cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.c.3730972_d18.v1
title: Additional file 5: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_VCaP_BRD4. (XLS 945 kb)
DOI: 10.6084/m9.figshare.c.3730972_d18
title: Additional file 5: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_VCaP_BRD4. (XLS 945 kb)
DOI: 10.6084/m9.figshare.c.3730972_d19.v1
title: Additional file 6: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_PC_BRD4_MED12_H3K27Ac. (XLS 28 kb)
DOI: 10.6084/m9.figshare.c.3730972_d19
title: Additional file 6: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_PC_BRD4_MED12_H3K27Ac. (XLS 28 kb)
DOI: 10.6084/m9.figshare.c.3730972_d20.v1
title: Additional file 7: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_MCF7_H3K27Ac. (XLS 539 kb)
DOI: 10.6084/m9.figshare.c.3730972_d21.v1
title: Additional file 8: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_MCF7_BRD4_ER. (XLS 72 kb)
DOI: 10.6084/m9.figshare.c.3730972_d20
title: Additional file 7: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_MCF7_H3K27Ac. (XLS 539 kb)
DOI: 10.6084/m9.figshare.c.3730972_d21
title: Additional file 8: of Bromodomain protein 4 discriminates tissue-specific super-enhancers containing disease-specific susceptibility loci in prostate and breast cancer

description: SE_MCF7_BRD4_ER. (XLS 72 kb)
DOI: 10.15468/dl.mxm8qq
title: Occurrence Download

description: A dataset containing 102 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Ambrosia artemisiifolia L."
 ]
}

 The dataset includes 102 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038659-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bmx4h6
title: Occurrence Download

description: A dataset listing the 483 species recorded in GBIF matching the query:
{
 "and" : [
 "GadmGid is IDN.12.14_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Animalia"
 ]
}

 The dataset's 483 records were derived from 57 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0038652-241126133413365/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.c.3731086_d9.v1
title: Additional file 18: of Revealing cancer subtypes with higher-order correlations applied to imaging and omics data

description: Table S3. P-values from Ď  2 tests between image clusters of all types and clinical covariates. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.c.3731086_d9
title: Additional file 18: of Revealing cancer subtypes with higher-order correlations applied to imaging and omics data

description: Table S3. P-values from Ď  2 tests between image clusters of all types and clinical covariates. (XLSX 51 kb)
DOI: 10.6084/m9.figshare.c.3733102_d7.v1
title: MOESM7 of Global gene expression in Escherichia coli, isolated from the diseased ocular surface of the human eye with a potential to form biofilm

description: Additional file 7: Table S4. Expression of up regulated extrachromosomal genes in ocular Escherichia coli L-1216/2013 compared to Escherichia coli K-12 substr. MG1655.
DOI: 10.6084/m9.figshare.c.3733102_d7
title: MOESM7 of Global gene expression in Escherichia coli, isolated from the diseased ocular surface of the human eye with a potential to form biofilm

description: Additional file 7: Table S4. Expression of up regulated extrachromosomal genes in ocular Escherichia coli L-1216/2013 compared to Escherichia coli K-12 substr. MG1655.
DOI: 10.6084/m9.figshare.c.3733138_d5.v1
title: Additional file 14: of Cross-talk of the biotrophic pathogen Claviceps purpurea and its host Secale cereale

description: NCBI Accession numbers of fungal genes (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3733138_d5
title: Additional file 14: of Cross-talk of the biotrophic pathogen Claviceps purpurea and its host Secale cereale

description: NCBI Accession numbers of fungal genes (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3733138_d6.v1
title: Additional file 1: of Cross-talk of the biotrophic pathogen Claviceps purpurea and its host Secale cereale

description: Technical Data of RNA-Seq (XLSX 11 kb)
DOI: 10.6084/m9.figshare.c.3733999_d4.v1
title: Additional file 4 of Detect tissue heterogeneity in gene expression data with BioQC

description: Supplementary Document 3. This document can also be assessed on the BioQC website under [29] respectively. (ZIP 325 kb)
DOI: 10.6084/m9.figshare.c.3733999_d4
title: Additional file 4 of Detect tissue heterogeneity in gene expression data with BioQC

description: Supplementary Document 3. This document can also be assessed on the BioQC website under [29] respectively. (ZIP 325 kb)
DOI: 10.6084/m9.figshare.c.3734041_d1.v1
title: Additional file 1: of Rationale and design of the PLACID study: a randomised trial comparing the efficacy and safety of inhaled loxapine versus IM aripiprazole in acutely agitated patients with schizophrenia or bipolar disorder

description: Ethics committees that approved the study: The contains the names and other relevant information of all the ethics committee that have approved the study. (XLS 59 kb)
DOI: 10.6084/m9.figshare.c.3734041_d1
title: Additional file 1: of Rationale and design of the PLACID study: a randomised trial comparing the efficacy and safety of inhaled loxapine versus IM aripiprazole in acutely agitated patients with schizophrenia or bipolar disorder

description: Ethics committees that approved the study: The contains the names and other relevant information of all the ethics committee that have approved the study. (XLS 59 kb)
DOI: 10.6084/m9.figshare.c.3734053_d1.v1
title: MOESM1 of Genetic polymorphisms in Plasmodium falciparum chloroquine resistance genes, pfcrt and pfmdr1, in North Sulawesi, Indonesia

description: Additional file 1: Table S1. Table of the observed genotypes in this study.
DOI: 10.6084/m9.figshare.c.3734128_d1
title: Additional file 1: Table S1. of The first isolation and molecular characterization of Toxoplasma gondii from horses in Serbia

description: Genotyping data of 63 Toxoplasma gondii strains with type III or type III-like genotypes collected in Europe, the Americas, Africa, Asia and Oceania. (XLSX 19 kb)
DOI: 10.6084/m9.figshare.c.3734107_d3.v1
title: Additional file 3: Table S2. of The germline variants in DNA repair genes in pediatric medulloblastoma: a challenge for current therapeutic strategies

description: The molecular and clinical characteristics of 102 patients with medulloblastoma. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3734107_d3
title: Additional file 3: Table S2. of The germline variants in DNA repair genes in pediatric medulloblastoma: a challenge for current therapeutic strategies

description: The molecular and clinical characteristics of 102 patients with medulloblastoma. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.c.3734194_d2.v1
title: Additional file 11 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S10. Enrichment of hematopoiesis-specific protein-sets. Listed are the results of hematopoiesis-specific protein-set enrichment analyses for each developmental transition. Query protein-sets were the set of all proteins in the differential network (termed “all”) and the reduced set derived by the internal optimization procedure (termed “reduced”) in the respective transition. We tested the enrichment of the query sets regarding hematopoiesis proteins and the regulatory targets of hematopoietic transcription factors (first sheet, abbreviated as “Hemato. proteins + reg. targets”), hematopoiesis proteins (second sheet, abbreviated as “Hemato. proteins”), and hematopoietic transcription factors (third sheet, abbreviated as “Hemato. TFs”). Furthermore, we determined which transcription factors (not restricted to hematopoietic transcription factors) had more regulatory targets than expected by chance in the queried set (fourth sheet, abbreviated as “Enriched hemato. TF”). The exact methodology is described in the “Methods” section. Here, significance was reported if adj.p&lt;0.05. In all tables, test cases that were not significant ((adj.)p≥0.05) were highlighted in red. Very small p-values were reported as 0.0 due to numerical reasons (computed in Python using SciPy version 0.17 [114]). (XLSX 15.5 kb)
DOI: 10.6084/m9.figshare.c.3734194_d2
title: Additional file 11 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S10. Enrichment of hematopoiesis-specific protein-sets. Listed are the results of hematopoiesis-specific protein-set enrichment analyses for each developmental transition. Query protein-sets were the set of all proteins in the differential network (termed “all”) and the reduced set derived by the internal optimization procedure (termed “reduced”) in the respective transition. We tested the enrichment of the query sets regarding hematopoiesis proteins and the regulatory targets of hematopoietic transcription factors (first sheet, abbreviated as “Hemato. proteins + reg. targets”), hematopoiesis proteins (second sheet, abbreviated as “Hemato. proteins”), and hematopoietic transcription factors (third sheet, abbreviated as “Hemato. TFs”). Furthermore, we determined which transcription factors (not restricted to hematopoietic transcription factors) had more regulatory targets than expected by chance in the queried set (fourth sheet, abbreviated as “Enriched hemato. TF”). The exact methodology is described in the “Methods” section. Here, significance was reported if adj.p&lt;0.05. In all tables, test cases that were not significant ((adj.)p≥0.05) were highlighted in red. Very small p-values were reported as 0.0 due to numerical reasons (computed in Python using SciPy version 0.17 [114]). (XLSX 15.5 kb)
DOI: 10.6084/m9.figshare.c.3734203_d2.v1
title: Additional file 2 of The importance of censoring in competing risks analysis of the subdistribution hazard

description: Multiple myeloma data. Survival data from the multiple myeloma example used in this paper, including the donor KIR haplotype, event times and types (0 = censored, 1 = relapse, 2 = transplant-related death [competing event]) for 35 patients. (CSV 581 bytes)
DOI: 10.6084/m9.figshare.c.3734203_d2
title: Additional file 2 of The importance of censoring in competing risks analysis of the subdistribution hazard

description: Multiple myeloma data. Survival data from the multiple myeloma example used in this paper, including the donor KIR haplotype, event times and types (0 = censored, 1 = relapse, 2 = transplant-related death [competing event]) for 35 patients. (CSV 581 bytes)
DOI: 10.6084/m9.figshare.c.3734194_d3.v1
title: Additional file 12 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S11. Pathway enrichment analysis of rewiring events grouped into shared and exclusive events in each developmental branching point. Listed are pathways for which annotated interactions could be associated with rewiring events that were shared between transitions or exclusive to a transition at a developmental branching point. The exact methodology is described in the â  Methodsâ   section. Significantly enriched pathway terms (adj.p&lt;0.05) were marked in green. Very small p-values were reported as 0.0 due to numerical reasons (computed in Python using SciPy version 0.17 [114]). (XLSX 300 kb)
DOI: 10.6084/m9.figshare.c.3734194_d3
title: Additional file 12 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S11. Pathway enrichment analysis of rewiring events grouped into shared and exclusive events in each developmental branching point. Listed are pathways for which annotated interactions could be associated with rewiring events that were shared between transitions or exclusive to a transition at a developmental branching point. The exact methodology is described in the â  Methodsâ   section. Significantly enriched pathway terms (adj.p&lt;0.05) were marked in green. Very small p-values were reported as 0.0 due to numerical reasons (computed in Python using SciPy version 0.17 [114]). (XLSX 300 kb)
DOI: 10.6084/m9.figshare.c.3734212_d1.v1
title: Additional file 1: of Efficacy of Intravitreal injection of 2-Methoxyestradiol in regression of neovascularization of a retinopathy of prematurity rat model

description: Data.xlsx includes raw data of ROP animal models that were injected inravitreally using two different concentrations of 2-Methoxyestradiol (2-ME) nanoparticles in order to produce regression of neovascularization (NVs) and the data of the control groups. The file includes one data sheet. The sheet includes data of each animal in terms of endothelial cell count on vitreal side, percentage of vascular endothelial growth factor (VEGF) expression and percentage of glial fibrillary acidic protein (GFAP) expression before and after treatment. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3734212_d1
title: Additional file 1: of Efficacy of Intravitreal injection of 2-Methoxyestradiol in regression of neovascularization of a retinopathy of prematurity rat model

description: Data.xlsx includes raw data of ROP animal models that were injected inravitreally using two different concentrations of 2-Methoxyestradiol (2-ME) nanoparticles in order to produce regression of neovascularization (NVs) and the data of the control groups. The file includes one data sheet. The sheet includes data of each animal in terms of endothelial cell count on vitreal side, percentage of vascular endothelial growth factor (VEGF) expression and percentage of glial fibrillary acidic protein (GFAP) expression before and after treatment. (XLSX 12 kb)
DOI: 10.6084/m9.figshare.c.3734194_d5.v1
title: Additional file 2 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S1. Interactome sizes per cell type for all TPM thresholds examined. Shown are the average number of proteins and the average number of interactions as well as their standard deviations for the constructed protein interaction networks for different discretization thresholds. (XLSX 89.5 kb)
DOI: 10.6084/m9.figshare.c.3734194_d5
title: Additional file 2 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S1. Interactome sizes per cell type for all TPM thresholds examined. Shown are the average number of proteins and the average number of interactions as well as their standard deviations for the constructed protein interaction networks for different discretization thresholds. (XLSX 89.5 kb)
DOI: 10.6084/m9.figshare.c.3734194_d6.v1
title: Additional file 3 of Rewiring of the inferred protein interactome during blood development studied with the tool PPICompare

description: Table S2. Occurrence of each considered type of transcriptomic alteration per transition. Shown are the number of rewiring events for all observed types of transcriptomic alterations when only exclusive causes were considered. (XLSX 9.79 kb)
DOI: 10.6084/m9.figshare.c.3734269_d3.v1
title: Additional file 3: of Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis

description: Complete list of domain-domain interactions from 3DID. Column headers: 1) Pfam ID of domain 1; 2) Pfam ID of domain 2; 3) PDB chain ID of domain 1; 4) PDB chain ID of domain 2; 5) Uniprot accession of PDB chain 1; 6) Uniprot accession of PDB chain 2. (TXT 6075Â kb)
DOI: 10.6084/m9.figshare.c.3734269_d3
title: Additional file 3: of Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis

description: Complete list of domain-domain interactions from 3DID. Column headers: 1) Pfam ID of domain 1; 2) Pfam ID of domain 2; 3) PDB chain ID of domain 1; 4) PDB chain ID of domain 2; 5) Uniprot accession of PDB chain 1; 6) Uniprot accession of PDB chain 2. (TXT 6075Â kb)
DOI: 10.6084/m9.figshare.c.3734269_d4
title: Additional file 4: of Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis

description: Prioritized list of human-MTB protein pairs obtained by comparison with PDB DDI templates, sorted according to their joint similarity scores (&gt;0.7 only). Colum headers: 1: Uniprot accession of MTB protein. 2: Uniprot accession of human protein. 3: Alternate symbols for MTB protein. 4: Alternate symbols for human protein. 5: Template sequence (PDB chain ID) mapping to MTB protein. 6: Template sequence (PDB chain ID) mapping to human protein. 7: Pfam ID of template mapping to MTB protein. 8. Pfam ID of template mapping to human protein. 9: Pfam domain name of template mapping to MTB protein. 10. Pfam domain name of template mapping to human protein. 11. Uniprot accession of template mapping to MTB protein. 12: Uniprot accession of template mapping to human protein. 13: Joint similarity score from comparison with the template DDI. 14: Total number of DDIs between the two interacting proteins to which the template DDI belongs. (TXT 7871Â kb)
DOI: 10.6084/m9.figshare.c.3734299_d1.v1
title: Additional file 1: of Comparative genomic identification and validation of β-defensin genes in the Ovis aries genome

description: A. Gene and Protein sequences for ovine β-defensin genes. B. Oligonucleotide primers for ovine β-defensin genes. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3734299_d1
title: Additional file 1: of Comparative genomic identification and validation of β-defensin genes in the Ovis aries genome

description: A. Gene and Protein sequences for ovine β-defensin genes. B. Oligonucleotide primers for ovine β-defensin genes. (XLSX 21 kb)
DOI: 10.6084/m9.figshare.c.3734269_d5.v1
title: Additional file 5: of Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis

description: Prioritized list of human-MTB protein pairs obtained by comparison with the interlog-derived template set, and sorted according to their joint similarity scores (&gt;0.7 only). Colum headers: 1: Uniprot accession of MTB protein. 2: Uniprot accession of human protein. 3: Alternate symbols for MTB protein. 4: Alternate symbols for human protein. 5: Template sequence (SwissProt ID|Pfam ID|sequence) mapping to MTB protein. 6: Template sequence (SwissProt ID|Pfam ID|sequence) mapping to human protein. 7: Pfam domain name of template mapping to MTB protein. 8. Pfam domain name of template mapping to human protein. 9: Joint similarity score from comparison with the template DDI. 10: Total number of DDIs between the two interacting proteins to which the template DDI belongs. (TXT 204Â kb)
DOI: 10.6084/m9.figshare.c.3734269_d5
title: Additional file 5: of Using structural knowledge in the protein data bank to inform the search for potential host-microbe protein interactions in sequence space: application to Mycobacterium tuberculosis

description: Prioritized list of human-MTB protein pairs obtained by comparison with the interlog-derived template set, and sorted according to their joint similarity scores (&gt;0.7 only). Colum headers: 1: Uniprot accession of MTB protein. 2: Uniprot accession of human protein. 3: Alternate symbols for MTB protein. 4: Alternate symbols for human protein. 5: Template sequence (SwissProt ID|Pfam ID|sequence) mapping to MTB protein. 6: Template sequence (SwissProt ID|Pfam ID|sequence) mapping to human protein. 7: Pfam domain name of template mapping to MTB protein. 8. Pfam domain name of template mapping to human protein. 9: Joint similarity score from comparison with the template DDI. 10: Total number of DDIs between the two interacting proteins to which the template DDI belongs. (TXT 204Â kb)
DOI: 10.6084/m9.figshare.c.3734308_d1.v1
title: Additional file 1: of Sleep apnea prevalence in chronic kidney disease - association with total body water and symptoms

description: Study sample data. (XLSX 51Â kb)
DOI: 10.6084/m9.figshare.c.3734296_d2.v1
title: MOESM2 of A novel model fitted to multiple life stages of malaria for assessing efficacy of transmission-blocking interventions

description: Additional file 2. A collection of files containing the original data in list format (Additional file 2.1), a â  how toâ   R script (Additional file 2.2) to apply the Bayesian model to DFA multi-generational data in RStan (Additional file 2.1 can be used as an example). The probabilistic Bayesian model code (Additional file 2.3) and the data (Additional file 2.1) used in Blagborough et al. [12] are supplied together with functions (Additional file 2.4) to help assess the model output (Additional file 2.5).
DOI: 10.6084/m9.figshare.c.3734308_d1
title: Additional file 1: of Sleep apnea prevalence in chronic kidney disease - association with total body water and symptoms

description: Study sample data. (XLSX 51Â kb)
DOI: 10.6084/m9.figshare.c.3734296_d2
title: MOESM2 of A novel model fitted to multiple life stages of malaria for assessing efficacy of transmission-blocking interventions

description: Additional file 2. A collection of files containing the original data in list format (Additional file 2.1), a â  how toâ   R script (Additional file 2.2) to apply the Bayesian model to DFA multi-generational data in RStan (Additional file 2.1 can be used as an example). The probabilistic Bayesian model code (Additional file 2.3) and the data (Additional file 2.1) used in Blagborough et al. [12] are supplied together with functions (Additional file 2.4) to help assess the model output (Additional file 2.5).
DOI: 10.6084/m9.figshare.c.3735406_d1
title: Additional file 10: of Interaction between prenatal pesticide exposure and a common polymorphism in the PON1 gene on DNA methylation in genes associated with cardio-metabolic disease risk—an exploratory study

description: Enrichment of TFBS for DMPs significant in the interaction model. P value from the Fisher’s exact test were adjusted using the Bonferroni correction. (XLSX 10 kb)
DOI: 10.6084/m9.figshare.c.3735412_d1.v1
title: Additional file 1: of 
                     Loa loa vectors Chrysops spp.: perspectives on research, distribution, bionomics, and implications for elimination of lymphatic filariasis and onchocerciasis

description: Chrysops literature database. (XLSX 45 kb)
DOI: 10.6084/m9.figshare.c.3735406_d2.v1
title: Additional file 11: of Interaction between prenatal pesticide exposure and a common polymorphism in the PON1 gene on DNA methylation in genes associated with cardio-metabolic disease risk—an exploratory study

description: Mediation analysis. Outcome statistics and gene disease associations of (partial) mediators between pesticide exposure and body fat measures in PON1 R-allele carriers. (XLSX 47 kb)