cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1304955
title: Over-reporting in handwashing self-reports: Potential explanatory factors and alternative measurements

description: The data file forms the basis of the paper "Over-reporting in handwashing self-reports: Potential explanatory factors and alternative measurements" which has been submitted for publication to Plos One. The applied methodology and techniques used during data collection are described in detail in the paper.
DOI: 10.6084/m9.figshare.1305062.v1
title: The impact of red deer on liverwort-rich oceanic heath vegetation

description: <b><i>Background:</i></b> There is concern about increasing numbers of large herbivores including red deer (<i>Cervus elaphus</i>), but little is known about their impact on bryophytes.<b><i>Aims:</i></b> This study set out to determine the effect of different localised densities of red deer on the internationally important Northern Atlantic hepatic mat, characteristic of oceanic heath vegetation, at four locations in the Scottish Highlands where sheep have been absent for decades.<b><i>Methods:</i></b> Thirty 7 m × 7 m plots were randomly located in each study area. The standing crop dung pellet group count method was used to estimate red deer density. Species richness, diversity and cover of hepatic mat liverworts were obtained from 1 m × 1 m quadrats placed at random within the sample plots. <i>Calluna vulgaris</i> cover, ericoid height, rock cover, gradient and altitude were also recorded.<b><i>Results:</i></b> Model simplification in analysis of covariance revealed a consistent pattern of decreasing cover of hepatic mat and <i>Calluna</i> with increasing red deer density at all four study areas. Northern Atlantic hepatic mat cover, diversity and species richness were positively correlated with <i>Calluna</i> cover.<b><i>Conclusions:</i></b> The data suggest that <i>Calluna</i> cover is reduced (through trampling and browsing) at high local densities of red deer which has had cascading effects on the Northern Atlantic hepatic mat. Alternative explanations are discussed.
DOI: 10.6084/m9.figshare.1304955.v1
title: Over-reporting in handwashing self-reports: Potential explanatory factors and alternative measurements

description: The data file forms the basis of the paper "Over-reporting in handwashing self-reports: Potential explanatory factors and alternative measurements" which has been submitted for publication to Plos One. The applied methodology and techniques used during data collection are described in detail in the paper.
DOI: 10.6084/m9.figshare.1304956.v1
title: original scans of data used in Fig 1D of Bethke et al 2012 (doi: 10.1094/MPMI-11-11-0281)

description: Data from 2 independent experiments. Western blot was performed with anti-pTEpY antibodies to detect activated MAPKs. <strong>The individual blots shows activated forms of MAPKs from 0, 2, 5,10, 15, 30 & 60 min after flg22 treatment of Arabidopsis plants.</strong> Note independent replicates for some genotypes in expt. 1. Notes (in blue) are comments on why some of these replicates were excluded for representation in the final figure (eg poor blotting or ambiguity of seed stock purity).
DOI: 10.6084/m9.figshare.1305055.v2
title: Google Scholar documents from Spanish university professors (2012)

description: Documents written by Spanish university professors from the Social Sciences and the Humanities, found on Google Scholar on 2012. This is the raw data underlying various bibliometric products like "H Index Scholar" and "Publishers Scholar Metrics"
DOI: 10.6084/m9.figshare.1305055.v1
title: Google Scholar documents from Spanish university professors (2012)

description: Documents written by Spanish university professors from the Social Sciences and the Humanities, found on Google Scholar on 2012. This is the raw data underlying various bibliometric products like "H Index Scholar" and "Publishers Scholar Metrics"
DOI: 10.6084/m9.figshare.1304857
title: SKT/SST ERA-interim

description: skin and sea surface temperature from ERA-Interim over Amazon forest
DOI: 10.6084/m9.figshare.1304889
title: Bed capacity for Ebola patients in Sierra Leone

description: This data set contains the evolution of the number of beds available in each of the three type of Ebola control centers (ETU, EHC and CCC) of the districts of Sierra Leone.
DOI: 10.6084/m9.figshare.1304857.v1
title: SKT/SST ERA-interim

description: skin and sea surface temperature from ERA-Interim over Amazon forest
DOI: 10.6084/m9.figshare.1304601
title: Ultra-deep whole-genome sequencing reveals clinically relevant low-frequency subclones in an acute myeloid leukemia

description: Ultra-deep whole-genome sequencing reveals clinically relevant low-frequency subclones in an acute myeloid leukemia
DOI: 10.6084/m9.figshare.1304639
title: Supplementary Information Table S2

description: This is a supplementary information table of paper "Influence of fire on the vegetative phenological behavior of Brazilian savanna woody species" published in the scientific journal Biota Neotropica (http://www.biotaneotropica.org.br/).
DOI: 10.6084/m9.figshare.1304640
title: Genotoxic Evaluation of Mexican Welders Occupationally Exposed to Welding Fumes Using the Micronucleus Test on Exfoliated Oral Mucosa Cells: Data Set

description: This is the latest version of the data set used in our paper. The main difference is that we increased the sample size from 39 to 66. Variables "case". Binary. Case exposed to welding fumes (1) or control (0) "age". Continuous. Participant's age in years. "bmi": Continuous. Body mass index (kg/m^2) "drink". Binary. Any level of alcohol consumption (1 positive, otherwise 0) "smoke". Binary. Any level of tobacco use (1 positive, 0 otherwise) "amalgam". Binary. Presence or absence of dental crowns (1 presence, 0 absence) "exp.years". Continuous. Number of years of exposure to welding-fumes. (0 for controls) "micronuclei". Discrete. Number of micronucleated cells per 2000 cells "binucleated". Discrete. Number of binucleated cells per 2000 cells "lobulated". Discrete. Number of lobed-nuclei cells per 2000 cells "pyknotic". Discrete. Number of pyknotic cells per 2000 cells "condensed". Discrete. Number of condensed-chromatin cells per 2000 cells "karyorrhexis"Discrete. Number of karyorrhectic cells per 2000 cells "karyolysis". Discrete. Number of karyolytic cells per 2000 cells Data set of n = 66 (33 welders and 33 controls). We obtained exfoliated epithelial cells from the participants' buccal mucosa by smearing the inside lining of the subjects' cheeks with a moistened wooden tongue-depressor. The smears were directly transferred to slides, and dried at room temperature. Afterwards, they were fixed in an 80% ethanol solution during 48 hours, and stained with acridine orange. An experienced reader, blind to the group to which samples belonged, observed the slides under 100x optic amplification with a Carl Zeiss IVFL Axiostar Plus microscope equipped with 450-490 nm fluorescence filters. Using the HUMNxl scoring criteria, she identified and counted the number of MNi and NA occurrences per 2000 observed cells per slide. The very low presence of women in the workforce of the welding industry in Mexico made impossible for us to find female welders, therefore all of the participants were male. Data are overdispersed and most variables do not follow a normal distribution. Use the 'describe' function of the 'psych' R package for descriptive statistics. Clean the data: http://dx.doi.org/10.6084/m9.figshare.1305591 Descriptive statistics and exploratory analysis: http://dx.doi.org/10.6084/m9.figshare.1305592 Statistical analysis: http://dx.doi.org/10.6084/m9.figshare.1305593
DOI: 10.6084/m9.figshare.1304601.v1
title: Ultra-deep whole-genome sequencing reveals clinically relevant low-frequency subclones in an acute myeloid leukemia

description: Ultra-deep whole-genome sequencing reveals clinically relevant low-frequency subclones in an acute myeloid leukemia
DOI: 10.6084/m9.figshare.1304639.v1
title: Supplementary Information Table S2

description: This is a supplementary information table of paper "Influence of fire on the vegetative phenological behavior of Brazilian savanna woody species" published in the scientific journal Biota Neotropica (http://www.biotaneotropica.org.br/).
DOI: 10.6084/m9.figshare.1304596
title: Distribution and Relative Abundance of Small and Medium-sized Carnivores in Mature and Successional Forests in Hueston Woods State Park, SW Ohio

description: This study seeks to understand the habitat use of small to medium-sized carnivores and their prey in Hueston Woods State Park, Southwest Ohio by comparing their photographic encounter rate from remotely triggered cameras set in successional and mature forests. All small to medium-sized carnivores thought to occur in the study area will be targeted for study, including Canis latrans (coyotes); Vulpes vulpes (red fox); Urocyon cinereoargenteus (gray fox); Procyon lotor (raccoon); Taxidea taxus (American badger) and Mephitis mephitis (striped skunk). Previous studies have shown that sympatric species tend to show differing activity patterns and habitat use (Chen et al. 2009), an assumption that will be tested within the old-growth and successional forests of Hueston Woods. Bobcats (Lynx rufus) have not been officially documented in Southwestern Ohio for over 100 years, but there have been several recent reports of sightings by visitors in Hueston Woods. Determining the presence-absence of this species is an additional research goal of this project. Physical conditions, management history, old-field succession and disturbance combine to create a unique set of conditions at each sample site. Simple linear regression will be used to test for correlations between vegetation structure and photographic capture of small to medium carnivores and their prey.
DOI: 10.6084/m9.figshare.1304585
title: 25_F_F

description: Archive with graphs.
DOI: 10.6084/m9.figshare.1304585.v1
title: 25_F_F

description: Archive with graphs.
DOI: 10.6084/m9.figshare.1304596.v1
title: Distribution and Relative Abundance of Small and Medium-sized Carnivores in Mature and Successional Forests in Hueston Woods State Park, SW Ohio

description: This study seeks to understand the habitat use of small to medium-sized carnivores and their prey in Hueston Woods State Park, Southwest Ohio by comparing their photographic encounter rate from remotely triggered cameras set in successional and mature forests. All small to medium-sized carnivores thought to occur in the study area will be targeted for study, including Canis latrans (coyotes); Vulpes vulpes (red fox); Urocyon cinereoargenteus (gray fox); Procyon lotor (raccoon); Taxidea taxus (American badger) and Mephitis mephitis (striped skunk). Previous studies have shown that sympatric species tend to show differing activity patterns and habitat use (Chen et al. 2009), an assumption that will be tested within the old-growth and successional forests of Hueston Woods. Bobcats (Lynx rufus) have not been officially documented in Southwestern Ohio for over 100 years, but there have been several recent reports of sightings by visitors in Hueston Woods. Determining the presence-absence of this species is an additional research goal of this project. Physical conditions, management history, old-field succession and disturbance combine to create a unique set of conditions at each sample site. Simple linear regression will be used to test for correlations between vegetation structure and photographic capture of small to medium carnivores and their prey.
DOI: 10.6084/m9.figshare.1304640.v1
title: Genotoxic Evaluation of Mexican Welders Occupationally Exposed to Welding Fumes Using the Micronucleus Test on Exfoliated Oral Mucosa Cells: A Case-Control Study

description: We conducted a cross-sectional, matched case-control study of n = 39 (20 exposed welders, and 19 healthy controls). Here are the presence of MN and other nuclear abnormalities as well as data for smoking, drinking and BMI.
DOI: 10.6084/m9.figshare.1304640.v3
title: Genotoxic Evaluation of Mexican Welders Occupationally Exposed to Welding Fumes Using the Micronucleus Test on Exfoliated Oral Mucosa Cells: Data Set

description: This is the latest version of the data set used in our paper. The main difference is that we increased the sample size from 39 to 66. Variables "case". Binary. Case exposed to welding fumes (1) or control (0) "age". Continuous. Participant's age in years. "bmi": Continuous. Body mass index (kg/m^2) "drink". Binary. Any level of alcohol consumption (1 positive, otherwise 0) "smoke". Binary. Any level of tobacco use (1 positive, 0 otherwise) "amalgam". Binary. Presence or absence of dental crowns (1 presence, 0 absence) "exp.years". Continuous. Number of years of exposure to welding-fumes. (0 for controls) "micronuclei". Discrete. Number of micronucleated cells per 2000 cells "binucleated". Discrete. Number of binucleated cells per 2000 cells "lobulated". Discrete. Number of lobed-nuclei cells per 2000 cells "pyknotic". Discrete. Number of pyknotic cells per 2000 cells "condensed". Discrete. Number of condensed-chromatin cells per 2000 cells "karyorrhexis"Discrete. Number of karyorrhectic cells per 2000 cells "karyolysis". Discrete. Number of karyolytic cells per 2000 cells Data set of n = 66 (33 welders and 33 controls). We obtained exfoliated epithelial cells from the participants' buccal mucosa by smearing the inside lining of the subjects' cheeks with a moistened wooden tongue-depressor. The smears were directly transferred to slides, and dried at room temperature. Afterwards, they were fixed in an 80% ethanol solution during 48 hours, and stained with acridine orange. An experienced reader, blind to the group to which samples belonged, observed the slides under 100x optic amplification with a Carl Zeiss IVFL Axiostar Plus microscope equipped with 450-490 nm fluorescence filters. Using the HUMNxl scoring criteria, she identified and counted the number of MNi and NA occurrences per 2000 observed cells per slide. The very low presence of women in the workforce of the welding industry in Mexico made impossible for us to find female welders, therefore all of the participants were male. Data are overdispersed and most variables do not follow a normal distribution. Use the 'describe' function of the 'psych' R package for descriptive statistics. Clean the data: http://dx.doi.org/10.6084/m9.figshare.1305591 Descriptive statistics and exploratory analysis: http://dx.doi.org/10.6084/m9.figshare.1305592 Statistical analysis: http://dx.doi.org/10.6084/m9.figshare.1305593
DOI: 10.6084/m9.figshare.1304584
title: 25_F_T

description: Archive with graphs.
DOI: 10.6084/m9.figshare.1304640.v2
title: Genotoxic Evaluation of Mexican Welders Occupationally Exposed to Welding Fumes Using the Micronucleus Test on Exfoliated Oral Mucosa Cells: Data Set

description: Variables "case". Binary. Case exposed to welding fumes (1) or control (0) "age". Continuous. Participant's age in years. "bmi": Continuous. Body mass index (kg/m^2) "drink". Binary. Any level of alcohol consumption (1 positive, otherwise 0) "smoke". Binary. Any level of tobacco use (1 positive, 0 otherwise) "amalgam". Binary. Presence or absence of dental crowns (1 presence, 0 absence) "exp.years". Continuous. Number of years of exposure to welding-fumes. (0 for controls) "micronuclei". Discrete. Number of micronucleated cells per 2000 cells "binucleated". Discrete. Number of binucleated cells per 2000 cells "lobulated". Discrete. Number of lobed-nuclei cells per 2000 cells "pyknotic". Discrete. Number of pyknotic cells per 2000 cells "condensed". Discrete. Number of condensed-chromatin cells per 2000 cells "karyorrhexis"Discrete. Number of karyorrhectic cells per 2000 cells "karyolysis". Discrete. Number of karyolytic cells per 2000 cells Data set of n = 39 (20 welders and 19 controls). We obtained exfoliated epithelial cells from the participants' buccal mucosa by smearing the inside lining of the subjects' cheeks with a moistened wooden tongue-depressor. The smears were directly transferred to slides, and dried at room temperature. Afterwards, they were fixed in an 80% ethanol solution during 48 hours, and stained with acridine orange. An experienced reader, blind to the group to which samples belonged, observed the slides under 100x optic amplification with a Carl Zeiss IVFL Axiostar Plus microscope equipped with 450-490 nm fluorescence filters. Using the HUMNxl scoring criteria, she identified and counted the number of MNi and NA occurrences per 2000 observed cells per slide. The very low presence of women in the workforce of the welding industry in Mexico made impossible for us to find female welders, therefore all of the participants were male. Data are overdispersed and most variables do not follow a normal distribution. Use the 'describe' function of the 'psych' R package for descriptive statistics. Clean the data: http://dx.doi.org/10.6084/m9.figshare.1305591 Descriptive statistics and exploratory analysis: http://dx.doi.org/10.6084/m9.figshare.1305592 Statistical analysis: http://dx.doi.org/10.6084/m9.figshare.1305593
DOI: 10.6084/m9.figshare.1304584.v1
title: 25_F_T

description: Archive with graphs.
DOI: 10.6084/m9.figshare.1304582
title: Human Nek7-interactor RGS2 is required for mitotic spindle organization

description: The mitotic spindle apparatus is composed of microtubule (MT) networks attached to kinetochores organized from 2 centrosomes (a.k.a. spindle poles). In addition to this central spindle apparatus, astral MTs assemble at the mitotic spindle pole and attach to the cell cortex to ensure appropriate spindle orientation. We propose that cell cycle-related kinase, Nek7, and its novel interacting protein RGS2, are involved in mitosis regulation and spindle formation. We found that RGS2 localizes to the mitotic spindle in a Nek7-dependent manner, and along with Nek7 contributes to spindle morphology and mitotic spindle pole integrity. RGS2-depletion leads to a mitotic-delay and severe defects in the chromosomes alignment and congression. Importantly, RGS2 or Nek7 depletion or even overexpression of wild-type or kinase-dead Nek7, reduced γ-tubulin from the mitotic spindle poles. In addition to causing a mitotic delay, RGS2 depletion induced mitotic spindle misorientation coinciding with astral MT-reduction. We propose that these phenotypes directly contribute to a failure in mitotic spindle alignment to the substratum. In conclusion, we suggest a molecular mechanism whereupon Nek7 and RGS2 may act cooperatively to ensure proper mitotic spindle organization.
DOI: 10.6084/m9.figshare.1304582.v1
title: Human Nek7-interactor RGS2 is required for mitotic spindle organization

description: The mitotic spindle apparatus is composed of microtubule (MT) networks attached to kinetochores organized from two centrosomes (a.k.a. spindle poles). In addition to this central spindle apparatus, astral MTs assemble at the mitotic spindle pole and attach to the cell cortex to ensure appropriate spindle orientation. We propose that cell cycle-related kinase, Nek7, and its novel interacting protein RGS2, are involved in mitosis regulation and spindle formation. We found that RGS2 localizes to the mitotic spindle in a Nek7-dependent manner, and along with Nek7 contributes to spindle morphology and mitotic spindle pole integrity. RGS2-depletion leads to a mitotic-delay and severe defects in the chromosomes alignment and congression. Importantly, RGS2 or Nek7 depletion or even overexpression of wild-type or kinase-dead Nek7, reduced γ-tubulin from the mitotic spindle poles. In addition to causing a mitotic delay, RGS2 depletion induced mitotic spindle misorientation coinciding with astral MT-reduction. We propose that these phenotypes directly contribute to a failure in mitotic spindle alignment to the substratum. In conclusion, we suggest a molecular mechanism whereupon Nek7 and RGS2 may act cooperatively to ensure proper mitotic spindle organization.
DOI: 10.6084/m9.figshare.1304578
title: Nuclear transcriptome profiling of induced pluripotent stem cells and embryonic stem cells identify non-coding loci resistant to reprogramming

description: Identification of functionally relevant differences between induced pluripotent stem cells (iPSC) and reference embryonic stem cells (ESC) remains a central question for therapeutic applications. Differences in gene expression between iPSC and ESC have been examined by microarray and more recently with RNA-SEQ technologies. We here report an in depth analyses of nuclear and cytoplasmic transcriptomes, using the CAGE (cap analysis of gene expression) technology, for 5 iPSC clones derived from mouse lymphocytes B and 3 ESC lines. This approach reveals nuclear transcriptomes significantly more complex in ESC than in iPSC. Hundreds of yet not annotated putative non-coding RNAs and enhancer-associated transcripts specifically transcribed in ESC have been detected and supported with epigenetic and chromatin-chromatin interactions data. We identified super-enhancers transcriptionally active specifically in ESC and associated with genes implicated in the maintenance of pluripotency. Similarly, we detected non-coding transcripts of yet unknown function being regulated by ESC specific super-enhancers. Taken together, these results demonstrate that current protocols of iPSC reprogramming do not trigger activation of numerous <i>cis</i>-regulatory regions. It thus reinforces the need for already suggested deeper monitoring of the non-coding transcriptome when characterizing iPSC clones. Such differences in regulatory transcript expression may indeed impact their potential for clinical applications.
DOI: 10.6084/m9.figshare.1304582.v2
title: Human Nek7-interactor RGS2 is required for mitotic spindle organization

description: The mitotic spindle apparatus is composed of microtubule (MT) networks attached to kinetochores organized from 2 centrosomes (a.k.a. spindle poles). In addition to this central spindle apparatus, astral MTs assemble at the mitotic spindle pole and attach to the cell cortex to ensure appropriate spindle orientation. We propose that cell cycle-related kinase, Nek7, and its novel interacting protein RGS2, are involved in mitosis regulation and spindle formation. We found that RGS2 localizes to the mitotic spindle in a Nek7-dependent manner, and along with Nek7 contributes to spindle morphology and mitotic spindle pole integrity. RGS2-depletion leads to a mitotic-delay and severe defects in the chromosomes alignment and congression. Importantly, RGS2 or Nek7 depletion or even overexpression of wild-type or kinase-dead Nek7, reduced γ-tubulin from the mitotic spindle poles. In addition to causing a mitotic delay, RGS2 depletion induced mitotic spindle misorientation coinciding with astral MT-reduction. We propose that these phenotypes directly contribute to a failure in mitotic spindle alignment to the substratum. In conclusion, we suggest a molecular mechanism whereupon Nek7 and RGS2 may act cooperatively to ensure proper mitotic spindle organization.