cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12850013
title: Temporal flexibility in activity rhythms of a diurnal rodent, the ice rat (<i>Otomys sloggetti</i>)

description: Diurnality in rodents is relatively rare and occurs primarily in areas with low nighttime temperatures such as at high altitudes and desert areas. However, many factors can influence temporal activity rhythms of animals, both in the field and the laboratory. The temporal activity patterns of the diurnal ice rat were investigated in the laboratory with, and without, access to running wheels, and in constant conditions with running wheels. Ice rats appeared to be fundamentally diurnal but used their running wheels during the night. In constant conditions, general activity remained predominantly diurnal while wheel running was either nocturnal or diurnal. In some animals, entrainment of the wheel running rhythm was evident, as demonstrated by free-running periods that were different from 24 h. In other animals, the wheel running activity abruptly switched from nocturnal to subjective day as soon as the animals entered DD, and reverted back to nocturnal once returned to LD, suggesting the rhythms were masked by light. Wheel running rhythms appears to be less robust and more affected by light compared to general activity rhythms. In view of present and future environmental changes, the existence of more unstable activity rhythms that can readily switch between temporal niches might be crucial for the survival of the species.
DOI: 10.6084/m9.figshare.12850025
title: Adiposity and body mass index of young women are associated with altered 24-hour profile of wrist temperature and sleep quality

description: Sleep alterations are linked to circadian disturbances; however, these variables are also related with adiposity, which could impair the study of the previous relationship. Here, we investigated whether the association between adiposity and impaired circadian health is independent of sleep and circadian related variables in a sample of young women. One hundred ninety-two women (18–30 years of age) participated in this cross-sectional study. To evaluate circadian rhythmicity, subjects wore a temperature sensor for six consecutive days, and variables related with the amplitude and stability of the rhythm were calculated. We also assessed adiposity markers (body mass index [BMI], fat mass, waist, and hip circumference), sleep and circadian variables (sleep schedules and quality, social jet lag, and chronotype), energy intake, and physical activity. Partial correlations were conducted to test the associations between circadian and sleep-related variables with adiposity markers. Results showed the circadian pattern of temperature clearly depended on BMI and, to a lesser extent, on sleep variables. Specifically, we showed that higher adiposity was significantly associated with lower amplitude, percentage of variance explained by the rhythm, and intradaily variability and L10 values of the temperature 24 h rhythm. Furthermore, sleep quality was the only variable significantly related with both adiposity and circadian pattern of wrist temperature, while social jet lag and chronotype were only associated with the circadian pattern of temperature. Therefore, we consider BMI should be taken into account when sleep health or disturbances are studied by means of circadian rhythm analyses.
DOI: 10.6084/m9.figshare.12850025.v1
title: Adiposity and body mass index of young women are associated with altered 24-hour profile of wrist temperature and sleep quality

description: Sleep alterations are linked to circadian disturbances; however, these variables are also related with adiposity, which could impair the study of the previous relationship. Here, we investigated whether the association between adiposity and impaired circadian health is independent of sleep and circadian related variables in a sample of young women. One hundred ninety-two women (18–30 years of age) participated in this cross-sectional study. To evaluate circadian rhythmicity, subjects wore a temperature sensor for six consecutive days, and variables related with the amplitude and stability of the rhythm were calculated. We also assessed adiposity markers (body mass index [BMI], fat mass, waist, and hip circumference), sleep and circadian variables (sleep schedules and quality, social jet lag, and chronotype), energy intake, and physical activity. Partial correlations were conducted to test the associations between circadian and sleep-related variables with adiposity markers. Results showed the circadian pattern of temperature clearly depended on BMI and, to a lesser extent, on sleep variables. Specifically, we showed that higher adiposity was significantly associated with lower amplitude, percentage of variance explained by the rhythm, and intradaily variability and L10 values of the temperature 24 h rhythm. Furthermore, sleep quality was the only variable significantly related with both adiposity and circadian pattern of wrist temperature, while social jet lag and chronotype were only associated with the circadian pattern of temperature. Therefore, we consider BMI should be taken into account when sleep health or disturbances are studied by means of circadian rhythm analyses.
DOI: 10.5281/zenodo.4741259
title: Analysis of charged peptide loop-flipping across a lipid bilayer using the string method with swarms-of-trajectories

description: All scripts to run swarms-of-trajectories simulations, simulation data, and analysis tools for regenerating results from the journal paper: S. J. Patel and R. C. Van Lehn. “Analysis of Charged Peptide Loop-flipping Across a Lipid Bilayer using the String Method<br> with Swarms-of-trajectories” <em>J. Phys. Chem. B</em> <strong>2021</strong>.
DOI: 10.5281/zenodo.4741258
title: Analysis of charged peptide loop-flipping across a lipid bilayer using the string method with swarms-of-trajectories

description: All scripts to run swarms-of-trajectories simulations, simulation data, and analysis tools for regenerating results from the journal paper: S. J. Patel and R. C. Van Lehn. “Analysis of Charged Peptide Loop-flipping Across a Lipid Bilayer using the String Method<br> with Swarms-of-trajectories” <em>J. Phys. Chem. B</em> <strong>2021</strong>.
DOI: 10.6084/m9.figshare.12743687.v9
title: Balancing selection maintains ancient polymorphisms at conserved enhancers for the olfactory receptor genes of a Chinese marine fish

description: These files consist of -a) Supplementary figs. S2, S3, S4 and S12 <br>b) Supplementary tables S1-S29, S3, S5, S11, S18 and S19.<br>
DOI: 10.5519/qd.8tibsawa
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (177 records)
DOI: 10.6084/m9.figshare.12850037
title: Comparison of nocturnal blood pressure based on home versus ambulatory blood pressure measurement: The Ohasama Study

description: The nocturnal blood pressure (BP) is a strong predictor of hypertensive target organ damage including that in cardiovascular diseases. The use of ambulatory BP (ABP) monitoring has enabled the evaluation of nocturnal BP and detection of non-dippers. This study compared nocturnal BP values, nocturnal decline in BP, and the prevalence of non-dippers based on ABP and home BP (HBP) measurements in a general population. Data on HBP measured with HEM 747-IC-N (Omron Healthcare Co., Ltd.) and 24-hour ABP measured with ABPM-630 (Nippon Colin) were obtained from fifty-five participants aged ≥ 20 years (mean age: 65.1 years, 78.2% women). To exclude a systematic difference between the two methods, we conducted a validation study for HBP and ABP in another population that consisted of hypertensive outpatients (mean age: 65.4 years, 53.4% women). After adjusting for the systematic difference in BP between the two methods calculated in the validation study (3.9 mmHg for systolic and 3.0 mmHg for diastolic), morning and daytime (average of morning and evening) HBP were significantly lower than morning (average of 2 h after waking) and daytime (average of being awake) ABP, respectively. No significant difference was found in nocturnal BP between HBP and ABP monitoring regardless of the quality of sleep during nocturnal HBP measurement. Agreement between HBP and ABP in the detection of non-dippers was low mainly due to the difference in daytime BP values. Conclusion: HBP monitoring may be a reliable alternative to ABP for the assessment of nocturnal BP.
DOI: 10.6084/m9.figshare.12850037.v1
title: Comparison of nocturnal blood pressure based on home versus ambulatory blood pressure measurement: The Ohasama Study

description: The nocturnal blood pressure (BP) is a strong predictor of hypertensive target organ damage including that in cardiovascular diseases. The use of ambulatory BP (ABP) monitoring has enabled the evaluation of nocturnal BP and detection of non-dippers. This study compared nocturnal BP values, nocturnal decline in BP, and the prevalence of non-dippers based on ABP and home BP (HBP) measurements in a general population. Data on HBP measured with HEM 747-IC-N (Omron Healthcare Co., Ltd.) and 24-hour ABP measured with ABPM-630 (Nippon Colin) were obtained from fifty-five participants aged ≥ 20 years (mean age: 65.1 years, 78.2% women). To exclude a systematic difference between the two methods, we conducted a validation study for HBP and ABP in another population that consisted of hypertensive outpatients (mean age: 65.4 years, 53.4% women). After adjusting for the systematic difference in BP between the two methods calculated in the validation study (3.9 mmHg for systolic and 3.0 mmHg for diastolic), morning and daytime (average of morning and evening) HBP were significantly lower than morning (average of 2 h after waking) and daytime (average of being awake) ABP, respectively. No significant difference was found in nocturnal BP between HBP and ABP monitoring regardless of the quality of sleep during nocturnal HBP measurement. Agreement between HBP and ABP in the detection of non-dippers was low mainly due to the difference in daytime BP values. Conclusion: HBP monitoring may be a reliable alternative to ABP for the assessment of nocturnal BP.
DOI: 10.6084/m9.figshare.12850016
title: Crosstalk between circulating microRNAs and chronotypical features in subjects with metabolic syndrome

description: Circulating microRNAs (miRNAs) are valuable biomarkers that may provide important insight into the pathogenesis of metabolic syndrome (MetS). Moreover, there is an association between chronotypical characteristics and MetS predisposition. Considering that expression of some miRNAs is circadian-rhythm-dependent, the aim of this study was to investigate the circulating miRNA profile in subjects with and without MetS in association with chronotype. The expression of 86 metabolic syndrome-related miRNAs was investigated in the plasma of 21 subjects with MetS and in 82 subjects without MetS using miRCURY LNA miRNA PCR System technology. Chronotype was assessed using the Horne and Östberg Morningness-Eveningness Questionnaire. Bioinformatic analyses were performed to explore the target genes and biological pathways regulated by the selected miRNAs. Subjects with MetS were more often evening chronotype compared to non-MetS controls. Additionally, four miRNAs (miR-140-3p, miR-150-5p, miR-375, and miR-29 c-3p) demonstrated interaction with MetS and chronotype. Interestingly, the target genes of these four miRNAs participate in pathways related to the circadian clock. In conclusion, we identified four circulating miRNAs whose circulating levels could interact with MetS and chronotype.
DOI: 10.6084/m9.figshare.12850016.v1
title: Crosstalk between circulating microRNAs and chronotypical features in subjects with metabolic syndrome

description: Circulating microRNAs (miRNAs) are valuable biomarkers that may provide important insight into the pathogenesis of metabolic syndrome (MetS). Moreover, there is an association between chronotypical characteristics and MetS predisposition. Considering that expression of some miRNAs is circadian-rhythm-dependent, the aim of this study was to investigate the circulating miRNA profile in subjects with and without MetS in association with chronotype. The expression of 86 metabolic syndrome-related miRNAs was investigated in the plasma of 21 subjects with MetS and in 82 subjects without MetS using miRCURY LNA miRNA PCR System technology. Chronotype was assessed using the Horne and Östberg Morningness-Eveningness Questionnaire. Bioinformatic analyses were performed to explore the target genes and biological pathways regulated by the selected miRNAs. Subjects with MetS were more often evening chronotype compared to non-MetS controls. Additionally, four miRNAs (miR-140-3p, miR-150-5p, miR-375, and miR-29 c-3p) demonstrated interaction with MetS and chronotype. Interestingly, the target genes of these four miRNAs participate in pathways related to the circadian clock. In conclusion, we identified four circulating miRNAs whose circulating levels could interact with MetS and chronotype.
DOI: 10.5281/zenodo.3877554
title: Benchmark for the evaluation of named entity recognition over ancient documents

description: The dataset consists of a multilingual noisy corpora for named entity recognition (NER).<br> The noisy versions are simulated from the CoNLL-02 (Spanish and Dutch) and CoNLL-03 (English) NER corpora.<br> The original collections are re-OCRed and four types of noises at two different levels are added in order to simulate various OCR output. More precisely, we first extracted raw texts and converted them into images. These images have been contaminated by adding some common noises when using a scanner. We further extract OCRed data using tesseract open source<br> OCR engine v-3.04.01. Consequently to the image noise insertions, OCRed data contains degradations. Original and noisy texts are finally aligned. This archive contains three folders (one per language). The folders contain the degraded images, the noisy texts extracted by the OCR and their aligned version with clean data. These are the supplementary materials for the TPDL 2020 paper Assessing and minimizing the impact of OCR quality on named entity recognition. If you end up using whole or parts of this resource,<br> please cite this paper: <pre><code>@InProceedings{10.1007/978-3-030-54956-5_7, author="Hamdi, Ahmed and Jean-Caurant, Axel and Sid{\`e}re, Nicolas and Coustaty, Micka{\"e}l and Doucet, Antoine", editor="Hall, Mark and Mer{\v{c}}un, Tanja and Risse, Thomas and Duchateau, Fabien", title="Assessing and Minimizing the Impact of OCR Quality on Named Entity Recognition", booktitle="Digital Libraries for Open Knowledge", year="2020", publisher="Springer International Publishing", address="Cham", pages="87--101", isbn="978-3-030-54956-5" }</code></pre> <strong>Acknowledgments</strong><br> This work has been supported by the European Union's Horizon 2020 research and innovation programme under grant 770299 [NewsEye](https://www.newseye.eu/).
DOI: 10.5281/zenodo.3877553
title: Benchmark for the evaluation of named entity recognition over ancient documents

description: The dataset consists of a multilingual noisy corpora for named entity recognition (NER).<br> The noisy versions are simulated from the CoNLL-02 (Spanish and Dutch) and CoNLL-03 (English) NER corpora.<br> The original collections are re-OCRed and four types of noises at two different levels are added in order to simulate various OCR output. More precisely, we first extracted raw texts and converted them into images. These images have been contaminated by adding some common noises when using a scanner. We further extract OCRed data using tesseract open source<br> OCR engine v-3.04.01. Consequently to the image noise insertions, OCRed data contains degradations. Original and noisy texts are finally aligned. This archive contains three folders (one per language). The folders contain the degraded images, the noisy texts extracted by the OCR and their aligned version with clean data. These are the supplementary materials for the TPDL 2020 paper Assessing and minimizing the impact of OCR quality on named entity recognition. If you end up using whole or parts of this resource,<br> please cite this paper: <pre><code>@InProceedings{10.1007/978-3-030-54956-5_7, author="Hamdi, Ahmed and Jean-Caurant, Axel and Sid{\`e}re, Nicolas and Coustaty, Micka{\"e}l and Doucet, Antoine", editor="Hall, Mark and Mer{\v{c}}un, Tanja and Risse, Thomas and Duchateau, Fabien", title="Assessing and Minimizing the Impact of OCR Quality on Named Entity Recognition", booktitle="Digital Libraries for Open Knowledge", year="2020", publisher="Springer International Publishing", address="Cham", pages="87--101", isbn="978-3-030-54956-5" }</code></pre> <strong>Acknowledgments</strong><br> This work has been supported by the European Union's Horizon 2020 research and innovation programme under grant 770299 [NewsEye](https://www.newseye.eu/).
DOI: 10.6084/m9.figshare.14551275.v1
title: Nile Tilapia impacts reference list.

description: The data is a list of scientific literature that shows the impacts and consequences of the introduction of Nile Tilapia <i>Oreochromis niloticus</i>.
DOI: 10.5286/isis.e.rb2000252
title: Low-spin vs high-spin square planar Ni2+ ions in Sr2NiO2Cu2Se2-xSx.

description: This is a proposal for Rapid Access to WISH prior to the shutdown in mid 2021 to complete an investigation of the change in magnetic structures and a change in spin state of the Ni2+ ion in a highly distended octahedral coordination environment. Sr2NiO2Cu2Se2 is high spin with magnetic long range order and Sr2NiO2Cu2S2 is low-spin with a diamagnetic Ni2+ ion. Our measurements so far have captured the transition with x in the solid solution Sr2NiO2Cu2Se2-xSx but also show an evolution in the magnetic structure which we need to probe in more detail to complete the story for publication.
DOI: 10.5286/isis.e.rb2000252-1
title: Low-spin vs high-spin square planar Ni2+ ions in Sr2NiO2Cu2Se2-xSx.

description: This is a proposal for Rapid Access to WISH prior to the shutdown in mid 2021 to complete an investigation of the change in magnetic structures and a change in spin state of the Ni2+ ion in a highly distended octahedral coordination environment. Sr2NiO2Cu2Se2 is high spin with magnetic long range order and Sr2NiO2Cu2S2 is low-spin with a diamagnetic Ni2+ ion. Our measurements so far have captured the transition with x in the solid solution Sr2NiO2Cu2Se2-xSx but also show an evolution in the magnetic structure which we need to probe in more detail to complete the story for publication.
DOI: 10.6084/m9.figshare.14551275.v2
title: Nile Tilapia impacts reference list.

description: The data is a list of scientific literature evidencing the impacts and consequences of the introduction of Nile Tilapia Oreochromis niloticus.
DOI: 10.5281/zenodo.4741339
title: Supplementary Table S1 of Doi et al. "On-site environmental DNA detection of species using ultra-rapid mobile PCR"

description: Supplementary Table S1 of Doi et al. "On-site environmental DNA detection of species using ultra-rapid mobile PCR" All data for qPCR and mobile PCR measurement in the field and laboratory.
DOI: 10.5281/zenodo.4741338
title: Supplementary Table S1 of Doi et al. "On-site environmental DNA detection of species using ultra-rapid mobile PCR"

description: Supplementary Table S1 of Doi et al. "On-site environmental DNA detection of species using ultra-rapid mobile PCR" All data for qPCR and mobile PCR measurement in the field and laboratory.
DOI: 10.6084/m9.figshare.13489737
title: Current status and recent changes in blood pressure and dietary salt consumption in Japanese individuals

description: <b>Purpose</b>: Treatment of hypertension has recently shown remarkable advances. It is quite important to survey the current general status of blood pressure (BP) and recent changes to verify whether people are benefitting from these advances. The present study aimed to investigate the current status of, and recent changes in, BP, the prevalence and treatment rate of hypertension, the achievement rate of target BP, and salt intake in Japanese individuals. <b>Methods</b>: Recent changes in salt intake as well as BP, the prevalence and treatment rate of hypertension, and the rate of achievement of target BP were investigated in participants in our yearly physical checkup program from 2009 to 2018 (n = 79,789). Individual salt intake was assessed by estimating 24-hour urinary sodium excretion using a spot urine sample. <b>Results</b>: The prevalence of hypertension did not change, but the treatment rate of hypertension (from 64% to 75%) and the achievement rate of the target BP improved during the period (from 35% to 57%). BP decreased, prominently in hypertensive participants under antihypertensive treatment (from 133 ± 14/84 ± 9 to 128 ± 13/76 ± 10 mmHg). Salt intake did not decline noticeably during the 10 years of observation. <b>Conclusions</b>: The prevalence of hypertension did not change, but the treatment rate of hypertension and the achievement rate of the target BP improved during a recent 10-year period. These findings suggest that improved pharmacological management of hypertension resulted in a gradual reduction in BP levels, but lifestyle modification has not yet really taken root in the Japanese general population.
DOI: 10.6084/m9.figshare.13489737.v1
title: Current status and recent changes in blood pressure and dietary salt consumption in Japanese individuals

description: <b>Purpose</b>: Treatment of hypertension has recently shown remarkable advances. It is quite important to survey the current general status of blood pressure (BP) and recent changes to verify whether people are benefitting from these advances. The present study aimed to investigate the current status of, and recent changes in, BP, the prevalence and treatment rate of hypertension, the achievement rate of target BP, and salt intake in Japanese individuals. <b>Methods</b>: Recent changes in salt intake as well as BP, the prevalence and treatment rate of hypertension, and the rate of achievement of target BP were investigated in participants in our yearly physical checkup program from 2009 to 2018 (n = 79,789). Individual salt intake was assessed by estimating 24-hour urinary sodium excretion using a spot urine sample. <b>Results</b>: The prevalence of hypertension did not change, but the treatment rate of hypertension (from 64% to 75%) and the achievement rate of the target BP improved during the period (from 35% to 57%). BP decreased, prominently in hypertensive participants under antihypertensive treatment (from 133 ± 14/84 ± 9 to 128 ± 13/76 ± 10 mmHg). Salt intake did not decline noticeably during the 10 years of observation. <b>Conclusions</b>: The prevalence of hypertension did not change, but the treatment rate of hypertension and the achievement rate of the target BP improved during a recent 10-year period. These findings suggest that improved pharmacological management of hypertension resulted in a gradual reduction in BP levels, but lifestyle modification has not yet really taken root in the Japanese general population.