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Functional enrichment

Tìm thấy 18+ kết quả cho từ khóa "Functional enrichment"

Genome-wide identification and functional prediction of long non-coding RNAs in Sprague-Dawley rats during heat stress

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In the liver, functional enrichment analysis of the 364 genes revealed. Furthermore, 26 BPs were identified in the adrenal glands ( P <. a The Pheatmap of the top20 DElncRNAs in liver and adrenal glands. b The Pheatmap of commonly identified DElncRNAs in liver and adrenal glands.

Protein expression profiles in Meishan and Duroc sows during mid-gestation reveal differences affecting uterine capacity, endometrial receptivity, and the maternal– fetal Interface

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Functional clustering of DEPs at days 49 and days 72 To characterize the differences in endometrium protein profiles between Meishan and Duroc pigs, proteins from each developmental stage were compared, and then the DEPs were subjected to functional enrichment analysis.. 3 Correlation and functional enrichment analysis. At day 72, 98 DEPs (56 increased and 42 decreased) were identified between the two breeds (Additional file 4:.

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

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To investigate the roles of the lncRNAs, we per- formed KEGG functional enrichment analysis of the cis and trans targets of the putative flowering lncRNAs. Comparison of the trans targets of positive and negative flowering lncRNAs revealed that a consider- able number of targets (1653 genes) co-expressed with both types of lncRNAs (Fig. Functional enrichment analysis of the targets of differentially expressed lncRNAs.

Transcriptome analysis provides insights into copper toxicology in piebald naked carp (Gymnocypris eckloni)

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Therefore, the expression levels of genes involved in oxidative stress response and protein synthesis were measured using qPCR. 4 The differentially expressed genes (a), functional enrichment (b), and length distribution (c) in the gills after 72 h of copper ion treatment compared with control. 5 The differentially expressed genes (a), functional enrichment (b), and length distribution (c) in the liver after 72 h of copper ion treatment compared with control. 7 Expression levels of genes involved

Identification and characterization of immune-related lncRNAs and lncRNAmiRNA-mRNA networks of Paralichthys olivaceus involved in Vibrio anguillarum infection

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To gain insight into the biological processes in which the DElncRNAs were involved, functional enrichment network was constructed based on DElncRNA-DETG interactions and functional enrichment of the DETGs (Fig.

A global analysis of CNVs in Chinese indigenous fine-wool sheep populations using whole-genome resequencing

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Functional annotation of the identified CNVRs. To further investigate the function of these CNVRs, functional enrichment analysis of the CNVR-harboring genes was performed.

Network analysis uncovers putative genes affecting resistance to tick infestation in Braford cattle skin

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Table 2 Functional enrichment of non-redundant differentially expressed genes presenting higher variation in the skin of tick- resistant Braford cattle after tick infestation. Table 2 Functional enrichment of non-redundant differentially expressed genes presenting higher variation in the skin of tick- resistant Braford cattle after tick infestation (Continued).

Comparative transcriptome analysis reveals that PCK1 is a potential gene affecting IMF deposition in buffalo

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In the present study, how- ever, these five genes did not show differential expres- sion between buffalo and cattle muscle tissues, and no item marked with “ carbohydrate metabolism ” was identi- fied in our functional enrichment analysis. 0.01), was identified by the functional enrichment of the DE coexpressed mRNAs (Fig. 7 Promoter activity of buffalo and cattle PCK1 in adipocytes and myoblasts. a Putative promoter regions of buffalo and cattle PCK1 were cloned for activity analysis.

Identifying critical state of complex diseases by single-sample Kullback–Leibler divergence

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Third, it should be noted that sKLD is a model-free method, which implies that in the sKLD strategy there is neither feature selection nor model/parameter training Table 6 The functional enrichment of common “ sKLD-signaling genes ” in the critical stage samples for STAD.

Third-generation sequencing found LncRNA associated with heat shock protein response to heat stress in Populus qiongdaoensis seedlings

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Functional annotation of the target gene revealed that most of these target genes are involved in heat stress response. qiongdaoensis under heat stress.. qiongdaoensis under heat stress. Functional enrichment analysis indicates that these miRNAs, lncRNAs and genes play an im- portant role in the response to heat stress P. Plant materials and heat-stress treatment. mean significant difference between control and heat stress at P ≤ 0.01.

Development and comparison of RNAsequencing pipelines for more accurate SNP identification: Practical example of functional SNP detection associated with feed efficiency in Nellore beef cattle

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Briefly, the annotated genes of the detected SNPs fixed within the low- or high-RFI group using Approach iii) were input as a low-RFI gene list and high-RFI gene list using ‘ToppFun’ function for gene list functional enrichment analysis. High-RFI: High-residual feed intake (low feed efficient). RNA-Seq: RNA- sequencing. AC and SL analysed and interpreted the data regarding the comparison of the RNA-Seq pipelines and performed the functional analysis.

Human gene expression variability and its dependence on methylation and aging

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In order to understand the overall biological significance of EV, we examined the functional aspects that are enriched in the Hyper-Variable, Hypo-Variable, and Non- Variable probe-mapped gene sets by conducting a gene set enrichment analysis in each category. We conducted a functional enrichment analyses of the gene symbols.

Transcriptomic profiles of Dunaliella salina in response to hypersaline stress

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On the other hand, the functional enrichment of the down-regulated genes was also performed by GO (Additional file 1: Table S3). These terms are also important for un- derstanding the hypersaline stress of Dunaliella salina, however, this paper only focuses on the analysis of the terms enriched by the up-regulated genes..

Cestode strobilation: Prediction of developmental genes and pathways

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As tapeworm strobilation is a developmental process, we performed a functional enrichment of the initial set of 1813 tapeworm strobilation-related orthogroups. 2 Summary of tapeworm and fluke orthogroups and functional enrichment of the tapeworm orthogroups selected as strobilation- related. The differentially expressed ortholo- gous genes in the larval and adult stages of the non stro- bilated flukes S. mapped as components of the Wnt pathway.

Candidate gene screening for lipid deposition using combined transcriptomic and proteomic data from Nanyang black pigs

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The KEGG functional enrichment analysis of the DEPs re- vealed that the TCA cycle, pyruvate metabolism, and. Yellow: lipid deposition-related gene. B: qRT-PCR of the 14 DEGs from the LD and backfat (BF) tissues.

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

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Additionally, we found the mRNAs significantly enriched in many pathways according to the GO and KEGG functional enrichment analyses. Finally, the lncRNA-mRNA interaction network was constructed using the Pearson correlation coefficients, based on the FPKM values of the lncRNAs and mRNAs.

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

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To investigate functions of genes in our significant gene co- expression modules, we conducted functional enrichment analysis using the hypergeometric test based on Gene Ontology database and performed protein-protein inter- action analysis using STRING v11 database with default set- tings (https://string-db.org. The details of the tissue/. To test whether human orthologues of ketosis-candidate genes are associated with similar traits in humans. Summary of RNA-Seq data mapping information..

Alternative Polyadenylation in response to temperature stress contributes to gene regulation in Populus trichocarpa

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But the mech- anism of the specificity requires further information from functional analysis of proteins involved in the polyA site selection.. 6 The functional enrichment of genes undergone APA under heat and cold stresses. b the enriched KEGG pathways under heat stress. Y-axis indicates the – log (corrected p -value). Purified RNA was fragmented, and reverse transcription was per- formed with a modified RT primer harboring dT18 and two additional anchor nucleotides at the 3′ terminus..

Species and population specific gene expression in blood transcriptomes of marine turtles

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Functional enrichment analysis results for contrasts between green turtle foraging aggregations.. Green turtle GO slim plots.

Genome-wide association analysis of adaptation to oxygen stress in Nile tilapia (Oreochromis niloticus)

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Functional enrichment for the early stage in the hypoxic environment.. Functional enrichment for the early stage in the normoxic environment.. The funding bodies played no role in design of the study and data collection, analysis, and result interpretation in the manuscript.. The genotype and phenotype data generated or analysed during this study are in the Harvard Dataverse repository with accession number KCBEON, which can be accessed at https://doi.org/10.7910/DVN/KCBEON.