cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5882188
title: Agrotis EPN Data

description: The present study was, undertaken with the objective to assess the virulence of local isolates of EPNs of Himachal Pradesh, <i>Heterorhabditis</i> sp. against black cut worm, <i>Agrotis segetum</i> in order to minimize the use of insecticides during crop protection. Against L3-5 of <i>A. segetum, H. indica </i>was found highly effective, resulting into 33.33-93.33 per cent mortality at 40 IJs/larva after 96 hours of treatment. Among local isolates, <i>Heterorhabditis </i>sp.<i> </i>(HSG) influenced maximum mortality of L3 and L4, whereas in L5, <i>H. bacteriophora </i>(HRJ)<i> </i>influenced maximum mortality. The sensitivity of L3 to different entomopathogenic nematodes was 7.0-16.6 % higher as compared to L4. In soil bioassay carried out against L4 of <i>A. segetum</i>, <i>H. bacteriophora </i>(HRJ) was found highly effective followed by <i>Heterorhabditis </i>sp.<i> </i>(HKM) and <i>Heterorhabditis </i>sp.<i> </i>(HSG) at 10000 IJs/kg of soil. The mortality varied from 78.33-81.67 % after 7 days of treatment with local isolates.
DOI: 10.6084/m9.figshare.5882188.v1
title: Agrotis EPN Data

description: The present study was, undertaken with the objective to assess the virulence of local isolates of EPNs of Himachal Pradesh, <i>Heterorhabditis</i> sp. against black cut worm, <i>Agrotis segetum</i> in order to minimize the use of insecticides during crop protection. Against L3-5 of <i>A. segetum, H. indica </i>was found highly effective, resulting into 33.33-93.33 per cent mortality at 40 IJs/larva after 96 hours of treatment. Among local isolates, <i>Heterorhabditis </i>sp.<i> </i>(HSG) influenced maximum mortality of L3 and L4, whereas in L5, <i>H. bacteriophora </i>(HRJ)<i> </i>influenced maximum mortality. The sensitivity of L3 to different entomopathogenic nematodes was 7.0-16.6 % higher as compared to L4. In soil bioassay carried out against L4 of <i>A. segetum</i>, <i>H. bacteriophora </i>(HRJ) was found highly effective followed by <i>Heterorhabditis </i>sp.<i> </i>(HKM) and <i>Heterorhabditis </i>sp.<i> </i>(HSG) at 10000 IJs/kg of soil. The mortality varied from 78.33-81.67 % after 7 days of treatment with local isolates.
DOI: 10.6084/m9.figshare.5882170
title: Additional file 3: of Review and critical appraisal of studies mapping from quality of life or clinical measures to EQ-5D: an online database and application of the MAPS statement

description: Database of mapping studies version 6 110717. Data extraction table. Spreadsheet copy of the data extraction table, giving details of the studies meeting inclusion criteria. (XLSX 285 kb)
DOI: 10.6084/m9.figshare.5882170.v1
title: Additional file 3: of Review and critical appraisal of studies mapping from quality of life or clinical measures to EQ-5D: an online database and application of the MAPS statement

description: Database of mapping studies version 6 110717. Data extraction table. Spreadsheet copy of the data extraction table, giving details of the studies meeting inclusion criteria. (XLSX 285 kb)
DOI: 10.6084/m9.figshare.5882155
title: Additional file 2: of Growth and metabolic characteristics of oleaginous microalgal isolates from Nilgiri biosphere Reserve of India

description: xml file of phylogenetic data. (XML 50Â kb)
DOI: 10.6084/m9.figshare.5882155.v1
title: Additional file 2: of Growth and metabolic characteristics of oleaginous microalgal isolates from Nilgiri biosphere Reserve of India

description: xml file of phylogenetic data. (XML 50Â kb)
DOI: 10.6084/m9.figshare.5882122
title: Additional file 5: of Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)

description: Figures S3a and S3b. Estimation of LOH fraction and tumor content. Estimation of LOH fraction and tumor content using a Beta-Normal mixture model. Histograms show the distribution of major allele frequencies (range: 50–100%) and red curves show the mixture model estimated from the data. The set of SNPs called in the germline sample was considered in the tumor sample (primary and metastasis independently). When genomes contain regions of LOH, the distribution will be bimodal, as illustrated in the inset (top right). The first component (closer to 50%; red in inset) represents heterozygous SNPs in regions without LOH and was modeled as a normal distribution with a mean close to 50% in a perfect sample, but will increase towards 100% as allelic dropout increases. The second component (closer to 100%; blue in inset) represents homozygous SNPs in regions with LOH, was modeled as a beta distribution with two parameters (the mean of this component should be close to 100% and increase as LOH fraction increases and decrease as with non-cancer cell contamination. The mixture distribution thus had four free parameters plus the mixture proportion, the latter representing the estimated LOH fraction of the sample. Fitting this mixture to the observations yielded estimates for LOH fraction, tumor fraction and allelic dropout rate for each sample (Additional file 3: Figure S2). Model fitting was performed using the EstimatedDistribution function of Mathematica 9.0 (Wolfram Research Inc.). (ZIP 421 kb)
DOI: 10.6084/m9.figshare.5882122.v1
title: Additional file 5: of Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)

description: Figures S3a and S3b. Estimation of LOH fraction and tumor content. Estimation of LOH fraction and tumor content using a Beta-Normal mixture model. Histograms show the distribution of major allele frequencies (range: 50–100%) and red curves show the mixture model estimated from the data. The set of SNPs called in the germline sample was considered in the tumor sample (primary and metastasis independently). When genomes contain regions of LOH, the distribution will be bimodal, as illustrated in the inset (top right). The first component (closer to 50%; red in inset) represents heterozygous SNPs in regions without LOH and was modeled as a normal distribution with a mean close to 50% in a perfect sample, but will increase towards 100% as allelic dropout increases. The second component (closer to 100%; blue in inset) represents homozygous SNPs in regions with LOH, was modeled as a beta distribution with two parameters (the mean of this component should be close to 100% and increase as LOH fraction increases and decrease as with non-cancer cell contamination. The mixture distribution thus had four free parameters plus the mixture proportion, the latter representing the estimated LOH fraction of the sample. Fitting this mixture to the observations yielded estimates for LOH fraction, tumor fraction and allelic dropout rate for each sample (Additional file 3: Figure S2). Model fitting was performed using the EstimatedDistribution function of Mathematica 9.0 (Wolfram Research Inc.). (ZIP 421 kb)
DOI: 10.6084/m9.figshare.5882119
title: Additional file 5: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Components of the top five toxicity pathways as determined by temperature-regulated proteins and predicted by IPA analysis. Exp fold change and Exp p-value correspond with the fold change value and the adjusted p-value (using Benjamini Hochberg correction), respectively, reported in Additional file 3. (XLSX 52Â kb)
DOI: 10.6084/m9.figshare.5882119.v1
title: Additional file 5: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Components of the top five toxicity pathways as determined by temperature-regulated proteins and predicted by IPA analysis. Exp fold change and Exp p-value correspond with the fold change value and the adjusted p-value (using Benjamini Hochberg correction), respectively, reported in Additional file 3. (XLSX 52Â kb)
DOI: 10.6084/m9.figshare.5882104
title: Additional file 4: of Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)

description: Figures S1a and S1b. Exome-wide view of mutations in metastatic breast cancer. Each panel (numbered by patient ID) shows whole-exome data from one patient in several aligned tracks, as indicated on the right. SNV: single-nucleotide variations, shown as tick marks for COSMIC recurrent cancer genes (outer tracks) and as density for all mutations (inner tracks). The central colored density gradient shows major allele concordance P value between primary and metastasis (50 SNP moving windows; blue: concordant; red: discordant), indicating the presence of concordant loss of heterozygosity. CNV: copy-number variation (red: deletion, blue: amplification); LOH: loss-of-heterozygosity. The Tumorscape track shows known hotspots for copy-number variation in breast cancer using data from Tumorscape Copy Number Alterations Across Multiple Cancer Types Release 1.6 (Broad Institute). CNV was determined by calculating the normalized read coverage at each SNP position for paired tumor and germline samples, then taking the log2 of the ratio of these numbers and recentering to zero. In Fig. 1, these measures were plotted as a moving average across ten adjacent SNPs. LOH: loss of heterozygousity) as major allele frequency for heterozygous SNPs on the vertical axis, with manually called LOH regions indicated by horizontal lines (vertical axis range 50–100%; red: significant SNP phase concordance with the paired sample, p 0.99) value suggests that there was LOH in B, but it was derived from the opposite allele compared with A. Intermediate values are expected whenever there was no LOH in sample B. The central track for each patient in Additional file 4: Figure S1 shows this P value. (ZIP 1670 kb)
DOI: 10.6084/m9.figshare.5882104.v1
title: Additional file 4: of Exome sequencing of primary breast cancers with paired metastatic lesions reveals metastasis-enriched mutations in the A-kinase anchoring protein family (AKAPs)

description: Figures S1a and S1b. Exome-wide view of mutations in metastatic breast cancer. Each panel (numbered by patient ID) shows whole-exome data from one patient in several aligned tracks, as indicated on the right. SNV: single-nucleotide variations, shown as tick marks for COSMIC recurrent cancer genes (outer tracks) and as density for all mutations (inner tracks). The central colored density gradient shows major allele concordance P value between primary and metastasis (50 SNP moving windows; blue: concordant; red: discordant), indicating the presence of concordant loss of heterozygosity. CNV: copy-number variation (red: deletion, blue: amplification); LOH: loss-of-heterozygosity. The Tumorscape track shows known hotspots for copy-number variation in breast cancer using data from Tumorscape Copy Number Alterations Across Multiple Cancer Types Release 1.6 (Broad Institute). CNV was determined by calculating the normalized read coverage at each SNP position for paired tumor and germline samples, then taking the log2 of the ratio of these numbers and recentering to zero. In Fig. 1, these measures were plotted as a moving average across ten adjacent SNPs. LOH: loss of heterozygousity) as major allele frequency for heterozygous SNPs on the vertical axis, with manually called LOH regions indicated by horizontal lines (vertical axis range 50–100%; red: significant SNP phase concordance with the paired sample, p 0.99) value suggests that there was LOH in B, but it was derived from the opposite allele compared with A. Intermediate values are expected whenever there was no LOH in sample B. The central track for each patient in Additional file 4: Figure S1 shows this P value. (ZIP 1670 kb)
DOI: 10.6084/m9.figshare.5882095
title: Additional file 4: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Full list of canonical pathways as determined by temperature-regulated proteins and predicted by IPA analysis. The significance of the association between the data set and the pathway is based on the p-value, which determines the probability that the association between the data set genes and the pathway is explained only by chance, and on the ratio value, representing the number of genes from the data found in each pathway over the total number of genes in that pathway. (XLSX 56Â kb)
DOI: 10.6084/m9.figshare.5882095.v1
title: Additional file 4: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Full list of canonical pathways as determined by temperature-regulated proteins and predicted by IPA analysis. The significance of the association between the data set and the pathway is based on the p-value, which determines the probability that the association between the data set genes and the pathway is explained only by chance, and on the ratio value, representing the number of genes from the data found in each pathway over the total number of genes in that pathway. (XLSX 56Â kb)
DOI: 10.6084/m9.figshare.5882086
title: Additional file 3: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Total number of quantifiable proteins. Proteins identified on the basis of two or more unique matching peptide sequences and presence in at least six of the nine biological replicates in either treatment group (XLSX 160Â kb)
DOI: 10.6084/m9.figshare.5882086.v1
title: Additional file 3: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: Total number of quantifiable proteins. Proteins identified on the basis of two or more unique matching peptide sequences and presence in at least six of the nine biological replicates in either treatment group (XLSX 160Â kb)
DOI: 10.6084/m9.figshare.5882065
title: Additional file 2: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: MaxQuant output files of the complete protein-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 2354Â kb)
DOI: 10.6084/m9.figshare.5882065.v1
title: Additional file 2: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: MaxQuant output files of the complete protein-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 2354Â kb)
DOI: 10.6084/m9.figshare.5882053
title: Additional file 3: of DMRfinder: efficiently identifying differentially methylated regions from MethylC-seq data

description: Archive of DMRfinder, version 0.2. (ZIP 500 kb)
DOI: 10.6084/m9.figshare.5882050
title: Additional file 1: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: MaxQuant output files of the complete peptide-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 5578Â kb)
DOI: 10.6084/m9.figshare.5882050.v1
title: Additional file 1: of Liver proteome response of pre-harvest Atlantic salmon following exposure to elevated temperature

description: MaxQuant output files of the complete peptide-level mass spectrometry. A total of nine biological replicates (fish) per temperature treatment were analysed. (XLSX 5578Â kb)
DOI: 10.6084/m9.figshare.5881885
title: Additional file 2: of Recently integrated Alu insertions in the squirrel monkey (Saimiri) lineage and application for population analyses

description: An excel file showing Alu element subfamilies in the [saiBol1] genome with 0% to 2% divergence from their respective consensus sequences and the number of members per divergence category. A separate worksheet shows the numerical values for Kâ =â 3 Structure analysis. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.5881885.v1
title: Additional file 2: of Recently integrated Alu insertions in the squirrel monkey (Saimiri) lineage and application for population analyses

description: An excel file showing Alu element subfamilies in the [saiBol1] genome with 0% to 2% divergence from their respective consensus sequences and the number of members per divergence category. A separate worksheet shows the numerical values for Kâ =â 3 Structure analysis. (XLSX 19Â kb)
DOI: 10.6084/m9.figshare.5881867
title: Additional file 1: of Recently integrated Alu insertions in the squirrel monkey (Saimiri) lineage and application for population analyses

description: An excel file containing worksheets for PCR primers & coordinates, Squirrel monkey samples, PCR format, and genotype data for each locus. Table S1 details the loci sequenced. (XLSX 503Â kb)
DOI: 10.6084/m9.figshare.5881867.v1
title: Additional file 1: of Recently integrated Alu insertions in the squirrel monkey (Saimiri) lineage and application for population analyses

description: An excel file containing worksheets for PCR primers & coordinates, Squirrel monkey samples, PCR format, and genotype data for each locus. Table S1 details the loci sequenced. (XLSX 503Â kb)
DOI: 10.6084/m9.figshare.5881840
title: Additional file 1: of Loss of skeletal muscle mass during neoadjuvant treatments correlates with worse prognosis in esophageal cancer: a retrospective cohort study

description: Complication rate analysis by preoperative sarcopenia. (XLSX 34 kb)
DOI: 10.6084/m9.figshare.5881840.v1
title: Additional file 1: of Loss of skeletal muscle mass during neoadjuvant treatments correlates with worse prognosis in esophageal cancer: a retrospective cohort study

description: Complication rate analysis by preoperative sarcopenia. (XLSX 34 kb)
DOI: 10.34740/kaggle/dsv/1452236
title: YouTube Trending Video Dataset (updated daily)
DOI: 10.6084/m9.figshare.5881696
title: Additional file 1: of The peopling of the last Green Sahara revealed by high-coverage resequencing of trans-Saharan patrilineages

description: Table S1. List of samples analysed by NGS. Table S2. List of variant positions in the whole set of 150 Y chromosomes. Table S3. Time estimates (kya) for the nodes of Fig. 2a, obtained with BEAST assuming both a strict and a relaxed clock. Table S4. List of SNPs used for the molecular dissection and population analysis of the four trans-Saharan clades. Table S5. Relative frequencies (percentage) of the A3-M13, E-M2, E-M78 and R-V88 sub-haplogroups in the 145 populations analyzed. Table S6. Twenty-two blocks of the X-degenerate portion of the MSY targeted for the NGS. Table S7. List of the unique fragments of the capture probe set covering the 22 selected MSY regions. Table S8. Description of the two unassigned variant positions. Table S9. Branch assignment of the SNPs that have been extracted from the literature. (XLSX 1131 kb)
DOI: 10.6084/m9.figshare.5881696.v1
title: Additional file 1: of The peopling of the last Green Sahara revealed by high-coverage resequencing of trans-Saharan patrilineages

description: Table S1. List of samples analysed by NGS. Table S2. List of variant positions in the whole set of 150 Y chromosomes. Table S3. Time estimates (kya) for the nodes of Fig. 2a, obtained with BEAST assuming both a strict and a relaxed clock. Table S4. List of SNPs used for the molecular dissection and population analysis of the four trans-Saharan clades. Table S5. Relative frequencies (percentage) of the A3-M13, E-M2, E-M78 and R-V88 sub-haplogroups in the 145 populations analyzed. Table S6. Twenty-two blocks of the X-degenerate portion of the MSY targeted for the NGS. Table S7. List of the unique fragments of the capture probe set covering the 22 selected MSY regions. Table S8. Description of the two unassigned variant positions. Table S9. Branch assignment of the SNPs that have been extracted from the literature. (XLSX 1131 kb)
DOI: 10.6084/m9.figshare.5881615
title: Additional file 3: Table S1. of Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation

description: Antigenic distances for historical/vaccine strains. (CSV 749 bytes)
DOI: 10.6084/m9.figshare.5881615.v1
title: Additional file 3: Table S1. of Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation

description: Antigenic distances for historical/vaccine strains. (CSV 749 bytes)
DOI: 10.6084/m9.figshare.5881567
title: Additional file 1: of Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation

description: Antigenic distances for all strains used in the study. (CSV 53857Â kb)
DOI: 10.6084/m9.figshare.5881567.v1
title: Additional file 1: of Antigenic cartography of H1N1 influenza viruses using sequence-based antigenic distance calculation

description: Antigenic distances for all strains used in the study. (CSV 53857Â kb)
DOI: 10.6084/m9.figshare.5881546
title: Additional file 2: Table S2. of Integrative analysis of the epigenetic basis of muscle-invasive urothelial carcinoma

description: Full pathway list. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.5881546.v1
title: Additional file 2: Table S2. of Integrative analysis of the epigenetic basis of muscle-invasive urothelial carcinoma

description: Full pathway list. (XLSX 55Â kb)
DOI: 10.6084/m9.figshare.5881522
title: Additional file 1: Table S1. of Integrative analysis of the epigenetic basis of muscle-invasive urothelial carcinoma

description: (XLSX 58Â kb)
DOI: 10.6084/m9.figshare.5881522.v1
title: Additional file 1: Table S1. of Integrative analysis of the epigenetic basis of muscle-invasive urothelial carcinoma

description: (XLSX 58Â kb)
DOI: 10.6084/m9.figshare.5881507
title: MOESM2 of Simple descriptive missing data indicators in longitudinal studies with attrition, intermittent missing data and a high number of follow-ups

description: Additional file 2. The file gives an example of a Phyton program to calculate the three missing data indicators.
DOI: 10.6084/m9.figshare.5881507.v1
title: MOESM2 of Simple descriptive missing data indicators in longitudinal studies with attrition, intermittent missing data and a high number of follow-ups

description: Additional file 2. The file gives an example of a Phyton program to calculate the three missing data indicators.
DOI: 10.6084/m9.figshare.5881393
title: Calibrated data for environment awareness

description: Data on calibrated environment awareness using Wei et.al.,2017 data.
DOI: 10.17608/k6.auckland.5881348
title: APCWE9 all papers

description: All the papers reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.
DOI: 10.17608/k6.auckland.5881348.v2
title: APCWE9 all papers

description: All the papers reviewed and accepted by the APCWE-IX Programme Committee for Presentation at the 9th Asia-Pacific Conference on Wind Engineering, University of Auckland, Auckland, New Zealand, held from 3-7 December 2017.