cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/g5nmv83g5z.1
title: EKHARA 3.0: An update of the EKHARA Monte Carlo event generator

description: The Monte Carlo event generator EKHARA was upgraded during last years. The upgrades presented here contain: (a) the inclusion of new final states $e^+e^-\to e^+e^-\eta $, $e^+e^-\to e^+e^-\eta'$, $e^+e^-\to e^+e^- \chi_{c_i} $, and $e^+e^-\to e^+e^- \chi_{c_i} (\to J/\psi (\to \mu^+\mu^-)\gamma)$; b) new $\gamma^*-\gamma^*-P$ transition form factors and c) the radiative corrections to the reactions $e^+e^-\to e^+e^-P $. For the upgrades (a) and (b), we present here only the pieces missing in other publications, mostly algorithms used in the phase space generation. The radiative corrections are presented here for the first time. A new algorithm of the phase space generation for the reaction $e^+e^-\to e^+e^-P \gamma$ being its main part. A comparison with GGRESRC generator is presented. Big differences between the radiative corrections calculated by the EKHARA and the GGRESRC generators are observed. The previous version of this program (AEIO_v1_0) may be found at http://dx.doi.org/10.1016/j.cpc.2011.01.029
DOI: 10.17632/hvtvnjsg3h.1
title: A Python program for the implementation of the $\Gamma$-method for Monte Carlo simulations

description: We present a modular analysis program written in Python devoted to the estimation of autocorrelation times for Monte Carlo simulations by means of the $\Gamma$-method algorithm. We give a brief review of this method and describe the main features of the program. The latter is characterized by a user-friendly interface and an open source environment which, along with its modularity, make it a versatile tool. Finally we present a simple application as an operational test for the program.
DOI: 10.17632/9wp8t8c38s.1
title: Primary data for Knouse et al. Chromosome segregation fidelity in epithelia requires tissue architecture, Cell, 2018

description: This dataset includes primary data from Knouse et al., Chromosome Segregation Fidelity in Epithelia Requires Tissue Architecture, Cell (2018), https://doi.org/10.1016/j.cell.2018.07.042. This paper examined the relationship between tissue architecture and chromosome segregation fidelity. The folder Figure 2 includes three-dimensional plots of cell dimensions as published in Figure 2 and Supplemental Figure 2. These plots can be viewed as .html files and depict how cell shape varies across contexts. The folder Figure 3 includes raw movie files from live imaging of immature and mature mammary epithelial cell organoids in Matrigel. These movie files can be viewed on various imaging platforms (ie MetaMorph) and reveal increased duration of mitosis, specifically prometaphase and metaphase, in the absence of tissue architecture.
DOI: 10.17632/j54yymmg5h.1
title: Massively parallel computation of atmospheric neutrino oscillations on CUDA-enabled accelerators

description: The computation of neutrino flavor transition amplitudes through inhomogeneous matter is a time-consuming step and thus could benefit from optimization and parallelization. Next to reliable parameter estimation of intrinsic physical quantities such as neutrino masses and mixing angles, these transition amplitudes are important in hypothesis testing of potential extensions of the standard model of elementary particle physics, such as additional neutrino flavors. Hence, fast yet precise implementations are of high importance to research. In the recent past, massively parallel accelerators such as CUDA-enabled GPUs featuring thousands of compute units have been widely adopted due to their superior memory bandwidth, vast compute capability, and highly competitive compute-to-energy ratio in comparison to traditional multi-core architectures with a few tens of monolithic cores. In this paper, we introduce two scalable multi-GPU extensions of common neutrino oscillation frameworks –namely Prob3++ and SQuIDS –allowing for the acceleration of oscillation dynamics computation by one to three orders-of-magnitude while preserving numerical accuracy. Our software is licensed under LGPLv3 and can be accessed at https://github.com/fkallen/CUDAProb3 and https://github.com/fkallen/CUDAnuSQuIDS.
DOI: 10.17632/p6y5hwx2ky.1
title: scripts for ChIP-seq

description: This is a script to select ORFs with no overlapping transcriptional unit (on the same strand) 275 nt downstream the PAS. Transcription units were excluded when their PAS overlapped with a region from 250 nt upstream to 500 nt downstream of overlapping genes’ PAS.
DOI: 10.17632/t57mvdfz39.1
title: β-Hydroxybutyrate prevents vascular senescence through heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1)-mediated upregulation of octamer-binding transcriptional factor 4 in vascular cells

description: β-Hydroxybutyrate prevents vascular cell senescence via inducing cell quiescence. β-Hydroxybutyrate- mediated vascular cell quiescence is dependent on Oct4 expression, which is upregulated by forming hnRNP A1 complex with Oct4 mRNAs. β-Hydroxybutyrate-induced Oct4 expression is negatively correlated with hallmarks of senescence in vivo.
DOI: 10.17632/t57mvdfz39.2
title: β-Hydroxybutyrate prevents vascular senescence through hnRNP A1-mediated upregulation of Oct4 in vascular cells

description: β-Hydroxybutyrate prevents vascular cell senescence via inducing cell quiescence. β-Hydroxybutyrate- mediated vascular cell quiescence is dependent on Oct4 expression, which is upregulated by forming hnRNP A1 complex with Oct4 mRNAs. β-Hydroxybutyrate-induced Oct4 expression is negatively correlated with hallmarks of senescence in vivo.
DOI: 10.17632/bbjcrd2zbr.2
title: A loss of epigenetic control can promote cell death through reversing the balance of pathways in a signaling network

description: Epigenetic loss of imprinting (LOI) of the Insulin Like Growth Factor -2 (IGF-2) results in an aberrant multicopy expression of IGF-2. This overexpression of IGF-2 results in an altered state of the Insulin like Growth Factor Receptor -1 (IGF1R) signaling network starting with an overexpression of IGF1R. We show that there is increased internalization of IGF1R upon stimulation by the ligand IGF2 resulting in an altered strength of activation of the downstream kinases Akt and Erk. While the strength of Akt signaling is comparitively decreased, the strength of Erk signaling is increased in the IGF2 LOI system. This altered strength of signaling of Akt and Erk kinases propagates to the level of anti and pro apoptotic determinants. This adjustment makes the LOI cells more vulnerable to inhibition of the IGF1R pathway although they still maintain a proliferative growth advantage. The data linked here is/ are the original blots of the data presented in the paper.
DOI: 10.17632/grw7vdjkdb.1
title: Autophagy controls CSL/RPBJk stability through an SQSTM1/p62-dependent mechanism; Goruppi et al.

description: Full lenght uncropped images of the Western blots used in the manuscript
DOI: 10.17632/hd7875wjx4.1
title: Profilometry data of large spherical bimetallic shells at various temperatures

description: Profilometry measurements of series 820 of bimetallic disks taken at 20C using a coordinate measuring machine. Surface data of disks was then fitted to a spherical cap using a least-mean-squares method to determine the characteristic initial curvature and central rise of each disk.
DOI: 10.17632/vn4g372zmn.1
title: Numerical solution method to the Wittrick model

description: A brief Matlab script demonstrating a method of generating numerical solutions to the Wittrick model of elastic instability in a bimetallic disk using physical input parameters of disk radius, thickness, coefficients of thermal expansion, Young's moduli, Poisson's ratio and initial curvature.
DOI: 10.21429/1f14-3310
title: Past and Future Climate Reconstructions for the Chisos, Davis and Guadalupe Mountains, Texas, USA

description: Climate summary variables reconstructed in high resolution for past and projected futures. We took detailed microclimate measurements across three mountain ranges in West Texas to identify key topographical drivers of microclimate variation, and modeled future fine scale climate as a function of topography and projected regional weather across multiple future scenarios.
DOI: 10.5517/ccdc.csd.cc1q3kgv
title: CCDC 1582347: Experimental Crystal Structure Determination

description: Related Article: J. López-Cabrelles, S. Mañas-Valero, I. J. Vitóriza-Yrezábal, P. J. Bereciartua, J. A. Rodríguez-Velamazán, J. C. Waerenborgh, B. J. C. Vieira, D. Davidovikj, P. G. Steeneken, H. S. J. van der Zant, G. Mínguez Espallargas, E. Coronado|2018|Nature Chemistry|10|1001|doi:10.1038/s41557-018-0113-9
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.cc1q3khw
title: CCDC 1582348: Experimental Crystal Structure Determination

description: Related Article: J. López-Cabrelles, S. Mañas-Valero, I. J. Vitóriza-Yrezábal, P. J. Bereciartua, J. A. Rodríguez-Velamazán, J. C. Waerenborgh, B. J. C. Vieira, D. Davidovikj, P. G. Steeneken, H. S. J. van der Zant, G. Mínguez Espallargas, E. Coronado|2018|Nature Chemistry|10|1001|doi:10.1038/s41557-018-0113-9
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: 10.6073/pasta/2984a09217acb3921956f979209c8e76
title: Plant biomass and N content data for Saddle, South of saddle, North of saddle, 1992.

description: Plant biomass and nitrogen content were measured in dry, moist, and wet meadow sites on Niwot Ridge at 3 times during the year: immediately following snowmelt, at approximately peak biomass, and following aboveground senescence. Live and dead materials of both above- and belowground plant fractions were collected.
DOI: 10.17632/x855pphhx9.1
title: Google Trends Data on Dengue (Indonesia)

description: Digital traces are rapidly used for health monitoring purposes in recent years. This approach is growing as the consequence of increased use of mobile phone, Internet, and machine learning. Many studies reported the use of Google Trends data as a potential data source to assist traditional surveillance systems. The rise of Internet penetration (54.7%) and the huge utilization of Google (98%) indicate the potential use of Google Trends in Indonesia. Since no previous study exists on validating official dengue reports and Google Trends data in Indonesia and comparing them over time, this study aimed to cover this gap. This research was a quantitative study using time series data (2012-2016). Two sets of data were validated using Moving Average analysis in Microsoft Excel. Pearson and Time lag correlations were also used to measure the association between those data. Moving Average analysis showed that Google Trends data have a linear time series pattern with official dengue report. Pearson correlation indicated high correlation for 3 defined search terms with R-value range from 0.921 to 0.937 (p≤0.05, overall period) which showed increasing trend in epidemic periods (2015-2016). Time lag correlation also indicated that Google Trends data can potentially be used for an early warning system and novel tool to monitor public reaction before the increase of dengue cases and during the outbreak. Google Trends data have a linear time series pattern and statistically correlated with annual official dengue reports. Identification of information seeking behavior is needed to support the use of Google Trends for disease surveillance in Indonesia.
DOI: 10.15156/bio/sh1637155.08fu
title: SH1637155.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637156.08fu
title: SH1637156.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637157.08fu
title: SH1637157.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.25549/one-c4-22979
title: ONE, Inc. promotional materials (1973)

description: ONE, Inc. promotional materials, including event fliers, direct mail, brochures, and press releases (1973). Includes documents related to Los Angeles Police Chief Edward Davis, the film ONE Adventure, and tours of Asia and Mexico.
DOI: 10.15156/bio/sh1637158.08fu
title: SH1637158.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637159.08fu
title: SH1637159.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637160.08fu
title: SH1637160.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637161.08fu
title: SH1637161.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637162.08fu
title: SH1637162.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637163.08fu
title: SH1637163.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.15156/bio/sh1637164.08fu
title: SH1637164.08FU

description: UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the international nucleotide sequence databases are clustered to approximately the species level by applying a set of dynamic distance values (<0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.
DOI: 10.25549/one-c4-22575
title: ONE, Inc. promotional materials (1982)

description: ONE, Inc. promotional materials, including event fliers, direct mail, brochures, and announcements (1982). Includes documents related to the 30th anniversary of ONE, Inc., the ONE Institute Graduate School, and ONE World Travel Club tour of Europe.