cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12923728
title: DNA methylation profiles unique to Kalahari KhoeSan individuals

description: Genomes of KhoeSan individuals of the Kalahari Desert provide the greatest understanding of single nucleotide diversity in the human genome. Compared with individuals in industrialized environments, the KhoeSan have a unique foraging and hunting lifestyle. Given these dramatic environmental differences, and the responsiveness of the methylome to environmental exposures of many types, we hypothesized that DNA methylation patterns would differ between KhoeSan and neighbouring agropastoral and/or industrial Bantu. We analysed Illumina HumanMethylation 450 k array data generated from blood samples from 38 KhoeSan and 42 Bantu, and 6 Europeans. After removing CpG positions associated with annotated and novel polymorphisms and controlling for white blood cell composition, sex, age and technical variation we identified 816 differentially methylated CpG loci, out of which 133 had an absolute beta-value difference of at least 0.05. Notably <i>SLC39A4</i>/<i>ZIP4</i>, which plays a role in zinc transport, was one of the most differentially methylated loci. Although the chronological ages of the KhoeSan are not formally recorded, we compared historically estimated ages to methylation-based calculations. This study demonstrates that the epigenetic profile of KhoeSan individuals reveals differences from other populations, and along with extensive genetic diversity, this community brings increased accessibility and understanding to the diversity of the human genome.
DOI: 10.6084/m9.figshare.12923728.v1
title: DNA methylation profiles unique to Kalahari KhoeSan individuals

description: Genomes of KhoeSan individuals of the Kalahari Desert provide the greatest understanding of single nucleotide diversity in the human genome. Compared with individuals in industrialized environments, the KhoeSan have a unique foraging and hunting lifestyle. Given these dramatic environmental differences, and the responsiveness of the methylome to environmental exposures of many types, we hypothesized that DNA methylation patterns would differ between KhoeSan and neighbouring agropastoral and/or industrial Bantu. We analysed Illumina HumanMethylation 450 k array data generated from blood samples from 38 KhoeSan and 42 Bantu, and 6 Europeans. After removing CpG positions associated with annotated and novel polymorphisms and controlling for white blood cell composition, sex, age and technical variation we identified 816 differentially methylated CpG loci, out of which 133 had an absolute beta-value difference of at least 0.05. Notably <i>SLC39A4</i>/<i>ZIP4</i>, which plays a role in zinc transport, was one of the most differentially methylated loci. Although the chronological ages of the KhoeSan are not formally recorded, we compared historically estimated ages to methylation-based calculations. This study demonstrates that the epigenetic profile of KhoeSan individuals reveals differences from other populations, and along with extensive genetic diversity, this community brings increased accessibility and understanding to the diversity of the human genome.
DOI: 10.6084/m9.figshare.12901100.v1
title: Music-listening regulates human microRNA expression

description: Music-listening and performance have been shown to affect human gene expression. In order to further elucidate the biological basis of the effects of music on the human body, we studied the effects of music-listening on gene regulation by sequencing microRNAs of the listeners (Music Group) and their controls (Control Group) without music exposure. We identified upregulation of six microRNAs (hsa-miR-132-3p, hsa-miR-361-5p, hsa-miR-421, hsa-miR-23a-3p, hsa-miR-23b-3p, hsa-miR-25-3p) and downregulation of two microRNAs (hsa-miR-378a-3p, hsa-miR-16-2-3p) in Music Group with high musical aptitude. Some upregulated microRNAs were reported to be responsive to neuronal activity (miR-132, miR-23a, miR-23b) and modulators of neuronal plasticity, CNS myelination, and cognitive functions like long-term potentiation and memory. miR-132 plays a critical role in regulating TAU protein levels and is important for preventing tau protein aggregation that causes Alzheimer’s disease. miR-132 and <i>DICER</i>, upregulated after music-listening, protect dopaminergic neurons and are important for retaining striatal dopamine levels. Some of the transcriptional regulators (<i>FOS, CREB1, JUN, EGR1,</i> and <i>BDNF</i>) of the upregulated microRNAs were immediate early genes and top candidates associated with musical traits. <i>BDNF</i> and SNCA, co-expressed and upregulated in music-listening and music-performance, are both are activated by GATA2, which is associated with musical aptitude. Several miRNAs were associated with song-learning, singing, and seasonal plasticity networks in songbirds. We did not detect any significant changes in microRNA expressions associated with music education or low musical aptitude. Our data thereby show the importance of inherent musical aptitude for music appreciation and for eliciting the human microRNA response to music-listening.
DOI: 10.6084/m9.figshare.12851696.v1
title: In silico structural analysis of sequences containing 5-hydroxymethylcytosine reveals its potential as binding regulator for development, aging and cancer-related transcription factors

description: The presence of 5-hydroxymethyl cytosine in DNA has been previously associated with aging. Using in silico analysis of normal liver samples we presently observed that in 5-hydroxymethyl cytosine sequences, DNA methylation is dependent on the co-presence of G-quadruplexes and palindromes. This association exhibits discrete patterns depending on G-quadruplex and palindrome densities. DNase-Seq data show that 5-hydroxymethyl cytosine sequences are common among liver nucleosomes (<i>p</i>&lt;2.2x10<sup>−16</sup>) and 3-fold more frequent than nucleosome sequences. Nucleosomes lacking palindromes and potential G-quadruplexes are rare in vivo (1%) and nucleosome occupancy potential decreases with increasing G4s. Palindrome distribution is similar to that previously reported in nucleosomes. In low and mixed complexity sequences 5-hydroxymethyl cytosine is frequently located next to three elements: G-quadruplexes or imperfect G-quadruplexes with CpGs, or unstable hairpin loops (TCCCAY<sub>6</sub>TGGGA) mostly located in antisense strands, or finally A-/T-rich segments near these motifs. The high frequencies and selective distribution of pentamer sequences (including TCCCA, TGGGA) probably indicates the positive contribution of 5-hydroxymethyl cytosine to stabilize the formation of structures unstable in the absence this cytosine modification. Common motifs identified in all total 5-hydroxymethyl cytosine-containing sequences exhibit high homology to recognition sites of several transcription factor families: homeobox, factors involved in growth, mortality/aging, cancer, neuronal function, vision and reproduction. We conclude that cytosine hydroxymethylation could play a role in the recognition of sequences with G-quadruplexes/palindromes by forming epigenetically regulated DNA “springs” and governing expansions or compressions recognized by different transcription factors or stabilizing nucleosomes. The balance of these epigenetic elements is lost in hepatocellular carcinoma.
DOI: 10.5281/zenodo.4716021
title: Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia

description: Whale-watching is a major tourism venture in developed and developing countries around the world. The management and conservation of this industry is dependent on social, economic, and ecological factors, but long-term ecological research is often absent. In this study, I present an example of a mature whale-watching location where research on all three variables is available. The University of Victoria’s Whale Research Lab has studied gray whales (Eschrichtius robustus) in Clayoquot Sound, Vancouver Island for over 25 years and I use this information to form the basis for management recommendations that promote sustainable whale-watching practices and other resource use. To do this, I review how whale-watching is managed in Canada, B.C., and Clayoquot Sound, including the legislation and voluntary guidelines that are currently in place, and previous recommendations that have been made. I then analyze how whale-watching is conducted in southern Clayoquot Sound. I quantify boat behaviour with respect to whales and present six indicators of industry pressure that have been related to cetacean disturbance. The 2012 and 2013 seasons had significantly different numbers of whales present, and this was reflected in the fleet behaviour. Whale-watching activities do not appear to alter gray whale foraging efforts between seasons. Results indicated that both industry pressure and vessel behaviour with respect to whales changes depending on the season and the biological dynamics that influence whale presence. Finally, I synthesize findings of the Whale Research Lab in conjunction with my preceding chapters and present five management recommendations to all stakeholders with a vested interest in the continuation of sustainable whale-watching practices in Clayoquot Sound.
description: {"references": ["Stevenson, K. K. (2014). Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia (Masters thesis).", "Stevenson, K. K. (2016). Using Long-Term Ecological Research to Promote Sustainable Whale-Watching Practices in Clayoquot Sound, British Columbia. Tourism in Marine Environments, 11(4), 243-249."]}
DOI: 10.6084/m9.figshare.14473866
title: Interview Guide, Open Access Study

description: Interview guide used for the paper ‘Journal flipping to Open Access: The perception of Spanish journal managers’ submitted at the 18th International Conference on Scientometrics & Informetrics (ISSI 2021) Conference.
DOI: 10.6084/m9.figshare.14473866.v1
title: Interview Guide, Open Access Study

description: Interview guide used for the paper ‘Journal flipping to Open Access: The perception of Spanish journal managers’ submitted at the 18th International Conference on Scientometrics & Informetrics (ISSI 2021) Conference.
DOI: 10.15468/h5h8kq
title: Three new species of Eurystethus from Brazil (Hemiptera: Heteroptera: Pentatomidae)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Correia, André Oliveira, Fernandes, José Antônio Marin, Campos, Luiz Alexandre (2021): Three new species of Eurystethus from Brazil (Hemiptera: Heteroptera: Pentatomidae). Zootaxa 4958 (1): 585-594, DOI: https://doi.org/10.11646/zootaxa.4958.1.34
DOI: 10.5281/zenodo.4716378
title: Snapshot Wisconsin: networking community scientists and remote sensing to improve ecological monitoring and management

description: Data archived in support of manuscript ("Snapshot Wisconsin: networking community scientists and remote sensing to improve ecological monitoring and management", in press, <em>Ecol. Apps.</em>). Scripts for each example in the text denoted as (e.g.) "EX1_code.R", and supporting data files in varied forms share the same prefix structure ("EX1" denotes example 1, etc.). Note that as part of policy agreed upon with the cooperating agency, specific camera locations are not provided given privacy considerations (where camera-specific coordinates were employed within the fitting process, the coordinates have been scaled, or a distance matrix is provided [e.g., for example 6]). Please direct any further queries to authors.
DOI: 10.5281/zenodo.4716377
title: Snapshot Wisconsin: networking community scientists and remote sensing to improve ecological monitoring and management

description: Data archived in support of manuscript ("Snapshot Wisconsin: networking community scientists and remote sensing to improve ecological monitoring and management", in press, <em>Ecol. Apps.</em>). Scripts for each example in the text denoted as (e.g.) "EX1_code.R", and supporting data files in varied forms share the same prefix structure ("EX1" denotes example 1, etc.). Note that as part of policy agreed upon with the cooperating agency, specific camera locations are not provided given privacy considerations (where camera-specific coordinates were employed within the fitting process, the coordinates have been scaled, or a distance matrix is provided [e.g., for example 6]). Please direct any further queries to authors.
DOI: 10.5281/zenodo.4640059
title: Dataset for the spontaneous tail coiling (STC) of zebrafish embryos exposed to single neuroactive substances and their mixtures

description: The spontaneous tail coiling (STC) of zebrafish embryos represents the earliest observable motor activity in the developing neural network. We present here the STC data for single substances (singlechemicaldata) used for the concentration response curves which are published in the paper: "Optimization of the spontaneous tail coiling test for fast assessment of neurotoxic effects in the zebrafish embryo using an automated workflow in KNIME by Ogungbemi et al. 2020. In addition, we present STC data for chemical mixtures (mixturedata) which were used to generate the concentration response curves in the paper manuscript: "Assessing combined effects for mixtures of similar and dissimilar acting neuroactive substances on zebrafish embryo movement by Ogungbemi et al. 2021 For more details on the data, please see the papers.
DOI: 10.5281/zenodo.4640058
title: Dataset for the spontaneous tail coiling (STC) of zebrafish embryos exposed to single neuroactive substances and their mixtures

description: The spontaneous tail coiling (STC) of zebrafish embryos represents the earliest observable motor activity in the developing neural network. We present here the STC data for single substances (singlechemicaldata) used for the concentration response curves which are published in the paper: "Optimization of the spontaneous tail coiling test for fast assessment of neurotoxic effects in the zebrafish embryo using an automated workflow in KNIME by Ogungbemi et al. 2020. In addition, we present STC data for chemical mixtures (mixturedata) which were used to generate the concentration response curves in the paper manuscript: "Assessing combined effects for mixtures of similar and dissimilar acting neuroactive substances on zebrafish embryo movement by Ogungbemi et al. 2021 For more details on the data, please see the papers.
DOI: 10.5281/zenodo.4713726
title: 5G_B5G service classification

description: New generation wireless telecommunications Services classifier in Python software
DOI: 10.5281/zenodo.4716420
title: Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia

description: Whale-watching is a major tourism venture in developed and developing countries around the world. The management and conservation of this industry is dependent on social, economic, and ecological factors, but long-term ecological research is often absent. In this study, I present an example of a mature whale-watching location where research on all three variables is available. The University of Victoria’s Whale Research Lab has studied gray whales (Eschrichtius robustus) in Clayoquot Sound, Vancouver Island for over 25 years and I use this information to form the basis for management recommendations that promote sustainable whale-watching practices and other resource use. To do this, I review how whale-watching is managed in Canada, B.C., and Clayoquot Sound, including the legislation and voluntary guidelines that are currently in place, and previous recommendations that have been made. I then analyze how whale-watching is conducted in southern Clayoquot Sound. I quantify boat behaviour with respect to whales and present six indicators of industry pressure that have been related to cetacean disturbance. The 2012 and 2013 seasons had significantly different numbers of whales present, and this was reflected in the fleet behaviour. Whale-watching activities do not appear to alter gray whale foraging efforts between seasons. Results indicated that both industry pressure and vessel behaviour with respect to whales changes depending on the season and the biological dynamics that influence whale presence. Finally, I synthesize findings of the Whale Research Lab in conjunction with my preceding chapters and present five management recommendations to all stakeholders with a vested interest in the continuation of sustainable whale-watching practices in Clayoquot Sound.
description: {"references": ["Stevenson, K. K. (2014). Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia (Masters thesis).", "Stevenson, K. K. (2016). Using Long-Term Ecological Research to Promote Sustainable Whale-Watching Practices in Clayoquot Sound, British Columbia. Tourism in Marine Environments, 11(4), 243-249."]}
DOI: 10.5281/zenodo.4716020
title: Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia

description: Whale-watching is a major tourism venture in developed and developing countries around the world. The management and conservation of this industry is dependent on social, economic, and ecological factors, but long-term ecological research is often absent. In this study, I present an example of a mature whale-watching location where research on all three variables is available. The University of Victoria’s Whale Research Lab has studied gray whales (Eschrichtius robustus) in Clayoquot Sound, Vancouver Island for over 25 years and I use this information to form the basis for management recommendations that promote sustainable whale-watching practices and other resource use. To do this, I review how whale-watching is managed in Canada, B.C., and Clayoquot Sound, including the legislation and voluntary guidelines that are currently in place, and previous recommendations that have been made. I then analyze how whale-watching is conducted in southern Clayoquot Sound. I quantify boat behaviour with respect to whales and present six indicators of industry pressure that have been related to cetacean disturbance. The 2012 and 2013 seasons had significantly different numbers of whales present, and this was reflected in the fleet behaviour. Whale-watching activities do not appear to alter gray whale foraging efforts between seasons. Results indicated that both industry pressure and vessel behaviour with respect to whales changes depending on the season and the biological dynamics that influence whale presence. Finally, I synthesize findings of the Whale Research Lab in conjunction with my preceding chapters and present five management recommendations to all stakeholders with a vested interest in the continuation of sustainable whale-watching practices in Clayoquot Sound.
description: {"references": ["Stevenson, K. K. (2014). Using long-term ecological research to promote sustainable whale-watching practices in Clayoquot Sound, British Columbia (Masters thesis).", "Stevenson, K. K. (2016). Using Long-Term Ecological Research to Promote Sustainable Whale-Watching Practices in Clayoquot Sound, British Columbia. Tourism in Marine Environments, 11(4), 243-249."]}
DOI: 10.15468/xf2rcd
title: The Moneda Bug, Chrysodarecus moneta Breddin = Placocoris viridis Mayr (Pentatomidae: Discocephalinae: Ochlerini)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Thomas, Donald B. (2021): The Moneda Bug, Chrysodarecus moneta Breddin = Placocoris viridis Mayr (Pentatomidae: Discocephalinae: Ochlerini). Zootaxa 4958 (1): 595-604, DOI: https://doi.org/10.11646/zootaxa.4958.1.35
DOI: 10.5519/qd.49kh74ih
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.5281/zenodo.4716445
title: Simulation of water vapor photodissociation during the dust storm season on Mars

description: The data for SSR article figures.
DOI: 10.5281/zenodo.4716444
title: Simulation of water vapor photodissociation during the dust storm season on Mars

description: The data for SSR article figures.
DOI: 10.5281/zenodo.4660831
title: Data in support of the publication "Probing the Atmospheric Cl Isotopic Ratio on Mars: Implications for Planetary Evolution and Atmospheric Chemistry" on Geophysical Research Letters

description: These data show the vertical profiles and the spectrum represented in Figure 2 of the paper and in FIgure S2 of the Supplementary Materials.
DOI: 10.17632/yf4s297sty.1
title: Centralised coordination of EVs charging and PV active power curtailment over multiple aggregators in low voltage networks

description: This directory contains the following datasets: SOURCE CODE Four scripts in Python are included to obtain the parameters of the whole network and test the proposed optimisation approaches. SENSITIVITY MATRICES, INITIAL VOLTAGES AND LOADING LEVELS OF THE LOW-VOLTAGE FEEDERS Voltage sensitivity matrices are obtained according to the description in Section 4.2, which is implemented in the file "Get_Sensitivity_Coeff_PowerFactory_Aggregator.py" Voltage and loading time series were obtained using the above file for a test period of 30 hours with a 10-minute interval (i.e., 180 slots of time) per phase for every household node using the unbalanced quasi-dynamic power flow (QDPF) POWER/ENERGY BOUNDARIES OF EVs The proposed model in Sections 2.3 to 2.5 is computed through the file "EV_Energy_Power_Bounds_from_Zero.py" It is also included the LV network in PowerFactory V2016 with a series of EVs and PVs. Although these devices have a time-series profile assigned, these are not used for optimisation. However, these can be changed by the profiles derived from the second optimisation strategy to perform further analysis in PowerFactory.
DOI: 10.15468/3acbg2
title: Revision of Macropygium Spinola, 1837 (Hemiptera: Pentatomidae: Ochlerini) with the revalidation of three species and the description of one new species

description: This dataset contains the digitized treatments in Plazi based on the original journal article Silva, Layse Mitsue Harada Da, Campos, Luiz Alexandre (2021): Revision of Macropygium Spinola, 1837 (Hemiptera: Pentatomidae: Ochlerini) with the revalidation of three species and the description of one new species. Zootaxa 4958 (1): 605-627, DOI: https://doi.org/10.11646/zootaxa.4958.1.36
DOI: 10.17632/kxsvzhcfgs.1
title: TEM virus images: benchmark dataset and deep learning classification - CODE

description: This dataset contains the source code and trained weights for two deep learning models described in our paper.
DOI: 10.17632/8vbx5x78dj.1
title: Supplemental figure 1 of the correlations between clinical features, dermoscopic and histopathological findings, and treatment outcomes of patients with pitted keratolysis

description: Supplemental figure 1 The characteristics of each dermoscopic finding
DOI: 10.17632/xf89t95y5k.1
title: Supplemental figure 2 of the correlations between clinical features, dermoscopic and histopathological findings, and treatment outcomes of patients with pitted keratolysis

description: Supplemental figure 2 The histopathology demonstrated color alteration of the keratin with alternate light and dark columns (figure 2A and 2B). Alternate dark and light vertical bands with depressed area corresponding to the light columns (arrow) (Hematoxylin and Eosin x100 and x 200, respectively; figure 2C and 2D). Depressed area with empty space represented the pit with cluster of bacteria along the side and at the bottom of the pit (figure 2C, Hematoxylin and Eosin x 400 and figure 2D, Periodic-acid Schiff x 600)
DOI: 10.17632/9th8b2cr98.1
title: Desiccation-induced curling of mud layers: field observations and experimental insights

description: Data