cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17037192
title: Additional file 1 of Sexually dimorphic patterns in maternal circulating microRNAs in pregnancies complicated by fetal growth restriction

description: Additional file 1. List of miRNAs in Exiqon QPCR array Human panels I + II.
DOI: 10.6084/m9.figshare.17037192.v1
title: Additional file 1 of Sexually dimorphic patterns in maternal circulating microRNAs in pregnancies complicated by fetal growth restriction

description: Additional file 1. List of miRNAs in Exiqon QPCR array Human panels I + II.
DOI: 10.6084/m9.figshare.17037204
title: Additional file 2 of Association between local public housing authority policies related to criminal justice system involvement and sexually transmitted infection rates

description: Additional file 2.
DOI: 10.6084/m9.figshare.17037204.v1
title: Additional file 2 of Association between local public housing authority policies related to criminal justice system involvement and sexually transmitted infection rates

description: Additional file 2.
DOI: 10.5281/zenodo.5709221
title: Supplementary Table S1 (raw data) of "Filtration extraction method using microfluidic channel for measuring environmental DNA "

description: Supplementary Table S1 (all raw data) of "Filtration extraction method using microfluidic channel for measuring environmental DNA ". Each data of the validation experiment; Experiment 1-4 was located in different sheets..
DOI: 10.5281/zenodo.5709220
title: Supplementary Table S1 (raw data) of "Filtration extraction method using microfluidic channel for measuring environmental DNA "

description: Supplementary Table S1 (all raw data) of "Filtration extraction method using microfluidic channel for measuring environmental DNA ". Each data of the validation experiment; Experiment 1-4 was located in different sheets..
DOI: 10.6084/m9.figshare.17037282
title: Additional file 2 of Cargo proteins in extracellular vesicles: potential for novel therapeutics in non-alcoholic steatohepatitis

description: Additional file 2: Table S3. Proteomic analysis of exosomal proteins in iMSC-EV and pan PPAR-iMSC-EV. Table S4. Pan PPAR-iMSC-EV-induced differentially expressed genes in fatty acid-treated HepG2 cells. Table S5. Fatty acid-induced differentially expressed genes in HepG2 cells. Table S6. Representative KEGG pathways enriched with fatty acid-induced differentially expressed genes in HepG2 cells. Table S7. Connectivity map analysis of drugs and their target genes similar to that in the pan PPAR-iMSC-EV group. Table S8. KEGG enrichment analysis of pan PPAR-iMSC-EV signatures.
DOI: 10.6084/m9.figshare.17037282.v1
title: Additional file 2 of Cargo proteins in extracellular vesicles: potential for novel therapeutics in non-alcoholic steatohepatitis

description: Additional file 2: Table S3. Proteomic analysis of exosomal proteins in iMSC-EV and pan PPAR-iMSC-EV. Table S4. Pan PPAR-iMSC-EV-induced differentially expressed genes in fatty acid-treated HepG2 cells. Table S5. Fatty acid-induced differentially expressed genes in HepG2 cells. Table S6. Representative KEGG pathways enriched with fatty acid-induced differentially expressed genes in HepG2 cells. Table S7. Connectivity map analysis of drugs and their target genes similar to that in the pan PPAR-iMSC-EV group. Table S8. KEGG enrichment analysis of pan PPAR-iMSC-EV signatures.
DOI: 10.6084/m9.figshare.17037399
title: Additional file 3 of Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii

description: Additional file 3.
DOI: 10.6084/m9.figshare.17037399.v1
title: Additional file 3 of Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii

description: Additional file 3.
DOI: 10.6084/m9.figshare.17037414
title: Additional file 7 of Re-emergence of Gamma-like-II and emergence of Gamma-S:E661D SARS-CoV-2 lineages in the south of Brazil after the 2021 outbreak

description: Additional file 7: Table S2. Nonsynonymous mutations described for Gamma-like-II.
DOI: 10.6084/m9.figshare.17037411
title: Additional file 6 of Re-emergence of Gamma-like-II and emergence of Gamma-S:E661D SARS-CoV-2 lineages in the south of Brazil after the 2021 outbreak

description: Additional file 6: Table S1. Nonsynonymous mutations described for VOIs N.10-PR, N.10-MA and B.1.429.
DOI: 10.6084/m9.figshare.17037411.v1
title: Additional file 6 of Re-emergence of Gamma-like-II and emergence of Gamma-S:E661D SARS-CoV-2 lineages in the south of Brazil after the 2021 outbreak

description: Additional file 6: Table S1. Nonsynonymous mutations described for VOIs N.10-PR, N.10-MA and B.1.429.
DOI: 10.6084/m9.figshare.17037414.v1
title: Additional file 7 of Re-emergence of Gamma-like-II and emergence of Gamma-S:E661D SARS-CoV-2 lineages in the south of Brazil after the 2021 outbreak

description: Additional file 7: Table S2. Nonsynonymous mutations described for Gamma-like-II.
DOI: 10.6084/m9.figshare.17037501
title: Additional file 2 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 2 Table S1: Homologues-based transcript-phenotype list Table S2-S3: Analysis results for the modules in the middle network and moulting network, including module size, enriched GO terms with smallest p-values, p-values of enrichment analyses based on homologues, module preservation Zsummary, number of known moulting-associated genes, proportion of TF and DE genes. Table S4: Analysis results for the modules in the global network, including module size, enriched GO terms with smallest p-values, p-values of enrichment analyses based on homologues, regularized logistic regression coefficients, number of known moulting-associated genes, proportion of TF and DE genes. Table S5-S7: Module assignment results for the known moulting-associated transcripts in the middle, moulting and global network; the ranks of these transcripts based on three types of centrality measurements within modules; whether they were intramodular hubs or not. Table S8: Two types of RIF scores for the transcripts annotated as transcription factors Table S9-S11: Centrality measurements, average ranks and annotations for the nodes in three selected modules (yellowgreen, steelblue and violet). Table S12: Annotations of the nodes with highest average ranks from the selected modules. Table S13: Available RNAi results for nodes from the eight selected important modules and nodes with high average ranks from modules without passing any criteria.
DOI: 10.6084/m9.figshare.17037501.v1
title: Additional file 2 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 2 Table S1: Homologues-based transcript-phenotype list Table S2-S3: Analysis results for the modules in the middle network and moulting network, including module size, enriched GO terms with smallest p-values, p-values of enrichment analyses based on homologues, module preservation Zsummary, number of known moulting-associated genes, proportion of TF and DE genes. Table S4: Analysis results for the modules in the global network, including module size, enriched GO terms with smallest p-values, p-values of enrichment analyses based on homologues, regularized logistic regression coefficients, number of known moulting-associated genes, proportion of TF and DE genes. Table S5-S7: Module assignment results for the known moulting-associated transcripts in the middle, moulting and global network; the ranks of these transcripts based on three types of centrality measurements within modules; whether they were intramodular hubs or not. Table S8: Two types of RIF scores for the transcripts annotated as transcription factors Table S9-S11: Centrality measurements, average ranks and annotations for the nodes in three selected modules (yellowgreen, steelblue and violet). Table S12: Annotations of the nodes with highest average ranks from the selected modules. Table S13: Available RNAi results for nodes from the eight selected important modules and nodes with high average ranks from modules without passing any criteria.
DOI: 10.6084/m9.figshare.17037507
title: Additional file 4 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 4 Visualization file for the selected important module “yellowgreen” from the moulting network.
DOI: 10.6084/m9.figshare.17037507.v1
title: Additional file 4 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 4 Visualization file for the selected important module “yellowgreen” from the moulting network.
DOI: 10.6084/m9.figshare.17037510
title: Additional file 5 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 5 Visualization file for the selected important module “violet” from the moulting network.
DOI: 10.6084/m9.figshare.17037510.v1
title: Additional file 5 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 5 Visualization file for the selected important module “violet” from the moulting network.
DOI: 10.6084/m9.figshare.17037513
title: Additional file 6 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 6 Visualization file for the selected important module “steelblue” from the global network.
DOI: 10.6084/m9.figshare.17037513.v1
title: Additional file 6 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 6 Visualization file for the selected important module “steelblue” from the global network.
DOI: 10.6084/m9.figshare.17037519
title: Additional file 7 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 7 Supplementary data has been deposited in Figshare DOI: 10.6084/m9.figshare.c.5375315
DOI: 10.6084/m9.figshare.17037519.v1
title: Additional file 7 of A novel approach to co-expression network analysis identifies modules and genes relevant for moulting and development in the Atlantic salmon louse (Lepeophtheirus salmonis)

description: Additional file 7 Supplementary data has been deposited in Figshare DOI: 10.6084/m9.figshare.c.5375315
DOI: 10.6084/m9.figshare.17037549
title: Additional file 1 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 1: Table S1. All compared sets of core-fitness and common-essential genes with annotations.
DOI: 10.6084/m9.figshare.17037549.v1
title: Additional file 1 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 1: Table S1. All compared sets of core-fitness and common-essential genes with annotations.
DOI: 10.6084/m9.figshare.17037558
title: Additional file 3 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 3: Table S2. Positive and negative control genes and their membership to training sets and DepMap datasets.
DOI: 10.6084/m9.figshare.17037558.v1
title: Additional file 3 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 3: Table S2. Positive and negative control genes and their membership to training sets and DepMap datasets.
DOI: 10.6084/m9.figshare.17037564
title: Additional file 1 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 1. Description of each modified TESTEX criterion.
DOI: 10.6084/m9.figshare.17037564.v1
title: Additional file 1 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 1. Description of each modified TESTEX criterion.
DOI: 10.6084/m9.figshare.17037570
title: Additional file 2 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 2. Description of each modified STARDHRV criterion.
DOI: 10.6084/m9.figshare.17037570.v1
title: Additional file 2 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 2. Description of each modified STARDHRV criterion.
DOI: 10.6084/m9.figshare.17037576
title: Additional file 3 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 3. Detailed description of the characteristics of the included studies.
DOI: 10.6084/m9.figshare.17037585
title: Additional file 8 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 8: Table S3. Gene family enrichment analysis results.
DOI: 10.6084/m9.figshare.17037585.v1
title: Additional file 8 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 8: Table S3. Gene family enrichment analysis results.
DOI: 10.6084/m9.figshare.17037576.v1
title: Additional file 3 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 3. Detailed description of the characteristics of the included studies.
DOI: 10.6084/m9.figshare.17037582.v1
title: Additional file 4 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 4. Detailed results of the heart rate related variables.
DOI: 10.6084/m9.figshare.17037591
title: Additional file 9 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 9: Table S4. Cell line specific oncogenetic addictions, i.e. point mutated or copy number amplified oncogenes (1) and not expressed oncogenes (− 1).
DOI: 10.6084/m9.figshare.17037582
title: Additional file 4 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 4. Detailed results of the heart rate related variables.
DOI: 10.6084/m9.figshare.17037588
title: Additional file 5 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 5. Detailed results of the TESTEX scale.
DOI: 10.6084/m9.figshare.17037591.v1
title: Additional file 9 of CoRe: a robustly benchmarked R package for identifying core-fitness genes in genome-wide pooled CRISPR-Cas9 screens

description: Additional File 9: Table S4. Cell line specific oncogenetic addictions, i.e. point mutated or copy number amplified oncogenes (1) and not expressed oncogenes (− 1).
DOI: 10.6084/m9.figshare.17037588.v1
title: Additional file 5 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 5. Detailed results of the TESTEX scale.
DOI: 10.6084/m9.figshare.17037594
title: Additional file 6 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 6. Detailed results of the STARDHRV scale.
DOI: 10.6084/m9.figshare.17037594.v1
title: Additional file 6 of Effects of different exercise interventions on heart rate variability and cardiovascular health factors in older adults: a systematic review

description: Additional file 6. Detailed results of the STARDHRV scale.
DOI: 10.6084/m9.figshare.17037597
title: Additional file 1 of Documenting elimination of co-circulating COVID-19 clusters using genomics in New South Wales, Australia

description: Additional file 1. SARS-CoV-2 genome sequences included in the visualisation of COVID-19 activity in New South Wales, Australia.
DOI: 10.6084/m9.figshare.17037597.v1
title: Additional file 1 of Documenting elimination of co-circulating COVID-19 clusters using genomics in New South Wales, Australia

description: Additional file 1. SARS-CoV-2 genome sequences included in the visualisation of COVID-19 activity in New South Wales, Australia.
DOI: 10.6084/m9.figshare.17037660
title: Additional file 2 of The landscape of coding RNA editing events in pediatric cancer

description: Additional file 2: Supplementary Table 1. 722 RNA editing sites identified in pediatric cancer samples. Supplementary Table 2. Deep amplicon sequencing of RNA vaildation of 10 RNA editing events. Supplementary Table 3. Percentages of cancer and normal tissue samples with RNA editing at each site. Supplementary Table 4. VAFs of RNA editing events in each sample. Supplementary Table 5. Neoepitope predictions for 722 RNA editing sites. Supplementary Table 6. Abbreviations for cancer and normal tissue types.
DOI: 10.6084/m9.figshare.17037660.v1
title: Additional file 2 of The landscape of coding RNA editing events in pediatric cancer

description: Additional file 2: Supplementary Table 1. 722 RNA editing sites identified in pediatric cancer samples. Supplementary Table 2. Deep amplicon sequencing of RNA vaildation of 10 RNA editing events. Supplementary Table 3. Percentages of cancer and normal tissue samples with RNA editing at each site. Supplementary Table 4. VAFs of RNA editing events in each sample. Supplementary Table 5. Neoepitope predictions for 722 RNA editing sites. Supplementary Table 6. Abbreviations for cancer and normal tissue types.
DOI: 10.6084/m9.figshare.17037717
title: Additional file 2 of Decreased sphingomyelin (t34:1) is a candidate predictor for lung squamous cell carcinoma recurrence after radical surgery: a case-control study

description: Additional file 2: Sheet 1. The full list of area values for the 1745 lipid species identified. Sheet 2. List of the intensity ratios according to the lipid head groups. Sheet 3. List of the intensity ratios according to the sphingomyelin species
DOI: 10.6084/m9.figshare.17037717.v1
title: Additional file 2 of Decreased sphingomyelin (t34:1) is a candidate predictor for lung squamous cell carcinoma recurrence after radical surgery: a case-control study

description: Additional file 2: Sheet 1. The full list of area values for the 1745 lipid species identified. Sheet 2. List of the intensity ratios according to the lipid head groups. Sheet 3. List of the intensity ratios according to the sphingomyelin species
DOI: 10.6084/m9.figshare.17037798
title: Additional file 1 of Epigenetic modelling of former, current and never smokers

description: Additional file 1. Supplementary Table 1 - LASSO model constituent CpGs, betas and gene symbol information.
DOI: 10.6084/m9.figshare.17037798.v1
title: Additional file 1 of Epigenetic modelling of former, current and never smokers

description: Additional file 1. Supplementary Table 1 - LASSO model constituent CpGs, betas and gene symbol information.
DOI: 10.6084/m9.figshare.17037813
title: Additional file 2 of Factors associated with the consumption of chlorine dioxide to prevent and treat COVID-19 in the Peruvian population: a cross-sectional study

description: Additional file 2.
DOI: 10.6084/m9.figshare.17037813.v1
title: Additional file 2 of Factors associated with the consumption of chlorine dioxide to prevent and treat COVID-19 in the Peruvian population: a cross-sectional study

description: Additional file 2.
DOI: 10.6084/m9.figshare.17037810
title: Additional file 4 of Epigenetic modelling of former, current and never smokers

description: Additional file 4. Supplementary Tables 3a and 3b - Information pertaining to the CpG sites supplied to the ever/never and current/former candidate CpG LASSO models, respectively.
DOI: 10.6084/m9.figshare.17037810.v1
title: Additional file 4 of Epigenetic modelling of former, current and never smokers

description: Additional file 4. Supplementary Tables 3a and 3b - Information pertaining to the CpG sites supplied to the ever/never and current/former candidate CpG LASSO models, respectively.
DOI: 10.6084/m9.figshare.17037831
title: Additional file 1 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 1 Unfiltered CNV datasets for the three technologies. Original datasets, annotated with duphold score and SVIM score (for long reads). The long-read datasets were included at a size cutoff of 500 bp, while the short-read ones at a cutoff of 100 bp. In the analyses only CNVs &gt; 500 bp are considered.
DOI: 10.6084/m9.figshare.17037831.v1
title: Additional file 1 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 1 Unfiltered CNV datasets for the three technologies. Original datasets, annotated with duphold score and SVIM score (for long reads). The long-read datasets were included at a size cutoff of 500 bp, while the short-read ones at a cutoff of 100 bp. In the analyses only CNVs &gt; 500 bp are considered.
DOI: 10.6084/m9.figshare.17037834
title: Additional file 2 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 2 CNVR and associated CNV loci. CNVR and associated CNV loci coordinates and scores for the four quality bins, based on long-read score (all, score &gt;1, score &gt;5) and long-read and short-read quality binning: score &gt;1 and HQ.
DOI: 10.6084/m9.figshare.17037834.v1
title: Additional file 2 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 2 CNVR and associated CNV loci. CNVR and associated CNV loci coordinates and scores for the four quality bins, based on long-read score (all, score &gt;1, score &gt;5) and long-read and short-read quality binning: score &gt;1 and HQ.
DOI: 10.6084/m9.figshare.17037840
title: Additional file 3 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 3 VaPoR output for CNVRs. VaPoR tool outputs for each technology CNVRs (using error-corrected PacBio dataset)
DOI: 10.6084/m9.figshare.17037840.v1
title: Additional file 3 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 3 VaPoR output for CNVRs. VaPoR tool outputs for each technology CNVRs (using error-corrected PacBio dataset)
DOI: 10.6084/m9.figshare.17037843
title: Additional file 4 of Comprehensive characterization of copy number variation (CNV) called from array, long- and short-read data

description: Additional file 4 Array score for subset of CNVRs. Array score for CNVRs that was possible to map to Affymetrix SNP 6.0 chip with span of more than 5 probes.