cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.8045096
title: Additional file 1: of Analysis of the diversity and tissue specificity of sucrose synthase genes in the long read transcriptome of sugarcane

description: Table S1. Details of RNA-Seq reads from various tissues used for the SuSy expression study. Table S2. Raw counts for SuSy gene expression from different tissue sample. Table S3. SuSy transcripts from the SUGIT transcriptome database. Table S4. Codon-based Test of Positive Selection for analysis between SUSY1 sequences. Table S5. Codon-based Test of Positive Selection for analysis between SUSY2 sequences. Table S6. Codon-based Test of Positive Selection for analysis between SUSY4 sequences. Table S7. Log2-fold change values and FDR corrected heat map for SuSy transcripts expression in the genotype KQ228. S8. Log2-fold change values and FDR corrected heat map for SuSy transcripts expression in the genotype Q208. Table S9. Similarity percentage observed between different SuSy isoforms using Clustal W 2.1 (XLSX 362 kb)
DOI: 10.6084/m9.figshare.8045102
title: Additional file 2: of The burden of headache disorders in the Eastern Mediterranean Region, 1990-2016: findings from the Global Burden of Disease study 2016

description: (XLSX 23 kb)
DOI: 10.6084/m9.figshare.8045108
title: Additional file 2: of Analysis of the diversity and tissue specificity of sucrose synthase genes in the long read transcriptome of sugarcane

description: Figure S1. Identification and sequence retrieval of SuSy transcripts from the SUGIT transcriptome reference database. Shown here is the reads mapping to the reference SuSy4 gene from sugarcane using large gap mapping tool in the CLC-WB v 10. Figure S2. Alignment of nucleotide sequences of the SUGIT-SuSy1 transcripts with the reference sequences using Geneious v.11. Reference genes used in the alignment are from Sorghum accession numbers NC_012870, XM_002465116; bottom with Zea mays NC_024467 and NM_001111941. Figure S3. Alignment of nucleotide sequences of the SUGIT-SuSy2 transcripts with the reference sequences using Geneious v.11. Reference genes for alignment is from Saccharum officinarum, accession number AY118266 and its mRNA and cDNA sequences. Figure S4. Alignment of nucleotide sequences of the SUGIT-SuSy4 transcripts with the reference sequences using Geneious v.11. Reference genes used for alignment are from Zea mays accession numbers NC_012870 and mRNA and cDNA sequences of accession XM_2465268. Figure S5. Alignment of nucleotide sequences of the SUGIT-SuSy7 transcripts with the reference sequences using Geneious v.11. Reference genes used are from Zea mays accession numbers NC_024463 and mRNA and cDNA sequences of accession number XM_008646897. Figure S6. Conserved exon-intron structure across the monocots species available in Phytozome. Using BLAST tool available in the GBrowse, the SuSy transcripts were annotated with Sorghum as the reference genome. Figure S7. a. In genotype KQ228 SuSy 1, 2 and 7 have significantly different expression between each of the tissue types, based on one -way ANOVA results p
DOI: 10.6084/m9.figshare.8045102.v1
title: Additional file 2: of The burden of headache disorders in the Eastern Mediterranean Region, 1990-2016: findings from the Global Burden of Disease study 2016

description: (XLSX 23 kb)
DOI: 10.6084/m9.figshare.8045096.v1
title: Additional file 1: of Analysis of the diversity and tissue specificity of sucrose synthase genes in the long read transcriptome of sugarcane

description: Table S1. Details of RNA-Seq reads from various tissues used for the SuSy expression study. Table S2. Raw counts for SuSy gene expression from different tissue sample. Table S3. SuSy transcripts from the SUGIT transcriptome database. Table S4. Codon-based Test of Positive Selection for analysis between SUSY1 sequences. Table S5. Codon-based Test of Positive Selection for analysis between SUSY2 sequences. Table S6. Codon-based Test of Positive Selection for analysis between SUSY4 sequences. Table S7. Log2-fold change values and FDR corrected heat map for SuSy transcripts expression in the genotype KQ228. S8. Log2-fold change values and FDR corrected heat map for SuSy transcripts expression in the genotype Q208. Table S9. Similarity percentage observed between different SuSy isoforms using Clustal W 2.1 (XLSX 362 kb)
DOI: 10.6084/m9.figshare.8045108.v1
title: Additional file 2: of Analysis of the diversity and tissue specificity of sucrose synthase genes in the long read transcriptome of sugarcane

description: Figure S1. Identification and sequence retrieval of SuSy transcripts from the SUGIT transcriptome reference database. Shown here is the reads mapping to the reference SuSy4 gene from sugarcane using large gap mapping tool in the CLC-WB v 10. Figure S2. Alignment of nucleotide sequences of the SUGIT-SuSy1 transcripts with the reference sequences using Geneious v.11. Reference genes used in the alignment are from Sorghum accession numbers NC_012870, XM_002465116; bottom with Zea mays NC_024467 and NM_001111941. Figure S3. Alignment of nucleotide sequences of the SUGIT-SuSy2 transcripts with the reference sequences using Geneious v.11. Reference genes for alignment is from Saccharum officinarum, accession number AY118266 and its mRNA and cDNA sequences. Figure S4. Alignment of nucleotide sequences of the SUGIT-SuSy4 transcripts with the reference sequences using Geneious v.11. Reference genes used for alignment are from Zea mays accession numbers NC_012870 and mRNA and cDNA sequences of accession XM_2465268. Figure S5. Alignment of nucleotide sequences of the SUGIT-SuSy7 transcripts with the reference sequences using Geneious v.11. Reference genes used are from Zea mays accession numbers NC_024463 and mRNA and cDNA sequences of accession number XM_008646897. Figure S6. Conserved exon-intron structure across the monocots species available in Phytozome. Using BLAST tool available in the GBrowse, the SuSy transcripts were annotated with Sorghum as the reference genome. Figure S7. a. In genotype KQ228 SuSy 1, 2 and 7 have significantly different expression between each of the tissue types, based on one -way ANOVA results p
DOI: 10.6084/m9.figshare.8045090
title: Additional file 1: of The burden of headache disorders in the Eastern Mediterranean Region, 1990-2016: findings from the Global Burden of Disease study 2016

description: (XLSX 26 kb)
DOI: 10.6084/m9.figshare.8045090.v1
title: Additional file 1: of The burden of headache disorders in the Eastern Mediterranean Region, 1990-2016: findings from the Global Burden of Disease study 2016

description: (XLSX 26 kb)
DOI: 10.6084/m9.figshare.8044838
title: Trinity results of Chelidonium majus

description: Intermediate data files in <i>Transcriptome analysis of Chelidonium majus elaiosomes and seeds provide insights into fatty acid biosynthesis,</i> including Trinity results of raw data, all unigenes for all studied samples, and annotated unigenes
DOI: 10.6084/m9.figshare.8044847
title: L33-L103-1

description: Illumina sequence data of six strains
DOI: 10.6084/m9.figshare.8044829
title: Effects of scleral collagen crosslinking with different carbohydrate on chemical bond and ultrastructure of rabbit sclera: future treatment for myopia progressions

description: <b>Effects of scleral collagen crosslinking with different carbohydrate on chemical bond and ultrastructure of rabbit sclera</b>
DOI: 10.26180/5cc2756d3fe01
title: Scholarly Communication Project - interview questions

description: In addition to the online survey, the project team conducted follow-up interviews with participants who indicated a willingness to be interviewed. The interviews were conducted across 3 Monash University campuses either in person or via Zoom video-conferencing. The interviews were structured around a pre-arranged set of questions. These served as a guide to the interviewer and provided a consistent structure for the interview format.<br>The time allocated for each interview was 45 minutes.
DOI: 10.6084/m9.figshare.8044847.v1
title: L33-L103-1

description: Illumina sequence data of six strains
DOI: 10.6084/m9.figshare.8044847.v3
title: L33-L103-1

description: Illumina sequence data of six strains
DOI: 10.6084/m9.figshare.8044847.v2
title: L33-L103-1

description: Illumina sequence data of six strains
DOI: 10.6084/m9.figshare.8044814
title: Synthesis , flocculation properties ,hydrophobic organic polymer P(AM-DM-DMC12)

description: A new modified hydrophobic organic polymer P(AM-DM-DMC12) was synthesized by free radical polymerization of three monomers in aqueous solution using REDOX initiator system. Its structure was characterized by infrared spectroscopy, and the effect of reaction conditions on the product was studied, and the flocculation performance and mechanism were discussed with the aim of wastewater turbidity and COD removal rate. The results showed that the synthesized compounds accorded with the target structure, and the optimum synthetic conditions were as follows: total mass fraction of monomer was 35%, the mass fraction of redox initiator was 0.06%. Moreover, the flocculation effect of P (AM-DM-DMC12) is obviously better than that of PAM, and it has the advantages of short flocculation time, low dosage and wide application range of pH, and has good industrial application value and prospect. <br>
DOI: 10.6084/m9.figshare.8044814.v1
title: Synthesis , flocculation properties ,hydrophobic organic polymer P(AM-DM-DMC12)

description: A new modified hydrophobic organic polymer P(AM-DM-DMC12) was synthesized by free radical polymerization of three monomers in aqueous solution using REDOX initiator system. Its structure was characterized by infrared spectroscopy, and the effect of reaction conditions on the product was studied, and the flocculation performance and mechanism were discussed with the aim of wastewater turbidity and COD removal rate. The results showed that the synthesized compounds accorded with the target structure, and the optimum synthetic conditions were as follows: total mass fraction of monomer was 35%, the mass fraction of redox initiator was 0.06%. Moreover, the flocculation effect of P (AM-DM-DMC12) is obviously better than that of PAM, and it has the advantages of short flocculation time, low dosage and wide application range of pH, and has good industrial application value and prospect. <br>
DOI: 10.6084/m9.figshare.8044793
title: Over-triage occurs when considering the patient's pain in Korean Triage and Acuity Scale

description: This data was collected for the study of the accuracy of KTAS, a severity classification tool for emergency patients. The severity of the pain is one of the modifier of KTAS. The aim of this study was to investigate whether there is any difference in severity predictability between pain group and non-pain group.
DOI: 10.6084/m9.figshare.8044793.v1
title: Over-triage occurs when considering the patient's pain in Korean Triage and Acuity Scale

description: This data was collected for the study of the accuracy of KTAS, a severity classification tool for emergency patients. The severity of the pain is one of the modifier of KTAS. The aim of this study was to investigate whether there is any difference in severity predictability between pain group and non-pain group.
DOI: 10.6084/m9.figshare.8044745
title: Dataset for: A Model for Antarctic Surface Mass Balance and Ice Core Site Selection

description: In this study, we develop a model for Antarctic surface mass balance (SMB) that allows us to assess regional and global uncertainty in SMB estimation and carry out a model-based design to propose new measurement sites. For this analysis, we use a quality-controlled aggregate dataset of SMB field measurements with significantly more observations than previous analyses; however, many of the measurements in this dataset lack quality ratings. In addition, these data demonstrate spatial autocorrelation, heteroscedasticity, and non-Gaussianity. To account for these data attributes, we pose a Bayesian Gaussian process generalized linear model for SMB. To address missing reliability ratings, we use a mixture model with different variances to add robustness to our model. In addition, we present a novel approach for modeling the variance as a function of the mean to account for the heteroscedasticity in the data. Using this model, we predict Antarctic SMB and compare our estimates with previous estimates. In addition, we create prediction maps with uncertainty to visualize spatial patterns in SMB and to identify regions of high SMB uncertainty. Our model estimates total SMB to be 2156 Gton/yr over the range of our data, with 95\% credible interval (2081,2234) Gton/yr. Overall, our results suggest lower Antarctic SMB than previously reported. This lower SMB estimate may be indicative of a more dire diagnosis of the long-term health of the Antarctic ice sheets. Lastly, we use our model to propose 25 new measurement sites for field study utilizing a sequential design minimizing integrated mean squared error.
DOI: 10.6084/m9.figshare.8044748
title: Dataset for: Dams have varying impacts on fish communities across latitudes: A quantitative synthesis

description: Dams are recognized to impact aquatic biodiversity, but the effects and conclusions diverge across studies and locations. By using a meta-analytical approach, we quantified the effects of impoundment on fish communities distributed across three large biomes. The impacts of dams on richness and diversity differed across biomes, with significant declines in the tropics, lower amplitude but similar directional changes in temperate regions, and no changes in boreal regions. Our analyses showed that non-native species increased significantly in tropical and temperate regulated rivers, but not in boreal rivers. In contrast, temporal trajectories in fish assemblage metrics were common across regions, with all biomes showing an increase in mean trophic level position and in the proportion of generalist species after impoundment. Such changes in fish assemblages may affect food-web stability and merit closer study. Across the literature examined, predominant mechanisms that render fish assemblages susceptible to impacts from dams were: 1) the transformation of the lotic environment into a lentic environment; 2) habitat fragmentation and 3) the introduction of non-native species. Collectively, our results highlight that an understanding of the regional context and a suite of community metrics are needed to make robust predictions about how fish will respond to river impoundments.
DOI: 10.6084/m9.figshare.8044745.v1
title: Dataset for: A Model for Antarctic Surface Mass Balance and Ice Core Site Selection

description: In this study, we develop a model for Antarctic surface mass balance (SMB) that allows us to assess regional and global uncertainty in SMB estimation and carry out a model-based design to propose new measurement sites. For this analysis, we use a quality-controlled aggregate dataset of SMB field measurements with significantly more observations than previous analyses; however, many of the measurements in this dataset lack quality ratings. In addition, these data demonstrate spatial autocorrelation, heteroscedasticity, and non-Gaussianity. To account for these data attributes, we pose a Bayesian Gaussian process generalized linear model for SMB. To address missing reliability ratings, we use a mixture model with different variances to add robustness to our model. In addition, we present a novel approach for modeling the variance as a function of the mean to account for the heteroscedasticity in the data. Using this model, we predict Antarctic SMB and compare our estimates with previous estimates. In addition, we create prediction maps with uncertainty to visualize spatial patterns in SMB and to identify regions of high SMB uncertainty. Our model estimates total SMB to be 2156 Gton/yr over the range of our data, with 95\% credible interval (2081,2234) Gton/yr. Overall, our results suggest lower Antarctic SMB than previously reported. This lower SMB estimate may be indicative of a more dire diagnosis of the long-term health of the Antarctic ice sheets. Lastly, we use our model to propose 25 new measurement sites for field study utilizing a sequential design minimizing integrated mean squared error.
DOI: 10.6084/m9.figshare.8044748.v1
title: Dataset for: Dams have varying impacts on fish communities across latitudes: A quantitative synthesis

description: Dams are recognized to impact aquatic biodiversity, but the effects and conclusions diverge across studies and locations. By using a meta-analytical approach, we quantified the effects of impoundment on fish communities distributed across three large biomes. The impacts of dams on richness and diversity differed across biomes, with significant declines in the tropics, lower amplitude but similar directional changes in temperate regions, and no changes in boreal regions. Our analyses showed that non-native species increased significantly in tropical and temperate regulated rivers, but not in boreal rivers. In contrast, temporal trajectories in fish assemblage metrics were common across regions, with all biomes showing an increase in mean trophic level position and in the proportion of generalist species after impoundment. Such changes in fish assemblages may affect food-web stability and merit closer study. Across the literature examined, predominant mechanisms that render fish assemblages susceptible to impacts from dams were: 1) the transformation of the lotic environment into a lentic environment; 2) habitat fragmentation and 3) the introduction of non-native species. Collectively, our results highlight that an understanding of the regional context and a suite of community metrics are needed to make robust predictions about how fish will respond to river impoundments.
DOI: 10.6084/m9.figshare.8044727
title: Transcriptomic Characterization of the Human Insular Cortex and Claustrum

description: Supplement data and tables for "Transcriptomic Characterization of the Human Insular Cortex and Claustrum" by Christine Ibrahim, Bernard Le Foll, and Leon French.<br>Supplement tables:1 - Genome-wide probe-level results for the long insular gyri and granular insular cortex 2 - Genome-wide probe-level results for the short insular gyri and dysgranular insular cortex3 - Complete gene ontology results for the long insular gyri4 - Complete gene ontology results for the short insular gyri5 - Complete DisGeNet results for the long insular gyri6 - Complete DisGeNet results for the short insular gyri7 - Genome-wide probe-level results for the claustrum<br>8 - Complete gene ontology results for the claustrum9 - Complete DisGeNet results for the claustrum<br>10 - Ranked cell proportion estimates for the regions of interest
DOI: 10.26180/5cc247be9efe5
title: Original data for 'Phenotypic plasticity in locomotor performance of a monophyletic group of weevils accords with the ‘warmer is better’ hypothesis.' published in Journal of Experimental Biology doi: 10.1242/jeb.195255

description: Two files containing data and metadata for the study published in Journal of Experimental Biology doi: 10.1242/jeb.195255The metadata file and the data file both in comma-delimited .csv format. Data are for weevil adults walking at different temperatures after different temperature acclimation treatments. Locomotion speed is the dependent variable of interest. Different weevil species and populations from sub-Antarctic Marion Island are investigated
DOI: 10.6084/m9.figshare.8044727.v1
title: Transcriptomic Characterization of the Human Insular Cortex and Claustrum

description: Supplement data and tables for "Transcriptomic Characterization of the Human Insular Cortex and Claustrum" by Christine Ibrahim, Bernard Le Foll, and Leon French.<br>Supplement tables:1 - Genome-wide probe-level results for the long insular gyri and granular insular cortex 2 - Genome-wide probe-level results for the short insular gyri and dysgranular insular cortex3 - Complete DisGeNet results for the long insular gyri4 - Complete DisGeNet results for the short insular gyri5 - Complete gene ontology results for the long insular gyri6 - Complete gene ontology results for the short insular gyri7 - Genome-wide probe-level results for the claustrum8 - Complete DisGeNet results for the claustrum9 - Complete gene ontology results for the claustrum<br>
DOI: 10.6084/m9.figshare.8044742
title: Data .docx

description: <b>Data for "High-resolution imaging of labile P & S in coastal sediment: insight into kinetics of P mobilization associated with sulfate reduction"</b>
DOI: 10.6084/m9.figshare.8044742.v2
title: Data .docx

description: <b>Data for "High-resolution imaging of labile P & S in coastal sediment: insight into kinetics of P mobilization associated with sulfate reduction"</b>
DOI: 10.6084/m9.figshare.8044742.v1
title: Data .docx

description: <b>Data for "High-resolution imaging of labile P & S in coastal sediment: insight into kinetics of P mobilization associated with sulfate reduction"</b>
DOI: 10.6084/m9.figshare.8044556
title: Supp_Tables1-4

description: Supplementary Tables for manuscript:<br>Table S1. Functional annotations and corresponding sequences for the genomes of (A-C) Ca. E. dacicola – three available assemblies, (D) Tatumella sp. TA1 and (E) Enterobacter sp. OLF, as well as for (F) the transcriptome of Ca. E. dacicola (ribosomal RNAs excluded). The annotations come from RAST subsystems.<br>Table S2. GenBank accession numbers and metadata for sequences used in phylogenetic analyses. (A) Whole genome sequences used for ortholog picking and phylogenetic reconstruction of the species and reference trees (B) Amino acid sequences used for the ureC gene tree.<br>Table S3. Presence and expression of genes related to nitrogen assimilation in Ca. E. dacicola and Tatumella sp. TA1. (A) Urea hydrolysis and nitrogen recycling pathways (B) Amino acid biosynthetic pathways.<br>Table S4. Functional annotation of (A-C) Ca. E. dacicola - three available assemblies, (D) Tatumella sp. TA1 and (E) Enterobacter sp. OLF genomes for extracellular surface structure components, by assignment of genes to the KEGG category “Membrane Transport” using RAST subsystems.<br><br><b>Functional genomics of a symbiotic community: shared traits in the olive fruit fly gut microbiota</b> Frances Blow<sup>1,2</sup>, Anastasia Gioti<sup>3*</sup>, Ian B. Goodhead<sup>1,4</sup>, Maria Kalyva<sup>3,5</sup>Anastasia Kampouraki<sup>6,7</sup>, John Vontas<sup>6,7</sup>, Alistair C. Darby<sup>1*</sup>
DOI: 10.6084/m9.figshare.8044556.v1
title: Supp_Tables1-4

description: Supplementary Tables for manuscript:<br>Table S1. Functional annotations and corresponding sequences for the genomes of (A-C) Ca. E. dacicola – three available assemblies, (D) Tatumella sp. TA1 and (E) Enterobacter sp. OLF, as well as for (F) the transcriptome of Ca. E. dacicola (ribosomal RNAs excluded). The annotations come from RAST subsystems.<br>Table S2. GenBank accession numbers and metadata for sequences used in phylogenetic analyses. (A) Whole genome sequences used for ortholog picking and phylogenetic reconstruction of the species and reference trees (B) Amino acid sequences used for the ureC gene tree.<br>Table S3. Presence and expression of genes related to nitrogen assimilation in Ca. E. dacicola and Tatumella sp. TA1. (A) Urea hydrolysis and nitrogen recycling pathways (B) Amino acid biosynthetic pathways.<br>Table S4. Functional annotation of (A-C) Ca. E. dacicola - three available assemblies, (D) Tatumella sp. TA1 and (E) Enterobacter sp. OLF genomes for extracellular surface structure components, by assignment of genes to the KEGG category “Membrane Transport” using RAST subsystems.<br><br><b>Functional genomics of a symbiotic community: shared traits in the olive fruit fly gut microbiota</b> Frances Blow<sup>1,2</sup>, Anastasia Gioti<sup>3*</sup>, Ian B. Goodhead<sup>1,4</sup>, Maria Kalyva<sup>3,5</sup>Anastasia Kampouraki<sup>6,7</sup>, John Vontas<sup>6,7</sup>, Alistair C. Darby<sup>1*</sup>
DOI: 10.6084/m9.figshare.8044451
title: High-quality metal manuscript

description: Code, intermediate data, and results for:Yao, Sen, et al. "Finding high-quality metal ion-centric regions across the worldwide Protein Data Bank".