cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.7284/109914
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1214 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756562
title: Supplementary Information II.pdf

description: Supplementary information for the paper:<b>Asymmetric post-translational modifications regulate the intracellular distribution of unstimulated STAT3 dimers </b> Beatriz Cardoso, Ricardo Letra-Vilela, Catarina Silva-Almeida<sub>,</sub> Ana Maia Rocha, Fernanda Murtinheira, Joana Branco-Santos, Carmen Rodriguez, Vanesa Martin,<sup> </sup>Mariana Santa-Marta and Federico Herrera
DOI: 10.6084/m9.figshare.7756583.v1
title: Supplementary files of Lautaoja et al. AJP Endo

description: Supplementary material for the article:<b>Metabolome and nucleotide metabolism are altered in colon-26 cancer despite prevention of cachexia with soluble activin receptor 2B. </b><b>Lautaoja JH, Lalowski M, Nissinen TA, Hentilä J, Shi Y, Ritvos O,<sup> </sup>Cheng S, Hulmi JJ.</b>
DOI: 10.7284/111589
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1215 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756559
title: Supplementary Material for: Association of Thyrotropin Concentration with Chronic Kidney Disease in a Japanese General Population Cohort

description: <b><i>Background:</i></b> Previous studies have indicated an association between hypothyroidism and kidney dysfunction; however, few studies have investigated whether thyroid dysfunction is a risk factor for chronic kidney disease (CKD) development. And their result is not consistent. <b><i>Objectives:</i></b> We evaluated the association of thyroid dysfunction with CKD prevalence and development by a multivariate logistic regression analysis. <b><i>Method:</i></b> In cross-sectional and longitudinal studies, 16,390 subjects and 7,609 subjects, respectively, who underwent annual health check-ups were analyzed. We categorized the subjects into the following 4 groups based on their serum thyrotropin (TSH) ­concentrations: below-normal (TSH &lt; 0.54 mU/L), lower-normal ­(0.54–2.40 mU/L), higher-normal (2.41–4.26 mU/L) and above-normal (&gt; 4.26 mU/L). Subjects with eGFR &lt;60 mL/min/1.73 m<sup>2</sup> were determined to have CKD. <b><i>Results:</i></b> The cross-sectional study revealed a positive correlation between TSH concentration and CKD ­prevalence. Compared with the lower-normal TSH group, the ORs and 95% CIs of CKD prevalence were 0.61 (0.45–0.82, <i>p</i> = 0.001) for the below-normal group, 1.49 (1.33–1.67, <i>p</i> &lt; 0.001) for the higher-normal group, and 1.90 (1.57–2.30, <i>p</i> &lt; 0.001) for the above-normal group. The longitudinal study revealed that the risk of CKD development within 3 years was significantly higher in the above-normal TSH group than in the lower-normal TSH group (OR 1.58, 95% CI 1.02–2.45, <i>p</i> = 0.04). <b><i>Conclusions:</i></b> Our data indicate that higher TSH concentrations are positively correlated with CKD prevalence and that a high TSH concentration is a risk factor for CKD development.
DOI: 10.6084/m9.figshare.7756562.v1
title: Supplementary Information II.pdf

description: Supplementary information for the paper:<b>Asymmetric post-translational modifications regulate the intracellular distribution of unstimulated STAT3 dimers </b> Beatriz Cardoso, Ricardo Letra-Vilela, Catarina Silva-Almeida<sub>,</sub> Ana Maia Rocha, Fernanda Murtinheira, Joana Branco-Santos, Carmen Rodriguez, Vanesa Martin,<sup> </sup>Mariana Santa-Marta and Federico Herrera
DOI: 10.6084/m9.figshare.7756544
title: Protein quantification by Standard Test Tube protocol (Pierce BCA Protein Assay Kit)

description: Purified proteins were quantified using the Standard Test Tube Protocol (Pierce BCA Protein Assay Kit) following manufacturer specifications by producing a BSA colour response curve as standard curve. Protein samples were diluted when required in order to be within the assay sensitivity (0 - 2 mg/ml)
DOI: 10.6084/m9.figshare.7756559.v1
title: Supplementary Material for: Association of Thyrotropin Concentration with Chronic Kidney Disease in a Japanese General Population Cohort

description: <b><i>Background:</i></b> Previous studies have indicated an association between hypothyroidism and kidney dysfunction; however, few studies have investigated whether thyroid dysfunction is a risk factor for chronic kidney disease (CKD) development. And their result is not consistent. <b><i>Objectives:</i></b> We evaluated the association of thyroid dysfunction with CKD prevalence and development by a multivariate logistic regression analysis. <b><i>Method:</i></b> In cross-sectional and longitudinal studies, 16,390 subjects and 7,609 subjects, respectively, who underwent annual health check-ups were analyzed. We categorized the subjects into the following 4 groups based on their serum thyrotropin (TSH) ­concentrations: below-normal (TSH &lt; 0.54 mU/L), lower-normal ­(0.54–2.40 mU/L), higher-normal (2.41–4.26 mU/L) and above-normal (&gt; 4.26 mU/L). Subjects with eGFR &lt;60 mL/min/1.73 m<sup>2</sup> were determined to have CKD. <b><i>Results:</i></b> The cross-sectional study revealed a positive correlation between TSH concentration and CKD ­prevalence. Compared with the lower-normal TSH group, the ORs and 95% CIs of CKD prevalence were 0.61 (0.45–0.82, <i>p</i> = 0.001) for the below-normal group, 1.49 (1.33–1.67, <i>p</i> &lt; 0.001) for the higher-normal group, and 1.90 (1.57–2.30, <i>p</i> &lt; 0.001) for the above-normal group. The longitudinal study revealed that the risk of CKD development within 3 years was significantly higher in the above-normal TSH group than in the lower-normal TSH group (OR 1.58, 95% CI 1.02–2.45, <i>p</i> = 0.04). <b><i>Conclusions:</i></b> Our data indicate that higher TSH concentrations are positively correlated with CKD prevalence and that a high TSH concentration is a risk factor for CKD development.
DOI: 10.6084/m9.figshare.7756583.v2
title: Supp_Lautaoja2019

description: Supplementary material for the article:<b>Metabolome and nucleotide metabolism are altered in colon-26 cancer despite prevention of cachexia with soluble activin receptor 2B. </b><b>Lautaoja JH, Lalowski M, Nissinen TA, Hentilä J, Shi Y, Ritvos O,<sup> </sup>Cheng S, Hulmi JJ.</b>
DOI: 10.7284/109915
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1215 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756538
title: Assessing Intraspecific Variation in Effective Dispersal Along an Altitudinal Gradient: A Test in Two Mediterranean High-Mountain Plants

description: n August and September 2010, we established 10x10m plots in five populations of both S. ciliata and A. caespitosa distributed along an altitudinal gradient in the in the orophyllous cryophilic pastures of Sierra de Guadarrama, a mountain range located in central Spain. In each study plot, we mapped every S. ciliata and A. caespitosa reproductive plant and seedling using a high-resolution Differential Global Navigation Satellite System (DGNSS) (Viva GS15, Leica, Switzerland) with an accuracy of 5 cm for x and y coordinates. We also measured plant diameter and the number of inflorescences of every reproductive plant. To account for potential seedling sources outside the study area, we also recorded the location, diameter and number of inflorescences of reproductive plants in a buffer zone of two meters around the plots.
DOI: 10.6084/m9.figshare.7756526
title: Plotting ancestral states from MCMCglmm example

description: R code that takes tip and internal node model estimates from MCMCglmm phylogenetic mixed model, and associates them with the tree, so it you can output a tree file and read into figtree (https://github.com/rambaut/figtree/releases) to make pretty colour gradients of states across the tree e.g. https://doi.org/10.1371/journal.ppat.1007185.g002<br>Make sure to add the Nexus block to the final .tre file:<br>"#NEXUS<br>Begin trees;”<br><br>then your tree<br><br>“End;”<br><br>Data from Roberts et al. 2018 https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1007185
DOI: 10.6084/m9.figshare.7756529
title: Individual spatial aggregation correlates with between--popualtion variation in fine-scale genetic structure of Silene ciliata (Caryophyllaceae). Heredity

description: In August and September 2010, we established one 10x10m plot in each of five S. ciliata populations distributed along the Sierra de Guadarrama (Figure 1, Table 1). Additional information about the selected populations can be found in Lara-Romero et al. 2014. In each study plot, we mapped every adult S. ciliata individual using two high-resolution Differential Global Navigation Satellite System (DGNSS) receivers (Viva GS15, Leica, Switzerland) with an absolute accuracy of 5 cm for x and y coordinates. We also collected leaf material of 96 adult plants per plot for genetic analysis. In order to increase sample size of shorter inter-individual distances for autocorrelation analysis, plants were selected using a clustered random sampling design (sensu Storfer et al. 2007). Namely we randomly selected 24 sample locations in each plot, where we collected leaf material of four individuals located in close proximity to each other. Portions of leaves with no sign of parasites, fungal infection or drought injuries were collected, and subsequently cleaned and dried in silica gel. DNA was extracted using the DNeasy Plant minikit (QIAGEN, Barcelona, Spain) with 10¿20 mg of dried S. ciliata tissue. Ten microsatellite loci previously used in genetic studies of S. ciliata were selected for genotyping: Sci1224, Sci1208, Sci0106, Sci1443 EST-2HTS, EST-8HTS, EST-37HTS, EST-X4-3, EST-G34D06 and EST-G47A02 (García-Fernández et al. 2012b) Specifications of PCR reactions and amplification are detailed in García Fernández et al. (2012b). Samples were run on an automated DNA sequencer (ABI PRISM 3730, Applied Biosystems, California, USA) in Parque Científico de Madrid (Madrid, Spain). Fragment sizes were assigned to alleles using GeneMarker version 1.85 (SoftGenetics, State College, Pennsylvania, USA. After checking, we discarded locus Sci1443 and EST-SSR X4-3 because of inconsistent allelic scoring and the possible presence of null alleles, respectively.
DOI: 10.7284/111588
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1216 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756529.v1
title: Individual spatial aggregation correlates with between--popualtion variation in fine-scale genetic structure of Silene ciliata (Caryophyllaceae). Heredity

description: In August and September 2010, we established one 10x10m plot in each of five S. ciliata populations distributed along the Sierra de Guadarrama (Figure 1, Table 1). Additional information about the selected populations can be found in Lara-Romero et al. 2014. In each study plot, we mapped every adult S. ciliata individual using two high-resolution Differential Global Navigation Satellite System (DGNSS) receivers (Viva GS15, Leica, Switzerland) with an absolute accuracy of 5 cm for x and y coordinates. We also collected leaf material of 96 adult plants per plot for genetic analysis. In order to increase sample size of shorter inter-individual distances for autocorrelation analysis, plants were selected using a clustered random sampling design (sensu Storfer et al. 2007). Namely we randomly selected 24 sample locations in each plot, where we collected leaf material of four individuals located in close proximity to each other. Portions of leaves with no sign of parasites, fungal infection or drought injuries were collected, and subsequently cleaned and dried in silica gel. DNA was extracted using the DNeasy Plant minikit (QIAGEN, Barcelona, Spain) with 10¿20 mg of dried S. ciliata tissue. Ten microsatellite loci previously used in genetic studies of S. ciliata were selected for genotyping: Sci1224, Sci1208, Sci0106, Sci1443 EST-2HTS, EST-8HTS, EST-37HTS, EST-X4-3, EST-G34D06 and EST-G47A02 (García-Fernández et al. 2012b) Specifications of PCR reactions and amplification are detailed in García Fernández et al. (2012b). Samples were run on an automated DNA sequencer (ABI PRISM 3730, Applied Biosystems, California, USA) in Parque Científico de Madrid (Madrid, Spain). Fragment sizes were assigned to alleles using GeneMarker version 1.85 (SoftGenetics, State College, Pennsylvania, USA. After checking, we discarded locus Sci1443 and EST-SSR X4-3 because of inconsistent allelic scoring and the possible presence of null alleles, respectively.
DOI: 10.6084/m9.figshare.7756538.v2
title: Assessing Intraspecific Variation in Effective Dispersal Along an Altitudinal Gradient: A Test in Two Mediterranean High-Mountain Plants

description: n August and September 2010, we established 10x10m plots in five populations of both S. ciliata and A. caespitosa distributed along an altitudinal gradient in the in the orophyllous cryophilic pastures of Sierra de Guadarrama, a mountain range located in central Spain. In each study plot, we mapped every S. ciliata and A. caespitosa reproductive plant and seedling using a high-resolution Differential Global Navigation Satellite System (DGNSS) (Viva GS15, Leica, Switzerland) with an accuracy of 5 cm for x and y coordinates. We also measured plant diameter and the number of inflorescences of every reproductive plant. To account for potential seedling sources outside the study area, we also recorded the location, diameter and number of inflorescences of reproductive plants in a buffer zone of two meters around the plots.
DOI: 10.6084/m9.figshare.7756583.v3
title: Supp_Lautaoja2019

description: Supplementary material for the article:<b>Metabolome and nucleotide metabolism are altered in colon-26 cancer despite prevention of cachexia with soluble activin receptor 2B. </b><b>Lautaoja JH, Lalowski M, Nissinen TA, Hentilä J, Shi Y, Ritvos O,<sup> </sup>Cheng S, Hulmi JJ.</b>
DOI: 10.6084/m9.figshare.7756583.v4
title: Supp_Lautaoja2019

description: Supplementary material for the article:<b>Muscle and serum metabolomes are dysregulated in colon-26 tumor-bearing mice despite amelioration of cachexia with activin receptor type 2B ligand blockade. </b><b>Lautaoja JH, Lalowski M, Nissinen TA, Hentilä J, Shi Y, Ritvos O,<sup> </sup>Cheng S, Hulmi JJ. </b><i>American Journal of Physiology-Endocrinology and Metabolism</i> (2019).
DOI: 10.7284/109916
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1216 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756538.v1
title: Assessing Intraspecific Variation in Effective Dispersal Along an Altitudinal Gradient: A Test in Two Mediterranean High-Mountain Plants

description: n August and September 2010, we established 10x10m plots in five populations of both S. ciliata and A. caespitosa distributed along an altitudinal gradient in the in the orophyllous cryophilic pastures of Sierra de Guadarrama, a mountain range located in central Spain. In each study plot, we mapped every S. ciliata and A. caespitosa reproductive plant and seedling using a high-resolution Differential Global Navigation Satellite System (DGNSS) (Viva GS15, Leica, Switzerland) with an accuracy of 5 cm for x and y coordinates. We also measured plant diameter and the number of inflorescences of every reproductive plant. To account for potential seedling sources outside the study area, we also recorded the location, diameter and number of inflorescences of reproductive plants in a buffer zone of two meters around the plots.
DOI: 10.7284/111587
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1217 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109917
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1217 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111586
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1218 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109918
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1218 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109919
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1219 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109920
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1220 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111583
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1221 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109921
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1221 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111582
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1222 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109922
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1222 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111581
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1223 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109923
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1223 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/111580
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1224 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.7284/109924
title: GNSS (Global Navigation Satellite System) data collected during research cruise AE1224 using a Furuno GP-90 instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition
DOI: 10.6084/m9.figshare.7756262
title: Supplementary Material for: Bili-Uéré: A Chimpanzee Behavioural Realm in Northern Democratic Republic of Congo

description: To improve our understanding of the evolutionary origins of culture and technology in humans, it is vital that we document the full extent of behavioural diversity in our great ape relatives. About half of the world’s remaining chimpanzees (<i>Pan</i> spp.) live in the Democratic Republic of Congo (DRC), yet until now we have known almost nothing about their behaviour. Here we describe the insect-related tool technology of Bili-Uéré<b><i></i></b> chimpanzees (<i>Pan troglodytes schweinfurthii</i>) inhabiting an area of at least a 50,000-km<sup>2</sup> area in northern DRC, as well as their percussive technology associated with food processing. Over a 12-year period, we documented chimpanzee tools and artefacts at 20 survey areas and gathered data on dung, feeding remains and sleeping nests. We describe a new chimpanzee tool kit: long probes used to harvest epigaeic driver ants (<i>Dorylus</i> spp.), short probes used to extract ponerine ants and the arboreal nests of stingless bees, wands to dip for <i>D. kohli</i> and stout digging sticks used to access underground meliponine bee nests. Epigaeic <i>Dorylus</i> tools were significantly longer than the other tool types, and <i>D. kohli</i> tools were significantly thinner. Tools classified as terrestrial honey-digging sticks were a significant predictor for brushed and blunted tool ends, consistent with their presumed use. We describe two potential new tool types, an “ant scoop” and a “fruit hammer.” We document an extensive percussive technology used to process termite mounds of <i>Cubitermes</i> sp. and <i>Thoracotermes macrothorax</i> and hard-shelled fruits such as <i>Strychnos</i>, along with evidence of the pounding open of African giant snails and tortoises. We encountered some geographic variation in behaviour: we found honey-digging tools, long driver ant probes and fruit-pounding sites only to the north of the Uele River; there were more epigaeic <i>Dorylus</i> tools to the north and more ponerine ant tools to the south. We found no evidence of termite-fishing, despite the availability of <i>Macrotermes muelleri</i> mounds throughout the region. This lack of evidence is consistent with the results of dung washes, which revealed a substantial proportion of driver ants, but no evidence of <i>Macrotermes</i> or other termites. Our results allow us to describe a new chimpanzee behavioural complex, characterised by a general similarity of multiple behaviours across a large, ecologically diverse region but with subtle differences in prey choice and techniques. We propose that this widespread and related suite of behaviours be referred to as the Bili-Uéré Chimpanzee Behavioural Realm. Possible explanations for this pattern are a recent chimpanzee expansion across the region and the interconnectedness of this population across at least the entirety of northern DRC.
DOI: 10.7284/111579
title: CTD (Conductivity, Temperature, Depth) data collected during research cruise AE1225 using a Sea-Bird SBE-911+ instrument system onboard the platform RV Atlantic Explorer

description: Original (unprocessed) data collected during a Field_expedition