cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3817383.v2
title: Exploring lithic variability during the Gravettian in Iberia: Lithic technology, use-wear analysis and raw material sourcing from the Gravettian occupation of Arbreda Cave (Catalunya, Spain)

description: The Paleolithic sites from the region of Serinyà, (Catalonia, Spain), provide a complete and important chronostratigraphic record for the Middle and Upper Paleolithic sequence of Northeast Iberian Peninsula. From this territory, the site of l’Arbreda Cave shows the most important evidence for the initial phase of the Upper Paleolithic, illustrated by Aurignacian and Gravettian occupations. Recently the origins and expansion of the Gravettian in Iberia has been one of the most debate topics, particularly regarding the meaning of the variability of the Gravettian lithic industries in this region. In this work we focus on the study of the Gravettian lithic assemblage from level E of Arbreda Cave dated from c.26 kaBP, combining techno-typological, use-wear analysis and raw material characterization and sourcing. Technological analysis shows that Gravettian lithic assemblage from Arbreda is characterized by prismatic reduction strategies focuses on laminar debitage, reflected in the high frequency of backed technology among retouched tools, including well-preserved La Gravette and Microgravette points. Preliminary use-wear analysis focused on macro analysis of the projectile points and preservation conditions of micro wear traces. Local flint, in NE Iberia, is characterized by small nodules with low quality, and during the Gravettian laminar debitage was preformed on imported raw materials from sources that are located north of the Pyrenees Basin Narbonne-Sigean (approx. 100 km away to the north of Arbreda) and Costières du Gard (about 240 km) in the Rhone river mouth. Combining all lithic analyses, our data shows that, during the Gravettian, the site occupation was likely characterized by the exploitation of local resources, during which, hunting might have been one of the most important human activities at the site. Data presented here contributes to our investigation on the lithic variability, in order to understand how humans adapt during the origins of the Gravettian in Iberia.
DOI: 10.6084/m9.figshare.3817374
title: Oxygen and differentiation status modulate the effect of X-ray irradiation on physiology and mitochondrial proteome of human neuroblastoma cells

description: Cytotoxic effects, including oxidative stress, of low linear energy transfer (LET)-ionizing radiation are often underestimated and studies of their mechanisms using cell culture models are widely conducted with cells cultivated at atmospheric oxygen that does not match its physiological levels in body tissues. Also, cell differentiation status plays a role in the outcome of experiments. We compared effects of 2 Gy X-ray irradiation on the physiology and mitochondrial proteome of nondifferentiated and human neuroblastoma (SH-SY5Y) cells treated with retinoic acid cultivated at 21% and 5% O<sub>2</sub>. Irradiation did not affect the amount of subunits of OxPhos complexes and other non-OxPhos mitochondrial proteins, except for heat shock protein 70, which was increased depending on oxygen level and differentiation status. These two factors were proven to modulate mitochondrial membrane potential and the bioenergetic status of cells. We suggest, moreover, that oxygen plays a role in the differentiation of human SH-SY5Y cells.
DOI: 10.6084/m9.figshare.3817374.v1
title: Oxygen and differentiation status modulate the effect of X-ray irradiation on physiology and mitochondrial proteome of human neuroblastoma cells

description: Cytotoxic effects, including oxidative stress, of low linear energy transfer (LET)-ionizing radiation are often underestimated and studies of their mechanisms using cell culture models are widely conducted with cells cultivated at atmospheric oxygen that does not match its physiological levels in body tissues. Also, cell differentiation status plays a role in the outcome of experiments. We compared effects of 2 Gy X-ray irradiation on the physiology and mitochondrial proteome of nondifferentiated and human neuroblastoma (SH-SY5Y) cells treated with retinoic acid cultivated at 21% and 5% O<sub>2</sub>. Irradiation did not affect the amount of subunits of OxPhos complexes and other non-OxPhos mitochondrial proteins, except for heat shock protein 70, which was increased depending on oxygen level and differentiation status. These two factors were proven to modulate mitochondrial membrane potential and the bioenergetic status of cells. We suggest, moreover, that oxygen plays a role in the differentiation of human SH-SY5Y cells.
DOI: 10.6084/m9.figshare.3817356
title: Supplementary files for LFLS metagenome paper

description: Supplementary file 1. Spreadsheet with YSI data. Supplementary file 2. Krona HTML file with the taxonomy. Supplementary file 3. Spreadsheet with the relative abundances of all the RXNs. Supplementary file 4. Table with the raw HUMAnN2 output.
DOI: 10.6084/m9.figshare.3817356.v1
title: LFLS water HUMAnN2 annotation

description: Gene annotation of the metagenome from Little Forest Legacy SIte trench water.<br>Obtained with HUMAnN2<br>
DOI: 10.6084/m9.figshare.3817356.v2
title: Supplementary Files for LFLS

description: Supplementary file 1. Spreadsheet with YSI data. Supplementary file 2. Krona HTML file with the taxonomy. Supplementary file 3. Spreadsheet with the relative abundances of all the RXNs. Supplementary file 4. Table with the raw HUMAnN2 output.
DOI: 10.6084/m9.figshare.3817356.v3
title: LFLS water HUMAnN2 annotation

description: Gene annotation of the metagenome from Little Forest Legacy SIte trench water.<br>Obtained with HUMAnN2<br>
DOI: 10.6084/m9.figshare.3817356.v4
title: Supplementary files for LFLS metagenome paper

description: Supplementary file 1. Spreadsheet with YSI data. Supplementary file 2. Krona HTML file with the taxonomy. Supplementary file 3. Spreadsheet with the relative abundances of all the RXNs. Supplementary file 4. Table with the raw HUMAnN2 output.
DOI: 10.6084/m9.figshare.3817293
title: Stabilization of ODE with hyperbolic equation actuator subject to boundary control matched disturbance

description: In this paper, we consider stabilisation for a cascade of ODE and first-order hyperbolic equation with external disturbance flowing to the control end. The active disturbance rejection control (ADRC) and sliding mode control (SMC) approaches are adopted in investigation. By ADRC approach, the disturbance is estimated through a disturbance estimator with both time-varying high gain and constant high gain, and the disturbance is canceled online in the feedback loop. It is shown that the resulting closed-loop system with time-varying high gain is asymptotically stable and is practically stable with constant high gain. By SMC approach, the existence and uniqueness of the solution for the closed loop via SMC are proved, and the monotonicity of the ‘reaching condition’ is presented. The resulting closed-loop system is shown to be exponentially stable. The numerical experiments are carried out to illustrate effectiveness of the proposed control law.
DOI: 10.6084/m9.figshare.3817293.v2
title: Stabilization of ODE with hyperbolic equation actuator subject to boundary control matched disturbance

description: In this paper, we consider stabilisation for a cascade of ODE and first-order hyperbolic equation with external disturbance flowing to the control end. The active disturbance rejection control (ADRC) and sliding mode control (SMC) approaches are adopted in investigation. By ADRC approach, the disturbance is estimated through a disturbance estimator with both time-varying high gain and constant high gain, and the disturbance is canceled online in the feedback loop. It is shown that the resulting closed-loop system with time-varying high gain is asymptotically stable and is practically stable with constant high gain. By SMC approach, the existence and uniqueness of the solution for the closed loop via SMC are proved, and the monotonicity of the ‘reaching condition’ is presented. The resulting closed-loop system is shown to be exponentially stable. The numerical experiments are carried out to illustrate effectiveness of the proposed control law.
DOI: 10.6084/m9.figshare.3817284
title: The Impairing Effect of Mental Fatigue data

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817293.v1
title: Stabilization of ODE with Hyperbolic Equation Actuator subject to Boundary Control Matched Disturbance<sup>*</sup>

description: In this paper, we consider stabilization for a cascade of ODE and first-order hyperbolic equation with external disturbance flowing to the control end. The active disturbance rejection control (ADRC) and sliding mode control (SMC) approaches are adopted in investigation. By ADRC approach, the disturbance is estimated through a disturbance estimator with both time-varying high gain and constant high gain, and the disturbance is canceled online in the feedback loop. It is shown that the resulting closed-loop system with time-varying high gain is asymptotically stable and is practically stable with constant high gain. By SMC approach, the existence and uniqueness of the solution for the closed-loop via SMC are proved, and the monotonicity of the “reaching condition” is presented. The resulting closed-loop system is shown to be exponentially stable. The numerical experiments are carried out to illustrate effectiveness of the proposed control law.
DOI: 10.6084/m9.figshare.3817284.v1
title: Behavioral data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v2
title: Behavioral data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v3
title: Behavioral data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v4
title: data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v5
title: data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v6
title: data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v7
title: data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817284.v8
title: data.rar

description: The Impairing Effect of Mental Fatigue on Visual Sustained Attention under Monotonous Multi-Object Visual Attention Task in Long Durations: An Event-Related Potential based Study<br>
DOI: 10.6084/m9.figshare.3817164
title: Drinking, Drug Use, and Related Consequences Among University Students Completing Study Abroad Experiences: A Systematic Review

description: <i>Background</i>: University students who complete study abroad experiences are potentially exposed to behaviors, in particular alcohol and drug use, that place their health at risk. There is a need to identify risk and protective factors and highlight knowledge gaps. <i>Methods</i>: A systematic review adopting the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) methodology. Relevant bibliographic databases and online repositories were systematically searched for both qualitative and quantitative peer-reviewed studies. <i>Results</i>: Eighteen articles were eligible for inclusion. Degree mobility students (DMSs—students pursuing a full bachelor or master degree in a foreign country) and Credit Mobility Students (CMSs—students participating in short term or semester study abroad programmes) show different patterns of at-risk behaviors compared to pre-departure, and to domestic or non-study abroad students. DMSs mostly consumed less alcohol and illicit substances compared to domestic students, but little information on pre-travel behavior and predictors of at-risk behaviors while abroad was available on DMSs. Most studies indicated that CMSs increased their alcohol use while abroad and reduced it when they returned home. However, there is no evidence of an increase in the negative consequences associated with alcohol misuse while abroad. Different pre-departure and abroad factors (e.g., perceptions of peer drinking norms, psychological and sociocultural adjustment abroad) were related to at-risk behaviors in the host country. <i>Conclusions</i>: University students who study abroad are understudied and potentially at risk from alcohol and drug use. Knowledge gaps are discussed in relation to possible future qualitative, mixed methods and longitudinal research.
DOI: 10.6084/m9.figshare.3817164.v1
title: Drinking, Drug Use, and Related Consequences Among University Students Completing Study Abroad Experiences: A Systematic Review

description: <i>Background</i>: University students who complete study abroad experiences are potentially exposed to behaviors, in particular alcohol and drug use, that place their health at risk. There is a need to identify risk and protective factors and highlight knowledge gaps. <i>Methods</i>: A systematic review adopting the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) methodology. Relevant bibliographic databases and online repositories were systematically searched for both qualitative and quantitative peer-reviewed studies. <i>Results</i>: Eighteen articles were eligible for inclusion. Degree mobility students (DMSs—students pursuing a full bachelor or master degree in a foreign country) and Credit Mobility Students (CMSs—students participating in short term or semester study abroad programmes) show different patterns of at-risk behaviors compared to pre-departure, and to domestic or non-study abroad students. DMSs mostly consumed less alcohol and illicit substances compared to domestic students, but little information on pre-travel behavior and predictors of at-risk behaviors while abroad was available on DMSs. Most studies indicated that CMSs increased their alcohol use while abroad and reduced it when they returned home. However, there is no evidence of an increase in the negative consequences associated with alcohol misuse while abroad. Different pre-departure and abroad factors (e.g., perceptions of peer drinking norms, psychological and sociocultural adjustment abroad) were related to at-risk behaviors in the host country. <i>Conclusions</i>: University students who study abroad are understudied and potentially at risk from alcohol and drug use. Knowledge gaps are discussed in relation to possible future qualitative, mixed methods and longitudinal research.
DOI: 10.6084/m9.figshare.3817152
title: p53 controls CDC7 levels to reinforce G1 cell cycle arrest upon genotoxic stress

description: DNA replication initiation is a key event in the cell cycle, which is dependent on 2 kinases - CDK2 and CDC7. Here we report a novel mechanism in which p53 induces G1 checkpoint and cell cycle arrest by downregulating CDC7 kinase in response to genotoxic stress. We demonstrate that p53 controls CDC7 stability post-transcriptionally via miR-192/215 and post-translationally via Fbxw7β E3 ubiquitin ligase. The p53-dependent pathway of CDC7 downregulation is interlinked with the p53-p21-CDK2 pathway, as p21-mediated inhibition of CDK2-dependent phosphorylation of CDC7 on Thr376 is required for GSK3ß-phosphorylation and Fbxw7ß-dependent degradation of CDC7. Notably, sustained oncogenic high levels of active CDC7 exert a negative feedback onto p53, leading to unrestrained S-phase progression and accumulation of DNA damage. Thus, p53-dependent control of CDC7 levels is essential for blocking G1/S cell-cycle transition upon genotoxic stress, thereby safeguarding the genome from instability and thus representing a novel general stress response.
DOI: 10.6084/m9.figshare.3817152.v1
title: p53 controls CDC7 levels to reinforce G1 cell cycle arrest upon genotoxic stress

description: DNA replication initiation is a key event in the cell cycle, which is dependent on 2 kinases - CDK2 and CDC7. Here we report a novel mechanism in which p53 induces G1 checkpoint and cell cycle arrest by downregulating CDC7 kinase in response to genotoxic stress. We demonstrate that p53 controls CDC7 stability post-transcriptionally via miR-192/215 and post-translationally via Fbxw7β E3 ubiquitin ligase. The p53-dependent pathway of CDC7 downregulation is interlinked with the p53-p21-CDK2 pathway, as p21-mediated inhibition of CDK2-dependent phosphorylation of CDC7 on Thr376 is required for GSK3ß-phosphorylation and Fbxw7ß-dependent degradation of CDC7. Notably, sustained oncogenic high levels of active CDC7 exert a negative feedback onto p53, leading to unrestrained S-phase progression and accumulation of DNA damage. Thus, p53-dependent control of CDC7 levels is essential for blocking G1/S cell-cycle transition upon genotoxic stress, thereby safeguarding the genome from instability and thus representing a novel general stress response.
DOI: 10.6084/m9.figshare.3817143
title: Cell cycle regulation of embryonic stem cells and mouse embryonic fibroblasts lacking functional Pax7

description: The transcription factor Pax7 plays a key role during embryonic myogenesis and in adult organisms in that it sustains the proper function of satellite cells, which serve as adult skeletal muscle stem cells. Recently we have shown that lack of Pax7 does not prevent the myogenic differentiation of pluripotent stem cells. In the current work we show that the absence of functional Pax7 in differentiating embryonic stem cells modulates cell cycle facilitating their proliferation. Surprisingly, deregulation of Pax7 function also positively impacts at the proliferation of mouse embryonic fibroblasts. Such phenotypes seem to be executed by modulating the expression of positive cell cycle regulators, such as cyclin E.
DOI: 10.6084/m9.figshare.3817137
title: Data and code for "Aesop's fable experiments demonstrate trial-and-error learning in birds, but no causal understanding"

description: This is a data and code package to replicate the analyses in Ghirlanda and Lind's "Aesop's fable experiments demonstrate trial-and-error learning in birds, but no causal understanding". Please see the README file for details about package content<br>
DOI: 10.6084/m9.figshare.3817062
title: Polimi DC ACF (Multitau 12.5 ns, 1s, 8)

description: Autocorrelation Functions (ACFs) of Dark Counts for two SPADs used for afterpulsing correction in single-spot us-ALEX smFRET ACF.
DOI: 10.6084/m9.figshare.3817062.v1
title: Polimi DC ACF (Multitau 12.5 ns, 1s, 8)

description: Autocorrelation Functions (ACFs) of Dark Counts for two SPADs used for afterpulsing correction in smFRET ACF.
DOI: 10.6084/m9.figshare.3817062.v2
title: Polimi DC ACF (Multitau 12.5 ns, 1s, 8)

description: Autocorrelation Functions (ACFs) of Dark Counts for two SPADs used for afterpulsing correction in single-spot us-ALEX smFRET ACF.
DOI: 10.6084/m9.figshare.3817062.v3
title: Polimi DC ACF (Multitau 12.5 ns, 1s, 8)

description: Autocorrelation Functions (ACFs) of Dark Counts for two SPADs used for afterpulsing correction in single-spot us-ALEX smFRET ACF.
DOI: 10.6084/m9.figshare.3817062.v4
title: Polimi DC ACF (Multitau 12.5 ns, 1s, 8)

description: Autocorrelation Functions (ACFs) of Dark Counts for two SPADs used for afterpulsing correction in single-spot us-ALEX smFRET ACF.
DOI: 10.6084/m9.figshare.3817023
title: Data for Browne and Karubian 2016 - Frequency-dependent selection for rare genotypes promotes genetic diversity of a tropical palm

description: Abstract: Negative frequency dependent selection among species is a key driver of community diversity in natural systems, but the degree to which negative frequency dependent selection shapes patterns of survival and genetic diversity within species is poorly understood. In a five-year field experiment, we show that seedlings of a tropical palm with rare genotypes had a pronounced survival advantage over seedlings with common genotypes, with effect sizes (<i>i.e., </i>regression coefficients) comparable to that of light availability. This 'rare genotype advantage' led to an increase of population-wide genetic diversity among seedlings compared to null expectations, as predicted by negative frequency dependent selection, and increased reproductive success in adult trees with rare genotypes. These results suggest that within-species negative frequency dependent selection of genotypes can shape genetic variation on ecologically relevant timescales in natural systems and may be a key, overlooked source of non-random mortality for tropical plants.
DOI: 10.6084/m9.figshare.3817023.v1
title: Data for Browne and Karubian 2016 - Frequency-dependent selection for rare genotypes promotes genetic diversity of a tropical palm

description: Abstract: Negative frequency dependent selection among species is a key driver of community diversity in natural systems, but the degree to which negative frequency dependent selection shapes patterns of survival and genetic diversity within species is poorly understood. In a five-year field experiment, we show that seedlings of a tropical palm with rare genotypes had a pronounced survival advantage over seedlings with common genotypes, with effect sizes (<i>i.e., </i>regression coefficients) comparable to that of light availability. This 'rare genotype advantage' led to an increase of population-wide genetic diversity among seedlings compared to null expectations, as predicted by negative frequency dependent selection, and increased reproductive success in adult trees with rare genotypes. These results suggest that within-species negative frequency dependent selection of genotypes can shape genetic variation on ecologically relevant timescales in natural systems and may be a key, overlooked source of non-random mortality for tropical plants.
DOI: 10.6084/m9.figshare.3816996
title: Supp Table 4 D398-N398 Functional Analysis.xls

description: <b>Supplemental Table 4. </b>Functional analysis of genes differentially expressed between D398 and N398. Each worksheet is the result of comparing N398 Enriched or D398 Enriched gene lists using DAVID (Huang da, et al., 2009a, b). Abbreviations: GO, gene ontology; BP, biological process; CC, cellular component; MF, molecular function; KEGG, Kyoto encyclopedia of genes and genomes (pathway analysis).
DOI: 10.6084/m9.figshare.3816993
title: Supp Table 3 - D398N Diff Table.xls

description: <b>Supplemental Table 3</b>. RNAseq data table. Headings are: gene_id: official gene symbol (UCSC), sample_1/sample_2: names of groups being compared, status: OK if sufficient number of reads were observed for acceptable measurements, value_1/value_2: FPKM levels, log2_fold_change: the log<sub>2</sub> of the ratio of N398/D398 FPKM values, test_stat: the test statistic from Cuffdiff, p_value: the uncorrected p-value of the comparison, q_value: the false discovery rate (FDR) corrected for multiple measurements, significant: yes/no (at 5% FDR, which is less stringent than the selection used in this study of 1% FDR).