cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6139121
title: List of all cell lines screened for 15 viruses from Screening for 15 pathogenic viruses in human cell lines registered at the JCRB Cell Bank: characterization of <i>in vitro</i> human cells by viral infection.

description: Human cell lines have been used in a variety of research fields as an <i>in vitro</i> model. These cells are all derived from human tissue samples, thus there is a possibility of virus infection. Virus tests are routinely performed in clinical practice, but are limited in cell lines. In this study, we investigated 15 kinds of viruses in 844 human cell lines registered at the Japanese Collection of Research Bioresources (JCRB) Cell Bank. Our real-time PCR analysis revealed that six viruses, EBV, HTLV-1, HBV, B19 V, HHV-6 and HHV-7, were detected in 43 cell lines. Of them, 20 cell lines were transformed by intentional infection <i>in vitro</i> with EBV or by HTLV-1. Viruses in the other 23 cell lines and one EBV transformed cell line are derived from an <i>in vivo</i> infection, including five de novo identifications of EBV, B19V or HHV-7 carriers. Among them, 17 cell lines were established from patients diagnosed with virus-associated diseases. However, the other seven cell lines originated from <i>in vivo</i> cells unrelated to disease or cellular tropism. Our approach to screen for a set of 15 viruses in each cell line has worked efficiently to identify these rare cases. Virus tests in cell lines contribute not only to safety assessments but also to investigation of <i>in vivo</i> viral infection which can be a characteristic feature of cell lines.
DOI: 10.6084/m9.figshare.6139121.v2
title: List of all cell lines screened for 15 viruses from Screening for 15 pathogenic viruses in human cell lines registered at the JCRB Cell Bank: characterization of <i>in vitro</i> human cells by viral infection.

description: Human cell lines have been used in a variety of research fields as an <i>in vitro</i> model. These cells are all derived from human tissue samples, thus there is a possibility of virus infection. Virus tests are routinely performed in clinical practice, but are limited in cell lines. In this study, we investigated 15 kinds of viruses in 844 human cell lines registered at the Japanese Collection of Research Bioresources (JCRB) Cell Bank. Our real-time PCR analysis revealed that six viruses, EBV, HTLV-1, HBV, B19 V, HHV-6 and HHV-7, were detected in 43 cell lines. Of them, 20 cell lines were transformed by intentional infection <i>in vitro</i> with EBV or by HTLV-1. Viruses in the other 23 cell lines and one EBV transformed cell line are derived from an <i>in vivo</i> infection, including five de novo identifications of EBV, B19V or HHV-7 carriers. Among them, 17 cell lines were established from patients diagnosed with virus-associated diseases. However, the other seven cell lines originated from <i>in vivo</i> cells unrelated to disease or cellular tropism. Our approach to screen for a set of 15 viruses in each cell line has worked efficiently to identify these rare cases. Virus tests in cell lines contribute not only to safety assessments but also to investigation of <i>in vivo</i> viral infection which can be a characteristic feature of cell lines.
DOI: 10.6084/m9.figshare.6139121.v1
title: List of all cell lines screened for 15 viruses from Screening for 15 pathogenic viruses in human cell lines registered at the JCRB Cell Bank: characterization of <i>in vitro</i> human cells by viral infection

description: Human cell lines have been used in a variety of research fields as an <i>in vitro</i> model. These cells are all derived from human tissue samples, thus there is a possibility of virus infection. Virus tests are routinely performed in clinical practice, but are limited in cell lines. In this study, we investigated 15 kinds of viruses in 844 human cell lines registered at the Japanese Collection of Research Bioresources (JCRB) Cell Bank. Our real-time PCR analysis revealed that six viruses, EBV, HTLV-1, HBV, B19 V, HHV-6 and HHV-7, were detected in 43 cell lines including five de novo identifications of EBV, B19 V or HHV-7 carriers. Of them, 20 cell lines were transformed by intentional infection <i>in vitro</i> with EBV or by HTLV-1. Viruses in the other 24 cell lines correspond to an <i>in vivo</i> infection. Of them, 17 cell lines were established from patients diagnosed with virus-associated diseases. However, the other seven cell lines originated from <i>in vivo</i> cells unrelated to disease or cellular tropism. Our approach to screen for a set of 15 viruses in each cell line has efficiently worked to identify these rare cases. Virus tests in cell lines contribute not only to safety assessments but also to investigation of <i>in vivo</i> viral infection which can be a characteristic feature of cell lines.
DOI: 10.6084/m9.figshare.6171497
title: Microsatellite data from Stable genetic structure and connectivity in pollution-adapted and nearby pollution-sensitive populations of <i>Fundulus heteroclitus</i>.

description: Populations of the non-migratory estuarine fish <i>Fundulus heteroclitus</i> inhabiting the heavily polluted New Bedford Harbour (NBH) estuary have shown inherited tolerance to local pollutants introduced to their habitats in the past 100 years. Here we examine two questions: (i) Is there pollution-driven selection on the mitochondrial genome across a fine geographical scale? and (ii) What is the pattern of migration among sites spanning a strong pollution gradient? Whole mitochondrial genomes were analysed for 133 <i>F. heteroclitus</i> from seven nearby collection sites: four sites along the NBH pollution cline (approx. 5 km distance), which had pollution-adapted fish, as well as one site adjacent to the pollution cline and two relatively unpolluted sites about 30 km away, which had pollution-sensitive fish. Additionally, we used microsatellite analyses to quantify genetic variation over three <i>F. heteroclitus</i> generations in both pollution-adapted and sensitive individuals collected from two sites at two different time points (1999/2000 and 2007/2008). Our results show no evidence for a selective sweep of mtDNA in the polluted sites. Moreover, mtDNA analyses revealed that both pollution-adapted and sensitive populations harbour similar levels of genetic diversity. We observed a high level of non-synonymous mutations in the most polluted site. This is probably associated with a reduction in <i>N</i><sub>e</sub> and concomitant weakening of purifying selection, a demographic expansion following a pollution-related bottleneck or increased mutation rates. Our demographic analyses suggest that isolation by distance influences the distribution of mtDNA genetic variation between the pollution cline and the clean populations at broad spatial scales. At finer scales, population structure is patchy, and neither spatial distance, pollution concentration or pollution tolerance is a good predictor of mtDNA variation. Lastly, microsatellite analyses revealed stable population structure over the last decade.
DOI: 10.6084/m9.figshare.6171497.v2
title: Microsatellite data from Stable genetic structure and connectivity in pollution-adapted and nearby pollution-sensitive populations of <i>Fundulus heteroclitus</i>.

description: Populations of the non-migratory estuarine fish <i>Fundulus heteroclitus</i> inhabiting the heavily polluted New Bedford Harbour (NBH) estuary have shown inherited tolerance to local pollutants introduced to their habitats in the past 100 years. Here we examine two questions: (i) Is there pollution-driven selection on the mitochondrial genome across a fine geographical scale? and (ii) What is the pattern of migration among sites spanning a strong pollution gradient? Whole mitochondrial genomes were analysed for 133 <i>F. heteroclitus</i> from seven nearby collection sites: four sites along the NBH pollution cline (approx. 5 km distance), which had pollution-adapted fish, as well as one site adjacent to the pollution cline and two relatively unpolluted sites about 30 km away, which had pollution-sensitive fish. Additionally, we used microsatellite analyses to quantify genetic variation over three <i>F. heteroclitus</i> generations in both pollution-adapted and sensitive individuals collected from two sites at two different time points (1999/2000 and 2007/2008). Our results show no evidence for a selective sweep of mtDNA in the polluted sites. Moreover, mtDNA analyses revealed that both pollution-adapted and sensitive populations harbour similar levels of genetic diversity. We observed a high level of non-synonymous mutations in the most polluted site. This is probably associated with a reduction in <i>N</i><sub>e</sub> and concomitant weakening of purifying selection, a demographic expansion following a pollution-related bottleneck or increased mutation rates. Our demographic analyses suggest that isolation by distance influences the distribution of mtDNA genetic variation between the pollution cline and the clean populations at broad spatial scales. At finer scales, population structure is patchy, and neither spatial distance, pollution concentration or pollution tolerance is a good predictor of mtDNA variation. Lastly, microsatellite analyses revealed stable population structure over the last decade.
DOI: 10.6084/m9.figshare.6171497.v1
title: Microsatellites File S1 from Stable genetic structure and connectivity in pollution-adapted and nearby pollution-sensitive populations of <i>Fundulus heteroclitus</i>

description: Microsatellite file 1
DOI: 10.6084/m9.figshare.6181118
title: Appendix S1 from A tropical arthropod unravels local and global environmental dependence of seasonal temperature-size response.

description: Raw individual-level data on Rostrozetes ovulum and monthly temperature data used in this study
DOI: 10.6084/m9.figshare.6181118.v2
title: Appendix S1 from A tropical arthropod unravels local and global environmental dependence of seasonal temperature-size response.

description: Raw individual-level data on Rostrozetes ovulum and monthly temperature data used in this study
DOI: 10.6084/m9.figshare.6199913
title: Statistics for all models and all scenarios tested in the study. from Overestimation of the adaptive substitution rate in fluctuating populations.

description: Estimating the proportion of adaptive substitutions (<i>α</i>) is of primary importance to uncover the determinants of adaptation in comparative genomic studies. Several methods have been proposed to estimate <i>α</i> from patterns polymorphism and divergence in coding sequences. However, estimators of <i>α</i> can be biased when the underlying assumptions are not met. Here we focus on a potential source of bias, i.e. variation through time in the long-term population size (<i>N</i>) of the considered species. We show via simulations that ancient demographic fluctuations can generate severe overestimations of <i>α</i>, and this is irrespective of the recent population history.
DOI: 10.6084/m9.figshare.6181118.v1
title: Appendix S1 from A tropical arthropod unravels local and global environmental dependence of seasonal temperature-size response

description: Raw individual-level data on Rostrozetes ovulum and monthly temperature data used in this study
DOI: 10.6084/m9.figshare.6199913.v2
title: Statistics for all models and all scenarios tested in the study. from Overestimation of the adaptive substitution rate in fluctuating populations.

description: Estimating the proportion of adaptive substitutions (<i>α</i>) is of primary importance to uncover the determinants of adaptation in comparative genomic studies. Several methods have been proposed to estimate <i>α</i> from patterns polymorphism and divergence in coding sequences. However, estimators of <i>α</i> can be biased when the underlying assumptions are not met. Here we focus on a potential source of bias, i.e. variation through time in the long-term population size (<i>N</i>) of the considered species. We show via simulations that ancient demographic fluctuations can generate severe overestimations of <i>α</i>, and this is irrespective of the recent population history.
DOI: 10.6084/m9.figshare.6199913.v1
title: Statistics for all models and all scenarios tested in the study. from Overestimation of the adaptive substitution rate in fluctuating populations

description: Estimating the proportion of adaptive substitutions (<i>α</i>) is of primary importance to uncover the determinants of adaptation in comparative genomic studies. Several methods have been proposed to estimate <i>α</i> from patterns polymorphism and divergence in coding sequences. However, estimators of <i>α</i> can be biased when the underlying assumptions are not met. Here we focus on a potential source of bias, i.e. variation through time in the long-term population size (<i>N</i>) of the considered species. We show via simulations that ancient demographic fluctuations can generate severe overestimations of <i>α</i>, and this irrespective of the recent population history.
DOI: 10.6084/m9.figshare.6216209
title: Ross et al Supplementary Data (d11b systematics) Bremer Bay from Mechanisms and seasonal drivers of calcification in the temperate coral <i>Turbinaria reniformis</i> at its latitudinal limits.

description: Electronic Supplementary Data (boron systematics) for Ross et al., "Mechanisms and seasonal drivers of calcification in the temperate coral Turbinaria reniformis at its latitudinal limits"
DOI: 10.6084/m9.figshare.6216209.v2
title: Ross et al Supplementary Data (d11b systematics) Bremer Bay from Mechanisms and seasonal drivers of calcification in the temperate coral <i>Turbinaria reniformis</i> at its latitudinal limits.

description: Electronic Supplementary Data (boron systematics) for Ross et al., "Mechanisms and seasonal drivers of calcification in the temperate coral Turbinaria reniformis at its latitudinal limits"
DOI: 10.6084/m9.figshare.6216236
title: Supplementary Table I – Impoundments Surveyed from 2012-2016. from Sora (<i>Porzana carolina</i>) autumn migration habitat use.

description: The first time an impoundment is mentioned the latitude, longitude of the center of the impoundment is given. File contains the latitude and longitude of all impoundments, grouped by Conservation Area or National Wildlife Refuge
DOI: 10.6084/m9.figshare.6216209.v1
title: Ross et al Supplementary Data (d11b systematics) Bremer Bay from Mechanisms and seasonal drivers of calcification in the temperate coral <i>Turbinaria reniformis</i> at its latitudinal limits

description: Electronic Supplementary Data (boron systematics) for Ross et al., "Mechanisms and seasonal drivers of calcification in the temperate coral Turbinaria reniformis at its latitudinal limits"
DOI: 10.6084/m9.figshare.6216233
title: Supplementary Table II. Summary of available habitat mean, minimum and maximum values across and by year for wetland impoundments in Missouri, USA surveyed for Sora (Porzana carolina) from 2012-2016 from Sora (<i>Porzana carolina</i>) autumn migration habitat use.

description: Moist soil wetland habitat comparison between points used by sora and those available in Missouri Wetlands.
DOI: 10.6084/m9.figshare.6216236.v2
title: Supplementary Table I – Impoundments Surveyed from 2012-2016. from Sora (<i>Porzana carolina</i>) autumn migration habitat use.

description: The first time an impoundment is mentioned the latitude, longitude of the center of the impoundment is given. File contains the latitude and longitude of all impoundments, grouped by Conservation Area or National Wildlife Refuge
DOI: 10.6084/m9.figshare.6216236.v1
title: Supplementary Table I – Impoundments Surveyed from 2012-2016. from Sora (<i>Porzana carolina</i>) autumn migration habitat use

description: The first time an impoundment is mentioned the latitude, longitude of the center of the impoundment is given. File contains the latitude and longitude of all impoundments, grouped by Conservation Area or National Wildlife Refuge
DOI: 10.6084/m9.figshare.6216233.v2
title: Supplementary Table II. Summary of available habitat mean, minimum and maximum values across and by year for wetland impoundments in Missouri, USA surveyed for Sora (Porzana carolina) from 2012-2016 from Sora (<i>Porzana carolina</i>) autumn migration habitat use.

description: Moist soil wetland habitat comparison between points used by sora and those available in Missouri Wetlands.
DOI: 10.6084/m9.figshare.6216242
title: Expressions of gratitude with translation from Universals and cultural diversity in the expression of gratitude.

description: Subset of data including all expressions of gratitude with translation, and information about language and recording ID
DOI: 10.6084/m9.figshare.6216233.v1
title: Supplementary Table II. Summary of available habitat mean, minimum and maximum values across and by year for wetland impoundments in Missouri, USA surveyed for Sora (Porzana carolina) from 2012-2016 from Sora (<i>Porzana carolina</i>) autumn migration habitat use

description: Moist soil wetland habitat comparison between points used by Sora and those available in Missouri Wetlands.
DOI: 10.6084/m9.figshare.6216239
title: Coded request sequences from Universals and cultural diversity in the expression of gratitude.

description: Main coding data set including transcripts of each request sequence, and information about language, recording ID, response type, presence or absence of acknowledgement, and of response to acknowledgement
DOI: 10.6084/m9.figshare.6216242.v2
title: Expressions of gratitude with translation from Universals and cultural diversity in the expression of gratitude.

description: Subset of data including all expressions of gratitude with translation, and information about language and recording ID
DOI: 10.6084/m9.figshare.6216239.v2
title: Coded request sequences from Universals and cultural diversity in the expression of gratitude.

description: Main coding data set including transcripts of each request sequence, and information about language, recording ID, response type, presence or absence of acknowledgement, and of response to acknowledgement
DOI: 10.6084/m9.figshare.6216239.v1
title: Coded request sequences from Universals and cultural diversity in the expression of gratitude

description: Main coding data set including transcripts of each request sequence, and information about language, recording ID, response type, presence or absence of acknowledgement, and of response to acknowledgement
DOI: 10.6084/m9.figshare.6216242.v1
title: Expressions of gratitude with translation from Universals and cultural diversity in the expression of gratitude

description: Subset of data including all expressions of gratitude with translation, and information about language and recording ID
DOI: 10.6084/m9.figshare.6222047
title: Blender movie S4.html: Animation of the good model of the grazing gait from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: A version of movie S4 created in Blender and playable in a web browser. Swing legs (pale grey) move forwards in an arbitrary but relatively quick manner. Legs in contact with the ground but not supporting weight are shown in dark grey.
DOI: 10.6084/m9.figshare.6222047.v2
title: Blender movie S4.html: Animation of the good model of the grazing gait from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: A version of movie S4 created in Blender and playable in a web browser. Swing legs (pale grey) move forwards in an arbitrary but relatively quick manner. Legs in contact with the ground but not supporting weight are shown in dark grey.
DOI: 10.6084/m9.figshare.6222047.v1
title: Blender SI Movie 4: animation of the good model of the grazing gait. from The grazing gait, and implications of toppling table geometry for primate footfall sequences

description: A version of SI Movie 4 created in Blender and playable in a web browser. Swing legs (pale grey) move forwards in an arbitrary but relatively quick manner. Legs in contact with the ground but not supporting weight are shown in dark grey.
DOI: 10.6084/m9.figshare.6222050
title: ExcelSurfaceCode.xlsx: An Excel workbook that calculates back height surfaces from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: An Excel Workbook which demonstrates calculation of back height surfaces for user-defined instances through a stride cycle for 25% and 75% limb phases.
DOI: 10.6084/m9.figshare.6222050.v2
title: ExcelSurfaceCode.xlsx: An Excel workbook that calculates back height surfaces from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: An Excel Workbook which demonstrates calculation of back height surfaces for user-defined instances through a stride cycle for 25% and 75% limb phases.
DOI: 10.6084/m9.figshare.6222050.v1
title: SI ExcelSurfaceCode. An Excel workbook that calculates back height surfaces from The grazing gait, and implications of toppling table geometry for primate footfall sequences

description: An Excel Workbook which demonstrates calculation of back height surfaces for user-defined instances through a stride cycle for 25% and 75% limb phases.
DOI: 10.6084/m9.figshare.6222071
title: Frame numbers.xlsx: Spreadsheet of frame numbers from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: Spreadsheet containing frame numbers of fore and hindfoot contacts for Figure 1, Table 1.
DOI: 10.6084/m9.figshare.6222053.v2
title: Blender movie S3.html: animation of an incorrect model of the grazing gait. from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: A version of movie S3 created in Blender and playable in a web browser. Swing legs (pale grey) move forwards in an arbitrary but relatively quick manner. Legs in contact with the ground but not supporting weight are shown in dark grey.
DOI: 10.6084/m9.figshare.6222053.v1
title: Blender SI Movie 3: animation of an incorrect model of the grazing gait. from The grazing gait, and implications of toppling table geometry for primate footfall sequences

description: A version of SI Movie 3 created in Blender and playable in a web browser. Swing legs (pale grey) move forwards in an arbitrary but relatively quick manner. Legs in contact with the ground but not supporting weight are shown in dark grey.
DOI: 10.6084/m9.figshare.6222071.v2
title: Frame numbers.xlsx: Spreadsheet of frame numbers from The grazing gait, and implications of toppling table geometry for primate footfall sequences.

description: Spreadsheet containing frame numbers of fore and hindfoot contacts for Figure 1, Table 1.
DOI: 10.6084/m9.figshare.6222071.v1
title: SI Frame numbers. Spreadsheet of frame numbers. from The grazing gait, and implications of toppling table geometry for primate footfall sequences

description: Spreadsheet containing frame numbers of fore and hindfoot contacts for Figure 1, Table 1.
DOI: 10.6084/m9.figshare.6230963
title: Electronic supplementary support (S5) from Springtail community structure is influenced by functional traits but not biogeographic origin of leaf litter in soils of novel forest ecosystems.

description: Springtail species abundance matrix
DOI: 10.6084/m9.figshare.6230963.v2
title: Electronic supplementary support (S5) from Springtail community structure is influenced by functional traits but not biogeographic origin of leaf litter in soils of novel forest ecosystems.

description: Springtail species abundance matrix
DOI: 10.6084/m9.figshare.6230963.v1
title: Electronic supplementary support (S5) from Springtail community structure is influenced by functional traits but not biogeographic origin of leaf litter in soils of novel forest ecosystems

description: Springtail species abundance matrix
DOI: 10.6084/m9.figshare.6231761
title: Data Experiment 1 from Exaggerated groups: amplification in ensemble coding of temporal and spatial features.

description: Data of Experiment 1