cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.17632/gjftgd4ymj.1
title: LDHU3_20.0040

description: Histone-lysine N-methyltransferase; H3 lysine-76 specific (DOT1B); Leishmania donovani (HU3 strain)
DOI: 10.17632/fckgppv2n7
title: LDHU3_20.0020

description: RPC2 | RNA polymerase III subunit; Leishmania donovani (HU3 strain)
DOI: 10.17632/fckgppv2n7.1
title: LDHU3_20.0020

description: RPC2 | RNA polymerase III subunit; Leishmania donovani (HU3 strain)
DOI: 10.17632/6py48wpjb4.1
title: Robust Automation and Point of Care IDentification of COVID

description: This study aimed to validate the EasyNAT SARS-CoV-2-Assay, a diagnostic kit based on RT-LAMP, using oral and nasopharyngeal samples. The EasyNAT kit was compared to the Xpert Xpress SARS-CoV-2 kit, evaluating 873 samples obtained during routine analysis at the Microbiology Laboratory of the Hospital Costa del Sol (Marbella, Spain).
DOI: 10.17632/kvfk7mf9vz.1
title: 16S rDNA of the earthworm casts

description: DNA sequencing data of earthworm casts
DOI: 10.17632/kvfk7mf9vz.2
title: Unveiling the Microbial Dynamics in Vermicomposting with Coir Pith as Earthworm Substrate

description: 16s rDNA sequencing data set of earthworm casts fed with different substrate
DOI: 10.17632/2bkk7rxntv.2
title: Data on Jamun Seed (Syzygium cumini) Biochar; surface properties, and adsorption of Ciprofloxacin and Lamivudine: Part 2

description: Initial characterization was conducted on biochar prepared from Jamun Seed (JS) (Syzygium cumini), and used for adsorptive remediation of ciprofloxacin and lamivudine from synthetic water by application of response surface methodology optimization and presented as Part 1 on Mendeley data. This data presents the results of final characterization of JS biochar (Functional groups, Surface properties, and bonding)
DOI: 10.17632/2bkk7rxntv.1
title: Data on Jamun Seed (Syzygium cumini) Biochar; surface properties, and adsorption of Ciprofloxacin and Lamivudine: Part 2

description: Initial characterization was conducted on biochar prepared from Jamun Seed (JS) (Syzygium cumini), and used for adsorptive remediation of ciprofloxacin and lamivudine from synthetic water by application of response surface methodology optimization and presented as Part 1 on Mendeley data. This data presents the results of final characterization of JS biochar (Functional groups, Surface properties, and bonding)
DOI: 10.17632/98wt47r6jt.1
title: Seizure-induced immediate early gene expression with, vs. without, isoflurane anesthesia

description: A single electroconvulsive seizure (ECS), versus sham, was administered to anesthetized and non-anesthetized WT male mice. One hour after ECS, mice were sacrificed and perfused. Sectioned brain tissue was immunofluorescently labeled with an antibody against the IEG Arc. Complete methods are found in associated Data in Brief article (Data on serial electroconvulsive seizure in mice, effects of anesthesia and correlation between age and neurogenesis) and original associated article: Meyers, K.T., et al., Serial electroconvulsive Seizure alters dendritic complexity and promotes cellular proliferation in the mouse dentate gyrus; a role for Egr3. Brain Stimul, 2023. 16(3): p. 889-900. https://doi.org/10.1016/j.brs.2023.04.022
DOI: 10.17632/98wt47r6jt.2
title: Seizure-induced immediate early gene expression with, vs. without, isoflurane anesthesia

description: A single electroconvulsive seizure (ECS), versus sham, was administered to anesthetized and non-anesthetized WT male mice. One hour after ECS, mice were sacrificed and perfused. Sectioned brain tissue was immunofluorescently labeled with an antibody against the IEG Arc. Complete methods are found in associated Data in Brief article (Data on serial electroconvulsive seizure in mice, effects of anesthesia and correlation between age and neurogenesis) and original associated article: Meyers, K.T., et al., Serial electroconvulsive Seizure alters dendritic complexity and promotes cellular proliferation in the mouse dentate gyrus; a role for Egr3. Brain Stimul, 2023. 16(3): p. 889-900. https://doi.org/10.1016/j.brs.2023.04.022
DOI: 10.17632/2j5pzfm2xm.1
title: Microscopy of histone-humanized yeast strains

description: Eukaryotic DNA wraps around well-conserved histone octamers to form nucleosome fibers, which represents the most basic functional organization of chromatin among divergent organisms. As the effects of species-specific changes on nucleosome functions remain poorly characterized, histone replacement between divergent species can help identify processes that are functionally entrenched in different organisms.
In this work we have characterized biological effects of the human-like nucleosomes, showing their direct impact on the overall structure of the chromatin in Saccharomyces cerevisiae. We used transmission electron microscopy (TEM) and found a size increase in the human nucleosome core particle (NCP), linked to shorter free linker DNA, suggesting that chromatin is less accessible. Moreover, human histones caused nucleolar fragmentation linked to rDNA array instability, through an RNA-polymerase II dependent mechanism, leading to its extraordinary, but entirely reversible, intra-chromosomal expansion.
DOI: 10.17632/rdwgnfh23g.1
title: SIRT2 transgenic over-expression does not impact lifespan in mice - associated data

description: Raw data and accompanying R code for analysis and creating figures for the manuscript "SIRT2 transgenic overexpression does not impact lifespan in mice" by Wu LE et al, Aging Cell 2023 (doi: 10.1111/acel.14027). This was a study of lifespan and age-related healthspan in a strain of SIRT2 transgenic mice, showing no impact from the SIRT2 transgene.
DOI: 10.17632/b9sx3h3584.1
title: Cambioscop RO1: Dataset on characterization, quantity and current use of French residual biomasses.

description: The dataset contains information on the physical, biochemical, chemical composition, current use, and annual generation of crop residues, primary forestry residues, pruning residues, manure, green/garden waste, sewage sludge, household biowaste, and agroindustrial residues. Detailed information on each document is provided below:
1. Characterization of french residual biomasses
The dataset contains several assumptions about the composition of the abovementioned residues, which are further detailed in the supplied documents. The characterization of forestry residues (CamPFR) is calculated based on a weighted average of different forest types in France. The characterization of crop residues (collectively called as CamCR for the Cambioscop project) is calculated based on the weighted averages of the distribution of the selected crop residues in France. The sources of all composition values are provided in the document.
2. Current use of french residual biomasses
The dataset on current use was estimated based on literature surveys, NIR reports, and expert options-guided assumptions. The sources are provided in the document. 
3. Generated amount and spatial quantification
The data for crop residues and primary forestry residues were estimated using functional equations and spatial modelling frameworks respectively. The data for all other streams were obtained from national reports.
DOI: 10.17632/b9sx3h3584.2
title: Cambioscop RO1: Dataset on characterization, quantity and current use of French residual biomasses.

description: The dataset provides comprehensive information on various aspects of biomass residues, including physical, biochemical, and chemical composition, current usage, and annual generation. It covers crop residues, primary forestry residues, pruning residues, manure, green/garden waste, sewage sludge, household biowaste, and agroindustrial residues. Each document in the dataset offers detailed insights into specific aspects of the residues. Here is an overview of the contents:

SI.1. Characterization: This section focuses on characterizing residual biomasses in France. The dataset includes assumptions regarding the composition of different residues, and these assumptions are explained in the accompanying documents. The characterization of forestry residues (CamPFR) is derived from a weighted average of various forest types in France. Similarly, the characterization of crop residues (referred to as CamCR for the Cambioscop project) is calculated based on weighted averages of the distribution of selected crop residues in the country. The document provides sources for all composition values.

SI.2. Current_uses: This section provides information on the current usage of residual biomasses in France. The dataset's estimates are based on literature surveys, reports from UNFCCC NIR, and expert-guided assumptions. The document lists the sources for these estimates.

SI.3. Spatial_quantification: In this section, the dataset presents the generated amounts and spatial quantification of various residues. Functional equations are used to estimate data for crop residues, while spatial modeling frameworks are employed for primary forestry residues. The data for other streams are obtained from national reports.

Version 2 of the dataset introduces refined estimates for manure and current usage, which impacts the overall potential. Consequently, new maps have been generated using the revised values and have been included in the updated files. These documents also serve as supplementary data for a manuscript.
DOI: 10.17632/b9sx3h3584.3
title: Cambioscop RO1: Dataset on characterization, quantity and current use of French residual biomasses.

description: The dataset provides comprehensive information on various aspects of biomass residues, including physical, biochemical, and chemical composition, current usage, and annual generation. It covers crop residues, primary forestry residues, pruning residues, manure, green/garden waste, sewage sludge, household biowaste, and agroindustrial residues. Each document in the dataset offers detailed insights into specific aspects of the residues. This is the third version of the data (Version 3). Here is an overview of the contents:
1) SI.1.Characterization: Description of the composition of the different residual streams.
2) SI.2.Current_uses: Information on the current usage of residual biomasses in France.
3) SI.3.Spatial_quantification: Generated amount and spatial quantification of the selected residual streams for France (include background data for Figure 3 of the main manuscript).
a. The document is accompanied by background data and calculation for each stream:
b. SI.3.Crop_residues
c. SI.3.Green_residues
d. SI.3.Household_biowaste
e. SI.3.Manure_generation
f. SI.3.Pruning_residues
g. SI.3.Sludge
h. SI.3.Potential_tot (background data for Table 1 of the main manuscript).
4) SI.4.LCI: Details the life cycle inventories (LCI) of current residual biomass management pathways (including process flows diagrams, technological parameters, background processes selected, etc.) as well as the modeling of marginal suppliers of electricity, heat and fertilizing services for the French context.
a. The document is accompanied by the parametric LCI models (excel spreadsheets) for each pathway (gathered under umbrella categories).
b. SI.4.AD_module (anaerobic digestion LCI)
c. SI.4.Combust_module (open-air burning, incineration and domestic furnace LCIs)
d. SI.4.Compost module (industrial and open-air composting LCIs)
e. SI.4.Land_module (decay, spreading, aerobic treatment LCIs)
f. SI.4.Context_modeling (electricity, heat, fertilizing services marginal suppliers LCAs)
5) SI.5.Unitary_LCA_results: Individual Monte Carlo simulations performed for each reported (pathway; feedstock) combination. Includes statistical analysis and background data for Table 2 and 3 of the main manuscript.
6) SI.6.Scaled_LCA_model: Consolidated model to estimate the residual biomass baseline performance as well as its variance (use precalculated LCA results from previous sheets). Includes background data for the Figure 2 of the main manuscript.
7) SI.6.Scaled_LCA_results: Monte Carlo simulations performed on the “Scaled_LCA_model”: background data for Figure 1 of the main manuscript
The link to the main manuscript will be added once it is published.
DOI: 10.17632/hn9v9yvjps.2
title: Water solubility of olivine under redox-controlled deep mantle conditions: effects of pressure, temperature and coexisting fluids and geochemical implications

description: The file is the dataset for the manuscript entitled 'Water solubility of olivine under redox-controlled deep mantle conditions: effects of pressure, temperature and coexisting fluids and geochemical implications' by Zhang et al., including chemical composition of starting and recovered olivine samples, details of run conditions, and water contents in annealed olivine shown in the manuscript.
DOI: 10.17632/b9sx3h3584.4
title: Cambioscop RO1: Dataset on characterization, quantity and current use of French residual biomasses.

description: The dataset provides comprehensive information on various aspects of biomass residues, including physical, biochemical, and chemical composition, current usage, and annual generation. It covers crop residues, primary forestry residues, pruning residues, manure, green/garden waste, sewage sludge, household biowaste, and agroindustrial residues. Each document in the dataset offers detailed insights into specific aspects of the residues. This is the fourth version of the data (Version 4). Here is an overview of the contents:
1) SI.1.Characterization: Description of the composition of the different residual streams.
2) SI.2.Current_uses: Information on the current usage of residual biomasses in France.
3) SI.3.Spatial_quantification: Generated amount and spatial quantification of the selected residual streams for France (include background data for Figure 3 of the main manuscript).
a. The document is accompanied by background data and calculation for each stream:
b. SI.3.Crop_residues
c. SI.3.Green_residues
d. SI.3.Household_biowaste
e. SI.3.Manure_generation
f. SI.3.Pruning_residues
g. SI.3.Sludge
h. SI.3.Potential_tot (background data for Table 1 of the main manuscript).
4) SI.4.LCI: Details the life cycle inventories (LCI) of current residual biomass management pathways (including process flows diagrams, technological parameters, background processes selected, etc.) as well as the modeling of marginal suppliers of electricity, heat and fertilizing services for the French context.
a. The document is accompanied by the parametric LCI models (excel spreadsheets) for each pathway (gathered under umbrella categories).
b. SI.4.AD_module (anaerobic digestion LCI)
c. SI.4.Combust_module (open-air burning, incineration and domestic furnace LCIs)
d. SI.4.Compost module (industrial and open-air composting LCIs)
e. SI.4.Land_module (decay, spreading, aerobic treatment LCIs)
f. SI.4.Context_modeling (electricity, heat, fertilizing services marginal suppliers LCAs)
5) SI.5.Unitary_LCA_results: Individual Monte Carlo simulations performed for each reported (pathway; feedstock) combination. Includes statistical analysis and background data for Table 2 and 3 of the main manuscript.
6) SI.6.Scaled_LCA_model: Consolidated model to estimate the residual biomass baseline performance as well as its variance (use precalculated LCA results from previous sheets). Includes background data for the Figure 2 of the main manuscript.
7) SI.6.Scaled_LCA_results: Monte Carlo simulations performed on the “Scaled_LCA_model”: background data for Figure 1 of the main manuscript
The link to the main manuscript will be added once it is published.
DOI: 10.17632/tym567zw5j.1
title: National Strategic Food Commodity Price

description: The Strategic Food Price Information Center is a digital-based information system managed by Bank Indonesia since 2016, and functions to collect and disseminate prices of strategic food commodities in all provinces in Indonesia. The price information presented includes strategic food commodities such as rice, purebred chicken eggs, purebred chicken meat, beef, red chilies, cayenne peppers, shallots, garlic, cooking oil and granulated sugar. Until 2023, the National PIHPS price monitoring survey will cover four types of markets, namely traditional markets, modern markets, wholesalers and producers.
DOI: 10.17632/ycw2wh32d7.1
title: Impact of Weeding frequency and Rates of NPS fertilizer on food barley Yield performances

description: The research was to determine the optimum rate of weeding frequency and blended NPS rate of fertilizer for barley yield. The results indicated that the greatest benefits of NPS fertilizer rates and weeding frequency were shown in days to 50% heading and days to 90% physiological maturity, with a very significant (P&lt;0.01) effect.The combination effect of NPS fertilizer rates and weeding frequencies had a highly significant (P&lt;0.01) effect on biomass yield, grain yield, straw yield, harvest index, spike length, number of effective tillers, tillers total/plant, thousand kernel weight, and plant height of food barley.
DOI: 10.17632/vg9sy4k8jf.1
title: Dataset for "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)"

description: The files included in this directory contain the raw dataset visualized and discussed in the manuscript titled: "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)", as well as the Python code used to analyze and visualize the data. 
The supplementary data file - "Supplementary_data.xlsx" contains the raw data.
The two python files contain python code used to carry out linear age interpolation and calculate epsilon Nd(t) values, respectively. 
The code used for data visualization can be found in several notebooks in the GitHub repository at the following link: https://github.com/oluwaseun-edward/notebooks
DOI: 10.17632/vg9sy4k8jf.2
title: Dataset for "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)"

description: The files included in this directory contain the raw dataset visualized and discussed in the manuscript titled: "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)", as well as the Python code used to analyze and visualize the data. 
The supplementary data file - "Supplementary_data.xlsx" contains the raw data.
The two python files contain python code used to carry out linear age interpolation and calculate epsilon Nd(t) values, respectively. 
The code used for data visualization can be found in several notebooks in the GitHub repository at the following link: https://github.com/oluwaseun-edward/notebooks
DOI: 10.17632/vg9sy4k8jf.3
title: Dataset for "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)"

description: The files included in this directory contain the raw dataset visualized and discussed in the manuscript titled: "Evidence for Variable Provenance of Mercury Anomalies During the Smithian–Spathian (Olenekian)", as well as the Python code used to analyze and visualize the data. 
The supplementary data file - "Edward et al_2023_Data-file.xlsx" contains the raw data.
The two python files contain python code used to carry out linear age interpolation and calculate epsilon Nd(t) values, respectively. 
The code used for data visualization can be found in several notebooks in the GitHub repository at the following link: https://github.com/oluwaseun-edward/notebooks
DOI: 10.17632/x6z25n3z2z.1
title: Systematic Dissection of Sequence Features Affecting the Binding Specificity of a Pioneer Factor Reveals Binding Synergy Between FOXA1 and AP-1

description: Despite the unique ability of pioneer transcription factors (PFs) to target nucleosomal sites in closed chromatin, they only bind a small fraction of their genomic motifs. The underlying mechanism of this selectivity is not well understood. Here, we design a high-throughput assay called ChIP-ISO to systematically dissect sequence features affecting the binding specificity of a classic PF, FOXA1, in human A549 cells. Combining ChIP-ISO with in vitro and neural network analyses, we find that 1) FOXA1 binding is strongly affected by co-binding TFs AP-1 and CEBPB, 2) FOXA1 and AP-1 show binding cooperativity in vitro, 3) FOXA1’s binding is determined more by local sequences than chromatin context, including eu-/heterochromatin, and 4) AP-1 is partially responsible for differential binding of FOXA1 in different cell types. Our study presents a framework for elucidating genetic rules underlying PF binding specificity and reveals a mechanism for context-specific regulation of its binding.
DOI: 10.17632/xcxnvbrdnp.1
title: Salmonella Midway

description: An adult male of corn snake (Pantherophis guttatus) was found dead due to septic shock 48 hours after the consumption of a feeder mouse purchased online. Microbiological examinations of the snake and mouse livers revealed the presence of Salmonella enterica ser. Midway. To investigate whether the mouse was the source of infection for the snake, the two Salmonella isolates, from the snake and the mouse, were characterized and subjected to whole genome sequencing, to see if they belonged to the same strain. The genome analysis of the two isolates showed a highly correlation between them: they belonged to the strain type ST-357 for the classic MLST scheme, and to the strain type ST 171322 for the cgMLST scheme.
DOI: 10.17632/xcxnvbrdnp.2
title: Salmonella Midway

description: An adult male of corn snake (Pantherophis guttatus) was found dead due to septic shock 48 hours after the consumption of a feeder mouse purchased online. Microbiological examinations of the snake and mouse livers revealed the presence of Salmonella enterica ser. Midway. To investigate whether the mouse was the source of infection for the snake, the two Salmonella isolates, from the snake and the mouse, were characterized and subjected to whole genome sequencing, to see if they belonged to the same strain. The genome analysis of the two isolates showed a highly correlation between them: they belonged to the strain type ST-357 for the classic MLST scheme, and to the strain type ST 171322 for the cgMLST scheme.
DOI: 10.17632/nfpynp8jp2.1
title: Osteosarcoma cell density upon 48h incubation with luteolin derivatives

description: This dataset presents osteosarcoma cell density in the presence of flavonoid derivatives. MG-63, Saos-2, HOS and 143B osteosarcoma cells were incubated with luteolin and structurally-related flavonoids in complete DMEM medium (10% FBS) for 48h. After staining, micrographs were taken at 40x magnification.
DOI: 10.17632/nfpynp8jp2.2
title: Osteosarcoma cell density upon 48h incubation with luteolin derivatives

description: This dataset presents osteosarcoma cell density in the presence of flavonoid derivatives. MG-63, Saos-2, HOS and 143B osteosarcoma cells were incubated with luteolin and structurally-related flavonoids in complete DMEM medium (10% FBS) for 48h. After staining, micrographs were taken at 40x magnification.