cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.13710566.v1
title: Additional file 9 of GEOlimma: differential expression analysis and feature selection using pre-existing microarray data

description: Additional file 9. 'GEOlimma probabilities.txt': gene-level DE prior probabilities for GEOlimma.
DOI: 10.6084/m9.figshare.13710563.v1
title: Additional file 8 of GEOlimma: differential expression analysis and feature selection using pre-existing microarray data

description: Additional file 8. 'ebayesGEO.R': source code implementing the described analyses.
DOI: 10.6084/m9.figshare.13710568
title: Additional file 1 of The aquaporin4-IgG status and how it affects the clinical features and treatment response in NMOSD patients in Egypt

description: Additional file 1.
DOI: 10.6084/m9.figshare.13710568.v1
title: Additional file 1 of The aquaporin4-IgG status and how it affects the clinical features and treatment response in NMOSD patients in Egypt

description: Additional file 1.
DOI: 10.6084/m9.figshare.13710592
title: Additional file 3 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 3: Supplementary Table 1. Global list of significant DEGs for 3BL, 4HL and 1HL NILs from Fusarium infection RNA-seq studies and also DEGS from the drought response RNA-seq study.
DOI: 10.6084/m9.figshare.13710598.v1
title: Additional file 4 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 4: Supplementary Table 2. Gene Ontology enrichment analysis outputs for DEGs from various NIL/treatment comparisons.
DOI: 10.6084/m9.figshare.13710601
title: Additional file 5 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 5: Supplementary Table 3. Details of the 149 drought tolerance associated genes curated from the literature for the targeted comparison of shared drought and crown rot transcriptional responses.
DOI: 10.6084/m9.figshare.13710601.v1
title: Additional file 5 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 5: Supplementary Table 3. Details of the 149 drought tolerance associated genes curated from the literature for the targeted comparison of shared drought and crown rot transcriptional responses.
DOI: 10.6084/m9.figshare.13710592.v1
title: Additional file 3 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 3: Supplementary Table 1. Global list of significant DEGs for 3BL, 4HL and 1HL NILs from Fusarium infection RNA-seq studies and also DEGS from the drought response RNA-seq study.
DOI: 10.6084/m9.figshare.13710598
title: Additional file 4 of Comparing transcriptional responses to Fusarium crown rot in wheat and barley identified an important relationship between disease resistance and drought tolerance

description: Additional file 4: Supplementary Table 2. Gene Ontology enrichment analysis outputs for DEGs from various NIL/treatment comparisons.
DOI: 10.6084/m9.figshare.13710658
title: Additional file 1 of Modifiable lifestyle factors and severe COVID-19 risk: a Mendelian randomisation study

description: Additional file 1: Supplementary Tables 1–4. Summary statistics for genetic instrumental variables of the four lifestyle factors.
DOI: 10.6084/m9.figshare.13710658.v1
title: Additional file 1 of Modifiable lifestyle factors and severe COVID-19 risk: a Mendelian randomisation study

description: Additional file 1: Supplementary Tables 1–4. Summary statistics for genetic instrumental variables of the four lifestyle factors.
DOI: 10.6084/m9.figshare.7391699
title: Additional file 1 of A role for the unfolded protein response stress sensor ERN1 in regulating the response to MEK inhibitors in KRAS mutant colon cancers

description: contains Tables S1-S9. Table S1. Results of the primary yeast screen with RAS alleles RAS1 and RAS2 (wild-type) and mutants RAS1(V19) and RAS2(V19). Table S2. Results of the validation yeast screen for RAS1. Table S3. Results of the validation yeast screen for RAS2. Table S4. Results of the validation yeast screen for RAS1(V19). Table S5. Results of the validation yeast screen for RAS2(V19). Table S6. Gene deletion yeast strains sensitive to ER stress agents (Y. Chen et al., Mol Cancer Res 2005 [23]) and strains sensitive to the expression of RAS2(V19). Table S7. Gene deletion yeast strains sensitive to ERI1 deletion (M. Costanzo et al., Science 2010 [25]) and strains sensitive to the expression of RAS2(V19). Table S8. Results of the genome-wide CRISPR/Cas9 screen with the MEK inhibitor AZD6244 (selumetinib). Table S9. Results of the genome-wide CRISPR/Cas9 screen with the MEK inhibitor trametinib. (XLSX 15504 kb)
DOI: 10.6084/m9.figshare.7391699.v1
title: Additional file 1: of A role for the unfolded protein response stress sensor ERN1 in regulating the response to MEK inhibitors in KRAS mutant colon cancers

description: contains Tables S1-S9. Table S1. Results of the primary yeast screen with RAS alleles RAS1 and RAS2 (wild-type) and mutants RAS1(V19) and RAS2(V19). Table S2. Results of the validation yeast screen for RAS1. Table S3. Results of the validation yeast screen for RAS2. Table S4. Results of the validation yeast screen for RAS1(V19). Table S5. Results of the validation yeast screen for RAS2(V19). Table S6. Gene deletion yeast strains sensitive to ER stress agents (Y. Chen et al., Mol Cancer Res 2005 [23]) and strains sensitive to the expression of RAS2(V19). Table S7. Gene deletion yeast strains sensitive to ERI1 deletion (M. Costanzo et al., Science 2010 [25]) and strains sensitive to the expression of RAS2(V19). Table S8. Results of the genome-wide CRISPR/Cas9 screen with the MEK inhibitor AZD6244 (selumetinib). Table S9. Results of the genome-wide CRISPR/Cas9 screen with the MEK inhibitor trametinib. (XLSX 15504 kb)
DOI: 10.6084/m9.figshare.13710743
title: Additional file 5 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 5: Genomic elements reported for male PMRs including their levels of methylation in each sample and their overlap with blastocyst and oocyte-sperm PMRs. The following tabs are included: (A) Promoters, (B) CGIs, (C) Exons, (D) Introns, (E) SINEs, (F) LINEs, (G) LTRs, and (H) Genes. Tab (D) includes information about intron position, tabs (E), (F), and (G) include the element subtype, and tab (H) includes the possible coincidence of a feature in female PMRs.
DOI: 10.6084/m9.figshare.13710746
title: Additional file 6 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 6: Genomic elements included in female PMRs, including their levels of methylation in each sample and their overlap with blastocyst and oocyte-sperm PMRs. The following tabs are included: (A) Promoters, (B) CGIs, (C) Exons, (D) Introns, (E) SINEs, (F) LINEs, (G) LTRs, and (H) Genes. Tab (D) includes information about the position of the intron, tabs (E), (F), and (G) include the subtype of the element, and tab (H) includes the possible coincidence of a feature in male PMRs.
DOI: 10.6084/m9.figshare.13710743.v1
title: Additional file 5 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 5: Genomic elements reported for male PMRs including their levels of methylation in each sample and their overlap with blastocyst and oocyte-sperm PMRs. The following tabs are included: (A) Promoters, (B) CGIs, (C) Exons, (D) Introns, (E) SINEs, (F) LINEs, (G) LTRs, and (H) Genes. Tab (D) includes information about intron position, tabs (E), (F), and (G) include the element subtype, and tab (H) includes the possible coincidence of a feature in female PMRs.
DOI: 10.6084/m9.figshare.13710746.v1
title: Additional file 6 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 6: Genomic elements included in female PMRs, including their levels of methylation in each sample and their overlap with blastocyst and oocyte-sperm PMRs. The following tabs are included: (A) Promoters, (B) CGIs, (C) Exons, (D) Introns, (E) SINEs, (F) LINEs, (G) LTRs, and (H) Genes. Tab (D) includes information about the position of the intron, tabs (E), (F), and (G) include the subtype of the element, and tab (H) includes the possible coincidence of a feature in male PMRs.
DOI: 10.6084/m9.figshare.13710752
title: Additional file 8 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 8: Summary of the genes identified as persistently methylated in male and female germ cells differentially expressed in mice and bovine embryos during sex determination or coding for different isoforms depending on the sex.
DOI: 10.6084/m9.figshare.13710752.v1
title: Additional file 8 of Genome-wide DNA methylation dynamics during epigenetic reprogramming in the porcine germline

description: Additional file 8: Summary of the genes identified as persistently methylated in male and female germ cells differentially expressed in mice and bovine embryos during sex determination or coding for different isoforms depending on the sex.
DOI: 10.6084/m9.figshare.13710755
title: Additional file 1 of Genome-wide identification and expression analysis of the GhIQD gene family in upland cotton (Gossypium hirsutum L.)

description: Additional file 1 : Table S1. Gene-specific primer pairs used in the qRT-PCR experiments. Table S2. Predicted calmodulin-binding sites of IQD proteins in G. hirsutum L. The calmodulin-binding sites were predicted with the online Calmodulin Target Database software, and the table shows strings of amino acid residues with a score of at least 7. Residues with a score of 9 are highlighted in bold. The numbers before the strings and after the strings indicate the locations of the first and the last amino acid residues of the strings in the GhIQD protein, respectively. Table S3. List of segmentally duplicated IQD gene pairs in the G. hirsutum L. genome along with their e-values identified from MCScanX. Table S4. List of tandem and segmentally duplicated IQD genes in the G. hirsutum L. genome identified with MCScanX software. Table S5. Divergence between paralogous IQD gene pairs in G. hirsutum L.
DOI: 10.6084/m9.figshare.13710755.v1
title: Additional file 1 of Genome-wide identification and expression analysis of the GhIQD gene family in upland cotton (Gossypium hirsutum L.)

description: Additional file 1 : Table S1. Gene-specific primer pairs used in the qRT-PCR experiments. Table S2. Predicted calmodulin-binding sites of IQD proteins in G. hirsutum L. The calmodulin-binding sites were predicted with the online Calmodulin Target Database software, and the table shows strings of amino acid residues with a score of at least 7. Residues with a score of 9 are highlighted in bold. The numbers before the strings and after the strings indicate the locations of the first and the last amino acid residues of the strings in the GhIQD protein, respectively. Table S3. List of segmentally duplicated IQD gene pairs in the G. hirsutum L. genome along with their e-values identified from MCScanX. Table S4. List of tandem and segmentally duplicated IQD genes in the G. hirsutum L. genome identified with MCScanX software. Table S5. Divergence between paralogous IQD gene pairs in G. hirsutum L.
DOI: 10.6084/m9.figshare.13710761
title: Additional file 11 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 11: Table S4. Average call rate per sample for each subspecies.
DOI: 10.6084/m9.figshare.13710758
title: Additional file 10 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 10: Table S3. Distribution of selected informative SNPs across the honey bee genome.
DOI: 10.6084/m9.figshare.13710758.v1
title: Additional file 10 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 10: Table S3. Distribution of selected informative SNPs across the honey bee genome.
DOI: 10.6084/m9.figshare.13710764
title: Additional file 12 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 12: Table S5. Accuracy statistics for the different tested models estimated using 10-fold cross validation.
DOI: 10.6084/m9.figshare.13710761.v1
title: Additional file 11 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 11: Table S4. Average call rate per sample for each subspecies.
DOI: 10.6084/m9.figshare.13710767
title: Additional file 1 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 1. Honey bee subspecies informative markers. SNP information and genomic position of the 4165 SNPs selected in this study to differentiate European honey bee subspecies.
DOI: 10.6084/m9.figshare.13710764.v1
title: Additional file 12 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 12: Table S5. Accuracy statistics for the different tested models estimated using 10-fold cross validation.
DOI: 10.6084/m9.figshare.13710767.v1
title: Additional file 1 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 1. Honey bee subspecies informative markers. SNP information and genomic position of the 4165 SNPs selected in this study to differentiate European honey bee subspecies.
DOI: 10.6084/m9.figshare.13710803.v1
title: Additional file 8 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 8: Table S1. Additional sampling information, references and sample origin of pool sequencing samples.
DOI: 10.6084/m9.figshare.13710803
title: Additional file 8 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 8: Table S1. Additional sampling information, references and sample origin of pool sequencing samples.
DOI: 10.6084/m9.figshare.13710806
title: Additional file 9 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 9: Table S2. Pool sequencing and variants statistics.
DOI: 10.6084/m9.figshare.13710806.v1
title: Additional file 9 of Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs

description: Additional file 9: Table S2. Pool sequencing and variants statistics.
DOI: 10.6084/m9.figshare.13710817
title: Additional file 2 of A scoping review of causal methods enabling predictions under hypothetical interventions

description: Additional file 2.
DOI: 10.6084/m9.figshare.13710817.v1
title: Additional file 2 of A scoping review of causal methods enabling predictions under hypothetical interventions

description: Additional file 2.
DOI: 10.6084/m9.figshare.13710820
title: Additional file 1 of A qualitative exploration of the patient experience of erosive and non-erosive hand osteoarthritis

description: Additional file 1 : Supplementary Materials. Supplementary Table S1. Description of RTDC qualitative tasks. Supplementary Table S2. Summary of impact concepts and sub-concepts reported in the CE interviews. Supplementary Table S3. Current treatment satisfaction and treatment goals, with example participant quotes. Supplementary Fig. S1. Symptom and impact level saturation analysis (total sample). Supplementary Fig. S2. An overview of the reported goals for treatment. Supplementary Fig. S3. Cognitive interview results showing (A) understanding and (B) relevance for MHQ items.
DOI: 10.6084/m9.figshare.13710820.v1
title: Additional file 1 of A qualitative exploration of the patient experience of erosive and non-erosive hand osteoarthritis

description: Additional file 1 : Supplementary Materials. Supplementary Table S1. Description of RTDC qualitative tasks. Supplementary Table S2. Summary of impact concepts and sub-concepts reported in the CE interviews. Supplementary Table S3. Current treatment satisfaction and treatment goals, with example participant quotes. Supplementary Fig. S1. Symptom and impact level saturation analysis (total sample). Supplementary Fig. S2. An overview of the reported goals for treatment. Supplementary Fig. S3. Cognitive interview results showing (A) understanding and (B) relevance for MHQ items.
DOI: 10.6084/m9.figshare.13710848
title: Additional file 2 of A simple and affordable method for estimating the fluid volume a mosquito sucks using food dyes

description: Additional file 2: Table S1. List of solutions for membrane feeding used in this study.
DOI: 10.6084/m9.figshare.13710851
title: Additional file 3 of A simple and affordable method for estimating the fluid volume a mosquito sucks using food dyes

description: Additional file 3: Table S2. Raw data of all experiments in this study.
DOI: 10.6084/m9.figshare.13710848.v1
title: Additional file 2 of A simple and affordable method for estimating the fluid volume a mosquito sucks using food dyes

description: Additional file 2: Table S1. List of solutions for membrane feeding used in this study.
DOI: 10.6084/m9.figshare.13710851.v1
title: Additional file 3 of A simple and affordable method for estimating the fluid volume a mosquito sucks using food dyes

description: Additional file 3: Table S2. Raw data of all experiments in this study.
DOI: 10.6084/m9.figshare.13710856
title: Additional file 4 of The influence of QTL allelic diversity on QTL detection in multi-parent populations: a simulation study in sugar beet

description: Additional file 4 R script simulation reproduction. R script allowing to reproduce the simulation used in the article (R 10 kb).
DOI: 10.6084/m9.figshare.13710856.v1
title: Additional file 4 of The influence of QTL allelic diversity on QTL detection in multi-parent populations: a simulation study in sugar beet

description: Additional file 4 R script simulation reproduction. R script allowing to reproduce the simulation used in the article (R 10 kb).
DOI: 10.6084/m9.figshare.13710874
title: Additional file 1 of A review of the quantitative effectiveness evidence synthesis methods used in public health intervention guidelines

description: Additional file 1 Key for the Nice public health guideline codes. Available in NICEGuidelinesKey.xlsx.
DOI: 10.6084/m9.figshare.13710874.v1
title: Additional file 1 of A review of the quantitative effectiveness evidence synthesis methods used in public health intervention guidelines

description: Additional file 1 Key for the Nice public health guideline codes. Available in NICEGuidelinesKey.xlsx.
DOI: 10.6084/m9.figshare.13710913
title: Additional file 2 of Guidelines and best practice recommendations on reproductive health services provision amid COVID-19 pandemic: scoping review

description: Additional file 2. Data extraction tool safe abortion, contraception, GBV, and ART service.
DOI: 10.6084/m9.figshare.13710913.v1
title: Additional file 2 of Guidelines and best practice recommendations on reproductive health services provision amid COVID-19 pandemic: scoping review

description: Additional file 2. Data extraction tool safe abortion, contraception, GBV, and ART service.
DOI: 10.6084/m9.figshare.13710917
title: Additional file 2 of Lyso-phosphatidylethanolamine primes the plant immune system and promotes basal resistance against hemibiotrophic pathogens

description: Additional file 2: Table S1. Oligo-nucleotides used to determine the transcript levels.
DOI: 10.6084/m9.figshare.13710917.v1
title: Additional file 2 of Lyso-phosphatidylethanolamine primes the plant immune system and promotes basal resistance against hemibiotrophic pathogens

description: Additional file 2: Table S1. Oligo-nucleotides used to determine the transcript levels.
DOI: 10.6084/m9.figshare.13711082
title: Videos for 'Complexities of underground seismic sources'

description: This paper presents a numerical investigation on the influence of the mining environment on seismic sources, with a focus on pillar failure mechanisms in tabular mining. We investigate the influence of the mining stope (underground excavation or void) on seismic inversions for the scalar moment, corner frequency, source radius, stress drop and moment tensor using synthetic events created within elastodynamic numerical modelling software, WAVE3D. The main objective is to determine whether the source parameters calculated from the recorded waveforms are due to a combination of the stope source and the pillar sources, rather than being related only to crushing of the pillar or shearing in the pillar footwall. The main finding is that the presence of stopes, and types of pillars, have a significant impact on the seismic moment and other source parameters. This is important since the moment is viewed as a robust parameter on which seismic magnitude is often based; however, this study indicates that moments calculated for pillar failure in a tabular stoping environments are less representative of the shearing or crushing source than originally thought. This article is part of the theme issue ‘Fracture dynamics of solid materials: from particles to the globe’.
DOI: 10.6084/m9.figshare.13711082.v1
title: Videos for 'Complexities of underground seismic sources'

description: This paper presents a numerical investigation on the influence of the mining environment on seismic sources, with a focus on pillar failure mechanisms in tabular mining. We investigate the influence of the mining stope (underground excavation or void) on seismic inversions for the scalar moment, corner frequency, source radius, stress drop and moment tensor using synthetic events created within elastodynamic numerical modelling software, WAVE3D. The main objective is to determine whether the source parameters calculated from the recorded waveforms are due to a combination of the stope source and the pillar sources, rather than being related only to crushing of the pillar or shearing in the pillar footwall. The main finding is that the presence of stopes, and types of pillars, have a significant impact on the seismic moment and other source parameters. This is important since the moment is viewed as a robust parameter on which seismic magnitude is often based; however, this study indicates that moments calculated for pillar failure in a tabular stoping environments are less representative of the shearing or crushing source than originally thought. This article is part of the theme issue ‘Fracture dynamics of solid materials: from particles to the globe’.
DOI: 10.5281/zenodo.4295902
title: deepCR-ACS/WFC

description: The training and test datasets for deepCR ACS/WFC model
DOI: 10.5281/zenodo.4295901
title: deepCR-ACS/WFC

description: The training and test datasets for deepCR ACS/WFC model