cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.26994835.v1
title: Additional file 11 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 11: Table S10. Fraction of splice-affecting variants within filtered variants aggregated by disease entities and genes.
DOI: 10.6084/m9.figshare.26994838
title: Additional file 12 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 12: Table S11. Prediction result of the hematologic malignancy driver gene prediction model using the complete dataset and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice, and external gene functional features.
DOI: 10.6084/m9.figshare.26994838.v1
title: Additional file 12 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 12: Table S11. Prediction result of the hematologic malignancy driver gene prediction model using the complete dataset and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice, and external gene functional features.
DOI: 10.6084/m9.figshare.26994841
title: Additional file 13 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 13: Table S12. Prediction result of the hematologic malignancy driver gene prediction model using each of the 14 study groups and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice, and external gene functional features.
DOI: 10.6084/m9.figshare.26994841.v1
title: Additional file 13 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 13: Table S12. Prediction result of the hematologic malignancy driver gene prediction model using each of the 14 study groups and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice, and external gene functional features.
DOI: 10.6084/m9.figshare.26994844.v1
title: Additional file 14 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 14: Table S13. Prediction result of the hematologic malignancy driver gene prediction model using the complete dataset and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice features.
DOI: 10.6084/m9.figshare.26994847
title: Additional file 15 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 15: Table S14. Approved drugs of top-100 predicted genes using the complete dataset seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice.
DOI: 10.6084/m9.figshare.26994847.v1
title: Additional file 15 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 15: Table S14. Approved drugs of top-100 predicted genes using the complete dataset seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice.
DOI: 10.6084/m9.figshare.26994850
title: Additional file 16 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 16: Table S15. Prediction result of the hematologic malignancy driver gene prediction model using each of the S14 study groups and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice features.
DOI: 10.6084/m9.figshare.26994850.v1
title: Additional file 16 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 16: Table S15. Prediction result of the hematologic malignancy driver gene prediction model using each of the S14 study groups and seven IntOGen tools, OUTRIDER, NB-act, FRASER, AbSplice features.
DOI: 10.6084/m9.figshare.26994856
title: Additional file 18 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 18: Table S17. Curation of associations between CGC cancer driver genes disease entities using Activation outliers.
DOI: 10.6084/m9.figshare.26994856.v1
title: Additional file 18 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 18: Table S17. Curation of associations between CGC cancer driver genes disease entities using Activation outliers.
DOI: 10.6084/m9.figshare.26994859
title: Additional file 19 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 19: Supplementary File 1. Mean copy ratio tracks aggregated by disease entities. Due to its large size, available at: Cao, Xueqi et al., Zenodo. https://zenodo.org/doi/10.5281/zenodo.8341456 (2024).
DOI: 10.6084/m9.figshare.26994859.v1
title: Additional file 19 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 19: Supplementary File 1. Mean copy ratio tracks aggregated by disease entities. Due to its large size, available at: Cao, Xueqi et al., Zenodo. https://zenodo.org/doi/10.5281/zenodo.8341456 (2024).
DOI: 10.6084/m9.figshare.26994862
title: Additional file 20 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 20: Supplementary file 2. Mean FPKM matrix aggregated by disease entities and genes.
DOI: 10.6084/m9.figshare.26994862.v1
title: Additional file 20 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 20: Supplementary file 2. Mean FPKM matrix aggregated by disease entities and genes.
DOI: 10.6084/m9.figshare.26994865
title: Additional file 21 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 21: Supplementary file 3. Fusion events aggregated by disease entities and genes.
DOI: 10.6084/m9.figshare.26994865.v1
title: Additional file 21 of Analysis of 3760 hematologic malignancies reveals rare transcriptomic aberrations of driver genes

description: Additional file 21: Supplementary file 3. Fusion events aggregated by disease entities and genes.
DOI: 10.5281/zenodo.13748429
title: Nasopharyngeal Carriage, Antimicrobial Resistance, and Serotype Distribution of Streptococcus pneumoniae in Children Under Five in Lebanon: Baseline Data Prior to PCV13 Introduction

description: Dataset and R Code Script
DOI: 10.5281/zenodo.13748430
title: Nasopharyngeal Carriage, Antimicrobial Resistance, and Serotype Distribution of Streptococcus pneumoniae in Children Under Five in Lebanon: Baseline Data Prior to PCV13 Introduction

description: Dataset and R Code Script
DOI: 10.6084/m9.figshare.26994901
title: Additional file 1 of mRNA markers for survival prediction in glioblastoma multiforme patients: a systematic review with bioinformatic analyses

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26994901.v1
title: Additional file 1 of mRNA markers for survival prediction in glioblastoma multiforme patients: a systematic review with bioinformatic analyses

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26994919
title: Additional file 2 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 2: Table S1. Studies reporting selection signatures for production or adaptation traits across the sheep genome retrieved from Pubmed initially considered for this integrative review.
DOI: 10.6084/m9.figshare.26994919.v1
title: Additional file 2 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 2: Table S1. Studies reporting selection signatures for production or adaptation traits across the sheep genome retrieved from Pubmed initially considered for this integrative review.
DOI: 10.6084/m9.figshare.26994922
title: Additional file 3 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 3: Table S2. Genomic coordinates of all selective sweeps reported in the 37 studies retained for the identification of confirmed selective sweeps.
DOI: 10.6084/m9.figshare.26994922.v1
title: Additional file 3 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 3: Table S2. Genomic coordinates of all selective sweeps reported in the 37 studies retained for the identification of confirmed selective sweeps.
DOI: 10.6084/m9.figshare.26994925
title: Additional file 4 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 4: Table S3. Confirmed selective sweeps (CSS) identified through the integration of the results obtained in the 37 individual studies evaluated in the present study.
DOI: 10.6084/m9.figshare.26994925.v1
title: Additional file 4 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 4: Table S3. Confirmed selective sweeps (CSS) identified through the integration of the results obtained in the 37 individual studies evaluated in the present study.
DOI: 10.6084/m9.figshare.26994931
title: Additional file 6 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 6: Table S4. Genes annotated within the coordinates of the confirmed selective sweeps (CSS).
DOI: 10.6084/m9.figshare.26994934
title: Additional file 7 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 7: Table S5. Results of quantitative trait loci (QTL) enrichment analysis performed for the traits annotated within the confirmed selective sweeps (CSS) coordinates for production and adaptation traits in the SheepQTLdb.
DOI: 10.6084/m9.figshare.26994934.v1
title: Additional file 7 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 7: Table S5. Results of quantitative trait loci (QTL) enrichment analysis performed for the traits annotated within the confirmed selective sweeps (CSS) coordinates for production and adaptation traits in the SheepQTLdb.
DOI: 10.6084/m9.figshare.26994937.v1
title: Additional file 8 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 8: Table S6. Results of Gene Ontology (GO) terms enrichment analysis for the genes harboring production and adaptation confirmed selective sweeps.
DOI: 10.6084/m9.figshare.26994937
title: Additional file 8 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 8: Table S6. Results of Gene Ontology (GO) terms enrichment analysis for the genes harboring production and adaptation confirmed selective sweeps.
DOI: 10.6084/m9.figshare.26994943
title: Additional file 10 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 10: Table S7. Betweenness values estimated for each gene present in the enriched gene ontology network network composed by genes harboring exclusively production and adaptation confirmed selective sweeps (CSS) and genes harboring both types of CSS.
DOI: 10.6084/m9.figshare.26994943.v1
title: Additional file 10 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 10: Table S7. Betweenness values estimated for each gene present in the enriched gene ontology network network composed by genes harboring exclusively production and adaptation confirmed selective sweeps (CSS) and genes harboring both types of CSS.
DOI: 10.6084/m9.figshare.26994952
title: Additional file 13 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 13: Table S8. Association between the selected hub genes for production and adaptation (or shared) confirmed selective sweeps with enriched gene ontology terms and quantitative trait loci annotated in the SheepQTLdb.
DOI: 10.6084/m9.figshare.26994952.v1
title: Additional file 13 of Integration of selective sweeps across the sheep genome: understanding the relationship between production and adaptation traits

description: Supplementary Material 13: Table S8. Association between the selected hub genes for production and adaptation (or shared) confirmed selective sweeps with enriched gene ontology terms and quantitative trait loci annotated in the SheepQTLdb.
DOI: 10.6084/m9.figshare.26994982
title: Additional file 2 of Exploring the roles of ribosomal peptides in prokaryote-phage interactions through deep learning-enabled metagenome mining

description: Additional file 2. Supplementary Data 1-12.
DOI: 10.6084/m9.figshare.26994982.v1
title: Additional file 2 of Exploring the roles of ribosomal peptides in prokaryote-phage interactions through deep learning-enabled metagenome mining

description: Additional file 2. Supplementary Data 1-12.
DOI: 10.6084/m9.figshare.26994985.v1
title: Additional file 3 of Exploring the roles of ribosomal peptides in prokaryote-phage interactions through deep learning-enabled metagenome mining

description: Additional file 3. Supplementary Data 13-22.
DOI: 10.6084/m9.figshare.26994985
title: Additional file 3 of Exploring the roles of ribosomal peptides in prokaryote-phage interactions through deep learning-enabled metagenome mining

description: Additional file 3. Supplementary Data 13-22.
DOI: 10.6084/m9.figshare.26994991
title: Additional file 2 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.26994991.v1
title: Additional file 2 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 2.
DOI: 10.6084/m9.figshare.26994994
title: Additional file 3 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.26994994.v1
title: Additional file 3 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 3.
DOI: 10.6084/m9.figshare.26994997
title: Additional file 4 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 4.
DOI: 10.6084/m9.figshare.26994997.v1
title: Additional file 4 of Global soil metagenomics reveals distribution and predominance of Deltaproteobacteria in nitrogen-fixing microbiome

description: Supplementary Material 4.
DOI: 10.6084/m9.figshare.26995006
title: Additional file 1 of Spatial transcriptomic brain imaging reveals the effects of immunomodulation therapy on specific regional brain cells in a mouse dementia model

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26995006.v1
title: Additional file 1 of Spatial transcriptomic brain imaging reveals the effects of immunomodulation therapy on specific regional brain cells in a mouse dementia model

description: Supplementary Material 1
DOI: 10.6084/m9.figshare.26995033
title: Additional file 7 of Molecular signatures in prion disease: altered death receptor pathways in a mouse model

description: Supplementary Material 7
DOI: 10.6084/m9.figshare.26995033.v1
title: Additional file 7 of Molecular signatures in prion disease: altered death receptor pathways in a mouse model

description: Supplementary Material 7
DOI: 10.5281/zenodo.13748476
title: ranunculus_cortusifolius_spades_01.fasta.gz

description: .
DOI: 10.5281/zenodo.13748477
title: ranunculus_cortusifolius_spades_01.fasta.gz

description: .
DOI: 10.6084/m9.figshare.26995036
title: Additional file 8 of Molecular signatures in prion disease: altered death receptor pathways in a mouse model

description: Supplementary Material 8
DOI: 10.6084/m9.figshare.26995036.v1
title: Additional file 8 of Molecular signatures in prion disease: altered death receptor pathways in a mouse model

description: Supplementary Material 8
DOI: 10.6084/m9.figshare.26995057
title: Additional file 1 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 1: Supplementary data S1. MicroRNA profiling of EVs. Table 1. Overview of statistical comparison results and expression profiles of all miRNAs identified in EVs across all samples. Table 2. MicroRNAs with differential abundance (DA) in EV collected from BOEC co-cultured with embryos versus BOEC cultured (BE vs. B). Table 3. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus BOEC co-cultured with poor embryos (BGE vs. BPE). Table 4. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus BOEC cultured (BGE vs. B). Table 5. DA miRNAs in EV collected from BOEC co-cultured with poor embryos versus BOEC cultured (BPE vs. B). Table 6. DA miRNAs in EV collected from BOEC co-cultured with embryos versus embryos cultured alone (BE vs. E). Table 7. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus good embryos cultured alone (BGE vs. GE). Table 8. DA miRNAs in EV collected from BOEC co-cultured with poor embryos versus poor embryos cultured alone (BPE vs. PE). Table 9. All DA miRNAs across EV samples used for SOTA analysis and list of miRNAs in the 6 clusters. Table 10. List of predicted target genes for miRNAs classified in A-E SOTA profiles identified by MIENTURNET tool. Table 11. Functional annotation enrichment analysis for predicted target genes for miRNAs classified in A-E SOTA expression profiles across EV samples conducted by Metascape. Table 12. DA miRNAs in EV collected from BOEC cultured alone versus medium controls (B vs. M). Table 13. DA miRNAs in EV collected from good embryos versus poor embryos cultured alone (GE vs. PE). Table 14. DA miRNAs in EV collected from embryos cultured alone (considering GE and PE together) versus medium (E vs. M).
DOI: 10.6084/m9.figshare.26995057.v1
title: Additional file 1 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 1: Supplementary data S1. MicroRNA profiling of EVs. Table 1. Overview of statistical comparison results and expression profiles of all miRNAs identified in EVs across all samples. Table 2. MicroRNAs with differential abundance (DA) in EV collected from BOEC co-cultured with embryos versus BOEC cultured (BE vs. B). Table 3. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus BOEC co-cultured with poor embryos (BGE vs. BPE). Table 4. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus BOEC cultured (BGE vs. B). Table 5. DA miRNAs in EV collected from BOEC co-cultured with poor embryos versus BOEC cultured (BPE vs. B). Table 6. DA miRNAs in EV collected from BOEC co-cultured with embryos versus embryos cultured alone (BE vs. E). Table 7. DA miRNAs in EV collected from BOEC co-cultured with good embryos versus good embryos cultured alone (BGE vs. GE). Table 8. DA miRNAs in EV collected from BOEC co-cultured with poor embryos versus poor embryos cultured alone (BPE vs. PE). Table 9. All DA miRNAs across EV samples used for SOTA analysis and list of miRNAs in the 6 clusters. Table 10. List of predicted target genes for miRNAs classified in A-E SOTA profiles identified by MIENTURNET tool. Table 11. Functional annotation enrichment analysis for predicted target genes for miRNAs classified in A-E SOTA expression profiles across EV samples conducted by Metascape. Table 12. DA miRNAs in EV collected from BOEC cultured alone versus medium controls (B vs. M). Table 13. DA miRNAs in EV collected from good embryos versus poor embryos cultured alone (GE vs. PE). Table 14. DA miRNAs in EV collected from embryos cultured alone (considering GE and PE together) versus medium (E vs. M).
DOI: 10.6084/m9.figshare.26995060
title: Additional file 2 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 2: Supplementary data S2. MicroRNA profiling of embryos. Table 1. Overview of statistical comparison results and expression profiles of all miRNAs identified in embryos across all samples. Table 2. DA miRNAs in good embryos cultured alone versus poor embryos cultured alone (GE vs. PE). Table 3. DA miRNAs in good embryos co-cultured with BOEC versus poor embryos co-cultured with BOEC (BGE vs. BPE). Table 4. DA miRNAs in embryos co-cultured with BOEC (considering BGE and BPE together) versus embryos cultured alone (considering GE and PE together) (BE vs. E). Table 5. DA miRNAs in good embryos cultured alone vs. good embryos co-cultured with BOEC (GE vs. BGE). Table 6. DA miRNAs in poor embryos cultured alone vs. poor embryos co-cultured with BOEC (PE vs. BPE). Table 7. All DA miRNAs across embryo samples used for SOTA analysis and list of miRNAs in the 6 clusters of similar expression profiles. Table 8. List of predicted target genes for miRNAs classified in SOTA profiles A and B across embryo samples identified by MIENTURNET tool. Table 9. Functional enrichment analysis and annotation for predicted target genes for miRNAs of A and B SOTA expression profiles across embryo samples conducted by Metascape.
DOI: 10.6084/m9.figshare.26995060.v1
title: Additional file 2 of Oviductal extracellular vesicles miRNA cargo varies in response to embryos and their quality

description: Supplementary Material 2: Supplementary data S2. MicroRNA profiling of embryos. Table 1. Overview of statistical comparison results and expression profiles of all miRNAs identified in embryos across all samples. Table 2. DA miRNAs in good embryos cultured alone versus poor embryos cultured alone (GE vs. PE). Table 3. DA miRNAs in good embryos co-cultured with BOEC versus poor embryos co-cultured with BOEC (BGE vs. BPE). Table 4. DA miRNAs in embryos co-cultured with BOEC (considering BGE and BPE together) versus embryos cultured alone (considering GE and PE together) (BE vs. E). Table 5. DA miRNAs in good embryos cultured alone vs. good embryos co-cultured with BOEC (GE vs. BGE). Table 6. DA miRNAs in poor embryos cultured alone vs. poor embryos co-cultured with BOEC (PE vs. BPE). Table 7. All DA miRNAs across embryo samples used for SOTA analysis and list of miRNAs in the 6 clusters of similar expression profiles. Table 8. List of predicted target genes for miRNAs classified in SOTA profiles A and B across embryo samples identified by MIENTURNET tool. Table 9. Functional enrichment analysis and annotation for predicted target genes for miRNAs of A and B SOTA expression profiles across embryo samples conducted by Metascape.