cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.5865635
title: Dataset related to article "Bayesian inference of physico-chemical quality elements of a tropical lagoon Nokoué"

description: These data are associated with the paper being submitted entitled: <strong>Bayesian inference of tools for assessment of the physicochemical quality of a tropical lagoon.</strong> The data collection covered a 9-year period divided into three sets of years: 2002 - 2006; 2014 -2016; and 2021. All data were acquired from several comparable scientific studies using the same methods (AFNOR, 1997). The first two sets of data had approximately 16% missing data. The imputation of these missing data was performed using the non-parametric "missForest" algorithm for mixed type data. These data sets come from our field work and the field work that led to the following publications: Gnohossou, 2006; Odountan et al., 2019, Zandagba et al., 2016a, 2016b) . A total of 20 parameters were monitored, among which the following 17 physico-chemical parameters were selected: <strong>Water temperature (Temp), transparency (Trans), turbidity (Turb), conductivity (Cond), salinity (Sal), pH, dissolved oxygen (DO), BOD, COD, Kjeldahl nitrogen (TKN), ammonium, nitrates, nitrites, dry organic matter (DM), orthophosphates (Ortho_P), total phosphorus (TP), suspended solids (SM).</strong> The geographical distribution of the sampling points is made in order to cover the whole Nokoué lagoon complex. In total, 20 sampling points were monitored. The parameters were measured according to the four seasons of the year and/or according to the succession of high water, low water, high water and low water transitions. Nine driving forces described as factors likely to induce pressure were retained to explain the physico-chemical characteristics of the Nokoué. The data from the land use maps obtained were used to establish the data related to the land use variables (<strong>OCA, OCU and OCF</strong>). To these 03 land use variables were added 04 other variables capturing the distances between the monitored stations and the 04 tributaries of the Nokoué (<strong>So, MR, DR, TC</strong>). The present observations of these 07 variables could be improved with time depending on the availability of more accurate maps. As natural forcing variables, we have the sampling years, the <strong>seasons (SWS: short wet season or flood period; SDS: short dry season; LWS: long wet season; LDS: long dry season), the mean monthly water level (MAWL) and the mean wind speed (AWS).</strong> These natural forcing variables are important in the context of Nokoué... **Minor modifications**<br> -Zipped data files<br> - Addition of the validation dataset (data_validation.csv)
description: *lac_Nokoue_raw : Real data ; *lac_Nokoue : Dataset completed after imputation from the missForest algorithm and used in the context of the article being submitted
DOI: 10.5281/zenodo.5789542
title: Dataset related to article "Bayesian inference of physico-chemical quality elements of a tropical lagoon Nokoué"

description: These data are associated with the paper being submitted entitled: <strong>Bayesian inference of tools for assessment of the physicochemical quality of a tropical lagoon.</strong> The data collection covered a 9-year period divided into three sets of years: 2002 - 2006; 2014 -2016; and 2021. All data were acquired from several comparable scientific studies using the same methods (AFNOR, 1997). The first two sets of data had approximately 16% missing data. The imputation of these missing data was performed using the non-parametric "missForest" algorithm for mixed type data. These data sets come from our field work and the field work that led to the following publications: Gnohossou, 2006; Odountan et al., 2019, Zandagba et al., 2016a, 2016b) . A total of 20 parameters were monitored, among which the following 17 physico-chemical parameters were selected: <strong>Water temperature (Temp), transparency (Trans), turbidity (Turb), conductivity (Cond), salinity (Sal), pH, dissolved oxygen (DO), BOD, COD, Kjeldahl nitrogen (TKN), ammonium, nitrates, nitrites, dry organic matter (DM), orthophosphates (Ortho_P), total phosphorus (TP), suspended solids (SM).</strong> The geographical distribution of the sampling points is made in order to cover the whole Nokoué lagoon complex. In total, 20 sampling points were monitored. The parameters were measured according to the four seasons of the year and/or according to the succession of high water, low water, high water and low water transitions. Nine driving forces described as factors likely to induce pressure were retained to explain the physico-chemical characteristics of the Nokoué. The data from the land use maps obtained were used to establish the data related to the land use variables (<strong>OCA, OCU and OCF</strong>). To these 03 land use variables were added 04 other variables capturing the distances between the monitored stations and the 04 tributaries of the Nokoué (<strong>So, MR, DR, TC</strong>). The present observations of these 07 variables could be improved with time depending on the availability of more accurate maps. As natural forcing variables, we have the sampling years, the <strong>seasons (SWS: short wet season or flood period; SDS: short dry season; LWS: long wet season; LDS: long dry season), the mean monthly water level (MAWL) and the mean wind speed (AWS).</strong> These natural forcing variables are important in the context of Nokoué... **Minor modifications**<br> -Zipped data files<br> - Addition of the validation dataset (data_validation.csv)
description: *lac_Nokoue_raw : Real data ; *lac_Nokoue : Dataset completed after imputation from the missForest algorithm and used in the context of the article being submitted
DOI: 10.5281/zenodo.5501849
title: Detecting topologically associated domains from RNA-associated interactions

description: The example data comprises five files. One is the gene-chromatin interaction map of chr22 constructed from iMARGI HEK dataset. For Hi-C data, we collect the contact map of chr22 from Hi-C HEK293T dataset. To automatically determine the optimal scaling factor alpha or to evaluate the inferred TADs, we download the CTCF TF ChIP-seq peaks, the result of fold change over control of H3K27me3and H3K36me3. The software SuperTAD-sparse (https://github.com/deepomicslab/SuperTAD-sparse_forRAI) can directly take the data as input. Usage: uncompress the example_data.zip into the directory of ./data
DOI: 10.6084/m9.figshare.19316228
title: Simultaneous functional ultrasound and electrophysiology recordings of neural activity in awake mice

description: This datasets contains simultaneous recordings of neural activity with electrodes and of blood flow with functional ultrasound in awake mice. <br><br>These data appear in the article: <br><b>Neural correlates of blood flow measured by ultrasound. </b>Nunez-Elizalde AO, Krumin M, Reddy CB, Montaldo G, Urban A, Harris KD, and Carandini M. Neuron (2022).<br>Software for the analysis of these data can be found at:https://github.com/anwarnunez/fusi<br><br>
DOI: 10.5281/zenodo.6334097
title: Dataset - COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions

description: Generated draft and consensus reconstructions for the manuscript "COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions" (Wendering & Nikoloski).
description: All additional data and code generated for the manuscript are available at https://github.com/pwendering/COMMIT and at https://doi.org/10.5281/zenodo.6334079.
DOI: 10.5281/zenodo.6334096
title: Dataset - COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions

description: Generated draft and consensus reconstructions for the manuscript "COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions" (Wendering & Nikoloski).
description: All additional data and code generated for the manuscript are available at https://github.com/pwendering/COMMIT and at https://doi.org/10.5281/zenodo.6334079.
DOI: 10.6084/m9.figshare.19316615
title: Test2

description: Test
DOI: 10.6084/m9.figshare.19316615.v1
title: Test2

description: Test
DOI: 10.6084/m9.figshare.19316637.v1
title: Data file from Sex chromosomes, sex ratios and sex gaps in longevity in plants

description: In animals, males and females can display markedly different longevity (also called sex gaps in longevity, SGL). Sex chromosomes contribute to establishing these SGLs. X-hemizygosity and toxicity of the Y chromosomes are two mechanisms that have been suggested to reduce male longevity (Z-hemizygosity and W toxicity in females in ZW systems). In plants, SGLs are known to exist, but the role of sex chromosomes remains to be established. Here, by using adult sex ratio as a proxy for measuring SGLs, we explored the relationship between sex chromosome and SGLs across 43 plant species. Based on the knowledge accumulated in animals, we specifically asked whether: (i) species with XY systems tend to have female-biased sex ratios (reduced male longevity) and species with ZW ones tend to have male-biased sex ratios (reduced female longevity) and (ii) this pattern was stronger in heteromorphic systems compared to homomorphic ones. Our results tend to support these predictions although we lack statistical power because of a small number of ZW systems and the absence of any heteromorphic ZW system in the dataset. We discuss the implications of these findings, which we hope will stimulate further research on sex differences in lifespan and ageing across plants.This article is part of the theme issue ‘Sex determination, sex chromosome evolution, and the role of sexual differentiation in land plants’.
DOI: 10.6084/m9.figshare.19316637
title: Data file from Sex chromosomes, sex ratios and sex gaps in longevity in plants

description: In animals, males and females can display markedly different longevity (also called sex gaps in longevity, SGL). Sex chromosomes contribute to establishing these SGLs. X-hemizygosity and toxicity of the Y chromosomes are two mechanisms that have been suggested to reduce male longevity (Z-hemizygosity and W toxicity in females in ZW systems). In plants, SGLs are known to exist, but the role of sex chromosomes remains to be established. Here, by using adult sex ratio as a proxy for measuring SGLs, we explored the relationship between sex chromosome and SGLs across 43 plant species. Based on the knowledge accumulated in animals, we specifically asked whether: (i) species with XY systems tend to have female-biased sex ratios (reduced male longevity) and species with ZW ones tend to have male-biased sex ratios (reduced female longevity) and (ii) this pattern was stronger in heteromorphic systems compared to homomorphic ones. Our results tend to support these predictions although we lack statistical power because of a small number of ZW systems and the absence of any heteromorphic ZW system in the dataset. We discuss the implications of these findings, which we hope will stimulate further research on sex differences in lifespan and ageing across plants.This article is part of the theme issue ‘Sex determination, sex chromosome evolution, and the role of sexual differentiation in land plants’.
DOI: 10.17032/shu-180032
title: Organo-metallic HIPIMS-coated antibiofilm advanced wound dressing
title: HIPIMS coated wound dressings

description: This study explores the application of antibiofilm nanoscale organo-metallic coatings to advanced wound care dressing substrates using the low environmental impact processes of HIPIMS and aqueous application. This new class of wound dressings would have the potential to greatly enhance patient outcomes and significantly reduce healthcare costs.
DOI: 10.6084/m9.figshare.19316649
title: Supplementary Tables from ARR17 controls dioecy in <i>Populus</i> by repressing B-class MADS-box gene expression

description: Supplementary Tables 1-7
DOI: 10.6084/m9.figshare.19316649.v1
title: Supplementary Tables from ARR17 controls dioecy in <i>Populus</i> by repressing B-class MADS-box gene expression

description: Supplementary Tables 1-7
DOI: 10.5281/zenodo.5564749
title: Data sets of the article Sexual Risk Behaviour, Sexism and Prejudices Towards Sexual Openness, Homosexuality and Trans individuals amongst young people from Spain and the UK: Analysis of Related Variables.

description: Data set of the article Evaluation of Sexual Risk Behaviour, Sexism and Prejudices Towards Sexual Openness, Homosexuality and Trans individuals amongst young people from Spain and the United Kingdom Analysis of Related Variables. Data set and SPSS Chart Making Template for doing the Confidence Interval of rho by country between the criterion variables and the scales.
DOI: 10.5281/zenodo.5564748
title: Data sets of the article Sexual Risk Behaviour, Sexism and Prejudices Towards Sexual Openness, Homosexuality and Trans individuals amongst young people from Spain and the UK: Analysis of Related Variables.

description: Data set of the article Evaluation of Sexual Risk Behaviour, Sexism and Prejudices Towards Sexual Openness, Homosexuality and Trans individuals amongst young people from Spain and the United Kingdom Analysis of Related Variables. Data set and SPSS Chart Making Template for doing the Confidence Interval of rho by country between the criterion variables and the scales.
DOI: 10.6084/m9.figshare.19316645.v1
title: Statistical Analysis of Variables

description: The Data provided here, belongs to PhD research
DOI: 10.6084/m9.figshare.19316645
title: Statistical Analysis of Variables

description: The Data provided here, belongs to PhD research
DOI: 10.5526/erdr-00000148
title: Metabolic plasticity can amplify ecosystem responses to global warming
DOI: 10.5519/qd.t7ppk7ml
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1001 records)
DOI: 10.5517/ccdc.csd.cc27qmvg
title: CCDC 2077336: Experimental Crystal Structure Determination

description: Related Article: Nikita E. Golantsov, Alexandra S. Golubenkova, Alexey A. Festa, Alexey V. Varlamov, Leonid G. Voskressensky|2022|J.Org.Chem.|87|3242|doi:10.1021/acs.joc.1c02930
DOI: 10.5517/ccdc.csd.cc27qmwh
title: CCDC 2077337: Experimental Crystal Structure Determination

description: Related Article: Nikita E. Golantsov, Alexandra S. Golubenkova, Alexey A. Festa, Alexey V. Varlamov, Leonid G. Voskressensky|2022|J.Org.Chem.|87|3242|doi:10.1021/acs.joc.1c02930
DOI: 10.5517/ccdc.csd.cc27swrp
title: CCDC 2079503: Experimental Crystal Structure Determination

description: Related Article: Anastasija Gaile, Sergey Belyakov, Baiba Turovska, Nelli Batenko|2022|J.Org.Chem.|87|2345|doi:10.1021/acs.joc.1c02196
DOI: 10.5517/ccdc.csd.cc27swsq
title: CCDC 2079504: Experimental Crystal Structure Determination

description: Related Article: Anastasija Gaile, Sergey Belyakov, Baiba Turovska, Nelli Batenko|2022|J.Org.Chem.|87|2345|doi:10.1021/acs.joc.1c02196
DOI: 10.5517/ccdc.csd.cc27swtr
title: CCDC 2079505: Experimental Crystal Structure Determination

description: Related Article: Anastasija Gaile, Sergey Belyakov, Baiba Turovska, Nelli Batenko|2022|J.Org.Chem.|87|2345|doi:10.1021/acs.joc.1c02196
DOI: 10.5517/ccdc.csd.cc27vx23
title: CCDC 2081435: Experimental Crystal Structure Determination

description: Related Article: Marvin Sindlinger, Markus Ströbele, Cäcilia Maichle-Mössmer, Holger F. Bettinger|2022|Chem.Commun.|58|2818|doi:10.1039/D1CC06588B
DOI: 10.6084/m9.figshare.19316681
title: Supplementary Dataset S3: List of ESTs displaying adaptive evolution on the branch including dioecy formation. The list includes contig name, length of the contig in nucleotides, A. thaliana ortholog, and A. thaliana ortholog name. The alignments of the ESTs are in the DatasetS2.rar. from Adaptive changes of the autosomal part of the genome in a dioecious clade of <i>Silene</i>

description: The genus <i>Silene</i> brings many opportunities for the study of various processes involved in the evolution of dioecy and young sex chromosomes. Here we focus on a dioecious clade in <i>Silene</i> subgenus <i>Silene</i> and closely related species. This study provides improved support for monophyly of this clade (based on inclusion of further dioecious species) and a new estimate of its age (approxi. 2.3 million years). We observed a rise in adaptive evolution in the autosomal and pseudoautosomal parts of the genome on the branch where dioecy originated. This increase is not a result of the accumulation of sexually antagonistic genes in the pseudoautosomal region. It is also not caused by the coevolution of genes acting in mitochondria (despite the possibility that dioecy along this branch could have evolved from a nucleo-cytoplasmic male sterility-based system). After considering other possibilities, the most parsimonious explanation for the increase seen in the number of positively selected codons is the adaptive evolution of genes involved in the adaptation of the autosomal part of the genome to dioecy as described in Charnov's sex-allocation theory. As the observed coincidence cannot prove causality, studies in other dioecious clades are necessary to allow the forming of general conclusions.
DOI: 10.6084/m9.figshare.19316681.v1
title: Supplementary Dataset S3: List of ESTs displaying adaptive evolution on the branch including dioecy formation. The list includes contig name, length of the contig in nucleotides, A. thaliana ortholog, and A. thaliana ortholog name. The alignments of the ESTs are in the DatasetS2.rar. from Adaptive changes of the autosomal part of the genome in a dioecious clade of <i>Silene</i>

description: The genus <i>Silene</i> brings many opportunities for the study of various processes involved in the evolution of dioecy and young sex chromosomes. Here we focus on a dioecious clade in <i>Silene</i> subgenus <i>Silene</i> and closely related species. This study provides improved support for monophyly of this clade (based on inclusion of further dioecious species) and a new estimate of its age (approxi. 2.3 million years). We observed a rise in adaptive evolution in the autosomal and pseudoautosomal parts of the genome on the branch where dioecy originated. This increase is not a result of the accumulation of sexually antagonistic genes in the pseudoautosomal region. It is also not caused by the coevolution of genes acting in mitochondria (despite the possibility that dioecy along this branch could have evolved from a nucleo-cytoplasmic male sterility-based system). After considering other possibilities, the most parsimonious explanation for the increase seen in the number of positively selected codons is the adaptive evolution of genes involved in the adaptation of the autosomal part of the genome to dioecy as described in Charnov's sex-allocation theory. As the observed coincidence cannot prove causality, studies in other dioecious clades are necessary to allow the forming of general conclusions.
DOI: 10.6084/m9.figshare.19316684
title: Supplementary Dataset S2: Rar file containing alignments of Silene ESTs in nexus format used in the analysis. from Adaptive changes of the autosomal part of the genome in a dioecious clade of <i>Silene</i>

description: The genus <i>Silene</i> brings many opportunities for the study of various processes involved in the evolution of dioecy and young sex chromosomes. Here we focus on a dioecious clade in <i>Silene</i> subgenus <i>Silene</i> and closely related species. This study provides improved support for monophyly of this clade (based on inclusion of further dioecious species) and a new estimate of its age (approxi. 2.3 million years). We observed a rise in adaptive evolution in the autosomal and pseudoautosomal parts of the genome on the branch where dioecy originated. This increase is not a result of the accumulation of sexually antagonistic genes in the pseudoautosomal region. It is also not caused by the coevolution of genes acting in mitochondria (despite the possibility that dioecy along this branch could have evolved from a nucleo-cytoplasmic male sterility-based system). After considering other possibilities, the most parsimonious explanation for the increase seen in the number of positively selected codons is the adaptive evolution of genes involved in the adaptation of the autosomal part of the genome to dioecy as described in Charnov's sex-allocation theory. As the observed coincidence cannot prove causality, studies in other dioecious clades are necessary to allow the forming of general conclusions.
DOI: 10.6084/m9.figshare.19316684.v1
title: Supplementary Dataset S2: Rar file containing alignments of Silene ESTs in nexus format used in the analysis. from Adaptive changes of the autosomal part of the genome in a dioecious clade of <i>Silene</i>

description: The genus <i>Silene</i> brings many opportunities for the study of various processes involved in the evolution of dioecy and young sex chromosomes. Here we focus on a dioecious clade in <i>Silene</i> subgenus <i>Silene</i> and closely related species. This study provides improved support for monophyly of this clade (based on inclusion of further dioecious species) and a new estimate of its age (approxi. 2.3 million years). We observed a rise in adaptive evolution in the autosomal and pseudoautosomal parts of the genome on the branch where dioecy originated. This increase is not a result of the accumulation of sexually antagonistic genes in the pseudoautosomal region. It is also not caused by the coevolution of genes acting in mitochondria (despite the possibility that dioecy along this branch could have evolved from a nucleo-cytoplasmic male sterility-based system). After considering other possibilities, the most parsimonious explanation for the increase seen in the number of positively selected codons is the adaptive evolution of genes involved in the adaptation of the autosomal part of the genome to dioecy as described in Charnov's sex-allocation theory. As the observed coincidence cannot prove causality, studies in other dioecious clades are necessary to allow the forming of general conclusions.
DOI: 10.6084/m9.figshare.19316687.v1
title: Supplementary Table S1: List of the accession numbers of the sequences that were used for the phylogenetic analyses. from Adaptive changes of the autosomal part of the genome in a dioecious clade of <i>Silene</i>

description: The genus <i>Silene</i> brings many opportunities for the study of various processes involved in the evolution of dioecy and young sex chromosomes. Here we focus on a dioecious clade in <i>Silene</i> subgenus <i>Silene</i> and closely related species. This study provides improved support for monophyly of this clade (based on inclusion of further dioecious species) and a new estimate of its age (approxi. 2.3 million years). We observed a rise in adaptive evolution in the autosomal and pseudoautosomal parts of the genome on the branch where dioecy originated. This increase is not a result of the accumulation of sexually antagonistic genes in the pseudoautosomal region. It is also not caused by the coevolution of genes acting in mitochondria (despite the possibility that dioecy along this branch could have evolved from a nucleo-cytoplasmic male sterility-based system). After considering other possibilities, the most parsimonious explanation for the increase seen in the number of positively selected codons is the adaptive evolution of genes involved in the adaptation of the autosomal part of the genome to dioecy as described in Charnov's sex-allocation theory. As the observed coincidence cannot prove causality, studies in other dioecious clades are necessary to allow the forming of general conclusions.