cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.16551016
title: Additional file 2 of Comparison of properties determined using electromechanical assessment (Arthro-BST™) with macroscopic and histological properties in symptomatic human articular cartilage of the hip

description: Additional file 2. Individual scoring data of the modified Mankin score.
DOI: 10.6084/m9.figshare.16551019
title: Additional file 3 of Comparison of properties determined using electromechanical assessment (Arthro-BST™) with macroscopic and histological properties in symptomatic human articular cartilage of the hip

description: Additional file 3. Individual scoring data of the OARSI histopathological system.
DOI: 10.6084/m9.figshare.16551018
title: Additional file 1 of Impact of the HLA-DRB1 shared epitope on responses to treatment with tofacitinib or abatacept in patients with rheumatoid arthritis

description: Additional file 1. .
DOI: 10.6084/m9.figshare.16551018.v1
title: Additional file 1 of Impact of the HLA-DRB1 shared epitope on responses to treatment with tofacitinib or abatacept in patients with rheumatoid arthritis

description: Additional file 1. .
DOI: 10.6084/m9.figshare.16551019.v1
title: Additional file 3 of Comparison of properties determined using electromechanical assessment (Arthro-BST™) with macroscopic and histological properties in symptomatic human articular cartilage of the hip

description: Additional file 3. Individual scoring data of the OARSI histopathological system.
DOI: 10.15468/6dfjsy
title: Intraspecific variability of beaver teeth (Castoridae: Rodentia)

description: This dataset contains the digitized treatments in Plazi based on the original journal article Stefen, Clara (2009): Intraspecific variability of beaver teeth (Castoridae: Rodentia). Zoological Journal of the Linnean Society 155 (4): 926-936, DOI: 10.1111/j.1096-3642.2008.00467.x, URL: https://academic.oup.com/zoolinnean/article-lookup/doi/10.1111/j.1096-3642.2008.00467.x
DOI: 10.6084/m9.figshare.16551036
title: Additional file 2 of Systematic identification of non-canonical transcription factor motifs

description: Additional file 2: Supplementary Table 2. Numbers of Cistrome DB ChIP-Seq datasets where the non-canonical and the canonical motif occurrences show similar evolutionary conservation.
DOI: 10.6084/m9.figshare.16551036.v1
title: Additional file 2 of Systematic identification of non-canonical transcription factor motifs

description: Additional file 2: Supplementary Table 2. Numbers of Cistrome DB ChIP-Seq datasets where the non-canonical and the canonical motif occurrences show similar evolutionary conservation.
DOI: 10.6084/m9.figshare.16551055
title: Additional file 1 of Paleoceanography and dinoflagellate cyst stratigraphy across the Lower–Middle Pleistocene Subseries (Calabrian–Chibanian Stage) boundary at the Chiba composite section, Japan

description: Additional file 1. Raw data including counts of all dinoflagellate cysts and other palynomorphs.
DOI: 10.6084/m9.figshare.16551055.v1
title: Additional file 1 of Paleoceanography and dinoflagellate cyst stratigraphy across the Lower–Middle Pleistocene Subseries (Calabrian–Chibanian Stage) boundary at the Chiba composite section, Japan

description: Additional file 1. Raw data including counts of all dinoflagellate cysts and other palynomorphs.
DOI: 10.6084/m9.figshare.16551085
title: Additional file 1 of Understanding the determinants of COVID-19 vaccination intention and willingness to pay: findings from a population-based survey in Bangladesh

description: Additional file 1.
DOI: 10.6084/m9.figshare.16551085.v1
title: Additional file 1 of Understanding the determinants of COVID-19 vaccination intention and willingness to pay: findings from a population-based survey in Bangladesh

description: Additional file 1.
DOI: 10.6084/m9.figshare.16551115
title: Additional file 1 of Detecting copy number variation in next generation sequencing data from diagnostic gene panels

description: Additional file 1. Target gene panel, consisting of 126 genes.
DOI: 10.6084/m9.figshare.16551115.v1
title: Additional file 1 of Detecting copy number variation in next generation sequencing data from diagnostic gene panels

description: Additional file 1. Target gene panel, consisting of 126 genes.
DOI: 10.6084/m9.figshare.16551121
title: Additional file 3 of Detecting copy number variation in next generation sequencing data from diagnostic gene panels

description: Additional file 3. Details of false positives and regions of systematic errors and their respective genes in 11 routine samples used for quality control.
DOI: 10.6084/m9.figshare.16551121.v1
title: Additional file 3 of Detecting copy number variation in next generation sequencing data from diagnostic gene panels

description: Additional file 3. Details of false positives and regions of systematic errors and their respective genes in 11 routine samples used for quality control.
DOI: 10.6084/m9.figshare.16551075
title: Additional file 10 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 10. Summarization statistics for differential expression analysis in Artemia. Listed: sample name, total counts, percentage of counts assigned to a gene annotation, absolute counts assigned to a gene annotation. * notice that this amount can be more than the sum of uniquely mapped + multi-mapped in the mapping statistics since multi-mapped reads are considered.
DOI: 10.6084/m9.figshare.16551075.v1
title: Additional file 10 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 10. Summarization statistics for differential expression analysis in Artemia. Listed: sample name, total counts, percentage of counts assigned to a gene annotation, absolute counts assigned to a gene annotation. * notice that this amount can be more than the sum of uniquely mapped + multi-mapped in the mapping statistics since multi-mapped reads are considered.
DOI: 10.6084/m9.figshare.16551078.v1
title: Additional file 11 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 11 Differentially expressed genes under high salinity (p
DOI: 10.6084/m9.figshare.16551081.v1
title: Additional file 12 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 12 Differentially expressed genes under anoxia (p
DOI: 10.6084/m9.figshare.16551078
title: Additional file 11 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 11 Differentially expressed genes under high salinity (p
DOI: 10.6084/m9.figshare.16551081
title: Additional file 12 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 12 Differentially expressed genes under anoxia (p
DOI: 10.6084/m9.figshare.16551084
title: Additional file 13 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 13 GO enrichment in Artemia under high salinity. Significantly Enriched GOs (FDR ≤ 0.05) of Artemia genes differentially expressed under high salinity. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of DEG under high salinity in this GO category, number of whole Artemia genome genes in this GO category, number of DEG under high salinity without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test-set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set.
DOI: 10.6084/m9.figshare.16551084.v1
title: Additional file 13 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 13 GO enrichment in Artemia under high salinity. Significantly Enriched GOs (FDR ≤ 0.05) of Artemia genes differentially expressed under high salinity. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of DEG under high salinity in this GO category, number of whole Artemia genome genes in this GO category, number of DEG under high salinity without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test-set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set.
DOI: 10.6084/m9.figshare.16551087
title: Additional file 14 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 14 Pathway enrichment in Artemia under high salinity. Significantly enriched (Fisher’s exact test corrected for multiple testing, FDR ≤ 0.05) pathways of Artemia genes differentially expressed under high salinity. Listed in first worksheet (STRING annotation): gene number, ORCAE gene ID, STRING Daphnia pulex gene ID, BLAST identity and bit score, gene name and gene annotation. Listed in second worksheet (STRING pathway enrichment): KEGG Daphnia pulex pathway name, pathway description, number of DEG under high salinity in this pathway, number of genes in the D. pulex genome that belong to this pathway, enrichment FDR, matching D. pulex gene IDs, matching gene names in pathways shown in figures and additional files, matching D. pulex gene ID labels.
DOI: 10.6084/m9.figshare.16551090
title: Additional file 15 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 15. Consolidation of DEG analysis, GO enrichment and pathway enrichment in Artemia under high salinity.
DOI: 10.6084/m9.figshare.16551087.v1
title: Additional file 14 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 14 Pathway enrichment in Artemia under high salinity. Significantly enriched (Fisher’s exact test corrected for multiple testing, FDR ≤ 0.05) pathways of Artemia genes differentially expressed under high salinity. Listed in first worksheet (STRING annotation): gene number, ORCAE gene ID, STRING Daphnia pulex gene ID, BLAST identity and bit score, gene name and gene annotation. Listed in second worksheet (STRING pathway enrichment): KEGG Daphnia pulex pathway name, pathway description, number of DEG under high salinity in this pathway, number of genes in the D. pulex genome that belong to this pathway, enrichment FDR, matching D. pulex gene IDs, matching gene names in pathways shown in figures and additional files, matching D. pulex gene ID labels.
DOI: 10.6084/m9.figshare.16551090.v1
title: Additional file 15 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 15. Consolidation of DEG analysis, GO enrichment and pathway enrichment in Artemia under high salinity.
DOI: 10.6084/m9.figshare.16551096.v1
title: Additional file 17 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 17. GO enrichment in Artemia under anoxia. Significantly enriched GOs (FDR ≤ 0.05) of Artemia genes differentially expressed under anoxia. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of DEG under anoxia in this GO ID, number of whole Artemia genome genes in this GO ID, number of DEG under anoxia without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set.
DOI: 10.6084/m9.figshare.16551099
title: Additional file 18 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 18 Pathway enrichment in Artemia under anoxia. Significantly enriched (Fisher’s exact test corrected for multiple testing, FDR ≤ 0.05) pathways of Artemia genes differentially expressed under anoxia. Listed in first worksheet (STRING annotation): gene number, ORCAE gene ID, STRING Daphnia pulex gene ID, BLAST identity and bit score, gene name and gene annotation. Listed in second worksheet (STRING pathway enrichment): KEGG Daphnia pulex pathway name, pathway description, number of DEG under anoxia in this pathway, number of genes in the D. pulex genome that belong to this pathway, enrichment FDR, matching D. pulex gene IDs, matching gene names in pathways shown in figures and additional files, matching D. pulex gene ID labels.
DOI: 10.6084/m9.figshare.16551096
title: Additional file 17 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 17. GO enrichment in Artemia under anoxia. Significantly enriched GOs (FDR ≤ 0.05) of Artemia genes differentially expressed under anoxia. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of DEG under anoxia in this GO ID, number of whole Artemia genome genes in this GO ID, number of DEG under anoxia without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set.
DOI: 10.6084/m9.figshare.16551102
title: Additional file 19 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 19. Consolidation of DEG analysis, GO enrichment and pathway enrichment in Artemia under anoxia.
DOI: 10.6084/m9.figshare.16551102.v1
title: Additional file 19 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 19. Consolidation of DEG analysis, GO enrichment and pathway enrichment in Artemia under anoxia.
DOI: 10.6084/m9.figshare.16551099.v1
title: Additional file 18 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 18 Pathway enrichment in Artemia under anoxia. Significantly enriched (Fisher’s exact test corrected for multiple testing, FDR ≤ 0.05) pathways of Artemia genes differentially expressed under anoxia. Listed in first worksheet (STRING annotation): gene number, ORCAE gene ID, STRING Daphnia pulex gene ID, BLAST identity and bit score, gene name and gene annotation. Listed in second worksheet (STRING pathway enrichment): KEGG Daphnia pulex pathway name, pathway description, number of DEG under anoxia in this pathway, number of genes in the D. pulex genome that belong to this pathway, enrichment FDR, matching D. pulex gene IDs, matching gene names in pathways shown in figures and additional files, matching D. pulex gene ID labels.
DOI: 10.6084/m9.figshare.16551108.v1
title: Additional file 1 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 1. Assembly characteristics of all assembled crustacean genomes. Characteristics listed are: species, whether the species genome is annotated yes or no, N50 of the fragments with the highest assembly hierarchy, number of fragments with the highest assembly hierarchy in the assembly, haploid genome size, assembly size, completeness of the assembly (=haploid GS/assembly size), taxonomic lineage (NCBI taxonomy), reference for the genome paper.
DOI: 10.6084/m9.figshare.16551108
title: Additional file 1 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 1. Assembly characteristics of all assembled crustacean genomes. Characteristics listed are: species, whether the species genome is annotated yes or no, N50 of the fragments with the highest assembly hierarchy, number of fragments with the highest assembly hierarchy in the assembly, haploid genome size, assembly size, completeness of the assembly (=haploid GS/assembly size), taxonomic lineage (NCBI taxonomy), reference for the genome paper.
DOI: 10.6084/m9.figshare.16551117.v1
title: Additional file 22 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 22. Augustus custom training files for Artemia. Includes probabilities, parameters and weights used for Augustus training for annotation of the Artemia genome.
DOI: 10.6084/m9.figshare.16551117
title: Additional file 22 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 22. Augustus custom training files for Artemia. Includes probabilities, parameters and weights used for Augustus training for annotation of the Artemia genome.
DOI: 10.6084/m9.figshare.16551120
title: Additional file 23 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 23. EuGene custom parameter file for Artemia. Includes parameters used for EuGene training for annotation of the Artemia genome.
DOI: 10.6084/m9.figshare.16551120.v1
title: Additional file 23 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 23. EuGene custom parameter file for Artemia. Includes parameters used for EuGene training for annotation of the Artemia genome.
DOI: 10.6084/m9.figshare.16551132
title: Additional file 3 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 3 BUSCO analysis results for the A. franciscana genome assembly and annotation.
DOI: 10.6084/m9.figshare.16551135
title: Additional file 4 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 4. BLAST results for mitochondrial genes in the Artemia genome. Listed: Query accession and gene name, presence of a (significant) BLAST hit in the Artemia proteome with the highest bit score, E-value and bit score of the hit, scaffold length of the scaffold on which the hit lies, percentage of mitochondrial genes on this scaffold.
DOI: 10.6084/m9.figshare.16551132.v1
title: Additional file 3 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 3 BUSCO analysis results for the A. franciscana genome assembly and annotation.
DOI: 10.6084/m9.figshare.16551135.v1
title: Additional file 4 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 4. BLAST results for mitochondrial genes in the Artemia genome. Listed: Query accession and gene name, presence of a (significant) BLAST hit in the Artemia proteome with the highest bit score, E-value and bit score of the hit, scaffold length of the scaffold on which the hit lies, percentage of mitochondrial genes on this scaffold.
DOI: 10.6084/m9.figshare.16551141.v1
title: Additional file 6 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 6 Expanded or contracted Artemia orthogroups compared to other Branchiopoda. Listed: Orthogroup ID, number of genes in this orthogroup in A. franciscana, D. pulex, L. arcticus, and E. texana, expanded or contracted status of the orthogroup in Artemia compared to D. pulex, L. arcticus and E. texana, conservation in Branchiopoda (whether this orthogroup contains genes for each branchiopod), comma-separated IPR description of Artemia genes in this orthogroup, Artemia genes in this orthogroup.
DOI: 10.6084/m9.figshare.16551141
title: Additional file 6 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 6 Expanded or contracted Artemia orthogroups compared to other Branchiopoda. Listed: Orthogroup ID, number of genes in this orthogroup in A. franciscana, D. pulex, L. arcticus, and E. texana, expanded or contracted status of the orthogroup in Artemia compared to D. pulex, L. arcticus and E. texana, conservation in Branchiopoda (whether this orthogroup contains genes for each branchiopod), comma-separated IPR description of Artemia genes in this orthogroup, Artemia genes in this orthogroup.
DOI: 10.6084/m9.figshare.16551144
title: Additional file 7 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 7 GO enrichment of Artemia compared to other Branchiopoda. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of Artemia genes from expanded/contracted orthogroups in this GO ID, number of whole Artemia genome genes in this GO category, number of Artemia genes from expanded/contracted orthogroups in this GO ID without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test-set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set. Significantly enriched GOs (FDR ≤ 0.05, biological process) of Artemia genes in expanded or contracted orthogroups compared to Branchiopoda are given.
DOI: 10.6084/m9.figshare.16551144.v1
title: Additional file 7 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 7 GO enrichment of Artemia compared to other Branchiopoda. Listed: GO ID, name and category, false discovery rate (FDR) and P value of the Fisher’s exact test enrichment analysis in Blast2GO, number of Artemia genes from expanded/contracted orthogroups in this GO ID, number of whole Artemia genome genes in this GO category, number of Artemia genes from expanded/contracted orthogroups in this GO ID without GO annotation. The Fisher’s Exact Test is sensitive in the direction of the test: the genes that are present in the test-set and also in the reference genome set will be deleted from the reference, but not from the test set, resulting in zero sequences in the reference set and values above zero in the test set. Significantly enriched GOs (FDR ≤ 0.05, biological process) of Artemia genes in expanded or contracted orthogroups compared to Branchiopoda are given.
DOI: 10.6084/m9.figshare.16551147
title: Additional file 8 of The genome of the extremophile Artemia provides insight into strategies to cope with extreme environments

description: Additional file 8 Expanded or contracted Artemia and H. dujardini orthogroups compared to other Arthropoda. Listed: Orthogroup ID, number of genes in this orthogroup in A. franciscana and in the other arthropod species, expanded or contracted status of the orthogroup in Artemia compared to the other arthropod species, comma-separated IPR description of Artemia genes in this orthogroup, H. dujardini genes in this orthogroup, Artemia genes in this orthogroup.