cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12638049.v1
title: Additional file 2 of Transcriptional responses in Parascaris univalens after in vitro exposure to ivermectin, pyrantel citrate and thiabendazole

description: Additional file 2: Table S2.Parascaris univalens in vitro incubation experiment. Differentially expressed genes (fold change ≥ 2 or and adjusted P-value (Walds test and Benjamini-Hochberg procedure) &lt; 0.05) and their corresponding orthologues according to Swiss-Prot database after 24 h in vitro incubation in media (control 24 h-DMSO). Gene expression was normalized to non-incubated worms (control 0 h).
DOI: 10.6084/m9.figshare.12638046.v1
title: Additional file 1 of Transcriptional responses in Parascaris univalens after in vitro exposure to ivermectin, pyrantel citrate and thiabendazole

description: Additional file 1: Table S1. Log2 fold change and adjusted P-values for the differentially expressed genes discussed in this article.
DOI: 10.6084/m9.figshare.12638023
title: Additional file 8 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 8. Cabernet Sauvignon (CS) VviERF6L protein motif coordinates including start position, motif number and consensus motif.
DOI: 10.6084/m9.figshare.12638023.v1
title: Additional file 8 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 8. Cabernet Sauvignon (CS) VviERF6L protein motif coordinates including start position, motif number and consensus motif.
DOI: 10.6084/m9.figshare.12638008
title: Additional file 3 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 3. PN40024 VviERF6L protein motif coordinates including consensus motif, and VviERF6L specific motif sequence, start and stop residue positions.
DOI: 10.6084/m9.figshare.12638005
title: Additional file 38 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 38. Primers used for RT-qPCR analysis. Primers were designed using primer 3 and NCBI's primer design tool. Primers were designed to be specific for genes of interest and respectful of RT-qPCR settings and specifications.
DOI: 10.6084/m9.figshare.12638011
title: Additional file 4 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 4. PN40024 VviERF6L ERF domain percent identity with closest Arabidopsis thaliana ERF domain ortholog.
DOI: 10.6084/m9.figshare.12638005.v1
title: Additional file 38 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 38. Primers used for RT-qPCR analysis. Primers were designed using primer 3 and NCBI's primer design tool. Primers were designed to be specific for genes of interest and respectful of RT-qPCR settings and specifications.
DOI: 10.6084/m9.figshare.12638008.v1
title: Additional file 3 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 3. PN40024 VviERF6L protein motif coordinates including consensus motif, and VviERF6L specific motif sequence, start and stop residue positions.
DOI: 10.6084/m9.figshare.12638011.v1
title: Additional file 4 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 4. PN40024 VviERF6L ERF domain percent identity with closest Arabidopsis thaliana ERF domain ortholog.
DOI: 10.6084/m9.figshare.12637999
title: Additional file 36 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 36. Annotations of differentially expressed genes in three VviERF6L1 overexpression lines relative to empty vector control.
DOI: 10.6084/m9.figshare.12637993
title: Additional file 34 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 34. Morphological phenotyping measurements taken that were not statistically significant between OX VviERF6L1 and empty vector control lines. Measurements were collected over the span of three weeks to 3 years. Data were tested for significant differences between empty vector control line (G1) and overexpression lines (L12-1, 2, 3, 11, and 23). Assumptions were met for tests used to determine significance.
DOI: 10.6084/m9.figshare.12637999.v1
title: Additional file 36 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 36. Annotations of differentially expressed genes in three VviERF6L1 overexpression lines relative to empty vector control.
DOI: 10.6084/m9.figshare.12637987
title: Additional file 32 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 32. Fold increase of VviERF6L12 expression relative to average expression of all other VviERF6Ls. Expression value of VviERF6L12 and average value of all other VviERF6Ls across all conditions for each data series with each data series' respective units. Fold increase of VviERF6L12 expression taken as ratio of VviERF6L12 expression relative to average expression value of all other VviERF6Ls across all conditions per data series.
DOI: 10.6084/m9.figshare.12637993.v1
title: Additional file 34 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 34. Morphological phenotyping measurements taken that were not statistically significant between OX VviERF6L1 and empty vector control lines. Measurements were collected over the span of three weeks to 3 years. Data were tested for significant differences between empty vector control line (G1) and overexpression lines (L12-1, 2, 3, 11, and 23). Assumptions were met for tests used to determine significance.
DOI: 10.6084/m9.figshare.12637978
title: Additional file 2 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 2. PN40024 and Cabernet Sauvignon (CS) VviERF6L protein motif consensus sequences. Motif number (given based on E-value ranking), amino acid sequence, conservation (E-value), and length (amino acid residues) of the nine highly conserved protein motifs in PN40024 and CS VviERF6L proteins.
DOI: 10.6084/m9.figshare.12637984
title: Additional file 31 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 31. List of genes co-expressed with VviERF6L clade in four out of five data series. Gene ID and corresponding annotation. The four RNA-Seq data series the genes were co-expressed with the VviERF6L clade is listed.
DOI: 10.6084/m9.figshare.12637987.v1
title: Additional file 32 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 32. Fold increase of VviERF6L12 expression relative to average expression of all other VviERF6Ls. Expression value of VviERF6L12 and average value of all other VviERF6Ls across all conditions for each data series with each data series' respective units. Fold increase of VviERF6L12 expression taken as ratio of VviERF6L12 expression relative to average expression value of all other VviERF6Ls across all conditions per data series.
DOI: 10.6084/m9.figshare.12637978.v1
title: Additional file 2 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 2. PN40024 and Cabernet Sauvignon (CS) VviERF6L protein motif consensus sequences. Motif number (given based on E-value ranking), amino acid sequence, conservation (E-value), and length (amino acid residues) of the nine highly conserved protein motifs in PN40024 and CS VviERF6L proteins.
DOI: 10.6084/m9.figshare.12637984.v1
title: Additional file 31 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 31. List of genes co-expressed with VviERF6L clade in four out of five data series. Gene ID and corresponding annotation. The four RNA-Seq data series the genes were co-expressed with the VviERF6L clade is listed.
DOI: 10.6084/m9.figshare.12637954
title: Additional file 22 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 22. Differential expression analysis contrasts of interest for PRJNA516950. Including contrast number (arbitrarily assigned), species, treatment, organ, and week for both sample groups being compared.
DOI: 10.6084/m9.figshare.12637948
title: Additional file 20 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 20. Annotation and number of cross hybridizing VviERF6L probes.
DOI: 10.6084/m9.figshare.12637954.v1
title: Additional file 22 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 22. Differential expression analysis contrasts of interest for PRJNA516950. Including contrast number (arbitrarily assigned), species, treatment, organ, and week for both sample groups being compared.
DOI: 10.6084/m9.figshare.12637942
title: Additional file 19 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 19. Meta-data analysis of microarrays and RNA-seq series downloaded from NCBI GEO and SRA and investigated for VviERF6L expression.
DOI: 10.6084/m9.figshare.12637942.v1
title: Additional file 19 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 19. Meta-data analysis of microarrays and RNA-seq series downloaded from NCBI GEO and SRA and investigated for VviERF6L expression.
DOI: 10.6084/m9.figshare.12637948.v1
title: Additional file 20 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 20. Annotation and number of cross hybridizing VviERF6L probes.
DOI: 10.6084/m9.figshare.12637936
title: Additional file 17 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 17. Expression of VviERF6Ls across grapevine tissues and organs from the grapevine expression Atlas.
DOI: 10.6084/m9.figshare.12637927
title: Additional file 14 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 14. PN40224 VviERF6L putative promoter region (-3000 bp) motif coordinates. Motif name, start site relative to transcription start site, sequence, PLACE identification number, Vitis gene name, and corresponding VviERF6L name are given.
DOI: 10.6084/m9.figshare.12637930
title: Additional file 15 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 15. PN40024 VviERF6L promoter (-3000 bp) motif frequency. Including motif name, frequency in each VviERF6L denoted by common and gene names.
DOI: 10.6084/m9.figshare.12637924
title: Additional file 13 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 13. PN40024, CS, CA, and CH VviERF6Ls and all PN40024 VviERF protein sequences used to create phylogenetic tree.
DOI: 10.6084/m9.figshare.12637927.v1
title: Additional file 14 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 14. PN40224 VviERF6L putative promoter region (-3000 bp) motif coordinates. Motif name, start site relative to transcription start site, sequence, PLACE identification number, Vitis gene name, and corresponding VviERF6L name are given.
DOI: 10.6084/m9.figshare.12637936.v1
title: Additional file 17 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 17. Expression of VviERF6Ls across grapevine tissues and organs from the grapevine expression Atlas.
DOI: 10.6084/m9.figshare.12637915
title: Additional file 10 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 10. Percent identity of PN40024 and Cabernet Sauvignon (CS) VviERF6L protein motifs.
DOI: 10.6084/m9.figshare.12637924.v1
title: Additional file 13 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 13. PN40024, CS, CA, and CH VviERF6Ls and all PN40024 VviERF protein sequences used to create phylogenetic tree.
DOI: 10.6084/m9.figshare.12637930.v1
title: Additional file 15 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 15. PN40024 VviERF6L promoter (-3000 bp) motif frequency. Including motif name, frequency in each VviERF6L denoted by common and gene names.
DOI: 10.6084/m9.figshare.12637918
title: Additional file 11 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 11. Cabernet Sauvignon (CS) VviERF6L gene names, protein sequences and protein length. Average length of all 26 at bottom.
DOI: 10.6084/m9.figshare.12637918.v1
title: Additional file 11 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 11. Cabernet Sauvignon (CS) VviERF6L gene names, protein sequences and protein length. Average length of all 26 at bottom.
DOI: 10.6084/m9.figshare.12637906
title: Additional file 5 of The effect of short-course antibiotics on the resistance profile of colonizing gut bacteria in the ICU: a prospective cohort study

description: Additional file 5.
DOI: 10.6084/m9.figshare.12637915.v1
title: Additional file 10 of VviERF6Ls: an expanded clade in Vitis responds transcriptionally to abiotic and biotic stresses and berry development

description: Additional file 10. Percent identity of PN40024 and Cabernet Sauvignon (CS) VviERF6L protein motifs.
DOI: 10.6084/m9.figshare.12637903
title: Additional file 4 of The effect of short-course antibiotics on the resistance profile of colonizing gut bacteria in the ICU: a prospective cohort study

description: Additional file 4.
DOI: 10.6084/m9.figshare.12637906.v1
title: Additional file 5 of The effect of short-course antibiotics on the resistance profile of colonizing gut bacteria in the ICU: a prospective cohort study

description: Additional file 5.
DOI: 10.6084/m9.figshare.12637903.v1
title: Additional file 4 of The effect of short-course antibiotics on the resistance profile of colonizing gut bacteria in the ICU: a prospective cohort study

description: Additional file 4.
DOI: 10.6084/m9.figshare.12637870
title: Additional file 1 of Preserving postharvest storage quality of fresh-cut cactus pears by using different bio-materials

description: Additional file 1. Raw data, mean and standard deviation for all quality parameters.
DOI: 10.6084/m9.figshare.12637870.v1
title: Additional file 1 of Preserving postharvest storage quality of fresh-cut cactus pears by using different bio-materials

description: Additional file 1. Raw data, mean and standard deviation for all quality parameters.
DOI: 10.6084/m9.figshare.12637803
title: Additional file 1 of Evolving geographic diversity in SARS-CoV2 and in silico analysis of replicating enzyme 3CLpro targeting repurposed drug candidates

description: Additional file 1: Table S1. Acknowledgement table containing information about authors, originating, and submitting laboratories of the sequences deposited to GISAID database.
DOI: 10.6084/m9.figshare.12637803.v1
title: Additional file 1 of Evolving geographic diversity in SARS-CoV2 and in silico analysis of replicating enzyme 3CLpro targeting repurposed drug candidates

description: Additional file 1: Table S1. Acknowledgement table containing information about authors, originating, and submitting laboratories of the sequences deposited to GISAID database.
DOI: 10.6084/m9.figshare.12637798
title: Additional file 2 of Angiosarcoma heterogeneity and potential therapeutic vulnerability to immune checkpoint blockade: insights from genomic sequencing

description: Additional file 2: Table S2. Genomic variants found by whole-exome sequencing in 48 angiosarcoma samples from the Angiosarcoma Project. Table S3. Description of 48 angiosarcoma samples from the Angiosarcoma Project and corresponding mutational signature probabilities.
DOI: 10.6084/m9.figshare.12637798.v1
title: Additional file 2 of Angiosarcoma heterogeneity and potential therapeutic vulnerability to immune checkpoint blockade: insights from genomic sequencing

description: Additional file 2: Table S2. Genomic variants found by whole-exome sequencing in 48 angiosarcoma samples from the Angiosarcoma Project. Table S3. Description of 48 angiosarcoma samples from the Angiosarcoma Project and corresponding mutational signature probabilities.
DOI: 10.6084/m9.figshare.12637777
title: Additional file 8 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 8. Table S7. Bioinformatic analyses of targeted KO-first strains exhibiting conflicting phenotypes.
DOI: 10.6084/m9.figshare.12637777.v1
title: Additional file 8 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 8. Table S7. Bioinformatic analyses of targeted KO-first strains exhibiting conflicting phenotypes.
DOI: 10.6084/m9.figshare.12637765
title: Additional file 4 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 4. Table S3. Incomplete CDS human transcripts.
DOI: 10.6084/m9.figshare.12637768
title: Additional file 5 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 5. Table S4. Incomplete CDS human genes.
DOI: 10.6084/m9.figshare.12637774
title: Additional file 7 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 7. Table S6. Bioinformatic analyses of conditional-ready, lethal, and subviable strains.
DOI: 10.6084/m9.figshare.12637765.v1
title: Additional file 4 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 4. Table S3. Incomplete CDS human transcripts.
DOI: 10.6084/m9.figshare.12637768.v1
title: Additional file 5 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 5. Table S4. Incomplete CDS human genes.
DOI: 10.6084/m9.figshare.12637774.v1
title: Additional file 7 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 7. Table S6. Bioinformatic analyses of conditional-ready, lethal, and subviable strains.
DOI: 10.6084/m9.figshare.12637762
title: Additional file 3 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 3. Table S2. Incomplete CDS mouse genes.
DOI: 10.6084/m9.figshare.12637756
title: Additional file 2 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 2. Table S1. Incomplete CDS mouse transcripts.
DOI: 10.6084/m9.figshare.12637762.v1
title: Additional file 3 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 3. Table S2. Incomplete CDS mouse genes.
DOI: 10.6084/m9.figshare.12637756.v1
title: Additional file 2 of Genes adapt to outsmart gene-targeting strategies in mutant mouse strains by skipping exons to reinitiate transcription and translation

description: Additional file 2. Table S1. Incomplete CDS mouse transcripts.
DOI: 10.6084/m9.figshare.12637394
title: raw_data for review

description: fasta and qual files which represented rhizosphere microbial communities from Scutellaria tashiroi (TAS) and S. playfairi (PLA)
DOI: 10.6084/m9.figshare.12637394.v1
title: raw_data for review

description: fasta and qual files which represented rhizosphere microbial communities from Scutellaria tashiroi (TAS) and S. playfairi (PLA)
DOI: 10.6084/m9.figshare.12637379
title: Dataset for: Poulos & McCormick - Prior residency improves the performance of a resource specialist in a degrading environment

description: In this study, we investigated: how sequence and timing of arrival affects interactions between a habitat generalist and a specialist in healthy and degrading environments, and how prior residency interacts with habitat quality and resource specialisation to affect propensity to migrate. We conducted manipulative field studies using the damselfishes Pomacentrus amboinensis, a habitat generalist, and Pomacentrus moluccensis, a live coral specialist, on live or dead coral habitats, with timing of arrival differing between early and late arrivers (residents and intruders, respectively) by 1, 3 or 24 hours.
DOI: 10.6084/m9.figshare.12637379.v1
title: Dataset for: Poulos & McCormick - Prior residency improves the performance of a resource specialist in a degrading environment

description: In this study, we investigated: how sequence and timing of arrival affects interactions between a habitat generalist and a specialist in healthy and degrading environments, and how prior residency interacts with habitat quality and resource specialisation to affect propensity to migrate. We conducted manipulative field studies using the damselfishes Pomacentrus amboinensis, a habitat generalist, and Pomacentrus moluccensis, a live coral specialist, on live or dead coral habitats, with timing of arrival differing between early and late arrivers (residents and intruders, respectively) by 1, 3 or 24 hours.
DOI: 10.6084/m9.figshare.12637124
title: Figure S4.xlsx

description: Source data used to generate the graphs in Extended Data Figure 4 of Kusick et al., 2020
DOI: 10.6084/m9.figshare.12637391.v1
title: CHANS-SD 1.0.rar

description: The Coupled Human And Natural Systems Nitrogen Cycling Model Spatial Distribution (CHANS-SD) 1.0 database consists of three files. The ‘data file’ provides N inputs of 6 land use types, including cropland, forest, grassland, water, built-up area and unused land. The ‘readme file’ explains the abbreviations used in the ‘data file’ and ‘source file’, and provides the units of all variables. The ‘source file’ includes the full references used in the database.