cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3802717_d1
title: Additional file 10: of 100 million years of multigene family evolution: origin and evolution of the avian MHC class IIB

description: GenBank accession numbers of MHCIIB sequences retained for analysis. (XLSX 23 kb)
DOI: 10.6084/m9.figshare.c.3802717_d2.v1
title: Additional file 11: of 100 million years of multigene family evolution: origin and evolution of the avian MHC class IIB

description: Fasta format alignments of all MHCIIB sequences used for analysis. Separate alignments are provided for each exon and intron comprised between exon 1 to exon 4. Two alignments are provided for each region, one including all sequences retrievable and one including all accessions for which exon 3 was available. For the latter, all accession were retained for all regions, even if no sequence data was available. (ZIP 354 kb)
DOI: 10.6084/m9.figshare.c.3802708_d1
title: Additional file 1: of MLPA identification of dystrophin mutations and in silico evaluation of the predicted protein in dystrophinopathy cases from India

description: Listing of mutations found in our samples. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.c.3802717_d2
title: Additional file 11: of 100 million years of multigene family evolution: origin and evolution of the avian MHC class IIB

description: Fasta format alignments of all MHCIIB sequences used for analysis. Separate alignments are provided for each exon and intron comprised between exon 1 to exon 4. Two alignments are provided for each region, one including all sequences retrievable and one including all accessions for which exon 3 was available. For the latter, all accession were retained for all regions, even if no sequence data was available. (ZIP 354 kb)
DOI: 10.6084/m9.figshare.c.3802723_d1.v1
title: Additional file 1: of A novel tamponade agent for management of post partum hemorrhage: adaptation of the Xstat mini-sponge applicator for obstetric use

description: Desktop testing of postpartum hemorrhage models. Raw data from desktop testing of postpartum hemorrhage models. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3802723_d1
title: Additional file 1: of A novel tamponade agent for management of post partum hemorrhage: adaptation of the Xstat mini-sponge applicator for obstetric use

description: Desktop testing of postpartum hemorrhage models. Raw data from desktop testing of postpartum hemorrhage models. (XLSX 14 kb)
DOI: 10.3886/e194543v1-161801
title: The Opportunity Cost of Debt Aversion

description: We provide evidence of the existence of debt aversion and its negative implications for financial decisions. In a new experimental design where subjects are assigned debt randomly, we quantify the opportunity cost of subjects' debt-biased decisions. One-third of our participants neglect high returns and focus instead on debt repayments. In addition, borrowing to invest is 50 percent less likely when it leads to indebtedness. On average, participants perceive \$1 less in debt as equivalent to \$1.03 in savings. Hence, a debt-averse agent will undertake a 10 percent guaranteed investment only if the cost of borrowing does not exceed 6.80 percent.
DOI: 10.6084/m9.figshare.c.3803608_d1.v1
title: Additional file 1: of Correspondence on Lovell et al.: identification of chicken genes previously assumed to be evolutionarily lost

description: Overview of the RNA-Seq data and filtration of the novel gene candidates. Table S1. Information about the RNA-Seq data. Table S2. The initial set of 2810 candidate novel transcripts. Table S3. Annotation, characterization, and filtering of the novel transcripts. Table S4. The intermediate set of 1878 transcripts representing 1063 candidate novel genes. Table S5. The high-confidence set of 194 transcripts representing 191 novel genes. Table S6. The 191 novel genes not included in Galgal4; 54 of these are correctly annotated while 137 are missing or lack correct annotation in Galgal5. Table S7. Characterization of the novel genes according to predicted cellular localization. Table S8. Identification of the novel genes in Galgal5 genome assembly and by Mass-Spec analysis in adipose tissue. (XLS 2362 kb)
DOI: 10.15468/dl.x5zjn3
title: Occurrence Download

description: A dataset containing 150 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ancylopsetta dilecta (Goode & Bean, 1883)",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Year is greater than or equal to 1900",
 "CoordinateUncertaintyInMeters is less than or equal to 10000"
 ]
}

 The dataset includes 150 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038772-241126133413365/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.3803608_d1
title: Additional file 1: of Correspondence on Lovell et al.: identification of chicken genes previously assumed to be evolutionarily lost

description: Overview of the RNA-Seq data and filtration of the novel gene candidates. Table S1. Information about the RNA-Seq data. Table S2. The initial set of 2810 candidate novel transcripts. Table S3. Annotation, characterization, and filtering of the novel transcripts. Table S4. The intermediate set of 1878 transcripts representing 1063 candidate novel genes. Table S5. The high-confidence set of 194 transcripts representing 191 novel genes. Table S6. The 191 novel genes not included in Galgal4; 54 of these are correctly annotated while 137 are missing or lack correct annotation in Galgal5. Table S7. Characterization of the novel genes according to predicted cellular localization. Table S8. Identification of the novel genes in Galgal5 genome assembly and by Mass-Spec analysis in adipose tissue. (XLS 2362 kb)
DOI: 10.6084/m9.figshare.c.3803611_d2.v1
title: Additional file 2: of Integrated metabolome and transcriptome analysis of Magnolia champaca identifies biosynthetic pathways for floral volatile organic compounds

description: Functional annotation of champak unigenes using BLASTX against the multiple protein databases. (XLS 13237Â kb)
DOI: 10.6084/m9.figshare.c.3803611_d2
title: Additional file 2: of Integrated metabolome and transcriptome analysis of Magnolia champaca identifies biosynthetic pathways for floral volatile organic compounds

description: Functional annotation of champak unigenes using BLASTX against the multiple protein databases. (XLS 13237Â kb)
DOI: 10.25592/uhhfdm.16522
title: Quantifying Hygroscopic Deformation in Lignocellulosic Tissues: A DVC Tool Comparison

description: Reconstructed datasets of 3D nano-tomography images containing few cells of <em>Hura crepitans </em>fruit tissue, <em>Pinus jeffreyi</em> sclereid cells, a <em>Marantochloa leucantha</em> sclerenchyma fibre sheath and <em>Pinus syvlestris </em>latewood. Each sample type contains a wet state image (rh90/rh95) and a dry state image (rh0). The deformation between the states is calculated via digital volume correlations using Avizo, elastix and MBS-3D-OptFlow with the goal to identify the anisotropic hygroscopic shrinkage of the samples as well as the accuracy of the corresponding approach.
description: LH and FS: DFG, German Research Foundation; HE 9048/1-1); LH: European Social Fund and the Ministry of Science, Research and the Arts Baden-Württemberg within the framework of the 'Margarete von Wrangell Habilitation Programme'; KU, TM, TS: Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy— EXC-2193/1–390951807; TMK, BZ-P: ErUM-Data Verbundprojekt 'KI4D4E: Ein KI-basiertes Framework für die Visualisierung und Auswertung der massiven Datenmengen der 4D-Tomographie für Endanwender von Beamlines' which is funded by the Bundesministerium für Bildung und Forschung (BMBF, Förderkennzeichen 05D23CG1).
DOI: 10.25592/uhhfdm.16521
title: Quantifying Hygroscopic Deformation in Lignocellulosic Tissues: A DVC Tool Comparison

description: Reconstructed datasets of 3D nano-tomography images containing few cells of <em>Hura crepitans </em>fruit tissue, <em>Pinus jeffreyi</em> sclereid cells, a <em>Marantochloa leucantha</em> sclerenchyma fibre sheath and <em>Pinus syvlestris </em>latewood. Each sample type contains a wet state image (rh90/rh95) and a dry state image (rh0). The deformation between the states is calculated via digital volume correlations using Avizo, elastix and MBS-3D-OptFlow with the goal to identify the anisotropic hygroscopic shrinkage of the samples as well as the accuracy of the corresponding approach.
description: LH and FS: DFG, German Research Foundation; HE 9048/1-1); LH: European Social Fund and the Ministry of Science, Research and the Arts Baden-Württemberg within the framework of the 'Margarete von Wrangell Habilitation Programme'; KU, TM, TS: Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy— EXC-2193/1–390951807; TMK, BZ-P: ErUM-Data Verbundprojekt 'KI4D4E: Ein KI-basiertes Framework für die Visualisierung und Auswertung der massiven Datenmengen der 4D-Tomographie für Endanwender von Beamlines' which is funded by the Bundesministerium für Bildung und Forschung (BMBF, Förderkennzeichen 05D23CG1).
DOI: 10.6084/m9.figshare.c.3803629_d4
title: Additional file 4: of Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification

description: Ohnologue GO enrichment analyses. Full enrichment data for GO terms belonging to the sub-ontology â  biological processâ  , done comparing protein-coding ohnologues located in LORe and AORe regions. (XLSX 7524 kb)
DOI: 10.6084/m9.figshare.c.3803629_d5
title: Additional file 5: of Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification

description: Sequence capture probes. Full data associated with the 1293 sequence probes used to capture a genome-wide dataset of ohnologues across 15 salmonid species, including: (i) NCBI accession and encoded protein product for each sequence capture probe, (ii) the salmonid species from which each probe sequence was taken, (iii) ‘Probe status’, where ‘Singleton’ means only a single gene duplicate was included in the probe set, even if other duplicates were identified and ‘Duplicate’ means both gene duplicates were present in the probe set, and (iv) ‘Selection status’, where ‘Pre-selected’ means the sequence capture probe was selected a priori and ‘Selected randomly’ means the genes were chosen at random. (XLSX 588 kb)
DOI: 10.6084/m9.figshare.c.3803629_d6.v1
title: Additional file 6: of Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification

description: Detailed RNAseq information. Full data associated with transcriptomic analysis of ohnologue expression responses accompanying the freshwater to saltwater transition in Atlantic salmon, including: (i) sample metadata, (ii) read and mapping statistics, (iii) gene/feature count statistics, and (iv) NCBI SRA accession numbers. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3803623_d5.v1
title: MOESM5 of Comparative evaluation of atom mapping algorithms for balanced metabolic reactions: application to Recon 3D

description: Additional file 4. A MATLAB LiveScript used to standardise the algorithmic predictions, before comparison. Requires MATLAB 2016a and above.
DOI: 10.6084/m9.figshare.c.3803623_d5
title: MOESM5 of Comparative evaluation of atom mapping algorithms for balanced metabolic reactions: application to Recon 3D

description: Additional file 4. A MATLAB LiveScript used to standardise the algorithmic predictions, before comparison. Requires MATLAB 2016a and above.
DOI: 10.6084/m9.figshare.c.3803629_d6
title: Additional file 6: of Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification

description: Detailed RNAseq information. Full data associated with transcriptomic analysis of ohnologue expression responses accompanying the freshwater to saltwater transition in Atlantic salmon, including: (i) sample metadata, (ii) read and mapping statistics, (iii) gene/feature count statistics, and (iv) NCBI SRA accession numbers. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.c.3803662_d1.v1
title: Additional file 1: of Metabolic and transcriptional elucidation of the carotenoid biosynthesis pathway in peel and flesh tissue of loquat fruit during on-tree development

description: Figures S1-S3 and Tables S1-S6 illustrate extra information cited in the text. (ZIP 182 kb)
DOI: 10.15468/dl.nue6mx
title: Occurrence Download

description: A dataset containing 602 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Thaumatotibia leucotreta (Meyrick, 1913)"
 ]
}

 The dataset includes 602 records from 28 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038773-241126133413365/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.3803662_d1
title: Additional file 1: of Metabolic and transcriptional elucidation of the carotenoid biosynthesis pathway in peel and flesh tissue of loquat fruit during on-tree development

description: Figures S1-S3 and Tables S1-S6 illustrate extra information cited in the text. (ZIP 182 kb)
DOI: 10.5281/zenodo.14006160
title: reference genome used for scRNA-seq mapping with CellRanger in the method spatial-scERA

description: The modified Drosophila melanogaster (dm6) reference genome used for the mapping with CellRanger in the method paper about spatial-scERA

The genome is composed of the original genome from EnsembleMetazo website (BDGP6.46.110). An addition of 26 chromosomes (one for the plasmid construct and 25 for the tested enhancer sequences) is also present to allow for the mapping of mRNAs comming from our constructs.
DOI: 10.6084/m9.figshare.c.3803665_d1.v1
title: Additional file 1: of Patterns of objectively measured sedentary time in 10- to 12-year-old Belgian children: an observational study within the ENERGY-project

description: Dataset. Sedentary patterns of 10- to 12-year old children. (XLS 1444 kb)
DOI: 10.6084/m9.figshare.c.3803674_d1.v1
title: Additional file 1: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Developmental/stemness candidate genes. (XLSX 32Â kb)
DOI: 10.6084/m9.figshare.c.3803665_d1
title: Additional file 1: of Patterns of objectively measured sedentary time in 10- to 12-year-old Belgian children: an observational study within the ENERGY-project

description: Dataset. Sedentary patterns of 10- to 12-year old children. (XLS 1444 kb)
DOI: 10.6084/m9.figshare.c.3803674_d1
title: Additional file 1: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Developmental/stemness candidate genes. (XLSX 32Â kb)
DOI: 10.5281/zenodo.14006188
title: Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics: fastq files - Sample S2_Col_R

description: You can find here the fastq files related to the datasets used in the publication: 

In this particular upload, you can find the fastq files of the two replicates of sample S2_Col_R (A595688)

Valdeolivas, A., Amberg, B., Giroud, N. et al. Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. npj Precis. Onc. 8, 10 (2024). https://doi.org/10.1038/s41698-023-00488-4
DOI: 10.5281/zenodo.14006187
title: Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics: fastq & bam files - Sample S2_Col_R

description: You can find here the fastq and bam files related to the datasets used in the publication: 

In this particular upload, you can find the fastq (version 1) and bam (version2) files of the two replicates of sample S2_Col_R (A595688)

Valdeolivas, A., Amberg, B., Giroud, N. et al. Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. npj Precis. Onc. 8, 10 (2024). https://doi.org/10.1038/s41698-023-00488-4
DOI: 10.5281/zenodo.14512748
title: Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics: fastq & bam files - Sample S2_Col_R

description: You can find here the fastq and bam files related to the datasets used in the publication: 

In this particular upload, you can find the fastq (version 1) and bam (version2) files of the two replicates of sample S2_Col_R (A595688)

Valdeolivas, A., Amberg, B., Giroud, N. et al. Profiling the heterogeneity of colorectal cancer consensus molecular subtypes using spatial transcriptomics. npj Precis. Onc. 8, 10 (2024). https://doi.org/10.1038/s41698-023-00488-4
DOI: 10.6084/m9.figshare.c.3803701_d1
title: MOESM1 of Assessment of renal hemodynamic toxicity of fluid challenge with 0.9% NaCl compared to balanced crystalloid (PlasmaLyteÂŽ) in a rat model with severe sepsis

description: Additional file 1. Study Database. Each column corresponds to one animal. Time is indicated in minutes, other units are mentioned in first, second or third column. Empty box corresponds to lacking data for technical reason (unworkable biologic sampling or video).
DOI: 10.6084/m9.figshare.c.3803674_d5.v1
title: Additional file 5: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Candidate gene associations with AQP9 expression in male and female placenta, with or without adjustment for U-As levels. Multivariable linear regression analyses were performed as in Fig. 1, to determine the association of placental AQP9 expression with developmental/stemness gene expression after cohort stratification by infant sex, with or without adjustment for U-As levels. All analyses were adjusted for maternal age. *P
DOI: 10.6084/m9.figshare.c.3803674_d5
title: Additional file 5: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Candidate gene associations with AQP9 expression in male and female placenta, with or without adjustment for U-As levels. Multivariable linear regression analyses were performed as in Fig. 1, to determine the association of placental AQP9 expression with developmental/stemness gene expression after cohort stratification by infant sex, with or without adjustment for U-As levels. All analyses were adjusted for maternal age. *P
DOI: 10.6084/m9.figshare.c.3803704_d1.v1
title: Additional file 10: of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Amino acid SUVH5/6 sequences in fasta format. (FNA 1381 kb)
DOI: 10.6084/m9.figshare.c.3803704_d1
title: Additional file 10: of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Amino acid SUVH5/6 sequences in fasta format. (FNA 1381 kb)
DOI: 10.6084/m9.figshare.c.3803674_d6.v1
title: Additional file 6: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Candidate gene associations with percentages of different urinary arsenic subtypes in male and female placenta. The percentages of iAs, MMAV, and DMAV in maternal urine were computed by dividing their urinary levels by total U-As levels. Multivariable linear regression analyses were then performed to determine the association of the percentage of arsenic subtype with developmental/stemness gene expression, after cohort stratification by infant sex (females; sheet 1, males; sheet 2). Analyses were adjusted for maternal age only. *P
DOI: 10.6084/m9.figshare.c.3803674_d6
title: Additional file 6: of The aquaglyceroporin AQP9 contributes to the sex-specific effects of in utero arsenic exposure on placental gene expression

description: Candidate gene associations with percentages of different urinary arsenic subtypes in male and female placenta. The percentages of iAs, MMAV, and DMAV in maternal urine were computed by dividing their urinary levels by total U-As levels. Multivariable linear regression analyses were then performed to determine the association of the percentage of arsenic subtype with developmental/stemness gene expression, after cohort stratification by infant sex (females; sheet 1, males; sheet 2). Analyses were adjusted for maternal age only. *P
DOI: 10.6084/m9.figshare.c.3803704_d3.v1
title: Additional file 12: of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Amino acid jmjC sequences in fasta format. (FNA 5153 kb)
DOI: 10.6084/m9.figshare.c.3803704_d2
title: Additional file 11: of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Nucleotide jmjC sequences in fasta format. (FAA 1770 kb)
DOI: 10.6084/m9.figshare.c.3803704_d3
title: Additional file 12: of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Amino acid jmjC sequences in fasta format. (FNA 5153 kb)
DOI: 10.6084/m9.figshare.c.3803704_d4.v1
title: Additional file 13: Table S4. of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: DNA methylation levels estimated from deep and sampled WGBS from 34 Viridiplantae species. (XLSX 61 kb)
DOI: 10.6084/m9.figshare.c.3803704_d4
title: Additional file 13: Table S4. of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: DNA methylation levels estimated from deep and sampled WGBS from 34 Viridiplantae species. (XLSX 61 kb)
DOI: 10.6084/m9.figshare.c.3803704_d5.v1
title: Additional file 14: Table S5. of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: DNA methylation levels of species sequenced in this study. (XLSX 57 kb)
DOI: 10.6084/m9.figshare.c.3803704_d6.v1
title: Additional file 1: Table S1. of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: Taxonomic, sequence name, and phylogenetic summary of sequences used in this study. (XLSX 82 kb)
DOI: 10.6084/m9.figshare.c.3803704_d5
title: Additional file 14: Table S5. of The evolution of CHROMOMETHYLASES and gene body DNA methylation in plants

description: DNA methylation levels of species sequenced in this study. (XLSX 57 kb)
DOI: 10.57754/fdat.r5sx4-dvv19
title: Study1: Trigger Study

description: We compared word-per-word self paced reading times on sentences with a presupposition, whose content was not given by the context, with sentences which were semantically acceptable or semantically unacceptable.
We investigated the research question on presupposition processing: "When are PSPs triggered?
description: Research carried out in work package B02 of the SFB 833.
DOI: 10.5281/zenodo.14512885
title: Grossauheim  Apotheke

description: Historical questionnaire/s 1924/1948 and index cards, partly selected enclosures regarding the history of a German pharmacy, catalogued via Kalliope portal (Historischer Fragebogen 1924/1948 und Karteikarten, ggf. gemeinfreie Anlagen zur Apothekengeschichte; als Katalog dient das Nachlassportal Kalliope):

https://kalliope-verbund.info/ead?ead.id=DE-611-BF-70963

Please note: The Kalliope catalogue entry might indicate related material in the archival folder which cannot be published due to copyright or other legal restrictions (NB: Das Katalogisat bei Kalliope kann auch auf Materialien - teils erheblichen Umfangs - verweisen, die aus archiv- oder urheberrechtlichen Gründen nicht veröffentlicht werden dürfen).
DOI: 10.57754/fdat.daqx2-mhz19
title: Studie_5_lesezeit

description: Verifying pragmatic inferences in context: An experimental comparison of presuppositions of again and the definite determiner with scalar implicatures (first associated publication)
An experimental investigation of presupposition processing (second associated publication, PhD thesis C. Schneider)
description: Research carried out in work package B02 of the SFB 833.