cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11972550
title: Additional file 22 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 22: Table S21. Principle Component Analysis based on OTU abundance in stool samples. Full list of 42 principal component values by sample. PC1 and PC2 shown in Additional file 1: Fig. S8a.
DOI: 10.6084/m9.figshare.11972544
title: Additional file 21 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 21: Table S20. List of enriched gene ontology terms of WT colon genes upregulated in colitis (Additional file 13: Table S12, marked UP) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972550.v1
title: Additional file 22 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 22: Table S21. Principle Component Analysis based on OTU abundance in stool samples. Full list of 42 principal component values by sample. PC1 and PC2 shown in Additional file 1: Fig. S8a.
DOI: 10.6084/m9.figshare.11972541
title: Additional file 20 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 20: Table S19. List of enriched gene ontology terms of clusters 3/4 (Table S14) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972544.v1
title: Additional file 21 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 21: Table S20. List of enriched gene ontology terms of WT colon genes upregulated in colitis (Additional file 13: Table S12, marked UP) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972541.v1
title: Additional file 20 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 20: Table S19. List of enriched gene ontology terms of clusters 3/4 (Table S14) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972532
title: Additional file 19 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 19: Table S18. List of enriched gene ontology terms of cluster A (Additional file 14: Table S13) versus all genes significantly upregulated in WT upon colitis (Additional file 13: marked as UP in Table S12) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972532.v1
title: Additional file 19 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 19: Table S18. List of enriched gene ontology terms of cluster A (Additional file 14: Table S13) versus all genes significantly upregulated in WT upon colitis (Additional file 13: marked as UP in Table S12) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972526
title: Additional file 18 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 18: Table S17. List of enriched gene ontology terms of clusters 2 (Additional file 15: Table S14) versus all genes significantly upregulated in WT upon colitis (marked as UP in Additional file 13: Table S12) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972520
title: Additional file 17 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 17: Table S16. List of enriched gene ontology terms of clusters 2 (Additional file 15: Table S14) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972520.v1
title: Additional file 17 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 17: Table S16. List of enriched gene ontology terms of clusters 2 (Additional file 15: Table S14) versus all genes expressed in the colon (Additional file 16: Table S15) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972526.v1
title: Additional file 18 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 18: Table S17. List of enriched gene ontology terms of clusters 2 (Additional file 15: Table S14) versus all genes significantly upregulated in WT upon colitis (marked as UP in Additional file 13: Table S12) with a statistical cutoff p
DOI: 10.6084/m9.figshare.11972511
title: Additional file 5 of Effects of dietary methionine and cysteine restriction on plasma biomarkers, serum fibroblast growth factor 21, and adipose tissue gene expression in women with overweight or obesity: a double-blind randomized controlled pilot study

description: Additional file 5. Spearman’s rank correlation coefficients and 95% confidence intervals between sulfur amino acids and related intermediates.
DOI: 10.6084/m9.figshare.11972514
title: Additional file 16 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 16: Table S15. List of genes with colonic expression (whole tissue, see Fig. 8), defined as detectable expression in either all WT/KO ctrl or all WT/KO colitis samples. Table contents: Gene name, chromosomal position, normalized linear read counts by sample.
DOI: 10.6084/m9.figshare.11972511.v1
title: Additional file 5 of Effects of dietary methionine and cysteine restriction on plasma biomarkers, serum fibroblast growth factor 21, and adipose tissue gene expression in women with overweight or obesity: a double-blind randomized controlled pilot study

description: Additional file 5. Spearman’s rank correlation coefficients and 95% confidence intervals between sulfur amino acids and related intermediates.
DOI: 10.6084/m9.figshare.11972514.v1
title: Additional file 16 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 16: Table S15. List of genes with colonic expression (whole tissue, see Fig. 8), defined as detectable expression in either all WT/KO ctrl or all WT/KO colitis samples. Table contents: Gene name, chromosomal position, normalized linear read counts by sample.
DOI: 10.6084/m9.figshare.11972505
title: Additional file 15 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 15: Table S14. Subset of gene list in Additional file 13: Table S12, indicated as clusters 1–4 in Fig. 8b. Genes were identified by hierarchical clustering in Seqmonk. Table contents: Gene name, selected annotations, cluster membership.
DOI: 10.6084/m9.figshare.11972505.v1
title: Additional file 15 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 15: Table S14. Subset of gene list in Additional file 13: Table S12, indicated as clusters 1–4 in Fig. 8b. Genes were identified by hierarchical clustering in Seqmonk. Table contents: Gene name, selected annotations, cluster membership.
DOI: 10.6084/m9.figshare.11972499
title: Additional file 14 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 14: Table S13. Subset of gene list in Additional file 13: Table S12, indicated as cluster A in Fig. 8a. Genes were identified by hierarchical clustering in SeqMonk. Table contents: Gene name, chromosomal position.
DOI: 10.6084/m9.figshare.11972493
title: Additional file 13 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 13: Table S12. Genes identified with the DESeq2 test (cut-off FDR
DOI: 10.6084/m9.figshare.11972499.v1
title: Additional file 14 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 14: Table S13. Subset of gene list in Additional file 13: Table S12, indicated as cluster A in Fig. 8a. Genes were identified by hierarchical clustering in SeqMonk. Table contents: Gene name, chromosomal position.
DOI: 10.6084/m9.figshare.11972493.v1
title: Additional file 13 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 13: Table S12. Genes identified with the DESeq2 test (cut-off FDR
DOI: 10.6084/m9.figshare.11972487
title: Additional file 12 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 12: Table S11. Differentially expressed genes on Smarcad1-KO in microbiome enriched, DSS-induced colitis, whole colon tissue samples. Gene lists as shown in Additional file 1: Fig. S9b. Table contents: Gene name, chromosomal position, DESeq2 FDR (cut-off 0.05), gene ID, gene description, average expression levels (log2 normalized to total reads) in WT/KO control (n = 3) and colitis (n = 5) data sets.
DOI: 10.6084/m9.figshare.11972487.v1
title: Additional file 12 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 12: Table S11. Differentially expressed genes on Smarcad1-KO in microbiome enriched, DSS-induced colitis, whole colon tissue samples. Gene lists as shown in Additional file 1: Fig. S9b. Table contents: Gene name, chromosomal position, DESeq2 FDR (cut-off 0.05), gene ID, gene description, average expression levels (log2 normalized to total reads) in WT/KO control (n = 3) and colitis (n = 5) data sets.
DOI: 10.6084/m9.figshare.11972466
title: Additional file 10 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 10: Table S9. Supplementary phenotype data for the DSS-induced colitis experiments (Fig. 6a, b and Additional file 1: Fig. S6a, b). DAI (disease activity index) scores were determined for each experiment separately, based on weight loss and a selection of fecal blood, stool consistency and overall animal appearance scores. Detailed scoring tables described in the according tab. Colon length after DSS-induction was determined in experiment 2 (Fig. 6b and Additional file 1: Fig. S6b).
DOI: 10.6084/m9.figshare.11972472
title: Additional file 11 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 11: Table S10. Differentially expressed genes on Smarcad1-KO in control, microbiome enriched whole colon tissue samples. Gene lists as shown in Additional file 1: Fig. S9a. Table contents: Gene name, chromosomal position, DESeq2 FDR (cut-off 0.05), gene ID, gene description, average expression levels (log2 normalized to total reads) in WT/KO control (n = 3) and colitis (n = 5) data sets.
DOI: 10.6084/m9.figshare.11972466.v1
title: Additional file 10 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 10: Table S9. Supplementary phenotype data for the DSS-induced colitis experiments (Fig. 6a, b and Additional file 1: Fig. S6a, b). DAI (disease activity index) scores were determined for each experiment separately, based on weight loss and a selection of fecal blood, stool consistency and overall animal appearance scores. Detailed scoring tables described in the according tab. Colon length after DSS-induction was determined in experiment 2 (Fig. 6b and Additional file 1: Fig. S6b).
DOI: 10.6084/m9.figshare.11972472.v1
title: Additional file 11 of Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

description: Additional file 11: Table S10. Differentially expressed genes on Smarcad1-KO in control, microbiome enriched whole colon tissue samples. Gene lists as shown in Additional file 1: Fig. S9a. Table contents: Gene name, chromosomal position, DESeq2 FDR (cut-off 0.05), gene ID, gene description, average expression levels (log2 normalized to total reads) in WT/KO control (n = 3) and colitis (n = 5) data sets.
DOI: 10.6084/m9.figshare.11972355
title: Additional file 1 of Variations in porcine colostrum oligosaccharide composition between breeds and in association with sow maternal performance

description: Additional file 1. Collection of all the individual records used for the elaboration of data.
DOI: 10.6084/m9.figshare.11972355.v1
title: Additional file 1 of Variations in porcine colostrum oligosaccharide composition between breeds and in association with sow maternal performance

description: Additional file 1. Collection of all the individual records used for the elaboration of data.
DOI: 10.6084/m9.figshare.11972307
title: Effectiveness of peer counseling, social engagement, and combination interventions in improving depressive symptoms of community-dwelling Filipino senior citizens

description: The dataset comprised of baseline and follow data of Filipino senior citizens who participated in the Phase 3 of Project ENGAGE
DOI: 10.6084/m9.figshare.11972271
title: plantXfungi.tex from Diversity within mutualist guilds promotes coexistence and reduces the risk of invasion from an alien mutualist

description: Biodiversity is an important component of healthy ecosystems, and thus understanding the mechanisms behind species coexistence is critical in ecology and conservation biology. In particular, few studies have focused on the dynamics resulting from the co-occurrence of mutualistic and competitive interactions within a group of species. Here we build a mathematical model to study the dynamics of a guild of competitors who are also engaged in mutualistic interactions with a common partner. We show that coexistence as well as competitive exclusion can occur depending on the competition strength and on strength of the mutualistic interactions, and we formulate concrete criteria for predicting invasion success of an alien mutualist based on propagule pressure, alien traits (such as its resource exchange ability) and composition of the recipient community. We find that intra guild diversity promotes the coexistence of species that would otherwise competitively exclude each other, and makes a guild less vulnerable to invasion. Our results can serve as a useful framework to predict the consequences of species manipulation in mutualistic communities.
DOI: 10.6084/m9.figshare.11972277
title: Crystal structure file from Ethylenediamine loading into a manganese-based metal–organic framework enhances water stability and carbon dioxide uptake of the framework

description: Crystal structure cif file.
DOI: 10.6084/m9.figshare.11972307.v1
title: Effectiveness of peer counseling, social engagement, and combination interventions in improving depressive symptoms of community-dwelling Filipino senior citizens

description: The dataset comprised of baseline and follow data of Filipino senior citizens who participated in the Phase 3 of Project ENGAGE
DOI: 10.6084/m9.figshare.11972265
title: eq_w.tex from Diversity within mutualist guilds promotes coexistence and reduces the risk of invasion from an alien mutualist

description: Biodiversity is an important component of healthy ecosystems, and thus understanding the mechanisms behind species coexistence is critical in ecology and conservation biology. In particular, few studies have focused on the dynamics resulting from the co-occurrence of mutualistic and competitive interactions within a group of species. Here we build a mathematical model to study the dynamics of a guild of competitors who are also engaged in mutualistic interactions with a common partner. We show that coexistence as well as competitive exclusion can occur depending on the competition strength and on strength of the mutualistic interactions, and we formulate concrete criteria for predicting invasion success of an alien mutualist based on propagule pressure, alien traits (such as its resource exchange ability) and composition of the recipient community. We find that intra guild diversity promotes the coexistence of species that would otherwise competitively exclude each other, and makes a guild less vulnerable to invasion. Our results can serve as a useful framework to predict the consequences of species manipulation in mutualistic communities.
DOI: 10.6084/m9.figshare.11972271.v1
title: plantXfungi.tex from Diversity within mutualist guilds promotes coexistence and reduces the risk of invasion from an alien mutualist

description: Biodiversity is an important component of healthy ecosystems, and thus understanding the mechanisms behind species coexistence is critical in ecology and conservation biology. In particular, few studies have focused on the dynamics resulting from the co-occurrence of mutualistic and competitive interactions within a group of species. Here we build a mathematical model to study the dynamics of a guild of competitors who are also engaged in mutualistic interactions with a common partner. We show that coexistence as well as competitive exclusion can occur depending on the competition strength and on strength of the mutualistic interactions, and we formulate concrete criteria for predicting invasion success of an alien mutualist based on propagule pressure, alien traits (such as its resource exchange ability) and composition of the recipient community. We find that intra guild diversity promotes the coexistence of species that would otherwise competitively exclude each other, and makes a guild less vulnerable to invasion. Our results can serve as a useful framework to predict the consequences of species manipulation in mutualistic communities.
DOI: 10.6084/m9.figshare.11972238
title: Data appendix from Mathematical modelling with experimental validation of viscoelastic properties in non-Newtonian fluids

description: This archive reproduces tables 3-6 from paper
DOI: 10.6084/m9.figshare.11972265.v1
title: eq_w.tex from Diversity within mutualist guilds promotes coexistence and reduces the risk of invasion from an alien mutualist

description: Biodiversity is an important component of healthy ecosystems, and thus understanding the mechanisms behind species coexistence is critical in ecology and conservation biology. In particular, few studies have focused on the dynamics resulting from the co-occurrence of mutualistic and competitive interactions within a group of species. Here we build a mathematical model to study the dynamics of a guild of competitors who are also engaged in mutualistic interactions with a common partner. We show that coexistence as well as competitive exclusion can occur depending on the competition strength and on strength of the mutualistic interactions, and we formulate concrete criteria for predicting invasion success of an alien mutualist based on propagule pressure, alien traits (such as its resource exchange ability) and composition of the recipient community. We find that intra guild diversity promotes the coexistence of species that would otherwise competitively exclude each other, and makes a guild less vulnerable to invasion. Our results can serve as a useful framework to predict the consequences of species manipulation in mutualistic communities.
DOI: 10.6084/m9.figshare.11972235
title: Data results from Mathematical modelling with experimental validation of viscoelastic properties in non-Newtonian fluids

description: This archive reproduces the figures 9-12 from paper
DOI: 10.6084/m9.figshare.11972238.v1
title: Data appendix from Mathematical modelling with experimental validation of viscoelastic properties in non-Newtonian fluids

description: This archive reproduces tables 3-6 from paper
DOI: 10.6084/m9.figshare.11972235.v1
title: Data results from Mathematical modelling with experimental validation of viscoelastic properties in non-Newtonian fluids

description: This archive reproduces the figures 9-12 from paper
DOI: 10.6084/m9.figshare.11971974
title: DS01_RR.xlsx

description: These data are in reference to the manuscript:<br>"Mangrove-derived organic and inorganic carbon exchanges between the Sinnamary estuarine system (French Guiana, South America) and the Atlantic Ocean"<br>by Ray et al., 2020
DOI: 10.6084/m9.figshare.11971974.v2
title: DS01_RR.xlsx

description: These data are in reference to the manuscript:<br>"Mangrove-derived organic and inorganic carbon exchanges between the Sinnamary estuarine system (French Guiana, South America) and the Atlantic Ocean"<br>by Ray et al., 2020
DOI: 10.6084/m9.figshare.11971968
title: Glasshouse trial data assessing the influence of elevated temperature and CO2 on Fusarium crown rot in a selection of wheat genotypes at key growth stages.

description: We collected the data provided here for an experiment aimed to assess the change in Fusarium crown rot symptom and colonisation in three glasshouse environments: ambient carbon-dioxide with cool growing temperatures, elevated carbon-dioxide with cool growing temperatures, and elevated carbon-dioxide and warm growing temperatures. The experiment measured the length of CR browning on the stems, relative quantity of Fusarium pseudograminearum (Fp) DNA (tri5 gene) to wheat host DNA (Wheat-actin gene).You can find more detail in the article linked in the 'references' below: Melloy P, Aitken E, Luck J, Chakraborty S, Obanor F, 2014. <b>The influence of increasing temperature and CO2 on Fusarium crown rot susceptibility of wheat genotypes at key growth stages.</b> <i>European Journal of Plant Pathology</i> 140, 19–37.<br>The code and metadata at the GitHub repo: https://github.com/PaulMelloy/FCR_CO2_GH<br><br>There are two files in this share: 1301_FCRatElevatedCO2_Glasshouse_FB_figshare_PM.csv - contains the data for assessing relative fungal biomass.1301_FCRatElevatedCO2_Glasshouse_figshare_RAW_PM.csv - contains data for calculating FCR incidence and FCR severity, and plant biomass measurements.<br>
DOI: 10.6084/m9.figshare.11971974.v1
title: DS01_RR.xlsx

description: These data are in reference to the manuscript:<br>"Mangrove-derived organic and inorganic carbon exchanges between the Sinnamary estuarine system (French Guiana, South America) and the Atlantic Ocean"<br>by Ray et al., 2020