cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11952615
title: Additional file 1 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 1: Table S1. Primers of selected DEGs for real time QRT-PCR.
DOI: 10.6084/m9.figshare.11952615.v1
title: Additional file 1 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 1: Table S1. Primers of selected DEGs for real time QRT-PCR.
DOI: 10.6084/m9.figshare.12476900
title: Additional file 2 of Deconvolution of bulk blood eQTL effects into immune cell subpopulations

description: Additional file 2 : Supplementary Table 1: Ensembl IDs and symbol names of the marker genes selected by Decon-cell for the 34 predictable circulating immune cell proportions.
DOI: 10.6084/m9.figshare.12476900.v1
title: Additional file 2 of Deconvolution of bulk blood eQTL effects into immune cell subpopulations

description: Additional file 2 : Supplementary Table 1: Ensembl IDs and symbol names of the marker genes selected by Decon-cell for the 34 predictable circulating immune cell proportions.
DOI: 10.6084/m9.figshare.25277404
title: CDD Docentes en formación_T. grupal RSL_Lirón_Méndez_Rodríguez.xlsx

description: Excel del Trabajo de la asignatura "Innovación y Tecnología en Contextos Educativos" (MIICE).
DOI: 10.6084/m9.figshare.25277404.v1
title: CDD Docentes en formación_T. grupal RSL_Lirón_Méndez_Rodríguez.xlsx

description: Excel del Trabajo de la asignatura "Innovación y Tecnología en Contextos Educativos" (MIICE).
DOI: 10.6084/m9.figshare.12476909
title: Additional file 3 of Deconvolution of bulk blood eQTL effects into immune cell subpopulations

description: Additional file 3 : Supplementary Table 2: Summary statistics from Decon-eQTLs for the 16,362 whole blood eQTLs.
DOI: 10.6084/m9.figshare.12476909.v1
title: Additional file 3 of Deconvolution of bulk blood eQTL effects into immune cell subpopulations

description: Additional file 3 : Supplementary Table 2: Summary statistics from Decon-eQTLs for the 16,362 whole blood eQTLs.
DOI: 10.6084/m9.figshare.11952624
title: Additional file 2 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 2: Table S2. The target sequence for short interfering RNA.
DOI: 10.6084/m9.figshare.11952624.v1
title: Additional file 2 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 2: Table S2. The target sequence for short interfering RNA.
DOI: 10.6084/m9.figshare.11952627
title: Additional file 3 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 3: Table S3. A total of 57 downregulated and 467 upregulated genes in Y79/EDR as compared to parental Y79 cell line. Note: Bold, 20 downregulated and 20 upregulated genes with top log2FC.
DOI: 10.6084/m9.figshare.11952627.v1
title: Additional file 3 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 3: Table S3. A total of 57 downregulated and 467 upregulated genes in Y79/EDR as compared to parental Y79 cell line. Note: Bold, 20 downregulated and 20 upregulated genes with top log2FC.
DOI: 10.6084/m9.figshare.11952636
title: Additional file 4 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 4: Table S4. Details of DEGs obtained by GO enrichment analysis (biological process, cellular component, molecular function). Note: KS, Kolmogorovâ€“Smirnov.
DOI: 10.6084/m9.figshare.11952636.v1
title: Additional file 4 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 4: Table S4. Details of DEGs obtained by GO enrichment analysis (biological process, cellular component, molecular function). Note: KS, Kolmogorovâ€“Smirnov.
DOI: 10.6084/m9.figshare.11952642
title: Additional file 5 of Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism

description: Additional file 5: Table S5. The enriched pathways of KEGG analysis.
DOI: 10.6084/m9.figshare.12476951
title: Additional file 2 of A novel patient-derived organoids-based xenografts model for preclinical drug response testing in patients with colorectal liver metastases

description: Additional file 2: Table S1. A. 356 exonic SNV matched with TCGA-COAD on dbSNP Ids in PDOX-LM models. B. 36 Recurrent mutations in PDOX-LM models. C Somatic mutation rates in PDOX-LM models. D Cancer Cell Fractions rates; E. Discordant mutation between xenografted and donor liver metastases. A–E related to Figs. 3 and 5.
DOI: 10.6084/m9.figshare.12476951.v1
title: Additional file 2 of A novel patient-derived organoids-based xenografts model for preclinical drug response testing in patients with colorectal liver metastases

description: Additional file 2: Table S1. A. 356 exonic SNV matched with TCGA-COAD on dbSNP Ids in PDOX-LM models. B. 36 Recurrent mutations in PDOX-LM models. C Somatic mutation rates in PDOX-LM models. D Cancer Cell Fractions rates; E. Discordant mutation between xenografted and donor liver metastases. A–E related to Figs. 3 and 5.
DOI: 10.6084/m9.figshare.12476981
title: Additional file 1 of Identification of methylation-driven genes related to the prognosis of papillary renal cell carcinoma: a study based on The Cancer Genome Atlas

description: Additional file 1: Results of the limma package.
DOI: 10.6084/m9.figshare.12476981.v1
title: Additional file 1 of Identification of methylation-driven genes related to the prognosis of papillary renal cell carcinoma: a study based on The Cancer Genome Atlas

description: Additional file 1: Results of the limma package.
DOI: 10.6084/m9.figshare.11952762
title: Additional file 2 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 2: Table S1. Read count and mapping percentage of all sequenced libraries. Table S2. Statistics from HiChIP data. Number and percentage of linked enhancers-promoters and promoters-promoters shown. Genes with linkages are also indicated. Table S3. Number of significantly differential peaks and genes in the indicated comparisons.
DOI: 10.6084/m9.figshare.11952762.v1
title: Additional file 2 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 2: Table S1. Read count and mapping percentage of all sequenced libraries. Table S2. Statistics from HiChIP data. Number and percentage of linked enhancers-promoters and promoters-promoters shown. Genes with linkages are also indicated. Table S3. Number of significantly differential peaks and genes in the indicated comparisons.
DOI: 10.6084/m9.figshare.11952768
title: Additional file 3 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 3: Table S4. Gene ontologies and pathways. EnrichR results from the analysis of promoter- or enhancer-linked gene expression changes. Each sheet corresponds to a different database that was used as the parameter in the EnrichR analysis.
DOI: 10.6084/m9.figshare.11952768.v1
title: Additional file 3 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 3: Table S4. Gene ontologies and pathways. EnrichR results from the analysis of promoter- or enhancer-linked gene expression changes. Each sheet corresponds to a different database that was used as the parameter in the EnrichR analysis.
DOI: 10.6084/m9.figshare.11952777
title: Additional file 4 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 4: Table S5. Transcription factor hazard ratio table. Each sheet corresponds to the results from the analysis of organotropic relapse (Lung.relapse and Brain.relapse) or either relapse (Any.relapse). “Notes” sheet includes every column and their descriptions. Transcription factors listed are concordant across two parameters (Hazard ratio by either log-rank or Cox proportional hazard model and the gain/loss of the TF motif). padj Adjusted P value; HR Hazard ratio.
DOI: 10.6084/m9.figshare.11952777.v1
title: Additional file 4 of Specific chromatin landscapes and transcription factors couple breast cancer subtype with metastatic relapse to lung or brain

description: Additional file 4: Table S5. Transcription factor hazard ratio table. Each sheet corresponds to the results from the analysis of organotropic relapse (Lung.relapse and Brain.relapse) or either relapse (Any.relapse). “Notes” sheet includes every column and their descriptions. Transcription factors listed are concordant across two parameters (Hazard ratio by either log-rank or Cox proportional hazard model and the gain/loss of the TF motif). padj Adjusted P value; HR Hazard ratio.
DOI: 10.6084/m9.figshare.11952864
title: Additional file 1 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 1 Table S1. Primers used in the manuscript.
DOI: 10.6084/m9.figshare.11952864.v1
title: Additional file 1 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 1 Table S1. Primers used in the manuscript.
DOI: 10.6084/m9.figshare.7234277
title: Additional file 2: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: GO annotation of the hepatic triglyceride-related modules (based on eigen gene and trait correlation) (XLSX 32 kb)
DOI: 10.6084/m9.figshare.7234277.v1
title: Additional file 2: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: GO annotation of the hepatic triglyceride-related modules (based on eigen gene and trait correlation) (XLSX 32 kb)
DOI: 10.6084/m9.figshare.11952870
title: Additional file 2 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 2 Table S2. Essential information of PUB gene members in Gossypium raimondii.
DOI: 10.6084/m9.figshare.11952870.v1
title: Additional file 2 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 2 Table S2. Essential information of PUB gene members in Gossypium raimondii.
DOI: 10.6084/m9.figshare.11952873
title: Additional file 3 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 3 Table S3. Essential information of PUB gene members in Gossypium arboreum.
DOI: 10.6084/m9.figshare.11952873.v1
title: Additional file 3 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 3 Table S3. Essential information of PUB gene members in Gossypium arboreum.
DOI: 10.6084/m9.figshare.7234283
title: Additional file 3: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Raw MSEA results. Left Panel shows the liver tissue results, while right panel shows the adipose tissue results. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.7234283.v1
title: Additional file 3: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Raw MSEA results. Left Panel shows the liver tissue results, while right panel shows the adipose tissue results. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.11952879
title: Additional file 4 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 4 Table S4. Essential information of PUB gene members in Gossypium hirsutum L.
DOI: 10.6084/m9.figshare.11952879.v1
title: Additional file 4 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 4 Table S4. Essential information of PUB gene members in Gossypium hirsutum L.
DOI: 10.6084/m9.figshare.11952882
title: Additional file 5 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 5 Table S5. Essential information of PUB gene members in Gossypium barbadense.
DOI: 10.6084/m9.figshare.11952882.v1
title: Additional file 5 of Genome-wide identification and expression analysis of PUB genes in cotton

description: Additional file 5 Table S5. Essential information of PUB gene members in Gossypium barbadense.
DOI: 10.6084/m9.figshare.7234292
title: Additional file 4: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: MSEA and KDA results of the sex-specific, tissue-specific, and shared supersets between sexes in each tissue. A superset is a gene set merging a group of highly overlapping pathways or coexperssion modules to reduce redundancy. Coexpression modules are labeled with IDs from WGCNA or MEGENA network and annotated with GO terms. (XLSX 14 kb)
DOI: 10.6084/m9.figshare.7234301
title: Additional file 5: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: KDA results. Left Panel shows the liver tissue results, while right panel shows the adipose tissue results. (XLSX 71 kb)
DOI: 10.6084/m9.figshare.7234301.v1
title: Additional file 5: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: KDA results. Left Panel shows the liver tissue results, while right panel shows the adipose tissue results. (XLSX 71 kb)
DOI: 10.6084/m9.figshare.7234310
title: Additional file 6: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Previously annotated NAFLD-associated genes from the literature. Genes that were identified as a key driver in our analysis are highlighted in particular colors as denoted below. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.7234310.v1
title: Additional file 6: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Previously annotated NAFLD-associated genes from the literature. Genes that were identified as a key driver in our analysis are highlighted in particular colors as denoted below. (XLSX 18 kb)
DOI: 10.6084/m9.figshare.11952909
title: Additional file 1 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 1. The nsSNPs collections of GJA3 gene from dbSNP database, the HGMD, the ClinVar database, the DisGeNET database and literatures.
DOI: 10.6084/m9.figshare.11952909.v1
title: Additional file 1 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 1. The nsSNPs collections of GJA3 gene from dbSNP database, the HGMD, the ClinVar database, the DisGeNET database and literatures.
DOI: 10.6084/m9.figshare.11952912
title: Additional file 2 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 2. Deleterious predictions of nsSNPs of GJA3 gene by eight computational in silico tools.
DOI: 10.6084/m9.figshare.11952912.v1
title: Additional file 2 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 2. Deleterious predictions of nsSNPs of GJA3 gene by eight computational in silico tools.
DOI: 10.6084/m9.figshare.7234322
title: Additional file 8: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Enrichment of the key driver subnetworks for the target genes of the sex hormone receptors. Enrichment is evaluated in a tissue-specific manner using the tissue-specific FANTOM5 gene regulatory networks. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.7234322.v1
title: Additional file 8: of Tissue-specific pathways and networks underlying sexual dimorphism in non-alcoholic fatty liver disease

description: Enrichment of the key driver subnetworks for the target genes of the sex hormone receptors. Enrichment is evaluated in a tissue-specific manner using the tissue-specific FANTOM5 gene regulatory networks. (XLSX 9 kb)
DOI: 10.6084/m9.figshare.11952918
title: Additional file 3 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 3. The effects of 88 high-risk nsSNPs of GJA3 gene on protein stability predicted by I-Mutant 3.0, MUpro and INPS tools.
DOI: 10.6084/m9.figshare.11952918.v1
title: Additional file 3 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 3. The effects of 88 high-risk nsSNPs of GJA3 gene on protein stability predicted by I-Mutant 3.0, MUpro and INPS tools.
DOI: 10.6084/m9.figshare.11952921
title: Additional file 4 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 4. Predictions of post-translational modification sites in GJA3 protein by ModPred.
DOI: 10.6084/m9.figshare.11952921.v1
title: Additional file 4 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 4. Predictions of post-translational modification sites in GJA3 protein by ModPred.
DOI: 10.6084/m9.figshare.11952924
title: Additional file 5 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 5. Residues predictions of 67 amino acids by ConSurf.
DOI: 10.6084/m9.figshare.11952924.v1
title: Additional file 5 of In silico analysis of non-synonymous single nucleotide polymorphisms (nsSNPs) in the human GJA3 gene associated with congenital cataract

description: Additional file 5. Residues predictions of 67 amino acids by ConSurf.
DOI: 10.6084/m9.figshare.11952957
title: Additional file 3 of PcDWF1, a pear brassinosteroid biosynthetic gene homologous to AtDWARF1, affected the vegetative and reproductive growth of plants

description: Additional file 3.
DOI: 10.6084/m9.figshare.11952957.v1
title: Additional file 3 of PcDWF1, a pear brassinosteroid biosynthetic gene homologous to AtDWARF1, affected the vegetative and reproductive growth of plants

description: Additional file 3.
DOI: 10.6084/m9.figshare.11952960
title: Additional file 2 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 2: Table S1. Summary of the miRNAs identified in tomatoes at control, drought, heat and combined stress
DOI: 10.6084/m9.figshare.11952960.v1
title: Additional file 2 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 2: Table S1. Summary of the miRNAs identified in tomatoes at control, drought, heat and combined stress
DOI: 10.6084/m9.figshare.11952966
title: Additional file 3 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 3: Table S2. Summary of the differentially expressed miRNAs identified in tomatoes at control, drought, heat and combined stress
DOI: 10.6084/m9.figshare.11952966.v1
title: Additional file 3 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 3: Table S2. Summary of the differentially expressed miRNAs identified in tomatoes at control, drought, heat and combined stress
DOI: 10.6084/m9.figshare.11952972
title: Additional file 4 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 4: Table S3. Target transcripts with different expression levels cleaved by miRNAs in the tomatoes at control, drought, heat and combined stress by degradome analysis
DOI: 10.6084/m9.figshare.11952972.v1
title: Additional file 4 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 4: Table S3. Target transcripts with different expression levels cleaved by miRNAs in the tomatoes at control, drought, heat and combined stress by degradome analysis
DOI: 10.6084/m9.figshare.11952975
title: Additional file 10 of Comparative transcriptome analyses of fruit development among pears, peaches, and strawberries provide new insights into single sigmoid patterns

description: Additional file 10: Table S5. The gene involved into fruit enlargements undergo positive selection in both pears and peaches.
DOI: 10.6084/m9.figshare.11952975.v1
title: Additional file 10 of Comparative transcriptome analyses of fruit development among pears, peaches, and strawberries provide new insights into single sigmoid patterns

description: Additional file 10: Table S5. The gene involved into fruit enlargements undergo positive selection in both pears and peaches.
DOI: 10.6084/m9.figshare.11952978
title: Additional file 5 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 5: Table S4. Specific qRT-PCR primers for the miRNAs
DOI: 10.6084/m9.figshare.11952978.v1
title: Additional file 5 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 5: Table S4. Specific qRT-PCR primers for the miRNAs
DOI: 10.6084/m9.figshare.11952984
title: Additional file 11 of Comparative transcriptome analyses of fruit development among pears, peaches, and strawberries provide new insights into single sigmoid patterns

description: Additional file 11: Table S6. Primers for real-time quantitative PCR.
DOI: 10.6084/m9.figshare.11952984.v1
title: Additional file 11 of Comparative transcriptome analyses of fruit development among pears, peaches, and strawberries provide new insights into single sigmoid patterns

description: Additional file 11: Table S6. Primers for real-time quantitative PCR.
DOI: 10.6084/m9.figshare.11952987
title: Additional file 6 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 6: Table S5. Specific qRT-PCR primers for the target genes
DOI: 10.6084/m9.figshare.11952987.v1
title: Additional file 6 of Unique miRNAs and their targets in tomato leaf responding to combined drought and heat stress

description: Additional file 6: Table S5. Specific qRT-PCR primers for the target genes
DOI: 10.6084/m9.figshare.11952990
title: Additional file 12 of Comparative transcriptome analyses of fruit development among pears, peaches, and strawberries provide new insights into single sigmoid patterns

description: Additional file 12: Table S7. Primers for dual luciferase assay.