institutional IT security systems.
Web download of these resources can be found at:
ARS-Media
ARS-Media for Excel