cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.21410/7e4/pcxyae
title: Regional Income Inequality in the United States (1917-2011)

description: Estelle Sommeiller is a socio-economist at the Institute for Research in Economic and Social Sciences (IRES) in France. She holds a Ph.D. in economics, jointly awarded by the University of Delaware and the Université Lumière in Lyon, France. Her doctoral dissertation, "Regional Inequality in the United States, 1913-2003", analyses a set of panel data by state cross-sections and annually, using the Statistics of Income publications by the US Internal Revenue Service (IRS). Sommeiller's theoretical approach was inspired by the economist Thomas Piketty, who pointed out the strong heterogeneity of the top decile in his book "Les hauts revenus en France au XXème siècle. Inégalités et redistributions 1901-1998." and distinguished a certain number of intermediary revenues classes (the fractiles), until the highest 0.01. The same distinction was used by Sommelier, with the use of the desegregation by state as a difference. Two variables were extracted by the author from the publications of the IRS: the number of individual returns and the total income expressed in dollars. Both variables are ranked by size of income and by state. The database represents well the top 10 percent of the income distribution. Sommeiller's Ph.D. thesis covers the period from 1913 to 2003 with deflated measures, using the 2003 dollars value. For the purposes of the paper "The Increasingly Unequal States of America", Sommeiller updated the data by adding the 2004 to 2011 series and excluding the ones from 1913 to 1916. All the measures are expressed in 2011 current dollars. These are the data that we are disseminating here.
DOI: 10.21410/7e4/pcxyae/1gjbuo
title: Documentation_Regional_Income_Inequality_in the_United_States_(1917-2011).pdf

description: :unav
DOI: 10.21410/7e4/pcxyae/6wyrq1
title: fr.cdsp.ddi.RIIUS2011-ddi25.xml

description: :unav
DOI: 10.21410/7e4/pcxyae/8gnpqd
title: fr.cdsp.ddi.RIIUS2011-ddi25.xml

description: :unav
DOI: 10.21410/7e4/pcxyae/9s7gfc
title: WorkingPaper_Sommeiller_Price_2014 _Income_Inequality_by_State.pdf

description: :unav
DOI: 10.21410/7e4/pcxyae/hkdrsf
title: Regional_Income_Inequality_in_the_United_States_1917_2011.wmv

description: :unav
DOI: 10.21410/7e4/pcxyae/s3uxd6
title: readme.txt
DOI: 10.21410/7e4/pcxyae/xsm3kb
title: cdsp_riius2011.zip

description: :unav
DOI: 10.15468/dl.wrnwys
title: Occurrence Download

description: A dataset containing 1886 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Brazil",
 "TaxonKey is Tabebuia roseoalba"
 ]
}

 The dataset includes 1886 records from 154 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0061144-250920141307145/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3606611_d3.v1
title: Additional file 2: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 1. Petunia unigene locus identifiers, expression levels, annotation and sequences. (XLSX 11680Â kb)
DOI: 10.6084/m9.figshare.c.3606611_d4.v1
title: Additional file 7: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 6. SSR validation results. (XLSX 13Â kb)
DOI: 10.6084/m9.figshare.c.3606629_d1.v1
title: Additional file 1: Table e1. of High mannose-binding Pseudomonas fluorescens lectin (PFL) downregulates cell surface integrin/EGFR and induces autophagy in gastric cancer cells

description: Aligent Expression Array Analysis with SurePrint G3 Human GE 8x60K v2 (Takara Bio, Japan). (XLS 9492 kb)
DOI: 10.6084/m9.figshare.c.3606611_d5.v1
title: Additional file 5: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 4. CAPS markers developed from SNPs. (XLSX 1499Â kb)
DOI: 10.6084/m9.figshare.c.3606611_d6.v1
title: Additional file 3: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 2. OrthoMCL clusters across three Petunia species. (XLSM 1433Â kb)
DOI: 10.6084/m9.figshare.c.3606611_d7.v1
title: Additional file 4: of Transcriptome-enabled marker discovery and mapping of plastochron-related genes in Petunia spp.

description: Supplemental Dataset 3. Gene Ontology annotations of representative transcripts. (XLS 16720Â kb)
DOI: 10.6084/m9.figshare.c.3606662_d5.v1
title: Additional file 2: Data set S1. of The application of transcriptomic data in the authentication of beef derived from contrasting production systems

description: Normalised relative expression of selected DE genes based generated from QPCR and primer pairs for DE genes. (XLSX 22 kb)
DOI: 10.6084/m9.figshare.c.3606668_d4.v1
title: Additional file 11: Table S9. of Generation of different sizes and classes of small RNAs in barley is locus, chromosome and/or cultivar-dependent

description: Targets of up-regulated miRNAs in Pallas. (XLSX 16 kb)
DOI: 10.5281/zenodo.14011659
title: HGTs in teleost fishes

description: All_pairwise_files_synteny: Micro-syntenic scores computed between all genes belonging to the same orthogroup. One file for each species comparison.

Blast_pipeline : Files needed to run the BLAST procedure to detect HGTs

BRAKER_annotation_files : BRAKER results (GFF3) for annotated species

Further_analysis: Files needed to reproduce the detailed analysis of each putative HGTs (manual search of genes in close species or in alternative genome assemblies, alignment and ML trees with closest fish proteins + uniprot proteins, flanking regions and transposable elements analysis). One folder for each HGT. 

HGT_result_files: Files needed to reproduce the analysis presented in the manuscript 

Ks_pipeline: Files needed to run the Ks procedure (including alignment and Ks computations) 

Selection_analysis: FitMG94, aBSREL and RELAX result files

N5.tsv : Phylogenetic Hierarchical Orthogroups infered for the node N5 (= most recent common ancestor of all teleost fishes)

 Species_Tree : Species tree used in this study, computed using ASTRAL-III and dated using IQ-TREE2. This folder also contains all BUSCO gene trees used as input in ASTRAL-III.A first zipped folder with HOG alignments and phylogenetic trees can be found here, and need to be combined with those of the separate Zenodo directories (place the zipped folders Manuscript_Alignments_Trees_splitted.zip +  Manuscript_Alignments_Trees_splitted.z01 + Manuscript_Alignments_Trees_splitted.z02 +  Manuscript_Alignments_Trees_splitted.z03 + Manuscript_Alignments_Trees_splitted.z04 into the same location and run unzip Manuscript_Alignments_Trees_splitted.zip). [these files can be found here : 10.5281/zenodo.14012963 and 10.5281/zenodo.14012814]
DOI: 10.5281/zenodo.14011660
title: HGTs in teleost fishes

description: All_pairwise_files_synteny: Micro-syntenic scores computed between all genes belonging to the same orthogroup. One file for each species comparison.

Blast_pipeline : Files needed to run the BLAST procedure to detect HGTs

BRAKER_annotation_files : BRAKER results (GFF3) for annotated species

Further_analysis: Files needed to reproduce the detailed analysis of each putative HGTs (manual search of genes in close species or in alternative genome assemblies, alignment and ML trees with closest fish proteins + uniprot proteins, flanking regions and transposable elements analysis). One folder for each HGT. 

HGT_result_files: Files needed to reproduce the analysis presented in the manuscript 

Ks_pipeline: Files needed to run the Ks procedure (including alignment and Ks computations) 

Selection_analysis: FitMG94, aBSREL and RELAX result files

N5.tsv : Phylogenetic Hierarchical Orthogroups infered for the node N5 (= most recent common ancestor of all teleost fishes)

 Species_Tree : Species tree used in this study, computed using ASTRAL-III and dated using IQ-TREE2. This folder also contains all BUSCO gene trees used as input in ASTRAL-III.A first zipped folder with HOG alignments and phylogenetic trees can be found here, and need to be combined with those of the separate Zenodo directories (place the zipped folders Manuscript_Alignments_Trees_splitted.zip +  Manuscript_Alignments_Trees_splitted.z01 + Manuscript_Alignments_Trees_splitted.z02 +  Manuscript_Alignments_Trees_splitted.z03 + Manuscript_Alignments_Trees_splitted.z04 into the same location and run unzip Manuscript_Alignments_Trees_splitted.zip). [these files can be found here : 10.5281/zenodo.14012963 and 10.5281/zenodo.14012814]
DOI: 10.6084/m9.figshare.c.3606668_d6.v1
title: Additional file 12: Table S10. of Generation of different sizes and classes of small RNAs in barley is locus, chromosome and/or cultivar-dependent

description: Functional analysis of microRNA target genes using GO annotation (GO slim). (XLSX 44 kb)
DOI: 10.6084/m9.figshare.c.3606668_d7.v1
title: Additional file 7: Table S5. of Generation of different sizes and classes of small RNAs in barley is locus, chromosome and/or cultivar-dependent

description: Percentage of mapped reads to the different chromosomes as a function of read length. (XLSX 32 kb)
DOI: 10.6084/m9.figshare.c.3606668_d9.v1
title: Additional file 4: Table S2. of Generation of different sizes and classes of small RNAs in barley is locus, chromosome and/or cultivar-dependent

description: Cross comparison of reads from GP and Pallas. (XLSX 1351 kb)
DOI: 10.6084/m9.figshare.c.3606668_d10.v1
title: Additional file 6: Table S4. of Generation of different sizes and classes of small RNAs in barley is locus, chromosome and/or cultivar-dependent

description: sRNA types in GP and Pallas. (XLSX 16 kb)
DOI: 10.6084/m9.figshare.c.3606743_d2.v1
title: Additional file 3: of Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities

description: The proportion of reads assigned at each taxonomic rank on all in silico datasets. (TXT 213Â kb)
DOI: 10.6084/m9.figshare.c.3606758_d1.v1
title: Additional file 1 of An investigation of causes of false positive single nucleotide polymorphisms using simulated reads from a small eukaryote genome

description: Supplementary materials. This supplementary pack file is comprised of the following ones: ANOVA_FullResults.xlsx – comprises the multifactorial ANOVA results; avgPctOfMismapping.xlsx – details the average percentages of reads containing the alternate allele and across the mappings; readMappingStats.xlsx – brings the alignment rates of reads, in the mappings, retrieved with the SAMtools flagstat command; snpNumbersStats.xlsx – details the SNP numbers computed in the experiment; SupplementalData.pdf – contains all the additional information and files mentioned in the manuscript. (ZIP 1362 kb)
DOI: 10.6084/m9.figshare.c.3606755_d2.v1
title: Additional file 2: Tables S1â  S3. of Secondary structure impacts patterns of selection in human lncRNAs

description: Table S1. Chromosome, transcript start coordinates, transcript end coordinates, and transcript ID for each lncRNA of the functional set. Table S2. Chromosome, transcript start coordinates, transcript end coordinates, and transcript ID for each lncRNA of the broad set. Table S3. Mean number of SNPs in regions classified according to the presence or not of ESE motifs for the functional and broad human sets in the five major populations. (XLS 295 kb)
DOI: 10.5281/zenodo.14012813
title: HGTs in teleost fishes 2

description: Zipped folder to combine with "HGTs in teleost fishes" and "HGTs in teleost fishes 3" folders before unzipping
DOI: 10.5281/zenodo.14012814
title: HGTs in teleost fishes 2

description: Zipped folder to combine with "HGTs in teleost fishes" and "HGTs in teleost fishes 3" folders before unzipping
DOI: 10.6084/m9.figshare.28043018
title: Eccentricity measurement of using adhesive bond for attaching a laser tracker's SMR to a robot flange

description: This data is part of the paper: "Design and Evaluation of a Low-Cost Mount for Attaching a Laser Tracker’s SMR to a Robot Flange". It was created by using the software FARO CAM2 for the laser tracker FARO Vantage E with a 1.5 inch Standard Accuracy Break Resistant SMR from FARO with gold covering, a range of 60 m and a centring accuracy of &lt; ±7.6 µm. For the measurements the SMR is placed in a monument attached with adhesive bond to the robot flange facing the laser tracker. It is used to evaluate the accuracy of the designed mount by comparing its eccentricity and repeatability to the method of using an adhesive bond.<br>All measurement values are positional data in the three-dimensional coordinate system (x,y,z) in mm.<br>As a comparison to the designed mount, the current SMR fixture using an adhesive bond was analysed. In order to do this, a SMR monument was placed as close as possible to the centre of wrist 3 of the <i>Universal Robots UR5e </i>and a SMR was placed in the monument. The eccentricity of the attachment was measured with five repetitions of a 360° rotation at the same location with 36 measurements each. The mean eccentricity was 1.185 mm.
DOI: 10.6084/m9.figshare.28043018.v1
title: Eccentricity measurement of using adhesive bond for attaching a laser tracker's SMR to a robot flange

description: This data is part of the paper: "Design and Evaluation of a Low-Cost Mount for Attaching a Laser Tracker’s SMR to a Robot Flange". It was created by using the software FARO CAM2 for the laser tracker FARO Vantage E with a 1.5 inch Standard Accuracy Break Resistant SMR from FARO with gold covering, a range of 60 m and a centring accuracy of &lt; ±7.6 µm. For the measurements the SMR is placed in a monument attached with adhesive bond to the robot flange facing the laser tracker. It is used to evaluate the accuracy of the designed mount by comparing its eccentricity and repeatability to the method of using an adhesive bond.<br>All measurement values are positional data in the three-dimensional coordinate system (x,y,z) in mm.<br>As a comparison to the designed mount, the current SMR fixture using an adhesive bond was analysed. In order to do this, a SMR monument was placed as close as possible to the centre of wrist 3 of the <i>Universal Robots UR5e </i>and a SMR was placed in the monument. The eccentricity of the attachment was measured with five repetitions of a 360° rotation at the same location with 36 measurements each. The mean eccentricity was 1.185 mm.
DOI: 10.6084/m9.figshare.c.3606743_d4.v1
title: Additional file 5: of Evaluation of shotgun metagenomics sequence classification methods using in silico and in vitro simulated communities

description: The performance for each of the component genomes on all in silico datasets. (TXT 674Â kb)
DOI: 10.5281/zenodo.14012962
title: HGTs in teleost fishes 3

description: Zipped folder to combine with "HGTs in teleost fishes" and "HGTs in teleost fishes 2" folders before unzipping
DOI: 10.5281/zenodo.14012963
title: HGTs in teleost fishes 3

description: Zipped folder to combine with "HGTs in teleost fishes" and "HGTs in teleost fishes 2" folders before unzipping
DOI: 10.15468/dl.9dvnys
title: Occurrence Download

description: A dataset containing 77572 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Long-term cetacean monitoring in the Azores based on whale watching observations (2009-2020)"
 ]
}

 The dataset includes 77572 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0037532-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3606836_d7.v1
title: Additional file 9: Table S9. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: Distribution and frequency of SSRs detected in different plant species. (XLS 28 kb)
DOI: 10.6084/m9.figshare.c.3606869_d2.v1
title: Additional file 1: Table S1. of Integrated analysis of gene expression from carbon metabolism, proteome and metabolome, reveals altered primary metabolism in Eucalyptus grandis bark, in response to seasonal variation

description: Primers used in real-time PCR analysis. (XLSX 11Â kb)
DOI: 10.6084/m9.figshare.c.3606836_d8.v1
title: Additional file 5: Table S5. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTX searching results of 4428 BESs with protein databases of S. lycopersicum. (XLS 416 kb)
DOI: 10.6084/m9.figshare.c.3606836_d9.v1
title: Additional file 7: Table S7. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTN searching results of 11542 BESs with Mx23Hm database. (XLS 479 kb)
DOI: 10.6084/m9.figshare.c.3606878_d4.v1
title: Additional file 6: of Which type of social activities may reduce cognitive decline in the elderly?: a longitudinal population-based study

description: 4wave KLoSA CodeBook English version_2012. (XLSX 944 kb)
DOI: 10.6084/m9.figshare.c.3606890_d1.v1
title: Additional file 1: Table S1. of Booster vaccination against tetanus and diphtheria: insufficient protection against diphtheria in young and elderly adults

description: Complete raw data. (XLSX 30Â kb)
DOI: 10.6084/m9.figshare.c.3606884_d2.v1
title: Additional file 2: of Low genetic diversity despite multiple introductions of the invasive plant species Impatiens glandulifera in Europe

description: Populations showing significant linkage disequilibrium (LD) between pairs of loci.
DOI: 10.6084/m9.figshare.c.3606836_d10.v1
title: Additional file 15: Table S13. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The 36 BESs matched to all the four sequenced genomes. (XLS 30 kb)
DOI: 10.6084/m9.figshare.c.3606878_d5.v1
title: Additional file 4: of Which type of social activities may reduce cognitive decline in the elderly?: a longitudinal population-based study

description: 2 wave KLoSA Codebook English version_2008. (XLSX 968 kb)
DOI: 10.6084/m9.figshare.c.3606836_d11.v1
title: Additional file 8: Table S8. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTN searching results of 11542 BESs with 0431â  1 database. (XLS 466 kb)
DOI: 10.6084/m9.figshare.c.3606884_d7.v1
title: Additional file 1: of Low genetic diversity despite multiple introductions of the invasive plant species Impatiens glandulifera in Europe

description: Description of the loci studied, divided by population. Frequency of null alleles as estimated by the Expectetion Maximization algorithm implemented in FreeNA, and loci with allele frequencies significantly deviating from Hardy Weinberg equilibrium (HWE).
DOI: 10.6084/m9.figshare.c.3606836_d17.v1
title: Additional file 1: Table S1. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: The BLASTN searching results of 4428 BESs with sweetpotato EST database. (XLS 635 kb)
DOI: 10.6084/m9.figshare.c.3606884_d8.v1
title: Additional file 4: of Low genetic diversity despite multiple introductions of the invasive plant species Impatiens glandulifera in Europe

description: Likelihood values, ΔK values and CLUMPP H values for the different STRUCTURE runs.
DOI: 10.6084/m9.figshare.c.3606836_d18.v1
title: Additional file 13: Table S11. of A genome-wide BAC-end sequence survey provides first insights into sweetpotato (Ipomoea batatas (L.) Lam.) genome composition

description: Paired BESs aligned on the same contigs of Mx23Hm in the correct orientation. (XLS 106 kb)
DOI: 10.6084/m9.figshare.c.3606899_d7.v1
title: Additional file 1: Table S1. of Next-generation sequencing diagnostics of bacteremia in septic patients

description: List of fungal reference genomes included in the kraken database to identify microbial reads in non-human reads. (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3606899_d9.v1
title: Additional file 3: Table S6. of Next-generation sequencing diagnostics of bacteremia in septic patients

description: Total read counts per sample and species. (XLSX 57 kb)
DOI: 10.6084/m9.figshare.c.3606911_d4.v1
title: Additional file 8: Table S6. of Elucidating the molecular physiology of lantibiotic NAI-107 production in Microbispora ATCC-PTA-5024

description: Numbers of KEGG orthology groups participating in molecular and metabolic processes as inferred from genome and proteome analyses, respectively. (XLS 24 kb)
DOI: 10.6084/m9.figshare.c.3606938_d1.v1
title: Additional file 1: Table S1. of Characterizing the pathotype of neonatal meningitis causing Escherichia coli (NMEC)

description: Distribution of phylogroups, virulence genes, ability to form biofilms, and relative invasion frequencies of NMEC and HFEC isolates. Detailed procedure for each experiment is included in the Materials and Methods section. Raw data of phylogroups, virulence genes, ability to form biofilms, and invasion frequencies observed with in vitro invasion assays for E. coli isolates used in the study are summarized in Additional file 1: Table S1. (XLSX 27 kb)
DOI: 10.6084/m9.figshare.c.3606971_d1.v1
title: MOESM1 of White adipose tissue reference network: a knowledge resource for exploring health-relevant relations

description: Supplementary material 1 (ZIP 5046Â kb)
DOI: 10.6084/m9.figshare.c.3606977_d2.v1
title: Additional file 2 of The influence of societal individualism on a century of tobacco use: modelling the prevalence of smoking

description: Smoking prevalence and tobacco consumption data. CSV file containing four columns: country number as it appears in Table A.1 of the Additional file 1, year (t), measurement (x(t) or c(t)), and type of measurement (0 indicates a smoking prevalence measurement, while 1 indicates a cigarette consumption measurement). (CSV 35 kb)
DOI: 10.6084/m9.figshare.c.3606977_d3.v1
title: Additional file 3 of The influence of societal individualism on a century of tobacco use: modelling the prevalence of smoking

description: Proxy data: articles published on the health effects of smoking. CSV which contains three columns: year (t), number of articles published in year t, and cumulative number of articles published up to and including year t (n(t)). (CSV 1 kb)
DOI: 10.6084/m9.figshare.c.3606971_d3.v1
title: MOESM38 of White adipose tissue reference network: a knowledge resource for exploring health-relevant relations

description: Supplementary material 4 (XLS 95Â kb)
DOI: 10.6084/m9.figshare.c.3606977_d4.v1
title: Additional file 4 of The influence of societal individualism on a century of tobacco use: modelling the prevalence of smoking

description: Matlab data files and simulation code. Matlab data files and simulation code used in preparation of this manuscript. (ZIP 21 kb)
DOI: 10.6084/m9.figshare.c.3606977_d5.v1
title: Additional file 5 of The influence of societal individualism on a century of tobacco use: modelling the prevalence of smoking

description: Proxy data: US population. CSV containing two columns: year (t) and population N pop (t). (CSV 1 kb)
DOI: 10.6084/m9.figshare.c.3606971_d4.v1
title: MOESM40 of White adipose tissue reference network: a knowledge resource for exploring health-relevant relations

description: Supplementary material 6 (XLS 3479Â kb)
DOI: 10.6084/m9.figshare.c.3607010_d1.v1
title: Additional file :6 of TNL genes in peach: insights into the post-LRR domain

description: Transcribed PL sequences. Sequences of the transcribed genes ppa022336m, ppa000596m, ppa021732m, ppa024249m, ppa021703m, ppa023688m-ppa000585m, ppa026786m and ppa021808m for the peach ‘Nemared’ and plum ‘Myrabi’ (= ‘P.2032’) cultivars. (FAS 7 kb)
DOI: 10.6084/m9.figshare.c.3607049_d1.v1
title: Additional file 1: of Is multiple nest building an adequate strategy to cope with inter-species nest usurpation?

description: Supplementary material. (XLSX 64 kb)