cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5517/ccdc.csd.cc2ck155
title: CCDC 2191116: Experimental Crystal Structure Determination

description: Related Article: Siya T. Hulushe, Frederick P. Malan, Eric C. Hosten, Kevin A. Lobb, Setshaba D. Khanye, Gareth M. Watkins|2022|New J.Chem.|46|20940|doi:10.1039/D1NJ03056F
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.cc2ck166
title: CCDC 2191117: Experimental Crystal Structure Determination

description: Related Article: Siya T. Hulushe, Frederick P. Malan, Eric C. Hosten, Kevin A. Lobb, Setshaba D. Khanye, Gareth M. Watkins|2022|New J.Chem.|46|20940|doi:10.1039/D1NJ03056F
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.cc2ck188
title: CCDC 2191119: Experimental Crystal Structure Determination

description: Related Article: Siya T. Hulushe, Frederick P. Malan, Eric C. Hosten, Kevin A. Lobb, Setshaba D. Khanye, Gareth M. Watkins|2022|New J.Chem.|46|20940|doi:10.1039/D1NJ03056F
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: 10.5519/qd.wen8ccqd
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (777439 records)
DOI: 10.57745/7osuje
title: mes_1.zip

description: :unav
DOI: 10.57745/redtqq
title: example_initial_deposition.bmp

description: Example of an initial deposition image
DOI: 10.57745/lst86n
title: mes_2.zip

description: :unav
DOI: 10.57745/lqnxhu
title: mes_7.zip

description: :unav
DOI: 10.57745/oowxv5
title: mes_6.zip

description: :unav
DOI: 10.57745/8nwsmj
title: example_final_deposition.bmp

description: :unav
DOI: 10.57745/p5u1q3
title: mes_5.zip

description: :unav
DOI: 10.57745/xb5dse
title: mes_3.zip

description: :unav
DOI: 10.57745/f8uvic
title: mes_4.zip

description: :unav
DOI: 10.35078/fgny6d
title: Replication Data for: Ficha epidemiológica de localidade: Distrito: Teófilo Otoni | Município: Machacalis

description: Levantamento Triatomínico com operações de campo ocorridas em Minas Gerais pela Superintendência de Campanhas de Saúde Pública (SUCAM) e FUNASA (Fundação Nacional de Saúde), no período de 1979 a 1999, objetivando a busca da presença de vetores da doença de Chagas ou de vestígios dessa presença. A partir dela são orientadas as operações com inseticida (pt) Triatomine survey with field operations carried out in Minas Gerais by the Public Health Campaigns Superintendence (SUCAM) and FUNASA (National Health Foundation), from 1979 to 1999, aiming to search for the presence of Chagas disease vectors or traces of that presence. From it, operations with insecticide are guided (en) Encuesta de triatominos con operaciones de campo realizada en Minas Gerais por la Superintendencia de Campañas de Salud Pública (SUCAM) y FUNASA (Fundación Nacional de Salud), de 1979 a 1999, con el objetivo de buscar la presencia de vectores de la enfermedad de Chagas o rastros de esa presencia. Desde ella se orientan las operaciones con insecticida (es)
DOI: 10.5281/zenodo.7602924
title: Pure POPE membrane simulations with the AMOEBA force field at 310K (OpenMM)

description: MD simulation data of a pure POPE membrane with the AMOEBA force field generated with the OpenMM simulation engine at 310K. Parameters from https://doi.org/10.1080/00268976.2018.1436201
DOI: 10.5281/zenodo.7602923
title: Pure POPE membrane simulations with the AMOEBA force field at 310K (OpenMM)

description: MD simulation data of a pure POPE membrane with the AMOEBA force field generated with the OpenMM simulation engine at 310K. Parameters from https://doi.org/10.1080/00268976.2018.1436201
DOI: 10.6084/m9.figshare.20748961
title: 76604-Raw data.rar

description: <strong>Raw data of paper "High-throughput sequencing approach for the identification of lncRNA biomarkers in hepatocellular carcinoma and reveal the effect of ZFAS1/ miR-150-5p on hepatocellular carcinoma progression"</strong>
DOI: 10.24417/7eca7c5e-f1da-4abb-aad3-acc5038bf5ba
title: Windfarm concessions in the Belgian Part of the North Sea
title: Concessies voor windparken in het Belgisch deel van de Noordzee
title: Concessions pour la construction de parc éoliens dans la Partie Belge de la Mer du Nord
title: Windparkkonzessionen im belgischen Teil der Nordsee

description: This dataset represents the location of the windfarms concessions in the Belgian Part of the North Sea.
description: Deze dataset geeft de locatie van de windturbines concessies in het Belgische deel van de Noordzee.
description: Ce jeu de données représente l'emplacement des différentes concessions éoliennes présentes dans la partie Belge de la Mer du Nord.
description: Dieser Datensatz repräsentiert den Standort der Windparkkonzessionen im belgischen Teil der Nordsee.
DOI: 10.6084/m9.figshare.21704216
title: Fig.2_nt.seq.alignment.fasta related to manuscript "A Recent Gibbon Ape Leukemia Virus Germline Integration in a Rodent from New Guinea"

description: MAFFT nucleotide sequence alignment which corresponds to the main Fig. 2. <br>
DOI: 10.6084/m9.figshare.21704216.v1
title: Fig.2_nt.seq.alignment.fasta

description: MAFFT nucleotide sequence alignment which corresponds to the main Fig. 2. <br>
DOI: 10.48323/a9pdv-3n040
title: MS_XevoTQXS_2022_October
DOI: 10.57967/hf/0324
title: sq
DOI: 10.35078/r7x9py
title: Replication Data for: Ficha epidemiológica de localidade: Distrito: Teófilo Otoni | Município: Jordânia

description: Levantamento Triatomínico com operações de campo ocorridas em Minas Gerais pela Superintendência de Campanhas de Saúde Pública (SUCAM) e FUNASA (Fundação Nacional de Saúde), no período de 1979 a 1999, objetivando a busca da presença de vetores da doença de Chagas ou de vestígios dessa presença. A partir dela são orientadas as operações com inseticida (pt) Triatomine survey with field operations carried out in Minas Gerais by the Public Health Campaigns Superintendence (SUCAM) and FUNASA (National Health Foundation), from 1979 to 1999, aiming to search for the presence of Chagas disease vectors or traces of that presence. From it, operations with insecticide are guided (en) Encuesta de triatominos con operaciones de campo realizada en Minas Gerais por la Superintendencia de Campañas de Salud Pública (SUCAM) y FUNASA (Fundación Nacional de Salud), de 1979 a 1999, con el objetivo de buscar la presencia de vectores de la enfermedad de Chagas o rastros de esa presencia. Desde ella se orientan las operaciones con insecticida (es)
DOI: 10.6084/m9.figshare.22005626
title: Supplementary Table 2

description: <strong>Supplementary Table 2: KRAKEN2 Per Samples Genera Classifications. </strong>Table with per - genera taxonomic classifications. Columns denote the genus identified, run accession number and number of KRAKEN2 assigned reads.
DOI: 10.5281/zenodo.7594103
title: Annotation of Facebook ads in 2019 EU parliamentary elections

description: This dataset contains manual annotation for ads from parties from UK, Italy, Germany, Spain, and Poland that ran ads on Facebook during the 2019 EU parliamentary elections and that were defined as "populist" by popu-list.org. For each ad, we qualitatively identified a primary issue, a sub-issue, and a stance with respect to the sub-issue. The annotation was performed through an open coding procedure. More information is reported in our paper "The Thin Ideology of Populist Advertising on Facebook during the 2019 EU Elections".<br> More information about the same ads is reported in: https://zenodo.org/record/6597765<br> <br> This TSV file contains the following columns:<br> - "state": the country of the ad.<br> - "ad_id": the original id of the ad.<br> - "link": a link to the ad.<br> - "page_name": name of the page running the ad.<br> - "is_local": whether the ad is related to local elections or not (if not, it's related to the 2019 EU Elections).<br> - "issue": a comma-separated list of the main issues of the ad.<br> - "sub-issue": a comma-separated list of sub-issues of the ad.<br> - "stance": a comma-separated list of stances of the ad.
DOI: 10.5281/zenodo.7594102
title: Annotation of Facebook ads in 2019 EU parliamentary elections

description: This dataset contains manual annotation for ads from parties from UK, Italy, Germany, Spain, and Poland that ran ads on Facebook during the 2019 EU parliamentary elections and that were defined as "populist" by popu-list.org. For each ad, we qualitatively identified a primary issue, a sub-issue, and a stance with respect to the sub-issue. The annotation was performed through an open coding procedure. More information is reported in our paper "The Thin Ideology of Populist Advertising on Facebook during the 2019 EU Elections".<br> More information about the same ads is reported in: https://zenodo.org/record/6597765<br> <br> This TSV file contains the following columns:<br> - "state": the country of the ad.<br> - "ad_id": the original id of the ad.<br> - "link": a link to the ad.<br> - "page_name": name of the page running the ad.<br> - "is_local": whether the ad is related to local elections or not (if not, it's related to the 2019 EU Elections).<br> - "issue": a comma-separated list of the main issues of the ad.<br> - "sub-issue": a comma-separated list of sub-issues of the ad.<br> - "stance": a comma-separated list of stances of the ad.
DOI: 10.6084/m9.figshare.22005461
title: Supplementary material for the article: A big data approach to assess progress towards Sustainable Development Goals for cities of varying sizes

description: This supplementary material provides details of the data and tables supporting the results and findings of the relevant article: “A big data approach to assess progress towards Sustainable Development Goals for cities of varying sizes”. <br> The relevant study aimed to construct a generic indicator system using open-source big data and develop an artificial neural network model to efficiently assess the overall SDG progress (SDG Index) for cities of varying sizes. This supplementary material includes the city-level indicator system of SDGs using statistical data, individual SDG scores and SDG Index scores, typical indicators performance, and the major data and indicator gaps for a more comprehensive assessment of SDGs. <br> <strong>Data access</strong> The supporting data and tables are publicly available. <br> <strong>Data file</strong> All data records and supplementary tables are available in Excel format. <br>
DOI: 10.25403/upresearchdata.21959618
title: Effect of tannin additives on rumen microbes

description: This data describes the rumen microbiome of South Africa merino sheep, obtained from metagenomic analysis. <br> Twenty-four (24) rumen fluid samples collected from 24 sheep were stored at -20°C at Nutrilab freezer in the Department of Animal Science, University of Pretoria. The stored rumen fluid samples were defrosted at room temperature. DNA extraction was carried out using D4300 ZymoBiomics miniprep (Zymo Research group, U.S.A) following the manufacturer’s protocol (see Appendix). DNA extraction was done in the Animal Genetics laboratory, Department of Animal Science, University of Pretoria. The concentration of all DNA extracted was determined using high sensitivity scale on the Qubit 2.0 fluorometer (Invitrogen Life Technologies, Carlifornia). The purity was also determined by loading 1 µL of the DNA sample on NanoDrop spectrophotometer (Thermo Scientific™, South Africa). A gel electrophoresis (1% agarose gel, run at 80V for 45mins) was carried out to also confirm the quality of the DNA sample using 2 µL loading dye and 3 µL of the DNA sample. <br> DNA samples were sequenced, and data obtained were analysed using MGRAST. Results from the relative abundance of microbes at different taxonomic levels (phylum, family and genus) were analysed using microbiomanalyst.ca to determine the effect of the different treatment on rumen microbes
DOI: 10.25403/upresearchdata.21959618.v1
title: Effect of tannin additives on rumen microbes

description: This data describes the rumen microbiome of South Africa merino sheep, obtained from metagenomic analysis. <br> Twenty-four (24) rumen fluid samples collected from 24 sheep were stored at -20°C at Nutrilab freezer in the Department of Animal Science, University of Pretoria. The stored rumen fluid samples were defrosted at room temperature. DNA extraction was carried out using D4300 ZymoBiomics miniprep (Zymo Research group, U.S.A) following the manufacturer’s protocol (see Appendix). DNA extraction was done in the Animal Genetics laboratory, Department of Animal Science, University of Pretoria. The concentration of all DNA extracted was determined using high sensitivity scale on the Qubit 2.0 fluorometer (Invitrogen Life Technologies, Carlifornia). The purity was also determined by loading 1 µL of the DNA sample on NanoDrop spectrophotometer (Thermo Scientific™, South Africa). A gel electrophoresis (1% agarose gel, run at 80V for 45mins) was carried out to also confirm the quality of the DNA sample using 2 µL loading dye and 3 µL of the DNA sample. <br> DNA samples were sequenced, and data obtained were analysed using MGRAST. Results from the relative abundance of microbes at different taxonomic levels (phylum, family and genus) were analysed using microbiomanalyst.ca to determine the effect of the different treatment on rumen microbes
DOI: 10.35078/rmxev0
title: Replication Data for: Ficha epidemiológica de localidade: Distrito: Teófilo Otoni | Município: Ipatinga

description: Levantamento Triatomínico com operações de campo ocorridas em Minas Gerais pela Superintendência de Campanhas de Saúde Pública (SUCAM) e FUNASA (Fundação Nacional de Saúde), no período de 1979 a 1999, objetivando a busca da presença de vetores da doença de Chagas ou de vestígios dessa presença. A partir dela são orientadas as operações com inseticida (pt) Triatomine survey with field operations carried out in Minas Gerais by the Public Health Campaigns Superintendence (SUCAM) and FUNASA (National Health Foundation), from 1979 to 1999, aiming to search for the presence of Chagas disease vectors or traces of that presence. From it, operations with insecticide are guided (en) Encuesta de triatominos con operaciones de campo realizada en Minas Gerais por la Superintendencia de Campañas de Salud Pública (SUCAM) y FUNASA (Fundación Nacional de Salud), de 1979 a 1999, con el objetivo de buscar la presencia de vectores de la enfermedad de Chagas o rastros de esa presencia. Desde ella se orientan las operaciones con insecticida (es)
DOI: 10.48567/qzhv-n608
title: Alexander Tall Tower Automatic Weather Station, 2011 quality-controlled observational data.
DOI: 10.6084/m9.figshare.21587529
title: Berthold Hocher_Reno-protective Effects of Empagliflozin

description: The mechanisms of nephroprotection in non-diabetic chronic kidney disease (CKD) models by sodium-glucose cotransporter 2 (SGLT2) inhibitors are not well defined. Five groups were established: sham operated rats, placebo treated rats with 5/6 nephrectomy (5/6Nx); 5/6Nx + telmisartan (5mg/kg/day), 5/6Nx + empagliflozin (3mg/kg/day); 5/6Nx + empagliflozin (15mg/kg/day). Treatment duration was 95 days. Empagliflozin showed a dose-dependent beneficial effect on the change from baseline of estimated glomerular filtration rate (eGFR). The urinary albumin to creatinine ratio likewise improved in a dose-dependent manner. Both dosages of empagliflozin improved morphological kidney damage parameters such as renal interstitial fibrosis and glomerulosclerosis. 5/6 nephrectomy led to a substantial reduction of urinary adenosine excretion, a surrogate parameter of the tubuloglomerular feedback mechanism (TGF). Empagliflozin caused a dose-dependent increase in urinary adenosine excretion. The urinary adenosine excretion was negatively correlated with interstitial kidney fibrosis and positively correlated with eGFR. Immunohistochemical analysis revealed that empagliflozin had no effect on CD8+ and CD4+ T-cells as well as on CD68+ cells (macrophages). To further explore potential mechanisms, a non-hypothesis driven approach was used. RNA sequencing followed by quantitative real-time polymerase chain reaction revealed that complement component 1Q subcomponent A chain (C1qa) as well as complement component 1Q subcomponent C chain (C1qc) gene expression were upregulated in the placebo-treated 5/6Nx rats and this upregulation was blunted by treatment with empagliflozin. In conclusion, empagliflozin mediated- nephroprotection in non-diabetic CKD is due to a dose dependent activation of the TGF as well as empagliflozin mediated effects on the complement system.
DOI: 10.6084/m9.figshare.21587529.v1
title: Berthold Hocher_Reno-protective Effects of Empagliflozin

description: The mechanisms of nephroprotection in non-diabetic chronic kidney disease (CKD) models by sodium-glucose cotransporter 2 (SGLT2) inhibitors are not well defined. Five groups were established: sham operated rats, placebo treated rats with 5/6 nephrectomy (5/6Nx); 5/6Nx + telmisartan (5mg/kg/day), 5/6Nx + empagliflozin (3mg/kg/day); 5/6Nx + empagliflozin (15mg/kg/day). Treatment duration was 95 days. Empagliflozin showed a dose-dependent beneficial effect on the change from baseline of estimated glomerular filtration rate (eGFR). The urinary albumin to creatinine ratio likewise improved in a dose-dependent manner. Both dosages of empagliflozin improved morphological kidney damage parameters such as renal interstitial fibrosis and glomerulosclerosis. 5/6 nephrectomy led to a substantial reduction of urinary adenosine excretion, a surrogate parameter of the tubuloglomerular feedback mechanism (TGF). Empagliflozin caused a dose-dependent increase in urinary adenosine excretion. The urinary adenosine excretion was negatively correlated with interstitial kidney fibrosis and positively correlated with eGFR. Immunohistochemical analysis revealed that empagliflozin had no effect on CD8+ and CD4+ T-cells as well as on CD68+ cells (macrophages). To further explore potential mechanisms, a non-hypothesis driven approach was used. RNA sequencing followed by quantitative real-time polymerase chain reaction revealed that complement component 1Q subcomponent A chain (C1qa) as well as complement component 1Q subcomponent C chain (C1qc) gene expression were upregulated in the placebo-treated 5/6Nx rats and this upregulation was blunted by treatment with empagliflozin. In conclusion, empagliflozin mediated- nephroprotection in non-diabetic CKD is due to a dose dependent activation of the TGF as well as empagliflozin mediated effects on the complement system.
DOI: 10.5281/zenodo.7599766
title: Urbanus and Cosgrove et al Nature Communications (2023) - Fastq files for In Situ Barcoding experiments

description: fastq files relating to in situ barcoding experiments. If you have any questions about these datasets please contact Leila Perie (leila.perie@curie.fr)
DOI: 10.5281/zenodo.7599765
title: Urbanus and Cosgrove et al Nature Communications (2023) - Fastq files for In Situ Barcoding experiments

description: fastq files relating to in situ barcoding experiments. If you have any questions about these datasets please contact Leila Perie (leila.perie@curie.fr)
DOI: 10.5281/zenodo.7602960
title: Characterization of eyes, photoreceptors and opsins in developmental stages of the arrow worm Spadella cephaloptera (Chaetognatha)

description: The phylogenetic position of chaetognaths, or arrow worms, has been debated for decades, however recently they have been grouped into the Gnathifera, a sister clade to all other Spiralia. Chaetognath photoreceptor cells are anatomically unique by exhibiting a highly modified cilium and are arranged differently in the eyes of the various species. Studies investigating eye development and underlying gene regulatory networks are so far missing. To gain insights into the development and the molecular toolkit of chaetognath photoreceptors and eyes a new transcriptome of the epibenthic species <em>Spadella cephaloptera</em> was searched for opsins. Our screen revealed two copies of <em>xenopsin</em> and a single copy of <em>peropsin</em>. Gene expression analyses demonstrated that only <em>xenopsin1</em> is expressed in photoreceptor cells of the developing lateral eyes. Adults likewise exhibit two <em>xenopsin1</em>+ photoreceptor cells in each of their lateral eyes. Beyond that, a single <em>cryptochrome</em> gene was uncovered and found to be expressed in photoreceptor cells of the lateral developing eye. In addition, <em>cryptochrome</em> is also expressed in the cerebral ganglia in a region in which also <em>peropsin</em> expression was observed. This condition is reminiscent of a non-visual photoreceptive zone in the apical nervous system of the annelid <em>Platynereis dumerilii</em> that performs circadian entrainment and melatonin release. <em>Cryptochrome</em> is also expressed in cells of the corona ciliata, an organ in the posterior dorsal head region, indicating a role in circadian entrainment. Our study highlights the importance of the Gnathifera for unraveling the evolution of photoreceptors and eyes in Spiralia and Bilateria.
description: A summary of all parameters related to sequencing and assembly of the transcriptome is added (see metadata spreadsheet Wollesen.xlsx)
DOI: 10.5281/zenodo.7602959
title: Characterization of eyes, photoreceptors and opsins in developmental stages of the arrow worm Spadella cephaloptera (Chaetognatha)

description: The phylogenetic position of chaetognaths, or arrow worms, has been debated for decades, however recently they have been grouped into the Gnathifera, a sister clade to all other Spiralia. Chaetognath photoreceptor cells are anatomically unique by exhibiting a highly modified cilium and are arranged differently in the eyes of the various species. Studies investigating eye development and underlying gene regulatory networks are so far missing. To gain insights into the development and the molecular toolkit of chaetognath photoreceptors and eyes a new transcriptome of the epibenthic species <em>Spadella cephaloptera</em> was searched for opsins. Our screen revealed two copies of <em>xenopsin</em> and a single copy of <em>peropsin</em>. Gene expression analyses demonstrated that only <em>xenopsin1</em> is expressed in photoreceptor cells of the developing lateral eyes. Adults likewise exhibit two <em>xenopsin1</em>+ photoreceptor cells in each of their lateral eyes. Beyond that, a single <em>cryptochrome</em> gene was uncovered and found to be expressed in photoreceptor cells of the lateral developing eye. In addition, <em>cryptochrome</em> is also expressed in the cerebral ganglia in a region in which also <em>peropsin</em> expression was observed. This condition is reminiscent of a non-visual photoreceptive zone in the apical nervous system of the annelid <em>Platynereis dumerilii</em> that performs circadian entrainment and melatonin release. <em>Cryptochrome</em> is also expressed in cells of the corona ciliata, an organ in the posterior dorsal head region, indicating a role in circadian entrainment. Our study highlights the importance of the Gnathifera for unraveling the evolution of photoreceptors and eyes in Spiralia and Bilateria.
description: A summary of all parameters related to sequencing and assembly of the transcriptome is added (see metadata spreadsheet Wollesen.xlsx)