cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/y47mj24ywy.1
title: Meta-analysis data of skeletal muscle slow fiber content across mammalian species

description: Skeletal muscle slow fiber (MyHC-I) content varies across muscles and taxa and is one of the traits that distinguishes humans from other apes, yet no study to date has compiled this interspecific data into a single, usable format. Thus, the goal of this study was to collate mammalian skeletal muscle slow fiber composition data from published, peer-reviewed articles into a single, open-access Excel sheet for interspecific comparison and analysis (as in Queeno et al., 2023). 

A systematic literature search and review was conducted between June 1 2021 and November 30 2022 following a structure similar to PRISMA. Terms relating to mammalian skeletal muscle fiber composition were queried using academic search systems (e.g. Google Scholar) and library databases for relevant primary articles. Reference lists in relevant articles were thoroughly investigated for eligible studies. In total, 268 primary articles were deemed eligible for inclusion in the meta-analysis (i.e. these studies provided skeletal muscle fiber composition data from mammalian species that were not subjected to experimental manipulations). Relevant metadata (e.g., taxonomic information, sex, age, fiber-typing methodology, average body mass, and average percent slow fiber content) was then extracted from the text, figures, tables, and supplementary materials of eligible studies when available.

Muscle fiber composition data was collected from more than 200 skeletal muscles across 174 mammalian species, which will be of immense value to those interested in muscle physiology, interspecific muscle comparisons, and connections between muscle physiology, taxonomy, body mass, ecomorphology and locomotor strategy (among others). These data highlight certain species, taxonomic orders, and muscles for which fiber composition data is lacking and needs investigation. Hopefully, these data will spark interest in gathering muscle fiber composition data from underrepresented species and muscles, and generate interest in pursuing questions relating to muscle physiology and evolution, as well as analyses based on interspecific datasets.
DOI: 10.17632/y47mj24ywy.2
title: Meta-analysis data of skeletal muscle slow fiber content across mammalian species

description: Skeletal muscle slow fiber (MyHC-I) content varies across muscles and taxa and is one of the traits that distinguishes humans from other apes, yet no study to date has compiled this interspecific data into a single, usable format. Thus, the goal of this study was to collate mammalian skeletal muscle slow fiber composition data from published, peer-reviewed articles into a single, open-access Excel sheet for interspecific comparison and analysis (as in Queeno et al., 2023). 

A systematic literature search and review was conducted between June 1 2021 and November 30 2022 following a structure similar to PRISMA. Terms relating to mammalian skeletal muscle fiber composition were queried using academic search systems (e.g. Google Scholar) and library databases for relevant primary articles. Reference lists in relevant articles were thoroughly investigated for eligible studies. In total, 268 primary articles were deemed eligible for inclusion in the meta-analysis (i.e. these studies provided skeletal muscle fiber composition data from mammalian species that were not subjected to experimental manipulations). Relevant metadata (e.g. taxonomic information, sex, age, fiber-typing methodology, average body mass, and average percent slow fiber content) was then extracted from the text, figures, tables, and supplementary materials of eligible studies when available.

Muscle fiber composition data was collected from more than 200 skeletal muscles across 174 mammalian species, which will be of immense value to those interested in muscle physiology, interspecific muscle comparisons, and connections between muscle physiology, taxonomy, body mass, ecomorphology and locomotor strategy (among others). These data highlight certain species, taxonomic orders, and muscles for which fiber composition data is lacking and needs investigation. Hopefully, these data will spark interest in gathering muscle fiber composition data from underrepresented species and muscles, and generate interest in pursuing questions relating to muscle physiology and evolution, as well as analyses based on interspecific datasets.
DOI: 10.17632/yn7yht93cd.1
title: Badain Jaran Desert groundwater recharge

description: All the data was used to study groundwater sources in a desert in China. Muti-logging data contains temperature, conductivity logging results, and seepage velocity data. The simulated rainfall test includes the distribution of water content and TDS in the soil profile after simulated heavy precipitation. The isotope data contains hydrogen and oxygen isotope data of different water bodies in the desert and surrounding areas, which is used to determine the groundwater source in the desert. It also included the hydraulic connection test, which shows the water level monitoring of adjacent wells while pumping a single well.
DOI: 10.17632/vd5473hvbr.2
title: ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF

description: In Figure 1, we performed immunoblotting to confirm that ZFP143 could be depleted from the established mESCs. We conclude that ZFP143 could be depleted from the established mESCs within 2 hours of dTAG-V1 treatment. In Figures 4, 6, S6, S7, S11 we analysed the direct functional consequences of ZFP143 loss on nascent transcriptome, stable mRNA pool and protein abundance. The majority of genes affected by ZFP143 loss are down-regulated, consistent with its role as a transcriptional activator. Gene set enrichment analysis revealed that genes involved in mitochondrial translation and oxidative phosphorylation components show significant down-regulation in nascent and stable transcriptomes. Furthermore, ZFP143-bound genes that are down-regulated in transcription at early time points are manifested in the proteome at later time points. Taken together, these results show that ZFP143 is a transcriptional regulator of nuclear-encoded mitochondrial genes and its depletion has an immediate effect on their transcription, mRNA and protein levels. In Figures 5, S8 and S9 we aimed to investigate the effect of prolonged loss of ZFP143 on mESCs. We first assessed the morphology of mESCs colonies, quantified cell growth, analysed the cell cycle and performed an Annexin V apoptosis assay. The mESCs colonies of cells depleted of ZFP143 lose their dome-like structure and show a clear reduction in cell number. We did not observe a shift in cell cycle phase following ZFP143 depletion. However, we observed a decrease in EdU signal intensity for the S phase cells, suggesting lower EdU incorporation rates. The percentage of Annexin V-positive cells was slightly increased at later time points, but remained consistently low overall. Secondly, we visualised mitochondria in live cells and measured the mitochondrial membrane potential. In control mESCs, we observed elongated mitochondria and mitochondrial networks with high connectivity, whereas ZFP143-depleted cells show increased amounts of larger, circular mitochondria that have fewer interactions with each other. In addition, ZFP143 depletion resulted in a gradual loss of TMRE intensity, indicating that more depolarised mitochondria were present with longer dTAG-V1 treatment time. In Figures 6, S10 and S11 we investigated the role of ZFP143 in development and differentiation. We depleted ZFP143 in gastruloids, a model of early development, and analysed the growth dynamics of gastruloids in the presence and absence of ZFP143. We then tested whether the loss of ZFP143 had an effect on the mitochondrial membrane potential in gastruloids. We found that ZFP143-depleted gastruloids failed to elongate and produced a small spherical aggregate at the latest time points. We also observed an increase in cells with depolarised mitochondria in ZFP143-depleted gastruloids.
DOI: 10.17632/zhm4kn6sfn.2
title: Test-bed Dataset for Optical-Based In-Body Communications Research

description: This dataset contains measurement data from a test-bed specifically for optical-based in-body communication research. The dataset includes three files: a free-space channel, an optical phantom, and biological tissues using a fresh pork meat sample in an ex-vivo experiment. The data (in .xlsx format) presents the impact of controlling the Near-infrared LED's current and adjusting the photodetector's gain setting on the received optical power. In this dataset, two types of receivers were used for the mentioned test bed: an optical power meter and a photodetector amplifier module. The optical power meter can be controlled manually for its attenuation, but in this dataset, we used two settings: 0 dB and -4.30 dB to match the photodetector reading. The measurement using a photodetector amplifier module was obtained by converting the photodetector's output voltage read from the oscilloscope based on the provided datasheet. However, it should be normalized by multiplying it with a specific value. The free space test comprises 5 cm, 7.5 cm, 10 cm, 12.5 cm, and 15 cm of optical distance. The test with samples involved tissue-mimicking phantom (human soft tissue) and actual biological tissues, i.e., pork meat samples containing pure fat and muscle tissues. This dataset provides valuable information regarding the standardized test-bed for researchers working in optical-based in-body communication studies, especially when using the near-infrared spectrum 810 nm, which was considered good for penetrating the human body. This dataset was also a good reference for researchers working on Optical Wireless Power Transfer (OWPT) in a free-space setting or through the human body.
DOI: 10.17632/48y47rv4ym.2
title: Cell Cycle Imaging: Mitotic chromosomes are self-entangled and disentangle through a Topoisomerase II-dependent two stage exit from mitosis

description: The topological state of chromosomes determines their mechanical properties, dynamics, and function. Recent work indicated that interphase chromosomes are largely free of entanglements. Here, we use Hi-C, polymer simulations and multi-contact 3C, and propose that, in contrast, mitotic chromosomes are self-entangled. We explore how a mitotic self-entangled state is converted into an unentangled interphase state during mitotic exit. Most mitotic entanglements are removed during anaphase/telophase, with remaining ones removed during early G1, in a Topoisomerase II-dependent process. Polymer models suggest a two-stage disentanglement pathway: first, decondensation of mitotic chromosomes with remaining condensin loops produces entropic forces that bias Topoisomerase II activity towards decatenation. At the second stage, the loops are released, and formation of new entanglements is prevented by lower Topoisomerase II activity, allowing the establishment of unentangled and territorial G1 chromosomes. When mitotic entanglements are not removed, in experiment and models, a normal interphase state cannot be acquired. 

Original microscopy images supporting this dataset are included in this repository.
DOI: 10.17632/9zcx745h4j.1
title: Miniseed files from the ambient noise Granada survey acquired with 20s 3C seismometers

description: Ambient noise recording at Granada city (Spain) using 20s 3C seismometers (data recorded for maximum of 7 days, 200 Hz sampling frequency). Locations are: Facultad de Ciencias (FacCiencias), García Lorca House Museum (GarcLorca), Parque de las Ciencias (ParqueCiencias), IGME office in Granada (IGME), Palacio de Congresos (PalCong), Escolapios School (Escolapios), Estación Experimental del Zaidín-CSIC (EstExpZaidin), Instituto de Astrofísica de Andalucía-CSIC (IAA), Hotel Macià Real de la Alhambra (Hotel) . Outside the city but included in the same survey: Granada D1 borehole, Belicena, IACT, Cenes de la Vega, and Pinos Puente
DOI: 10.17632/pdpgf4ffmz.1
title: Anthocyanins – MS spectrum

description: This dataset comprises Mass Spectrometry (MS) spectra obtained from red cabbage. The spectra are integral to a research initiative titled "Coacervation of Double Emulsions with Anthocyanins Using Plant-Based Proteins." This investigation explores the innovative application of plant-derived proteins for encapsulating anthocyanins within double emulsion systems. Anthocyanins, natural pigments found in red cabbage and other plants, are known for their antioxidant properties and potential health benefits. The project aims to harness these compounds for enhanced stability and bioavailability, potentially leading to novel food, pharmaceutical, and cosmetic applications. The research is being conducted under the auspices of the SONATA program, backed by the National Science Center, Poland, with the project reference number 2021/43/D/NZ9/01572. This funding initiative supports exploratory scientific projects that push the boundaries of knowledge in their respective fields, enabling cutting-edge research like this to develop innovative solutions for industry challenges.
DOI: 10.17632/xb3pxmpjgn.1
title: Social Media Posts: An Experience Sampling Study of Posting and Social Comparisons

description: The study was conducted among 71 undergraduate students. Participants completed a baseline survey consisting of sociodemographic information, social media use metrics, Rosenberg Self-esteem Scale and the Inventory of Parent Peer Attachment. Using experience sampling method, participants reported six times per day for 5 days on their social media use in the previous hour (including posting, posting valence, and social comparison) and their momentary experiences of connectedness and self-esteem.
DOI: 10.17632/zj8z7bmbn3.1
title: Avendaño et al. Manganammox paper GCA

description: These data present the results derived from incubations of marine sediments to assess the capacity of the microbial biota to perform the feammox and manganammox processes. They include kinetics with measurements of ammonium concentration, as well as the production of 30N2, Fe(II), and Mn(II). Additionally, results derived from XRD analysis are also included.
DOI: 10.17632/b4j39ccj8t.1
title: Using Scopus and OpenAlex APIs to retrieve bibliographic data for evidence synthesis. A procedure based on Bash and SQL

description: This code base was developed to retrieve bibliographic data from Scopus and OpenAlex APIs to support evidence synthesis and is written in Bash and SQL.

The code base constitutes Supplementary Material to the article "Using Scopus and OpenAlex APIs to retrieve bibliographic data for evidence synthesis. A procedure based on Bash and SQL" published in MethodsX. 
The article provides an overview of the procedure and its context and is available freely from https://dx.doi.org/10.1016/j.mex.2024.102601.
DOI: 10.17632/fpmnncmg84.1
title: ERWIAM dataset

description: Annotated image dataset of Fire blight symptoms for object detection in orchards.

Monitoring plant diseases in tree nurseries, breeding farms and orchards is essential for maintaining plant health. One of the most dangerous diseases in fruit growing is fire blight (Erwinia amylovora), as it can spread epidemically and cause enormous economic damage. In this context, a digital disease monitoring system for fire blight based on RGB images was developed for orchards. Data was collected on a total of nine dates in 2021, 2022 and 2023 under different weather conditions and with different cameras. The RGB images were taken of different apple genotypes after artificial inoculation with Erwinia amylovora, including varieties, wild species and progeny from breeding. The presented ERWIAM dataset contains manually labelled RGB images with a size of 1280 x 1280 pixels of fire blight infected shoots, flowers and leaves at different stages of development as well as background images without symptoms. In addition, symptoms of other plant diseases were recorded and integrated into the ERWIAM dataset as a separate class. The dataset contains a total of 1,611 annotated images and 87 background images. This dataset can be used as a resource for researchers and developers working on digital plant disease monitoring systems.
DOI: 10.5258/soton/d3180
title: Dataset for the thesis 'Gender across cultures: Insights through meta-ethnography and a Cypriot Delphi exploration

description: This dataset includes the following:
1. Participant Responses from Round 1
2. Participant Responses from Round 2
3. Participant Responses from Round 3
4. Delphi Round Summaries & Results from all Delphi Rounds
5. Demographics for participants that dropped out
6. Demographics for participants that completed all three rounds
7. Statements used across three rounds of Delphi
DOI: 10.17632/6xjm4mkhw8.1
title: Data for Publication

description: This dataset offers a comprehensive analysis of the water quality of the River Jhelum, encompassing Water Quality Index (WQI) values that reveal significant spatial variations across different sections of the river. Detailed statistical analyses of water samples from upstream, midstream, and downstream sections are provided, offering insights into the water quality dynamics. The dataset also includes eigenvalues and detailed descriptions of the components extracted from the correlation matrix, facilitating a deeper understanding of the underlying factors influencing water quality. Additionally, a three-dimensional biplot illustrates the relationships between the first three principal components and the highly correlated variables, supported by hierarchical clustering using Ward's Linkage and Euclidean Distance metrics, which further elucidate the complex interactions within the water quality data.
DOI: 10.17632/scr529r5bk.1
title: EENSANE cross-correlations

description: This dataset consists in ambient noise cross-correlations between permanent and temporary broadband seismic stations that operated in Eastern, Central and Northern Europe between 1999 and 2020.
DOI: 10.17632/xxv975gj4s.1
title: LINF_230010000

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/v37t4jkfxj.1
title: LINF_230008800

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/j3tjx895fj.1
title: LINF_230009700

description: permease-like protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/6smy53nwbx.1
title: Smart Charging Strategies for Electric Bus Fleets with Aggregator Support: A Robust Bi-level Optimisation Approach

description: This dataset is part of the thesis "Smart Charging Strategies for Electric Bus Fleets with Aggregator Support: A Robust Bi-level Optimisation Approach", submitted in accordance with the requirements for the degree of Doctor of Philosophy in Sustainable Energy Systems, supervised by Professor Carlos Henggeler Antunes and Professor João Pedro Fernandes Trovão, and presented to the Department of Electrical and Computer Engineering of the Faculty of Sciences and Technology of the University of Coimbra.
DOI: 10.17632/hg5trcfk7g.1
title: LINF_230007000

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/dvw3rtpt3x.1
title: LINF_230008600

description: protein of unknown function - conserved; Leishmania infantum (strain JPCM5)
DOI: 10.17632/9rgmzd78rs.1
title: Framing Experiment - Radical Left and Right Discourses (US, Brazil and Italy)

description: Survey experiment to examine the impact of exposure to radical left and right discourses on support for their respective ideas. Convenience sample of 1,803 participants (603 in the United States, 598 in Brazil, and 602 in Italy) obtained from an online collected through a survey provider.
DOI: 10.17632/wt7j49rn7t.1
title: LDHU3_03.0280

description: PHOX (PX) domain-containing protein; Leishmania donovani (HU3 strain)
DOI: 10.17632/f5wjbcbtnf.1
title: LDHU3_03.0240

description: Hypothetical protein - conserved; Leishmania donovani (HU3 strain)
DOI: 10.17632/hvknz39kdf.1
title: LDHU3_03.0210

description: Protein kinase; Leishmania donovani (HU3 strain)
DOI: 10.17632/wkg23cjz77.1
title: NCC_GCA_2024_Data

description: Raw data for all figures in the manuscript by Ying Chen, Jian Zhang, Peng Gao, Changqing Yin, Jiahui Qian, Jin Liu, Xiao Wang, Changquan Cheng to be submitted to Geochimica et Cosmochimica Acta.
DOI: 10.17632/f7dygsh9kr.1
title: LINF_230017025

description: sucrose hydrolase-like protein; Leishmania infantum (strain JPCM5)
DOI: 10.17632/gzhz7pjpg9.1
title: Data from: Iguanas on a hot tin roof: Effects of season and temperature on the daily activity patterns of the Motagua spiny-tailed iguana between forested and semi-urban areas

description: Dataset of recordings of VeDBA and ambient temperature related to activity records of 19 Motagua spiny-tailed iguana (Ctenosaura palearis) tracked from April to September of 2023 in Motagua valley, Guatemala, Central America.
DOI: 10.17632/tk4bjggsns.1
title: data part 1 for "Characterization of Pik1 function in fission yeast reveals its conserved role in lipid synthesis and not cytokinesis"

description: All data associated with the corresponding manuscript
DOI: 10.17632/5m9yvjyrpk.1
title: Container retrieval probability matrix prediction

description: Data that can be used to train the model for predicting the container retrieval probability matrix in the container terminal. There are 280,542 records from 216 export vessels. The dataset Description is provided in the readme.txt file.
DOI: 10.17632/rvbgvrccrg.2
title: Vanheukelom2024_XRD-pattern

description: The XRD patterns of the bulk soil samples with added ZnO (10wt%).
DOI: 10.17632/ct97f47yw5.1
title: Data of characteristics of particulate organic matter separated from different soils in the Yellow River Delta

description: We provide several data in this paper used in the research article “Spatial heterogeneity of particulate organic matter (POM) for the sorption of ciprofloxacin at the microstructure scale”. POM is an organic-mineral complex comprising of organic debris, light-density organic matter and has a relatively high turnover rate in the soil active organic carbon pool. POM has complex morphological structure, containing varying surface and inner interspacing pore structure, depends on the parent plants species and fragments as well as on its decomposition degree [1,2]. POM fragments were colonized by the microbial population, and simultaneously adsorbed clay-sized minerals [2,3]. Thus, the porous characteristics of POM containing the surface and inner interspacing pore structure showed in Table 1, the components and the proportion of organic functional groups detailed information showed in Fig.1.
Samples were analyzed using SEM (Hitachi S-4800, Japan) to determine the organic-mineral of POM and the SEM images of the POM on the silicon wafer showed in Fig.2(a) and Fig.2(b), subsequently this data were the foundation for further analyzed by NanoSIMS in the related research article showed in Fig.2(c).
DOI: 10.15468/dl.5p6nw8
title: Occurrence Download

description: A dataset containing 989 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-9.24226 52.54275,-7.08355 52.54275,-7.08355 54.0623,-7.86075 54.21986,-9.24226 54.0623,-9.24226 52.54275))",
 "HasGeospatialIssue is false",
 "TaxonKey is Sympetrum Newman, 1833",
 "Year 2019-2023"
 ]
}

 The dataset includes 989 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004266-250117142028555/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.