cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.3423144
title: Lightning activity and its associations with cloud structures in a rainstorm dominated by warm cloud precipitation

description: It is the data associated with the figures in the paper titiled "Lightning activity and its associations with cloud structures in a rainstorm dominated by warm cloud precipitation" which is being in the process of submission. The following is the abstract of this paper. Lightning activity and its associations with cloud structures during a rainstorm dominated by warm cloud precipitation were studied in Guangdong, China on 7 May 2017, using three-dimensional lightning location data, polarimetric radar observation data and wind-field retrieval data. The overall convection and lightning activities of the rainstorm were weak. The rainstorm exhibited some electrical characteristics different from typical thunderstorms. First, lightning discharges were more concentrated in areas featuring relatively weak convection and a relatively low precipitation intensity. Second, the hydrometeor predominantly associated with lightning discharges was dry aggregated snow, while the graupel played a secondary role. Finally, although the rainstorm generally showed a typical tripolar charge structure in the first 4 hours, the height of the charge regions was clearly decreased afterwards, with the main negative charge core being below approximately –8 °C level. Moreover, most of the lightning discharges were associated with weak updrafts and downdrafts (–2 to 4 ms<sup>–1</sup>) at the 0 and –10 °C layers. The results suggested that, in the case of relatively weak convection and charging processes, the effective aggregation of charged particles and the formation and maintenance of stable existing charge regions with sufficient charge density may be crucial for the generation of relatively active lightning discharges. The regions with relatively low precipitation intensity in the rainstorm have relatively weak kinematics and can support these conditions, resulting in relatively more lightning discharges than those in regions with strong precipitation.
DOI: 10.15151/esrf-es-187026763
title: Structural remodelling of photosynthetic membrane complexes
DOI: 10.15468/5r3gp7
title: Neoaulonastus sidorchukae, a new species of quill mites (Acariformes Syringophilidae) associated with the purple-rumped sunbird Leptocoma zeylonica (Linnaeus) (Passeriformes: Nectariniidae) from Sri Lanka

description: This dataset contains the digitized treatments in Plazi based on the original journal article Zmudzinski, Mateusz, Skoracki, Maciej, Hromada, Martin (2019): Neoaulonastus sidorchukae, a new species of quill mites (Acariformes Syringophilidae) associated with the purple-rumped sunbird Leptocoma zeylonica (Linnaeus) (Passeriformes: Nectariniidae) from Sri Lanka. Zootaxa 4647 (1): 83-87, DOI: https://doi.org/10.11646/zootaxa.4647.1.8
DOI: 10.15468/se3xsr
title: A beautiful new species of Hyalonthophagus Palestrini & Giacone, 1988 (Coleoptera Scarabaeidae: Scarabaeinae), from the Northern Cape Province, South Africa

description: This dataset contains the digitized treatments in Plazi based on the original journal article Deschodt, Christian M., Davis, Adrian L. V., Sole, Catherine L. (2019): A beautiful new species of Hyalonthophagus Palestrini & Giacone, 1988 (Coleoptera Scarabaeidae: Scarabaeinae), from the Northern Cape Province, South Africa. Zootaxa 4648 (1): 194-200, DOI: https://doi.org/10.11646/zootaxa.4648.1.12
DOI: 10.15468/z6pwhk
title: Taxonomic review of Dendrophryniscus brevipollicatus Jiménez de la Espada, 1870, with revalidation of D. imitator (Miranda-Ribeiro, 1920) and D. lauroi Miranda-Ribeiro, 1926, and description of four new related species (Anura, Bufonidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Cruz, Carlos Alberto Gonçalves, Caramaschi, Ulisses, Fusinatto, Luciana Ardenghi, Brasileiro, Cinthia Aguirre (2019): Taxonomic review of Dendrophryniscus brevipollicatus Jiménez de la Espada, 1870, with revalidation of D. imitator (Miranda-Ribeiro, 1920) and D. lauroi Miranda-Ribeiro, 1926, and description of four new related species (Anura, Bufonidae). Zootaxa 4648 (1): 27-62, DOI: https://doi.org/10.11646/zootaxa.4648.1.2
DOI: 10.5281/zenodo.3379097
title: A comparative study of epitaxial InGaAsBi/InP structures using Rutherford Backscattering Spectrometry, X-ray diffraction and Photoluminescence techniques.

description: In this work we used a combination of photoluminescence (PL), high resolution X-ray diffraction (XRD) and Rutherford backscattering spectrometry (RBS) techniques to investigate material quality and structural properties of MBE-grown InGaAsBi samples (with and without an InGaAs cap layer) with targeted bismuth composition in the 3-4% range. XRD data showed that the InGaAsBi layers are more homogenous in the uncapped samples. For the capped samples, the growth of the InGaAs capped layer at higher temperature affects the quality of the InGaAsBi layer and bismuth distribution in the growth direction. Low temperature PL exhibited multiple emission peaks; the peak energies, widths and relative intensities were used for comparative analysis of the data in line with the XRD and RBS results. RBS data at random orientation together with channelled measurements allowed both an estimation of the bismuth composition as well as analysis of the structural properties. The RBS channelling showed evidence of higher strain due to possible anti-site defects in the capped samples grown at a higher temperature. It is also suggested that the growth of the capped layer at high temperature causes deterioration of the bismuth-layer quality. The RBS analysis demonstrated evidence of a reduction of homogeneity of uncapped InGaAsBi layers with increasing bismuth concentration. The uncapped higher bismuth concentration sample showed less defined channelling dips suggesting poorer crystal quality and clustering of bismuth on the sample surface.
description: This work was supported by the Engineering and Physical Sciences Research Council, U.K. (EPSRC; projects EP/H005587/1 and EP/N021037/1), which also provided a studentship for M. K. Sharpe along with a student training project at the UK National Ion Beam Centre providing beam time funded by the EPSRC (NS/A000059/1).
DOI: 10.5281/zenodo.3379098
title: A comparative study of epitaxial InGaAsBi/InP structures using Rutherford Backscattering Spectrometry, X-ray diffraction and Photoluminescence techniques.

description: In this work we used a combination of photoluminescence (PL), high resolution X-ray diffraction (XRD) and Rutherford backscattering spectrometry (RBS) techniques to investigate material quality and structural properties of MBE-grown InGaAsBi samples (with and without an InGaAs cap layer) with targeted bismuth composition in the 3-4% range. XRD data showed that the InGaAsBi layers are more homogenous in the uncapped samples. For the capped samples, the growth of the InGaAs capped layer at higher temperature affects the quality of the InGaAsBi layer and bismuth distribution in the growth direction. Low temperature PL exhibited multiple emission peaks; the peak energies, widths and relative intensities were used for comparative analysis of the data in line with the XRD and RBS results. RBS data at random orientation together with channelled measurements allowed both an estimation of the bismuth composition as well as analysis of the structural properties. The RBS channelling showed evidence of higher strain due to possible anti-site defects in the capped samples grown at a higher temperature. It is also suggested that the growth of the capped layer at high temperature causes deterioration of the bismuth-layer quality. The RBS analysis demonstrated evidence of a reduction of homogeneity of uncapped InGaAsBi layers with increasing bismuth concentration. The uncapped higher bismuth concentration sample showed less defined channelling dips suggesting poorer crystal quality and clustering of bismuth on the sample surface.
description: This work was supported by the Engineering and Physical Sciences Research Council, U.K. (EPSRC; projects EP/H005587/1 and EP/N021037/1), which also provided a studentship for M. K. Sharpe along with a student training project at the UK National Ion Beam Centre providing beam time funded by the EPSRC (NS/A000059/1).
DOI: 10.25386/genetics.9701960.v2
title: Supplemental Material for Leitao et al., 2019

description: Supplemental Figures for Leitao et al., 2019
DOI: 10.15468/beyypr
title: The Notched-frons Katydids of Taiwan (Orthoptera: Tettigoniidae: Conocephalinae: Copiphorini): redescriptions and keys for identification

description: This dataset contains the digitized treatments in Plazi based on the original journal article Sri-In, Chalida, Yang, Jeng-Tze (2019): The Notched-frons Katydids of Taiwan (Orthoptera: Tettigoniidae: Conocephalinae: Copiphorini): redescriptions and keys for identification. Zootaxa 4648 (1): 63-91, DOI: https://doi.org/10.11646/zootaxa.4648.1.3
DOI: 10.15468/hunybc
title: Two new species of the genus Phytocoris (Hemiptera: Miridae), with a revised identification key to species of the subgenus Compsocerocoris found in Iran

description: This dataset contains the digitized treatments in Plazi based on the original journal article Zamani, Mozhgan, Hosseini, Reza (2019): Two new species of the genus Phytocoris (Hemiptera: Miridae), with a revised identification key to species of the subgenus Compsocerocoris found in Iran. Zootaxa 4648 (1): 130-140, DOI: https://doi.org/10.11646/zootaxa.4648.1.6
DOI: 10.15468/xhpfxs
title: Four new species of the genus Draconarius Ovtchinnikov, 1999 (Araneae, Agelenidae) from the Tibetan Plateau, China

description: This dataset contains the digitized treatments in Plazi based on the original journal article Li, Bing, Zhao, Zhe, Chen, Haifeng, Wu, Zhiyan, Li, Shuqiang (2019): Four new species of the genus Draconarius Ovtchinnikov, 1999 (Araneae, Agelenidae) from the Tibetan Plateau, China. Zootaxa 4648 (1): 141-154, DOI: https://doi.org/10.11646/zootaxa.4648.1.7
DOI: 10.15468/70hcsw
title: New species of the genus Megalothorax Willem, 1900 (Collembola: Neelipleona) from a superficial subterranean habitat at Dobšinská Ice Cave, Slovakia

description: This dataset contains the digitized treatments in Plazi based on the original journal article Papáč, Vladimír, Raschmanová, Natália, Kováč, Ľubomír (2019): New species of the genus Megalothorax Willem, 1900 (Collembola: Neelipleona) from a superficial subterranean habitat at Dobšinská Ice Cave, Slovakia. Zootaxa 4648 (1): 165-177, DOI: https://doi.org/10.11646/zootaxa.4648.1.9
DOI: 10.17632/n7mmsk9ybm.1
title: Data for: Modelling the dynamics of industrial robots for milling operations

description: Data used in the paper entitiled "Modelling the dynamics of industrial robots for milling operations" User will find the code to identify the inertial parameter of an industrial robot limited its first 3 joints. Data are provided for the studied example in the paper: KUKA KR90 R3100 HA robot. Matlab code is provided and implements the least squares method to identify the inertial parameters of the robot. Measured FRFs of the KUKA robot are also provided for the three studied postures in the paper.
DOI: 10.5281/zenodo.3416712
title: Link to Dataset related to article "Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions"

description: Link to Dataset related to article "Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions" Multiple sclerosis (MS) is the most common neurological disorder in young adults. Despite extensive studies, only a fraction of MS heritability has been explained, with association studies focusing primarily on protein-coding genes, essentially for the difficulty of interpreting non-coding features. However, non-coding RNAs (ncRNAs) and functional elements, such as super-enhancers (SE), are crucial regulators of many pathways and cellular mechanisms, and they have been implicated in a growing number of diseases. In this work, we searched for possible enrichments in non-coding elements at MS genome-wide associated loci, with the aim to highlight their possible involvement in the susceptibility to the disease. We first reconstructed the linkage disequilibrium (LD) structure of the Italian population using data of 727,478 single-nucleotide polymorphisms (SNPs) from 1,668 healthy individuals. The genomic coordinates of the obtained LD blocks were intersected with those of the top hits identified in previously published MS genome-wide association studies (GWAS). By a bootstrapping approach, we hence demonstrated a striking enrichment of non-coding elements, especially of circular RNAs (circRNAs) mapping in the 73 LD blocks harboring MS-associated SNPs. In particular, we found a total of 482 circRNAs (annotated in publicly available databases) vs. a mean of 194 ± 65 in the random sets of LD blocks, using 1,000 iterations. As a proof of concept of a possible functional relevance of this observation, we experimentally verified that the expression levels of a circRNA derived from an MS-associated locus, i.e., hsa_circ_0043813 from the <em>STAT3</em> gene, can be modulated by the three genotypes at the disease-associated SNP. Finally, by evaluating RNA-seq data of two cell lines, SH-SY5Y and Jurkat cells, representing tissues relevant for MS, we identified 18 (two novel) circRNAs derived from MS-associated genes. In conclusion, this work showed for the first time that MS-GWAS top hits map in LD blocks enriched in circRNAs, suggesting circRNAs as possible novel contributors to the disease pathogenesis. GEO database URL: https://www.ncbi.nlm.nih.gov/geo/ Numero di accesso del dataset: GSE110525
DOI: 10.5281/zenodo.3416713
title: Link to Dataset related to article "Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions"

description: Link to Dataset related to article "Interpreting Non-coding Genetic Variation in Multiple Sclerosis Genome-Wide Associated Regions" Multiple sclerosis (MS) is the most common neurological disorder in young adults. Despite extensive studies, only a fraction of MS heritability has been explained, with association studies focusing primarily on protein-coding genes, essentially for the difficulty of interpreting non-coding features. However, non-coding RNAs (ncRNAs) and functional elements, such as super-enhancers (SE), are crucial regulators of many pathways and cellular mechanisms, and they have been implicated in a growing number of diseases. In this work, we searched for possible enrichments in non-coding elements at MS genome-wide associated loci, with the aim to highlight their possible involvement in the susceptibility to the disease. We first reconstructed the linkage disequilibrium (LD) structure of the Italian population using data of 727,478 single-nucleotide polymorphisms (SNPs) from 1,668 healthy individuals. The genomic coordinates of the obtained LD blocks were intersected with those of the top hits identified in previously published MS genome-wide association studies (GWAS). By a bootstrapping approach, we hence demonstrated a striking enrichment of non-coding elements, especially of circular RNAs (circRNAs) mapping in the 73 LD blocks harboring MS-associated SNPs. In particular, we found a total of 482 circRNAs (annotated in publicly available databases) vs. a mean of 194 ± 65 in the random sets of LD blocks, using 1,000 iterations. As a proof of concept of a possible functional relevance of this observation, we experimentally verified that the expression levels of a circRNA derived from an MS-associated locus, i.e., hsa_circ_0043813 from the <em>STAT3</em> gene, can be modulated by the three genotypes at the disease-associated SNP. Finally, by evaluating RNA-seq data of two cell lines, SH-SY5Y and Jurkat cells, representing tissues relevant for MS, we identified 18 (two novel) circRNAs derived from MS-associated genes. In conclusion, this work showed for the first time that MS-GWAS top hits map in LD blocks enriched in circRNAs, suggesting circRNAs as possible novel contributors to the disease pathogenesis. GEO database URL: https://www.ncbi.nlm.nih.gov/geo/ Numero di accesso del dataset: GSE110525
DOI: 10.5281/zenodo.3424426
title: Social contact data for China mainland

description: Social contact data for China mainland
DOI: 10.5281/zenodo.3416571
title: Link to dataset related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage"

description: This record contains link to raw data related to article "Sustained activation of detoxification pathways promotes liver carcinogenesis in response to chronic bile acid-mediated damage" Chronic inflammation promotes oncogenic transformation and tumor progression. Many inflammatory agents also generate a toxic microenvironment, implying that adaptive mechanisms must be deployed for cells to survive and undergo transformation in such unfavorable contexts. A paradigmatic case is represented by cancers occurring in pediatric patients with genetic defects of hepatocyte phosphatidylcholine transporters and in the corresponding mouse model (Mdr2-/- mice), in which impaired bile salt emulsification leads to chronic hepatocyte damage and inflammation, eventually resulting in oncogenic transformation. By combining genomics and metabolomics, we found that the transition from inflammation to cancer in Mdr2-/- mice was linked to the sustained transcriptional activation of metabolic detoxification systems and transporters by the Constitutive Androstane Receptor (CAR), a hepatocyte-specific nuclear receptor. Activation of CAR-dependent gene expression programs coincided with reduced content of toxic bile acids in cancer nodules relative to inflamed livers. Treatment of Mdr2-/- mice with a CAR inhibitor blocked cancer progression and caused a partial regression of existing tumors. These results indicate that the acquisition of resistance to endo- or xeno-biotic toxicity is critical for cancers that develop in toxic microenvironments. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE80777 under the accession GSE80777, which comprises ChIP-seq data (GSE80775) and expression data (GSE80776).
DOI: 10.5281/zenodo.3428125
title: Versmith Summary Data

description: Verismith summary data obtained by running Verismith on various synthesis tools.
DOI: 10.5281/zenodo.3428126
title: Versmith Summary Data

description: Verismith summary data obtained by running Verismith on various synthesis tools.
DOI: 10.15468/imvjwc
title: Dipterological surveys in Portugal unveil 200 species of long-legged flies, with over 170 new to the country (Diptera: Dolichopodidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Pollet, Marc, Andrade, Rui, Gonçalves, Ana, Andrade, Pedro, Jacinto, Valter, Almeida, Jorge, Braekeleer, Anja De, Calster, Hans Van, Brosens, Dimitri (2019): Dipterological surveys in Portugal unveil 200 species of long-legged flies, with over 170 new to the country (Diptera: Dolichopodidae). Zootaxa 4649 (1): 1-69, DOI: https://doi.org/10.11646/zootaxa.4649.1.1
DOI: 10.5281/zenodo.3416439
title: Dataset related to article "Long-term outcomes of high-grade T1 bladder cancer treated with intravesical bacillus Calmette-Guérin: experience of a single center"

description: This record contains raw data related to article "Long-term outcomes of high-grade T1 bladder cancer treated with intravesical bacillus Calmette-Guérin: experience of a single center" BACKGROUND: To assess the outcomes of patients with high-grade (HG) pT1 bladder cancer (BC) treated with intravesical BCG therapy. METHODS: The study population consisted of 185 patients with HG pT1 BC treated between 1998 and 2010. We aimed to determine recurrence-free (RFS) and progression-free survival (PFS), as well as the predictors of RFS and PFS. RESULTS: Overall, 143 (77.3%) patients were males. Median age was 72 years (IQR: 66-78). Tumor size was ≥3 cm in 100 (54.1%) individuals. Most patients had single tumors (125; 67.6%). Primary, progressive and recurrent patterns of presentation were observed in 146 (78.9%), 21 (11.4%), and 18 (9.7%) cases, respectively. After 2nd-look TURB, 127 (68.6%) patients had no residual disease, 44 (23.8%) had Ta/CIS, and 14 (7.6%) had T1 HG BC. Twenty-two (11.9%) patients experience early recurrence after BCG. Of these, 12 patients (54.5%) were diagnosed with Ta/CIS, while 10 (45.5%) were diagnosed with HG pT1 BC. The median follow-up was 93 months (IQR: 63-147). Ten-year RFS and PFS rates were 69.6 and 79.2%. In multivariable Cox regression models, female gender (HR=2.41; P=0.001), progressive (HR=2.03; P=0.030) and recurrent (HR=3.87; P&lt;0.001) pattern of presentation emerged as independent predictors of RFS, while age ≥70 years (HR=2.13; P=0.027), presence of multiple tumors (HR=2.06; P=0.019), and early recurrence (HR=3.88; P&lt;0.001) emerged as independent predictors of PFS. CONCLUSIONS: Intravesical BCG appears to be an effective treatment for HG pT1 BC. Caution should be used in patients aged ≥70 years, with multiple tumors or experiencing early recurrence.
DOI: 10.5281/zenodo.3416440
title: Dataset related to article "Long-term outcomes of high-grade T1 bladder cancer treated with intravesical bacillus Calmette-Guérin: experience of a single center"

description: This record contains raw data related to article "Long-term outcomes of high-grade T1 bladder cancer treated with intravesical bacillus Calmette-Guérin: experience of a single center" BACKGROUND: To assess the outcomes of patients with high-grade (HG) pT1 bladder cancer (BC) treated with intravesical BCG therapy. METHODS: The study population consisted of 185 patients with HG pT1 BC treated between 1998 and 2010. We aimed to determine recurrence-free (RFS) and progression-free survival (PFS), as well as the predictors of RFS and PFS. RESULTS: Overall, 143 (77.3%) patients were males. Median age was 72 years (IQR: 66-78). Tumor size was ≥3 cm in 100 (54.1%) individuals. Most patients had single tumors (125; 67.6%). Primary, progressive and recurrent patterns of presentation were observed in 146 (78.9%), 21 (11.4%), and 18 (9.7%) cases, respectively. After 2nd-look TURB, 127 (68.6%) patients had no residual disease, 44 (23.8%) had Ta/CIS, and 14 (7.6%) had T1 HG BC. Twenty-two (11.9%) patients experience early recurrence after BCG. Of these, 12 patients (54.5%) were diagnosed with Ta/CIS, while 10 (45.5%) were diagnosed with HG pT1 BC. The median follow-up was 93 months (IQR: 63-147). Ten-year RFS and PFS rates were 69.6 and 79.2%. In multivariable Cox regression models, female gender (HR=2.41; P=0.001), progressive (HR=2.03; P=0.030) and recurrent (HR=3.87; P&lt;0.001) pattern of presentation emerged as independent predictors of RFS, while age ≥70 years (HR=2.13; P=0.027), presence of multiple tumors (HR=2.06; P=0.019), and early recurrence (HR=3.88; P&lt;0.001) emerged as independent predictors of PFS. CONCLUSIONS: Intravesical BCG appears to be an effective treatment for HG pT1 BC. Caution should be used in patients aged ≥70 years, with multiple tumors or experiencing early recurrence.