cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7791242.v2
title: Supplementary Table S1-9.xlsx

description: We hypothesized that preterm birth and early feeding affect gut maturation via epigenetic changes. Using piglets as models for infants, preterm and term pigs (n=80) were fed total parenteral nutrition (TPN) or partial enteral feeding (ENT) for 5 days, followed by exclusive enteral feeding until 26 days (weaning age). Small intestinal DNA methylome was compared between preterm and matched term pigs. The differentially methylated regions (DMRs) and the associated genes were listed in this supplementary file.
DOI: 10.6084/m9.figshare.7791164
title: Food, family and female age affect reproduction and pup survival of African wild dogs

description: The fileset contains all the associated data (csv format) and the R script with code used for the study entitled, "Food, family and female age affect reproduction and pup survival of African wild dogs" by Marneweck, Druce and Somers 2019. <i>Behavioural Ecology and Sociobiology.</i>
DOI: 10.6084/m9.figshare.7791176
title: Supplementary Material for: Sensory Specializations of Mormyrid Fish Are Associated with Species Differences in Electric Signal Localization Behavior

description: The ability to localize communication signals plays a fundamental role in social interactions. For signal localization to take place, the sensory system of the receiver must extract information about distance and direction to the sender from physical characteristics of the signal. In many sensory systems, information from multiple peripheral receptors must be integrated by central sensory pathways to determine the sender location. Here, we asked whether evolutionary divergence in the electrosensory and visual systems of mormyrid fish is associated with signal localization behavior. In mormyrids, differences in the distribution of electroreceptors on the surface of the skin are associated with differences in the midbrain exterolateral nucleus (EL). Species with electroreceptors clustered in three rosettes on both sides of the head have a small and undifferentiated EL. In contrast, EL is enlarged and subdivided into anterior (ELa) and posterior (ELp) regions in species that have electroreceptors broadly ­distributed throughout the body. Interestingly, species with EL and clustered electroreceptors also have larger visual systems and higher visual acuity than species with ELa/ELp and broadly distributed electroreceptors. Species with broadly distributed electroreceptors and ELa/ELp approached a simulated conspecific by following the curved electric field lines generated by the electrosensory stimulus. In contrast, a species with small EL and clustered electroreceptors, but an enlarged visual system, followed shorter and straighter paths to the stimulus source. In the central electrosensory system, evoked field potentials in response to stimuli delivered from the left versus the right differed more in EL than in ELa/ELp. Our results suggest that signal localization behavior is associated with differences in sensory specializations. We propose that the distribution of electroreceptors on the body affects the ability of individuals to align parallel to electric field lines and maintain such alignment while approaching the signal source. The spatial resolution of sensory information relayed from the periphery to the midbrain in species with clustered electroreceptors may allow for gross, but not fine, processing of sender location. Furthermore, visual information may play an important role in localizing signaling individuals in species with small EL and clustered electroreceptors. In line with previous studies, we suggest that the physiological and behavioral differences associated with signal localization reflect adaptations to different habitats and social environments.
DOI: 10.6084/m9.figshare.7791287.v4
title: Philanthropy – The North East Story

description: This paper surveys the history of philanthropy in the North East of England over a period of more than 900 years, from the time the North East was brought under Norman control (thirty years or so after the Conquest of 1066) down to the present. We paint a broad picture of the role philanthropy has played in the region across the ages, and demonstrate how past endeavours continue to enrich present lives. On the basis of the evidence presented we draw 10 main conclusions: (1) The North East has a long and rich history of philanthropy; (2) There are distinctive aspects to philanthropy in the North East stemming from the concentration of power in the hands of the Bishops of Durham and the merchant community of Newcastle; (3) Enterprise is the motor force of philanthropy; (4) Philanthropy is a major source of social innovation; (5) Social activism is essential to the success of philanthropic ventures; (6) Philanthropy is not just about mega-donors. (7) Prestigious institutions are magnets for philanthropy; (8) Institutions founded on philanthropy must adapt to survive; (9) Philanthropy is a two-way street: improving the lives of beneficiaries while a source of intense satisfaction for donors; (10) Philanthropy in the past lives on in the present. We conclude by answering four fundamental questions about the past, present and future of philanthropy, and present a summary table highlighting the main domains of philanthropy across the more than nine centuries.
DOI: 10.6084/m9.figshare.7791176.v1
title: Supplementary Material for: Sensory Specializations of Mormyrid Fish Are Associated with Species Differences in Electric Signal Localization Behavior

description: The ability to localize communication signals plays a fundamental role in social interactions. For signal localization to take place, the sensory system of the receiver must extract information about distance and direction to the sender from physical characteristics of the signal. In many sensory systems, information from multiple peripheral receptors must be integrated by central sensory pathways to determine the sender location. Here, we asked whether evolutionary divergence in the electrosensory and visual systems of mormyrid fish is associated with signal localization behavior. In mormyrids, differences in the distribution of electroreceptors on the surface of the skin are associated with differences in the midbrain exterolateral nucleus (EL). Species with electroreceptors clustered in three rosettes on both sides of the head have a small and undifferentiated EL. In contrast, EL is enlarged and subdivided into anterior (ELa) and posterior (ELp) regions in species that have electroreceptors broadly ­distributed throughout the body. Interestingly, species with EL and clustered electroreceptors also have larger visual systems and higher visual acuity than species with ELa/ELp and broadly distributed electroreceptors. Species with broadly distributed electroreceptors and ELa/ELp approached a simulated conspecific by following the curved electric field lines generated by the electrosensory stimulus. In contrast, a species with small EL and clustered electroreceptors, but an enlarged visual system, followed shorter and straighter paths to the stimulus source. In the central electrosensory system, evoked field potentials in response to stimuli delivered from the left versus the right differed more in EL than in ELa/ELp. Our results suggest that signal localization behavior is associated with differences in sensory specializations. We propose that the distribution of electroreceptors on the body affects the ability of individuals to align parallel to electric field lines and maintain such alignment while approaching the signal source. The spatial resolution of sensory information relayed from the periphery to the midbrain in species with clustered electroreceptors may allow for gross, but not fine, processing of sender location. Furthermore, visual information may play an important role in localizing signaling individuals in species with small EL and clustered electroreceptors. In line with previous studies, we suggest that the physiological and behavioral differences associated with signal localization reflect adaptations to different habitats and social environments.
DOI: 10.6084/m9.figshare.7791164.v1
title: Food, family and female age affect reproduction and pup survival of African wild dogs

description: The fileset contains all the associated data (csv format) and the R script with code used for the study entitled, "Food, family and female age affect reproduction and pup survival of African wild dogs" by Marneweck, Druce and Somers 2019. <i>Behavioural Ecology and Sociobiology.</i>
DOI: 10.6084/m9.figshare.7791107
title: A novel location-routing problem in electric vehicle transportation with stochastic demands

description: This is the experimental data of the manuscript entitled "A novel location-routing problem in electric vehicle transportation with stochastic demands". All data are saved in the file with txt format.
DOI: 10.6084/m9.figshare.7791125
title: A novel location-routing problem in electric vehicle transportation with stochastic demands

description: This is the experimental data of the manuscript entitled "A novel location-routing problem in electric vehicle transportation with stochastic demands". All data are saved in the file with txt format.
DOI: 10.6084/m9.figshare.7791125.v1
title: A novel location-routing problem in electric vehicle transportation with stochastic demands

description: This is the experimental data of the manuscript entitled "A novel location-routing problem in electric vehicle transportation with stochastic demands". All data are saved in the file with txt format.
DOI: 10.6084/m9.figshare.7791107.v1
title: A novel location-routing problem in electric vehicle transportation with stochastic demands

description: This is the experimental data of the manuscript entitled "A novel location-routing problem in electric vehicle transportation with stochastic demands". All data are saved in the file with txt format.
DOI: 10.6084/m9.figshare.7791077
title: Additional file 3: of Urban metagenomics uncover antibiotic resistance reservoirs in coastal beach and sewage waters

description: Metagenomic assembly statistics. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.7791077.v1
title: Additional file 3: of Urban metagenomics uncover antibiotic resistance reservoirs in coastal beach and sewage waters

description: Metagenomic assembly statistics. (XLSX 8 kb)
DOI: 10.6084/m9.figshare.7791071
title: Additional file 2: of Urban metagenomics uncover antibiotic resistance reservoirs in coastal beach and sewage waters

description: Distribution of antibioitic resistance genes per sample. (XLSX 142 kb)
DOI: 10.6084/m9.figshare.7791071.v1
title: Additional file 2: of Urban metagenomics uncover antibiotic resistance reservoirs in coastal beach and sewage waters

description: Distribution of antibioitic resistance genes per sample. (XLSX 142 kb)
DOI: 10.6084/m9.figshare.7791029
title: Additional file 4: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S4 Gene Ontology (GO) terms associated with each module. Columns show the GO term and corresponding q-value associated with each module. Some modules did not yield any significant GO terms. (CSV 9 kb)
DOI: 10.6084/m9.figshare.7791026
title: Additional file 3: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S3 Lists of genes in each module. Each column shows the full list of genes in a given module. (CSV 13 kb)
DOI: 10.6084/m9.figshare.7791026.v1
title: Additional file 3: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S3 Lists of genes in each module. Each column shows the full list of genes in a given module. (CSV 13 kb)
DOI: 10.6084/m9.figshare.7791029.v1
title: Additional file 4: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S4 Gene Ontology (GO) terms associated with each module. Columns show the GO term and corresponding q-value associated with each module. Some modules did not yield any significant GO terms. (CSV 9 kb)
DOI: 10.6084/m9.figshare.7791014
title: Additional file 1: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S1 List of conditions used in microglia stimulus panel. Table containing stimulus identity, supplier, stimulus duration and concentration for all conditions used in the stimulus panel. (CSV 3 kb)
DOI: 10.6084/m9.figshare.7791017
title: Additional file 2: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S2 Number of replicates in each stimulus condition. Table showing the number of biological replicates in each condition. (CSV 2 kb)
DOI: 10.6084/m9.figshare.7791017.v1
title: Additional file 2: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S2 Number of replicates in each stimulus condition. Table showing the number of biological replicates in each condition. (CSV 2 kb)
DOI: 10.6084/m9.figshare.7791014.v1
title: Additional file 1: of A modular analysis of microglia gene expression, insights into the aged phenotype

description: Table S1 List of conditions used in microglia stimulus panel. Table containing stimulus identity, supplier, stimulus duration and concentration for all conditions used in the stimulus panel. (CSV 3 kb)
DOI: 10.6084/m9.figshare.7790999
title: Additional file 2: of 10-year follow-up of the Super-Seniors Study: compression of morbidity and genetic factors

description: Study dataset. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.7790990
title: MOESM1 of Oxidative stress-induced formation of covalently linked ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit dimer in tobacco plants

description: Additional file 1. Database similarity analysis. The PQ-induced protein (Fig.Â 1a) was trypsin-digested and the peptides were analyzed by LC/MS/MS on an Orbitrap mass spectrometer. The resulting spectra were submitted for a database similarity analysis, and the matches were ranked by score.
DOI: 10.6084/m9.figshare.7790990.v1
title: MOESM1 of Oxidative stress-induced formation of covalently linked ribulose-1,5-bisphosphate carboxylase/oxygenase large subunit dimer in tobacco plants

description: Additional file 1. Database similarity analysis. The PQ-induced protein (Fig.Â 1a) was trypsin-digested and the peptides were analyzed by LC/MS/MS on an Orbitrap mass spectrometer. The resulting spectra were submitted for a database similarity analysis, and the matches were ranked by score.
DOI: 10.6084/m9.figshare.7790999.v1
title: Additional file 2: of 10-year follow-up of the Super-Seniors Study: compression of morbidity and genetic factors

description: Study dataset. (XLSX 38 kb)
DOI: 10.6084/m9.figshare.7790891
title: Additional file 7: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S5. Methylation values of group 2 probes. (XLSX 459 kb)
DOI: 10.6084/m9.figshare.7790894
title: Additional file 1: of High prevalence and characterization of extended-spectrum ß-lactamase producing Enterobacteriaceae in Chadian hospitals

description: Raw data generated and analyzed during the current study. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.7790888
title: Additional file 6: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S4. Methylation values of group 1 probes. (XLSX 674 kb)
DOI: 10.6084/m9.figshare.7790891.v1
title: Additional file 7: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S5. Methylation values of group 2 probes. (XLSX 459 kb)
DOI: 10.6084/m9.figshare.7790894.v1
title: Additional file 1: of High prevalence and characterization of extended-spectrum ß-lactamase producing Enterobacteriaceae in Chadian hospitals

description: Raw data generated and analyzed during the current study. (XLSX 35 kb)
DOI: 10.6084/m9.figshare.7790882
title: Additional file 5: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S3. Probe list of group 2. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.7790888.v1
title: Additional file 6: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S4. Methylation values of group 1 probes. (XLSX 674 kb)
DOI: 10.6084/m9.figshare.7790882.v1
title: Additional file 5: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S3. Probe list of group 2. (XLSX 83 kb)
DOI: 10.6084/m9.figshare.7790873
title: Additional file 4: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S2. Probe list of group 1. (XLSX 102 kb)
DOI: 10.6084/m9.figshare.7790867
title: Additional file 3: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S1. Probes on a custom-built oligo-microarray. (XLSX 1717 kb)
DOI: 10.6084/m9.figshare.7790873.v1
title: Additional file 4: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S2. Probe list of group 1. (XLSX 102 kb)
DOI: 10.6084/m9.figshare.7790867.v1
title: Additional file 3: of Exploring the unique function of imprinting control centers in the PWS/AS-responsible region: finding from array-based methylation analysis in cases with variously sized microdeletions

description: Table S1. Probes on a custom-built oligo-microarray. (XLSX 1717 kb)
DOI: 10.6084/m9.figshare.7790840
title: MOESM1 of Seed culture pre-adaptation of Bacillus coagulans MA-13 improves lactic acid production in simultaneous saccharification and fermentation

description: Additional file 1. Raw data and calculations of yield coefficients and production rates.
DOI: 10.6084/m9.figshare.7790840.v1
title: MOESM1 of Seed culture pre-adaptation of Bacillus coagulans MA-13 improves lactic acid production in simultaneous saccharification and fermentation

description: Additional file 1. Raw data and calculations of yield coefficients and production rates.
DOI: 10.6084/m9.figshare.7790771
title: Additional file 1: of The composition of the pulmonary microbiota in sarcoidosis – an observational study

description: Figure S1. Percentage of OTU counts per sample covered by OTUs not removed (“kept”) or discarded during the filtering step for (A) V1/V2 and (B) V3/V4. OTUs were removed if they were considered as contaminants (flag “contamination”), were present in the NTC sample (flag “controls”), had a count below 1 in non-control samples (i.e. all samples except the NTC sample; flag “count”), or any combination thereof. Figure S2. Phylogenetic OTU tree constructed by LotuS for (A) V1/V2 and (B) V3/V4. The OTUs were colored based on whether they were kept (flag “kept”) or discarded (flags “contamination”, “controls”, “counts”, or any combination thereof) during the filtering step. OTUs were removed if they were considered as contaminants (flag “contamination”), were present in the NTC sample (flag “controls”), or had a count below 1 in non-control samples (i.e. all samples except the NTC sample; flag “count”). Figure S3. PCA plots for (A) V1/V2 and (B) V3/V4. The plots show all samples using the two first principal components. The percentage of the variance explained by each principal component can be found in the axis title. The samples were colored with respect to their indication group. Figure S4. Heatmap of CLR-transformed OTU counts for (A) V1/V2 and (B) V3/V4 only for OTUs assigned by LotuS to the genus Atopobium, Fusobacterium, Mycobacterium or Propionibacterium. The samples were grouped by hierarchical clustering and additional annotation was added to the resulting tree – the sample group label (“Control” or “Sarcoidosis”) and smoker status (“never”, “former”, “current”). (ZIP 1170 kb)
DOI: 10.6084/m9.figshare.7790771.v1
title: Additional file 1: of The composition of the pulmonary microbiota in sarcoidosis – an observational study

description: Figure S1. Percentage of OTU counts per sample covered by OTUs not removed (“kept”) or discarded during the filtering step for (A) V1/V2 and (B) V3/V4. OTUs were removed if they were considered as contaminants (flag “contamination”), were present in the NTC sample (flag “controls”), had a count below 1 in non-control samples (i.e. all samples except the NTC sample; flag “count”), or any combination thereof. Figure S2. Phylogenetic OTU tree constructed by LotuS for (A) V1/V2 and (B) V3/V4. The OTUs were colored based on whether they were kept (flag “kept”) or discarded (flags “contamination”, “controls”, “counts”, or any combination thereof) during the filtering step. OTUs were removed if they were considered as contaminants (flag “contamination”), were present in the NTC sample (flag “controls”), or had a count below 1 in non-control samples (i.e. all samples except the NTC sample; flag “count”). Figure S3. PCA plots for (A) V1/V2 and (B) V3/V4. The plots show all samples using the two first principal components. The percentage of the variance explained by each principal component can be found in the axis title. The samples were colored with respect to their indication group. Figure S4. Heatmap of CLR-transformed OTU counts for (A) V1/V2 and (B) V3/V4 only for OTUs assigned by LotuS to the genus Atopobium, Fusobacterium, Mycobacterium or Propionibacterium. The samples were grouped by hierarchical clustering and additional annotation was added to the resulting tree – the sample group label (“Control” or “Sarcoidosis”) and smoker status (“never”, “former”, “current”). (ZIP 1170 kb)
DOI: 10.6084/m9.figshare.7790741
title: Additional file 3: of Comparing DNA methylation profiles in saliva and intestinal mucosa

description: Table S1. Significantly differentially methylated probe sites between intestinal mucosa and saliva. (CSV 3408 kb)
DOI: 10.6084/m9.figshare.7790747
title: Additional file 4: of Comparing DNA methylation profiles in saliva and intestinal mucosa

description: Table S2. Significantly differentially methylated regions between intestinal mucosa and saliva. (CSV 17 kb)
DOI: 10.6084/m9.figshare.7790741.v1
title: Additional file 3: of Comparing DNA methylation profiles in saliva and intestinal mucosa

description: Table S1. Significantly differentially methylated probe sites between intestinal mucosa and saliva. (CSV 3408 kb)
DOI: 10.6084/m9.figshare.7790747.v1
title: Additional file 4: of Comparing DNA methylation profiles in saliva and intestinal mucosa

description: Table S2. Significantly differentially methylated regions between intestinal mucosa and saliva. (CSV 17 kb)
DOI: 10.6084/m9.figshare.7790726
title: Additional file 2: of Gene expression meta-analysis of Parkinson’s disease and its relationship with Alzheimer’s disease

description: DEGs identified in this study. A full list of the 1046 DEGs identified in this meta-analysis in an Excel file. (XLSX 120 kb)
DOI: 10.6084/m9.figshare.7790726.v1
title: Additional file 2: of Gene expression meta-analysis of Parkinson’s disease and its relationship with Alzheimer’s disease

description: DEGs identified in this study. A full list of the 1046 DEGs identified in this meta-analysis in an Excel file. (XLSX 120 kb)