cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11479890
title: MOESM7 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 7. List of the KEGG pathways significantly associated with WGCNA’s modules detected using blood DEG.
DOI: 10.6084/m9.figshare.11479887.v1
title: MOESM12 of Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

description: Additional file 12: Table S9. The alleles of WT and mutant lines with 67,402 SNP markers.
DOI: 10.6084/m9.figshare.11479890.v1
title: MOESM7 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 7. List of the KEGG pathways significantly associated with WGCNA’s modules detected using blood DEG.
DOI: 10.6084/m9.figshare.11479881
title: MOESM11 of Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

description: Additional file 11: Table S8. Phenotypic raw data of PH, tiller number, SL, TGW, FLA, NSL, SD and GNS under each environment.
DOI: 10.6084/m9.figshare.11479884
title: MOESM6 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 6. List of the KEGG pathways significantly associated with WGCNA’s modules detected using hypothalamic DEG.
DOI: 10.6084/m9.figshare.11479881.v1
title: MOESM11 of Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

description: Additional file 11: Table S8. Phenotypic raw data of PH, tiller number, SL, TGW, FLA, NSL, SD and GNS under each environment.
DOI: 10.6084/m9.figshare.11479884.v1
title: MOESM6 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 6. List of the KEGG pathways significantly associated with WGCNA’s modules detected using hypothalamic DEG.
DOI: 10.6084/m9.figshare.11479875
title: MOESM10 of Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

description: Additional file 10: Table S7. Spikelet density of mutant lines carrying mutant alleles of candidate SNPs.
DOI: 10.6084/m9.figshare.11479878
title: MOESM5 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 5. List of the 2 and 8 KEGG pathways significantly enriched in the over- and under-expressed genes in the blood.
DOI: 10.6084/m9.figshare.11479875.v1
title: MOESM10 of Functional mutation allele mining of plant architecture and yield-related agronomic traits and characterization of their effects in wheat

description: Additional file 10: Table S7. Spikelet density of mutant lines carrying mutant alleles of candidate SNPs.
DOI: 10.6084/m9.figshare.11479878.v1
title: MOESM5 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 5. List of the 2 and 8 KEGG pathways significantly enriched in the over- and under-expressed genes in the blood.
DOI: 10.6084/m9.figshare.11479872
title: MOESM4 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 4. List of the 26 and 44 KEGG pathways significantly enriched in the over- and under-expressed genes in the hypothalamus.
DOI: 10.6084/m9.figshare.11479872.v1
title: MOESM4 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 4. List of the 26 and 44 KEGG pathways significantly enriched in the over- and under-expressed genes in the hypothalamus.
DOI: 10.6084/m9.figshare.11479866
title: MOESM3 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 3. List of the differentially expressed genes (LE vs. CT) in each tissue.
DOI: 10.6084/m9.figshare.11479866.v1
title: MOESM3 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 3. List of the differentially expressed genes (LE vs. CT) in each tissue.
DOI: 10.6084/m9.figshare.11479857
title: MOESM2 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 2. List of the genes uniquely expressed in each tissue.
DOI: 10.6084/m9.figshare.11479854
title: MOESM1 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 1. Means (±SD) and significance for Body weight at 17 weeks for the effect of the diet, the line and their interaction.
DOI: 10.6084/m9.figshare.11479857.v1
title: MOESM2 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 2. List of the genes uniquely expressed in each tissue.
DOI: 10.6084/m9.figshare.11479854.v1
title: MOESM1 of Chicken adaptive response to low energy diet: main role of the hypothalamic lipid metabolism revealed by a phenotypic and multi-tissue transcriptomic approach

description: Additional file 1. Means (±SD) and significance for Body weight at 17 weeks for the effect of the diet, the line and their interaction.
DOI: 10.6084/m9.figshare.11479839
title: MOESM9 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 9: Chromatogram S3. The chromatogram for the transgenic line CR9â€“2 of target site.
DOI: 10.6084/m9.figshare.11479839.v1
title: MOESM9 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 9: Chromatogram S3. The chromatogram for the transgenic line CR9â€“2 of target site.
DOI: 10.6084/m9.figshare.11479830
title: MOESM8 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 8: Chromatogram S2. The chromatogram for the transgenic line CR9â€“1 of target site.
DOI: 10.6084/m9.figshare.11479830.v1
title: MOESM8 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 8: Chromatogram S2. The chromatogram for the transgenic line CR9â€“1 of target site.
DOI: 10.5517/ccdc.csd.cc201tkg
title: CCDC 1848795: Experimental Crystal Structure Determination

description: Related Article: Avinash Kotian, Vinayak Kamat, Krishna Naik, Dhoolesh G. Kokare, Karthik Kumara, Neratur Krishnappagowda Lokanath, Vidyanand K. Revankar|2021|J.Mol.Struct.|1224|129055|doi:10.1016/j.molstruc.2020.129055
DOI: 10.6084/m9.figshare.11479821
title: MOESM7 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 7: Chromatogram S1. The chromatogram for the wild type of target site.
DOI: 10.6084/m9.figshare.11479821.v1
title: MOESM7 of Lose-of-Function of a Rice Nucleolus-Localized Pentatricopeptide Repeat Protein Is Responsible for the floury endosperm14 Mutant Phenotypes

description: Additional file 7: Chromatogram S1. The chromatogram for the wild type of target site.
DOI: 10.6084/m9.figshare.11479812
title: MOESM5 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 5: Table S5. Comparison of the CAZyme profiles of the 30 Dothideomycetes including 16 Alternaria species.
DOI: 10.6084/m9.figshare.11479812.v1
title: MOESM5 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 5: Table S5. Comparison of the CAZyme profiles of the 30 Dothideomycetes including 16 Alternaria species.
DOI: 10.6084/m9.figshare.11479806
title: MOESM4 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 4: Table S4. List of predicted secondary metabolite gene clusters in A. brassicae along with their constituent genes, coordinates in the genome, and their description.
DOI: 10.6084/m9.figshare.11479806.v1
title: MOESM4 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 4: Table S4. List of predicted secondary metabolite gene clusters in A. brassicae along with their constituent genes, coordinates in the genome, and their description.
DOI: 10.6084/m9.figshare.11479794
title: MOESM2 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 2: Table S2. List of Dothideomycetes used in the orthology analysis.
DOI: 10.6084/m9.figshare.11479797
title: MOESM3 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 3: Table S3. List of 460 A. brassicae species-specific proteins with gene coordinates and description.
DOI: 10.6084/m9.figshare.11479797.v1
title: MOESM3 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 3: Table S3. List of 460 A. brassicae species-specific proteins with gene coordinates and description.
DOI: 10.6084/m9.figshare.11479794.v1
title: MOESM2 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 2: Table S2. List of Dothideomycetes used in the orthology analysis.
DOI: 10.6084/m9.figshare.11479788
title: MOESM1 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 1: Table S1. Isolate-specific genes between the three isolates of A. alternata viz. AatPN1, AatPN2, and ATCC34957.
DOI: 10.6084/m9.figshare.11479788.v1
title: MOESM1 of Comparative genomics of Alternaria species provides insights into the pathogenic lifestyle of Alternaria brassicae â€“ a pathogen of the Brassicaceae family

description: Additional file 1: Table S1. Isolate-specific genes between the three isolates of A. alternata viz. AatPN1, AatPN2, and ATCC34957.
DOI: 10.6084/m9.figshare.11479770
title: MOESM6 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 6. GO terms of individual early stage-specific seRNA-associated genes, related to Additional file 1: Figure S2.
DOI: 10.6084/m9.figshare.11479770.v1
title: MOESM6 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 6. GO terms of individual early stage-specific seRNA-associated genes, related to Additional file 1: Figure S2.
DOI: 10.6084/m9.figshare.11479764
title: MOESM5 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 5. GO terms of individual late stage-specific seRNA-associated genes, related to Fig. 5.
DOI: 10.6084/m9.figshare.11479761
title: MOESM4 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 4. GO terms of late stage-specific seRNA-associated genes (All pooled).
DOI: 10.6084/m9.figshare.11479764.v1
title: MOESM5 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 5. GO terms of individual late stage-specific seRNA-associated genes, related to Fig. 5.
DOI: 10.6084/m9.figshare.11479758
title: MOESM3 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 3. GO terms of early stage-specific seRNA-associated genes (All pooled).
DOI: 10.6084/m9.figshare.11479761.v1
title: MOESM4 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 4. GO terms of late stage-specific seRNA-associated genes (All pooled).
DOI: 10.6084/m9.figshare.11479758.v1
title: MOESM3 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 3. GO terms of early stage-specific seRNA-associated genes (All pooled).
DOI: 10.6084/m9.figshare.11479752
title: MOESM2 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 2. Lists of identified stage-specific seRNAs.
DOI: 10.6084/m9.figshare.11479752.v1
title: MOESM2 of Investigating the role of super-enhancer RNAs underlying embryonic stem cell differentiation

description: Additional file 2. Lists of identified stage-specific seRNAs.
DOI: 10.6084/m9.figshare.11479743
title: MOESM1 of Modelling TERT regulation across 19 different cancer types based on the MIPRIP 2.0 gene regulatory network approach

description: Additional file 1: Table S1. List of transcription factors putatively regulating TERT, based on the generic human gene regulatory network. Table S2. Selected cancers from The Cancer Genome Atlas. Table S3. Specific TERT regulators of each cancer type. Table S4. Number of Pubmed hits for the predicted common TERT regulators. Table S5. Confusion matrix for the Pubmed query. Table S6. Estimating the best model size. Table S7. TERT regulators predicted by ISMARA. Figure S1. Histogram of the fold changes of the TF knockouts in the melanoma cell line A375 compared to controls. Figure S2. Performance of the melanoma skin cancer models with 1 to 50 regulators. Figure S3. Number of target genes identified for the 1160 TFs. Figure S4. TF-target gene interactions.
DOI: 10.6084/m9.figshare.11479743.v1
title: MOESM1 of Modelling TERT regulation across 19 different cancer types based on the MIPRIP 2.0 gene regulatory network approach

description: Additional file 1: Table S1. List of transcription factors putatively regulating TERT, based on the generic human gene regulatory network. Table S2. Selected cancers from The Cancer Genome Atlas. Table S3. Specific TERT regulators of each cancer type. Table S4. Number of Pubmed hits for the predicted common TERT regulators. Table S5. Confusion matrix for the Pubmed query. Table S6. Estimating the best model size. Table S7. TERT regulators predicted by ISMARA. Figure S1. Histogram of the fold changes of the TF knockouts in the melanoma cell line A375 compared to controls. Figure S2. Performance of the melanoma skin cancer models with 1 to 50 regulators. Figure S3. Number of target genes identified for the 1160 TFs. Figure S4. TF-target gene interactions.
DOI: 10.6084/m9.figshare.11479659
title: MOESM2 of The exploration of disease-specific gene regulatory networks in esophageal carcinoma and stomach adenocarcinoma

description: Additional file 2. This .xls is a detail description of all candidate molecules
DOI: 10.6084/m9.figshare.11479656
title: MOESM1 of The exploration of disease-specific gene regulatory networks in esophageal carcinoma and stomach adenocarcinoma

description: Additional file 1. This .xls is a detail description of gene set enrichment analysis for STAD-specific FFL and ESCA-specific FFL
DOI: 10.6084/m9.figshare.11479659.v1
title: MOESM2 of The exploration of disease-specific gene regulatory networks in esophageal carcinoma and stomach adenocarcinoma

description: Additional file 2. This .xls is a detail description of all candidate molecules
DOI: 10.6084/m9.figshare.11479656.v1
title: MOESM1 of The exploration of disease-specific gene regulatory networks in esophageal carcinoma and stomach adenocarcinoma

description: Additional file 1. This .xls is a detail description of gene set enrichment analysis for STAD-specific FFL and ESCA-specific FFL
DOI: 10.6084/m9.figshare.11479614
title: MOESM1 of Bisoprolol transdermal patch for perioperative care of non-cardiac surgery in patients with hypertrophic obstructive cardiomyopathy

description: Additional file 1. : Detailed baseline characteristics of each patient.
DOI: 10.6084/m9.figshare.11479614.v1
title: MOESM1 of Bisoprolol transdermal patch for perioperative care of non-cardiac surgery in patients with hypertrophic obstructive cardiomyopathy

description: Additional file 1. : Detailed baseline characteristics of each patient.
DOI: 10.6084/m9.figshare.11479596
title: MOESM2 of CircNFIX promotes progression of glioma through regulating miR-378e/RPN2 axis

description: Additional file 2: Figure S1. CircNFIX was more resistant to RNase R than NFIX in glioma cells. (A) NFIX was a host gene of circNFIX (hsa_circ_0049658) and sanger sequencing validated the sequence on the junction sites of circNFIX. (B and C) The expression levels of circNFIX and NFIX were measured in U251 and T98 cells after treatment of RNase R. ***P&lt;0.001. Figure S2. CircNFIX and miR-378e were predominantly localized in the cytoplasm. (A-D) The expression levels of circNFIX and miR-378e were measured in cytoplasmic and nuclear fractions, with GAPDH and U6 as the internal controls, respectively. Figure S3. RPN2 promoted the activation of ERK pathway in glioma cells. (A and B) The protein levels of p-ERK, ERK, p=MEK and MEK were measured in U251 cells transfected with pcDNA or RPN2 and T98 cells transfected with si-NC or si-RPN2. ***P&lt;0.001.
DOI: 10.6084/m9.figshare.11479596.v1
title: MOESM2 of CircNFIX promotes progression of glioma through regulating miR-378e/RPN2 axis

description: Additional file 2: Figure S1. CircNFIX was more resistant to RNase R than NFIX in glioma cells. (A) NFIX was a host gene of circNFIX (hsa_circ_0049658) and sanger sequencing validated the sequence on the junction sites of circNFIX. (B and C) The expression levels of circNFIX and NFIX were measured in U251 and T98 cells after treatment of RNase R. ***P&lt;0.001. Figure S2. CircNFIX and miR-378e were predominantly localized in the cytoplasm. (A-D) The expression levels of circNFIX and miR-378e were measured in cytoplasmic and nuclear fractions, with GAPDH and U6 as the internal controls, respectively. Figure S3. RPN2 promoted the activation of ERK pathway in glioma cells. (A and B) The protein levels of p-ERK, ERK, p=MEK and MEK were measured in U251 cells transfected with pcDNA or RPN2 and T98 cells transfected with si-NC or si-RPN2. ***P&lt;0.001.
DOI: 10.6084/m9.figshare.11479527
title: MOESM4 of A benchmark of transposon insertion detection tools using real data

description: Additional file 4 : Table S3. Drosophila melanogaster TE insertions validated by PCR. TE names are provided in the table when authors gave names to the non-reference insertions. All insertions were validated based on PCR band sizes. Validated insertion sites are provided when authors sequenced PCR bands evidencing the presence of a particular insertion. ND: not determined. (xlsx)
DOI: 10.6084/m9.figshare.11479530
title: MOESM5 of A benchmark of transposon insertion detection tools using real data

description: Additional file 5 : Table S4. Total number of insertions detected by PoPoolationTE2, Jitterbug and Teflon in ten Drosophila lines. (xlsx)
DOI: 10.6084/m9.figshare.11479527.v1
title: MOESM4 of A benchmark of transposon insertion detection tools using real data

description: Additional file 4 : Table S3. Drosophila melanogaster TE insertions validated by PCR. TE names are provided in the table when authors gave names to the non-reference insertions. All insertions were validated based on PCR band sizes. Validated insertion sites are provided when authors sequenced PCR bands evidencing the presence of a particular insertion. ND: not determined. (xlsx)
DOI: 10.6084/m9.figshare.11479530.v1
title: MOESM5 of A benchmark of transposon insertion detection tools using real data

description: Additional file 5 : Table S4. Total number of insertions detected by PoPoolationTE2, Jitterbug and Teflon in ten Drosophila lines. (xlsx)
DOI: 10.6084/m9.figshare.11479521
title: MOESM3 of A benchmark of transposon insertion detection tools using real data

description: Additional file 3 : Table S2. Numerical benchmark results. (.xlsx)
DOI: 10.6084/m9.figshare.11479521.v1
title: MOESM3 of A benchmark of transposon insertion detection tools using real data

description: Additional file 3 : Table S2. Numerical benchmark results. (.xlsx)
DOI: 10.6084/m9.figshare.11479515
title: MOESM2 of A benchmark of transposon insertion detection tools using real data

description: Additional file 2 : Table S1. Insertion dataset used for benchmarking. Contains all the TP reference and non-reference windows, as well as all FP windows. (.xlsx)
DOI: 10.6084/m9.figshare.11479512
title: MOESM1 of A benchmark of transposon insertion detection tools using real data

description: Additional file 1. Scripts used to run all TIP detection tools. (.sh) (SH 13 kb)
DOI: 10.6084/m9.figshare.11479515.v1
title: MOESM2 of A benchmark of transposon insertion detection tools using real data

description: Additional file 2 : Table S1. Insertion dataset used for benchmarking. Contains all the TP reference and non-reference windows, as well as all FP windows. (.xlsx)
DOI: 10.6084/m9.figshare.11479512.v1
title: MOESM1 of A benchmark of transposon insertion detection tools using real data

description: Additional file 1. Scripts used to run all TIP detection tools. (.sh) (SH 13 kb)
DOI: 10.6084/m9.figshare.11479452
title: MOESM1 of Significant association between clinical characteristics and changes in peripheral immuno-phenotype in large vessel vasculitis

description: Additional file 1 : Figure S1 Immuno-phenotyping strategy using antibody staining.
DOI: 10.6084/m9.figshare.11479452.v1
title: MOESM1 of Significant association between clinical characteristics and changes in peripheral immuno-phenotype in large vessel vasculitis

description: Additional file 1 : Figure S1 Immuno-phenotyping strategy using antibody staining.
DOI: 10.6084/m9.figshare.11479428
title: MOESM3 of An ancestry informative marker panel design for individual ancestry estimation of Hispanic population using whole exome sequencing data

description: Additional file 3: Table S3. The ancestral proportions and clinical data of TCGA-LIHC samples (S3A: tumor DNAs; S3B: normal DNAs).
DOI: 10.6084/m9.figshare.11479425
title: MOESM2 of An ancestry informative marker panel design for individual ancestry estimation of Hispanic population using whole exome sequencing data

description: Additional file 2: Table S2. Informativeness of AIMs of the UT-AIM250 panel.