cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.12422084.v1
title: Additional file 2 of Intramembrane proteolysis of an extracellular serine protease, epithin/PRSS14, enables its intracellular nuclear function

description: Additional file 2: Table S1. Differentially expressed genes (DEG) in the control and EICD-transfected cells. DEGs with p values less than 0.05 from the RNA-seq analysis are listed with gene information, FPKMs in the control and EICD-transfected cells, the binary logarithm of the ratio (M), and the geometric mean (A).
DOI: 10.6084/m9.figshare.12422087.v1
title: Additional file 1 of Molecular footprints of selection effects and whole genome duplication (WGD) events in three blueberry species: detected by transcriptome dataset

description: Additional file 1: Table S1. Statistics of unigenes undergone selection effect in three blueberry species.
DOI: 10.6084/m9.figshare.12421943
title: Additional file 1 of Ultraviolet radiation changes plant color

description: Additional file 1.
DOI: 10.6084/m9.figshare.12421943.v1
title: Additional file 1 of Ultraviolet radiation changes plant color

description: Additional file 1.
DOI: 10.6084/m9.figshare.12421913
title: Additional file 9 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 9. Table S4. Pearson correlation analyses among twelve-gene signatures in 341 TCGA LIHC Samples.
DOI: 10.6084/m9.figshare.12421907
title: Additional file 7 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 7: Table S3. DEGs associated with overall survival using univariate Cox regression model with P
DOI: 10.6084/m9.figshare.12421913.v1
title: Additional file 9 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 9. Table S4. Pearson correlation analyses among twelve-gene signatures in 341 TCGA LIHC Samples.
DOI: 10.6084/m9.figshare.12421886
title: Additional file 4 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 4: Table S2. KEGG pathway analysis of the DEGs.
DOI: 10.6084/m9.figshare.12421907.v1
title: Additional file 7 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 7: Table S3. DEGs associated with overall survival using univariate Cox regression model with P
DOI: 10.6084/m9.figshare.12421886.v1
title: Additional file 4 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 4: Table S2. KEGG pathway analysis of the DEGs.
DOI: 10.6084/m9.figshare.12421874
title: Additional file 2 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 2: Table S1. 175 DEGs identified by integrated analysis using robust rank aggregation (RRA) method with adjPvalue
DOI: 10.6084/m9.figshare.12421874.v1
title: Additional file 2 of A robust twelve-gene signature for prognosis prediction of hepatocellular carcinoma

description: Additional file 2: Table S1. 175 DEGs identified by integrated analysis using robust rank aggregation (RRA) method with adjPvalue
DOI: 10.6084/m9.figshare.12421661
title: Additional file 4 of Testing for causality between systematically identified risk factors and glioma: a Mendelian randomization study

description: Additional file 4 Additional file, Table 1: Details of instrumented risk factors found from the systematic search of the literature. Additional file, Table 2: Power calculations for each instrumented risk factor. Additional file, Table 3: 25 studies from which the 36 risk factors were evidenced. Additional file, Table 4: Detailed results from sensitivity analyses for each association that met at least the suggestive P value threshold in the IVW analysis. “NA” means there were not enough instruments to conduct this test. “r2” for the Steiger test indicates variance explained and “direction” is given: true, if effect is from exposure to outcome; false, if the effect is from outcome to exposure. Additional file, Table 5: Polygenic Risk Score results for each risk factor and all glioma. Additional file, Table 6: Polygenic Risk Scores for risk factors and glioblastoma. Additional file, Table 7: Polygenic Risk Score results for risk factors and non-glioblastoma (low-grade glioma).
DOI: 10.6084/m9.figshare.12421661.v1
title: Additional file 4 of Testing for causality between systematically identified risk factors and glioma: a Mendelian randomization study

description: Additional file 4 Additional file, Table 1: Details of instrumented risk factors found from the systematic search of the literature. Additional file, Table 2: Power calculations for each instrumented risk factor. Additional file, Table 3: 25 studies from which the 36 risk factors were evidenced. Additional file, Table 4: Detailed results from sensitivity analyses for each association that met at least the suggestive P value threshold in the IVW analysis. “NA” means there were not enough instruments to conduct this test. “r2” for the Steiger test indicates variance explained and “direction” is given: true, if effect is from exposure to outcome; false, if the effect is from outcome to exposure. Additional file, Table 5: Polygenic Risk Score results for each risk factor and all glioma. Additional file, Table 6: Polygenic Risk Scores for risk factors and glioblastoma. Additional file, Table 7: Polygenic Risk Score results for risk factors and non-glioblastoma (low-grade glioma).
DOI: 10.6084/m9.figshare.12421577
title: Additional file 2 of Identification of genetic loci associated with higher resistance to pancreas disease (PD) in Atlantic salmon (Salmo salar L.)

description: Additional file 2: Supplementary Table 1. Differentially expressed genes between the moribund animals at 11 dpi (sample_1) and animals that survived the challenge (sample_2). Supplementary Table 2. Functional enrichment analysis of differentially expressed genes between the moribund animals at 11 dpi and animals that survived the challenge.
DOI: 10.6084/m9.figshare.12421571
title: Additional file 1 of Identification of genetic loci associated with higher resistance to pancreas disease (PD) in Atlantic salmon (Salmo salar L.)

description: Additional file 1: Supplementary Figure 1. Heatmap of the immune-related genes, with different expression profiles between the moribund (M) and survived animals (S) within the QTL containing regions of a. ssa03 and b. ssa07.
DOI: 10.6084/m9.figshare.12421577.v1
title: Additional file 2 of Identification of genetic loci associated with higher resistance to pancreas disease (PD) in Atlantic salmon (Salmo salar L.)

description: Additional file 2: Supplementary Table 1. Differentially expressed genes between the moribund animals at 11 dpi (sample_1) and animals that survived the challenge (sample_2). Supplementary Table 2. Functional enrichment analysis of differentially expressed genes between the moribund animals at 11 dpi and animals that survived the challenge.
DOI: 10.6084/m9.figshare.12421571.v1
title: Additional file 1 of Identification of genetic loci associated with higher resistance to pancreas disease (PD) in Atlantic salmon (Salmo salar L.)

description: Additional file 1: Supplementary Figure 1. Heatmap of the immune-related genes, with different expression profiles between the moribund (M) and survived animals (S) within the QTL containing regions of a. ssa03 and b. ssa07.
DOI: 10.6084/m9.figshare.12421526
title: Additional file 6 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 6: Table S6. Oviposition response to doses of dodecanoic acid.
DOI: 10.6084/m9.figshare.12421520
title: Additional file 4 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 4: Table S4. Oviposition response to doses of conspecific eggs.
DOI: 10.6084/m9.figshare.12421523
title: Additional file 5 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 5: Table S5. Attraction to different doses of dodecanoic acid.
DOI: 10.6084/m9.figshare.12421526.v1
title: Additional file 6 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 6: Table S6. Oviposition response to doses of dodecanoic acid.
DOI: 10.6084/m9.figshare.12421511
title: Additional file 3 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 3: Table S3. Attraction to doses of conspecific eggs.
DOI: 10.6084/m9.figshare.12421520.v1
title: Additional file 4 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 4: Table S4. Oviposition response to doses of conspecific eggs.
DOI: 10.6084/m9.figshare.12421523.v1
title: Additional file 5 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 5: Table S5. Attraction to different doses of dodecanoic acid.
DOI: 10.6084/m9.figshare.12421499
title: Additional file 2 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 2 :Table S2. Oviposition of sand flies to conspecific stages.
DOI: 10.6084/m9.figshare.12421511.v1
title: Additional file 3 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 3: Table S3. Attraction to doses of conspecific eggs.
DOI: 10.6084/m9.figshare.12421493
title: Additional file 1 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 1: Table S1. Attraction of sand flies to conspecific stages.
DOI: 10.6084/m9.figshare.12421499.v1
title: Additional file 2 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 2 :Table S2. Oviposition of sand flies to conspecific stages.
DOI: 10.6084/m9.figshare.12421493.v1
title: Additional file 1 of The egg and larval pheromone dodecanoic acid mediates density-dependent oviposition of Phlebotomus papatasi

description: Additional file 1: Table S1. Attraction of sand flies to conspecific stages.
DOI: 10.6084/m9.figshare.12421475
title: Additional file 5 of Fusions involving BCOR and CREBBP are rare events in infiltrating glioma

description: Additional file 5: Supplementary Excel File 1. This file contains details for the full list of genes and corresponding enrichment scores for the genes comprising the OX_PHOS and MYC_V1 gene sets used in the gene set enrichment analysis.
DOI: 10.6084/m9.figshare.12421475.v1
title: Additional file 5 of Fusions involving BCOR and CREBBP are rare events in infiltrating glioma

description: Additional file 5: Supplementary Excel File 1. This file contains details for the full list of genes and corresponding enrichment scores for the genes comprising the OX_PHOS and MYC_V1 gene sets used in the gene set enrichment analysis.
DOI: 10.6084/m9.figshare.12421412
title: Additional file 1 of Benchmarking bulkers delivered between 2010 and 2016, identifying the effect of the EEDI introduction

description: Additional file 1. Benchmark Data and Graphs.
DOI: 10.6084/m9.figshare.12421412.v1
title: Additional file 1 of Benchmarking bulkers delivered between 2010 and 2016, identifying the effect of the EEDI introduction

description: Additional file 1. Benchmark Data and Graphs.
DOI: 10.6084/m9.figshare.12421334
title: Additional file 1 of DNA methylation loci in placenta associated with birthweight and expression of genes relevant for early development and adult diseases

description: Additional file 1: Additional Table 1. Comparison of demographic characteristics of women with placental samples and women in the overall NICHD Fetal Growth Studies. Additional Table 2. Association between placental DNA methylation of 15 birthweight-associated CpG sites and gestational age at delivery. Additional Table 3. Regulatory region enrichment of the birthweight-associated CpG sites. A. regulatory features from placenta-specific 15-chromatin state annotation (ChromHMM v1.9). B. CpG island locations. C. Transcription factors. Additional Table 4. Enrichment for tissue-specific DNase 1 hypersensitivity sites (DHSs) of the top 100 CpGs associated with birthweight based on experimentally derived Functional element Overlap analysis of Regions from EWAS (eFORGE). Additional Table 5. Single nucleotide polymorphisms significantly associated with DNA methylation at three CpG sites (meQTLs) in the mQTL database (http://www.mqtldb.org/). Additional Table 6. Previously known associations between the birthweight-associated CpG sites and phenotypes. Additional Table 7. Published CpG sites associated with maternal cardiometabolic traits and adult cardiometabolic traits. Additional Table 8. CpG sites associated with maternal cardiometabolic traits and adult cardiometabolic traits in published studies as well as with birthweight in the present study (FDR &lt;0.05).
DOI: 10.6084/m9.figshare.12421334.v1
title: Additional file 1 of DNA methylation loci in placenta associated with birthweight and expression of genes relevant for early development and adult diseases

description: Additional file 1: Additional Table 1. Comparison of demographic characteristics of women with placental samples and women in the overall NICHD Fetal Growth Studies. Additional Table 2. Association between placental DNA methylation of 15 birthweight-associated CpG sites and gestational age at delivery. Additional Table 3. Regulatory region enrichment of the birthweight-associated CpG sites. A. regulatory features from placenta-specific 15-chromatin state annotation (ChromHMM v1.9). B. CpG island locations. C. Transcription factors. Additional Table 4. Enrichment for tissue-specific DNase 1 hypersensitivity sites (DHSs) of the top 100 CpGs associated with birthweight based on experimentally derived Functional element Overlap analysis of Regions from EWAS (eFORGE). Additional Table 5. Single nucleotide polymorphisms significantly associated with DNA methylation at three CpG sites (meQTLs) in the mQTL database (http://www.mqtldb.org/). Additional Table 6. Previously known associations between the birthweight-associated CpG sites and phenotypes. Additional Table 7. Published CpG sites associated with maternal cardiometabolic traits and adult cardiometabolic traits. Additional Table 8. CpG sites associated with maternal cardiometabolic traits and adult cardiometabolic traits in published studies as well as with birthweight in the present study (FDR &lt;0.05).
DOI: 10.6084/m9.figshare.12421268
title: Additional file 1 of DryMass: handling and analyzing quantitative phase microscopy images of spherical, cell-sized objects

description: Additional file 1 Title of data: DryMass analysis recipe for HL60 cell nuclei. Description of data: This is a DryMass configuration file, containing all information necessary to exactly reproduce the data analysis demonstrated in the present work.
DOI: 10.6084/m9.figshare.12421274
title: Additional file 2 of DryMass: handling and analyzing quantitative phase microscopy images of spherical, cell-sized objects

description: Additional file 2 Title of data: Regions of interest removed from the final analysis. Description of data: This file contains the identifiers of the regions of interest (ROI) that were not used in the data analysis for figure 3 in the manuscript. Copy and replace the respective line in the [roi] section of the corresponding DryMass configuration file (drymass.cfg).
DOI: 10.6084/m9.figshare.12421259
title: Additional file 4 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 4. Custom HMM for LanL LanC-like domains.
DOI: 10.6084/m9.figshare.12421268.v1
title: Additional file 1 of DryMass: handling and analyzing quantitative phase microscopy images of spherical, cell-sized objects

description: Additional file 1 Title of data: DryMass analysis recipe for HL60 cell nuclei. Description of data: This is a DryMass configuration file, containing all information necessary to exactly reproduce the data analysis demonstrated in the present work.
DOI: 10.6084/m9.figshare.12421274.v1
title: Additional file 2 of DryMass: handling and analyzing quantitative phase microscopy images of spherical, cell-sized objects

description: Additional file 2 Title of data: Regions of interest removed from the final analysis. Description of data: This file contains the identifiers of the regions of interest (ROI) that were not used in the data analysis for figure 3 in the manuscript. Copy and replace the respective line in the [roi] section of the corresponding DryMass configuration file (drymass.cfg).
DOI: 10.6084/m9.figshare.12421259.v1
title: Additional file 4 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 4. Custom HMM for LanL LanC-like domains.
DOI: 10.6084/m9.figshare.12421250
title: Additional file 3 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 3. Custom HMM for LanKC LanC-like domains.
DOI: 10.6084/m9.figshare.12421244
title: Additional file 2 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 2. Excel File containing precursor peptides identified in this study.
DOI: 10.6084/m9.figshare.12421250.v1
title: Additional file 3 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 3. Custom HMM for LanKC LanC-like domains.
DOI: 10.6084/m9.figshare.12421244.v1
title: Additional file 2 of Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family

description: Additional file 2. Excel File containing precursor peptides identified in this study.
DOI: 10.6084/m9.figshare.12421229
title: Additional file 2 of Evaluation of disability in patients exposed to fluoroquinolones

description: Additional file 2:. Model parameters for propensity scores. Model details for propensity scores.
DOI: 10.6084/m9.figshare.12421229.v1
title: Additional file 2 of Evaluation of disability in patients exposed to fluoroquinolones

description: Additional file 2:. Model parameters for propensity scores. Model details for propensity scores.
DOI: 10.6084/m9.figshare.12421199
title: tcr_beta_synrep_set3_03.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421178
title: tcr_beta_synrep_set3_02.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421178.v1
title: tcr_beta_synrep_set3_02.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421199.v1
title: tcr_beta_synrep_set3_03.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421166
title: tcr_beta_synrep_set3_01.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421151
title: Tetrapod skull lengths from The origin of tetrapod herbivory: effects on local plant diversity

description: Skull lengths in mm and dietary assignment of tetrapod taxa included in the study
DOI: 10.6084/m9.figshare.12421166.v1
title: tcr_beta_synrep_set3_01.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421145
title: Plant occurences from the PBDB from The origin of tetrapod herbivory: effects on local plant diversity

description: Plant occurences downloaded from the Paleobiology database, including formation, locality and, where available, organ
DOI: 10.6084/m9.figshare.12421136
title: Tetrapod presence absence from The origin of tetrapod herbivory: effects on local plant diversity

description: The origin of herbivory in the Carboniferous was a landmark event in the evolution of terrestrial ecosystems, increasing ecological diversity in animals but also giving them greater influence on the evolution of land plants. We evaluate the effect of early vertebrate herbivory on plant evolution by comparing local species richness of plant palaeofloras with that of vertebrate herbivores and herbivore body size. Vertebrate herbivores became diverse and achieved a much greater range of body sizes across the Carboniferous–Permian transition interval. This coincides with an abrupt reduction in local plant richness that persists throughout the Permian. Time-series regression analysis supports a negative relationship of plant richness with herbivore richness but a positive relationship of plant richness with minimum herbivore body size. This is consistent with studies of present-day ecosystems in which increased diversity of smaller, more selective herbivores places greater predation pressures on plants, while a prevalence of larger bodied, less selective herbivores reduces the dominance of a few highly tolerant plant species, thereby promoting greater local richness. The diversification of herbivores across the Carboniferous–Permian boundary, along with the appearance of smaller, more selective herbivores like bolosaurid parareptiles, constrained plant diversity throughout the Permian. These findings demonstrate that the establishment of widespread vertebrate herbivory has structured plant communities since the late Palaeozoic, as expected from examination of modern ecosystems, and illustrates the potential for fossil datasets in testing palaeoecological hypotheses.
DOI: 10.6084/m9.figshare.12421145.v1
title: Plant occurences from the PBDB from The origin of tetrapod herbivory: effects on local plant diversity

description: Plant occurences downloaded from the Paleobiology database, including formation, locality and, where available, organ
DOI: 10.6084/m9.figshare.12421124
title: tcr_beta_synrep_set3_00.txt.bz2

description: Synthetic T cell receptor beta chain repertoire generated using IGoR software. <br><br>Record format: V-gene D-gene J-gene amino-acid-CDR3<br>Where CDR3 contains anchor residues (V-gene Cys, J-gene Phe/Val)
DOI: 10.6084/m9.figshare.12421127
title: Rodriguésia - Material Suplementar / Supplementary Material - Piper (Piperaceae) do Parque Estadual da Serra da Tiririca, Niterói / Maricá, RJ, Brasil / Piper (Piperaceae) from Serra da Tiririca State Park, Niterói / Maricá, RJ, Brazil

description: <b>Tabela S1 - </b>Lista de materiais examinados nos respectivos herbários. <b>Table S1 - </b>List of materials examined in the respective herbaria.