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Co-expression network

Tìm thấy 20+ kết quả cho từ khóa "Co-expression network"

TeaCoN: A database of gene co-expression network for tea plant (Camellia sinensis)

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ChlamyNET: a Chlamydomonas gene co-expression network reveals global properties of the transcriptome and the early setup of key co-expression patterns in the green lineage. ChlamyNET: aChlamydomonasgene co-expression network reveals global properties of the transcriptome and the early setup of key co-expression patterns in the green lineage. A general framework for weighted gene co-expression network analysis.

Identification of co-expression network correlated with different periods of adipogenic and osteogenic differentiation of BMSCs by weighted gene co-expression network analysis (WGCNA)

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adipogenic and osteogenic differentiation of BMSCs by weighted gene co-expression network analysis (WGCNA). Background: The differentiation of bone marrow mesenchymal stem cells is a complex and dynamic process. The gene expression pattern and mechanism of different periods of adipogenic and osteogenic differentiation remain unclear.

Gene co-expression network analysis reveals key pathways and hub genes in Chinese cabbage (Brassica rapa L.) during vernalization

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Gene co-expression network analysis reveals key pathways and hub genes in Chinese cabbage ( Brassica rapa L.) during vernalization. We performed RNA sequencing of gradient-vernalization in order to explore the reasons for the different bolting process of two Chinese cabbage accessions during vernalization.. Results: There was considerable variation in gene expression between different-bolting Chinese cabbage accessions during vernalization.

GWAS and co-expression network combination uncovers multigenes with close linkage effects on the oleic acid content accumulation in Brassica napus

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Then, we performed GO pathway analysis to uncover genes co-expressed with BnMTACP2-A02, BnABCI13-A02 and BnECI1-A02 in the A02_Hap region and BnFAD8-C02 and BnSDP1-C02 in the C02_Hap re- gion. These three candidate genes showed close correla- tions in the co-expression network (Fig. Hap region were interrelated with co-expression net- work genes that affected oleic acid content accumulation in rapeseed..

Integrative expression network analysis of microRNA and gene isoforms in sacred lotus

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A general framework for weighted gene co-expression network analysis

JCDB: A comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants

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Users can browse all JCDB genes directly on the ‘Browse’. 3 Screenshots of the browse and detail information pages. d Gene expression heatmap. e Gene co-expression network and PPI network. gene expression heatmaps (Fig. and co- expression and PPI sub-networks (Fig.

Integrating RNA-Seq with GWAS reveals novel insights into the molecular mechanism underpinning ketosis in cattle

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RNA-seq analysis of differential gene expression in liver from lactating dairy cows divergent in negative energy balance. Gene co- expression analysis for functional classification and gene-disease predictions.. A gene co-expression network-based analysis of multiple brain tissues reveals novel genes and molecular pathways underlying major depression. Weighted gene co- expression network analysis reveals modules and hub genes associated with the development of breast cancer.

Weighted gene co-expression network analysis unveils gene networks associated with the Fusarium head blight resistance in tetraploid wheat

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. thaliana co-located with the FHB resistance QTL on chromosome 2A (Table 1).

A transcriptomic profile of topping responsive non-coding RNAs in tobacco roots (Nicotiana tabacum)

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The number of circRNAs identified were higher than that of miRNAs and lncRNAs, but only two circRNAs were present in the co-expression network. LncRNAs appear to be the most active ncRNAs based on their numbers presented in the co-expression network, but none of them seems to be an eTM (endogenous Target Mimicry) of miRNAs.

Basic leucine zipper (bZIP) transcription factor genes and their responses to drought stress in ginseng, Panax ginseng C.A. Meyer

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The co-expression network of the PgbZIP genes. To assess the potential functional relationships among different members of the PgbZIP gene family, the co- expression network of its 91 PgbZIP genes was con- structed based on the expressions of their 273 tran- scripts in the four-year-old plant roots of 42 genotypes at a P ≤ 0.05 (Fig. Consequently, 208 of the 273 PgbZIP transcripts formed a co-expression network that was composed of 208 nodes, 1,994 edges (Fig.

Expression of mitochondrial protein genes encoded by nuclear and mitochondrial genomes correlate with energy metabolism in dairy cattle

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Expression of mitochondrial protein genes encoded by nuclear and mitochondrial. The expression of MP genes in tissues may be tissue specific to meet varying specific energy demands across the tissues. In this study, we profile the expression of MP genes in 29 adult and six foetal tissues in dairy cattle using RNA sequencing and gene expression analyses: particularly differential gene expression and co-expression network analyses.. Results: MP genes were differentially expressed (DE.

Identification of the specific longnoncoding RNAs involved in night-break mediated flowering retardation in Chenopodium quinoa

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10 Construction of the core network involved in quinoa flowering. a Co-expression network of the positive, negative flowering lncRNAs and vital flowering homologs. b Heatmap showing the expression levels (log 10 FPKM) of the vital flowering homologs in different samples.

Dynamics of rumen gene expression, microbiome colonization, and their interplay in goats

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To provide a clearer picture of gene expression dy- namic patterns and gene interaction relationships in the rumen, a weighted gene co-expression network analysis (WGCNA) was performed on the identified DEGs above.. 1 Developmental dynamics revealed by the rumen transcriptome.

Transcriptome profiling analysis of sexbased differentially expressed mRNAs and lncRNAs in the brains of mature zebrafish (Danio rerio)

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Protein-protein interaction network analysis, Gene Ontology (GO) analysis, and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis were performed to obtain the biological significance of differentially expressed mRNA in the brain dimorphism of zebrafish. Finally, a Pearson correlation analysis was performed to construct the co-expression network of the mRNAs and lncRNAs..

Transcriptome-wide map of m6 A circRNAs identified in a rat model of hypoxia mediated pulmonary hypertension

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We plan to explore the expression profiling of m 6 A circRNAs in monocrotaline-induced PH and other PH models. Moreover, the clinical significance of m 6 A circRNAs for HPH should be further validated.. 5 Construction of a circRNA – miRNA – mRNA co-expression network in HPH (a) Comparison of the relationship between m 6 A level and expression of circRNAs between N and HPH.

Decoding the differentiation of mesenchymal stem cells into mesangial cells at the transcriptomic level

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A co-expression network was constructed from these selected muscle contraction related key genes and their TFs.. TF in TO-GCN.. Differentiated mesangial cells contraction video.. TO-GCN robustness analysis.. TO-GCN: Time-Ordered Gene Co-expression Net- work. Differentiation of human mesenchymal stem cells into mesangial cells in post-glomerular injury murine model. Single-cell RNA-sequence analysis of mouse glomerular mesangial cells uncovers mesangial cell essential genes.

Characterizing glycosyltransferases by a combination of sequencing platforms applied to the leaf tissues of Stevia rebaudiana

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The results demonstrated that all of the analyt- ical glucosides in the experimental genotypes were clearly varied and provided a potential basis for WGCNA co-expression network analysis to uncover the glucosyltransferases involved in the biosynthesis pathway of the corresponding glycosides.

Integrated analysis of lncRNAs and mRNAs reveals key trans-target genes associated with ETEC-F4ac adhesion phenotype in porcine small intestine epithelial cells

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This yielded 51 cis-acting lncRNA and 194 corresponding target genes (Additional file 5). 5 Co-expression network of lncRNAs and their CIS -target genes: LncRNAs and their cis-target genes interaction network comprised 237 nodes.

Genomics-assisted prediction of salt and alkali tolerances and functional marker development in apple rootstocks

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The co-expression network of the DEGs was ana- lyzed using AppleMDO webtools [85].. all markers to the mean phenotype value of the popula- tion [86]. Generation of transgenic apple calli and salt, alkali, and salt – alkali treatments. For the combined salt–alkali stress treatment NaCl + Na 2 CO 3. The control consisted of the callus grown on culture medium without any additions [89].

Fulvic acid ameliorates drought stressinduced damage in tea plants by regulating the ascorbate metabolism and flavonoids biosynthesis

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The co-expression network analysis of DEGs and DEMs in FA-treated tea plants under drought stress. In order to examine the relationship of DEGs and DEMs in FA-treated tea plants during drought stress, the co-expression network analysis of DEGs and DEMs was conducted (Pearson correlation coefficient >. The results showed that the FA could modulate the co-expression of DEGs and DEMs related to ascorbate metabolism, glutathione metabolism and flavonoids biosynthesis during drought stress..