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genego's metacore database  (GeneGo Inc)

 
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    GeneGo Inc genego's metacore database
    Genego's Metacore Database, supplied by GeneGo Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/genego+metacore+database/genego+metacore+database/pmc02547861-221-25-24
    Average 90 stars, based on 1 article reviews
    genego's metacore database - by Bioz Stars, 2026-09
    90/100 stars

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    Related Articles

    Infection:

    Article Title: Blood Transcriptional Profiling Reveals Immunological Signatures of Distinct States of Infection of Humans with Leishmania infantum
    Article Snippet: .. To obtain insights into the regulation of canonical pathways reflected by the transcriptional profiles from distinct states of infection with L . infantum , we analyzed the enrichment of up-regulated or down-regulated DEGs on pathway maps annotated in the GeneGO Metacore database ( ). ..

    Article Title: Prion infections and anti-PrP antibodies trigger converging neurotoxic pathways.
    Article Snippet: .. We then examined the involvement of pathways from the GeneGo MetaCore database that had been described to be activated upon prion infection, such as the ER stress response [9], ERK inhibition [26,27], autophagy [28], CCL2 signaling [29], and TNF-ROS-casp3 [29,30]. ..

    Construct:

    Article Title: Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation
    Article Snippet: .. The network is constructed using GeneGo MetaCore database [ ]. ..

    Article Title: Comparative Analysis of TCDD-Induced AhR-Mediated Gene Expression in Human, Mouse and Rat Primary B Cells
    Article Snippet: .. The network was constructed using GeneGo Metacore database (GeneGo, Inc., St Joseph, MI) with a maximum number of steps set to 2. ..

    Microarray:

    Article Title: Molecular signatures of neutrophil extracellular traps in human visceral leishmaniasis
    Article Snippet: .. We recently demonstrated that, compared to asymptomatic individuals or controls, microarray data expression from whole blood of VL patients was associated with the perturbation of several immune related pathways annotated in the GeneGO Metacore database [ ]. ..

    Expressing:

    Article Title: Molecular signatures of neutrophil extracellular traps in human visceral leishmaniasis
    Article Snippet: .. We recently demonstrated that, compared to asymptomatic individuals or controls, microarray data expression from whole blood of VL patients was associated with the perturbation of several immune related pathways annotated in the GeneGO Metacore database [ ]. ..

    RNA sequencing:

    Article Title: The role of Twist1 in mutant huntingtin–induced transcriptional alterations and neurotoxicity
    Article Snippet: .. The core regulatory network was assembled using the knowledge-based GeneGO MetaCore database from 1217 differentially expressed genes between Htt-72Q– and Htt-25Q–expressing cortical neurons in RNA-Seq analysis (genes with FDR < 0.05, |log 2 FC| > 1, and average CPM > 0.5 from Table S1 ) and was composed of 13 transcription factors (TFs) (|log 2 FC| > 1.5) that interact with one or more TFs and 20 target genes that are regulated by at least two of the 13 TFs, with a total of 77 interactions ( and Table S5 ). ..

    Binding Assay:

    Article Title: Systems-based Analysis of RIG-I-dependent Signaling Identifies KHSRP as an Inhibitor of RIG-I Receptor Activation
    Article Snippet: .. Two protein-protein binding databases were compared, an aggregated public database that was previously used and the commercial GeneGo MetaCore database ( http://portal.genego.com/ ) , . .. A subset of GeneGo interactome (v3.3.1) consisting of 814,128 interactions was extracted using Metabase R-script Library, where we excluded low-confident interactions derived from data mining, or from publications with high-throughput screens, as well as those derived based on co-expression similarity calculations.

    other:

    Article Title: Identification of Novel Equine ( Equus caballus ) Tendon Markers Using RNA Sequencing
    Article Snippet: The pathways (groups of genes belonging to the same pathway map in GeneGo Metacore database: https://portal.genego.com/ ) were selected on the basis of the relevance to various biological processes (Treshold = 2; p -Treshold = 0.05).

    Inhibition:

    Article Title: Prion infections and anti-PrP antibodies trigger converging neurotoxic pathways.
    Article Snippet: .. We then examined the involvement of pathways from the GeneGo MetaCore database that had been described to be activated upon prion infection, such as the ER stress response [9], ERK inhibition [26,27], autophagy [28], CCL2 signaling [29], and TNF-ROS-casp3 [29,30]. ..



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    Transcriptional regulatory network of mutant Htt–expressing cortical neurons. A mutant Htt–associated transcriptional network was generated from differentially expressed genes (FDR < 0.05, average CPM > 0.5) identified by RNA-Seq analysis with the primary cortical neuron model of HD, using GeneGo <t>MetaCore</t> as described under “Experimental procedures.” 77 interactions with 13 transcription factors (oval, |log2FC| > 1.5) and 20 targets (box, |log2FC| > 1) are shown. The connections between genes represent transcriptional regulation, protein binding, or posttranslational modification (phosphorylation). Color denotes log2FC. See also Table S5.
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    Distribution of networks built by randomly selected genes. From a total of 24,847 genes, we randomly generated 6 sets of gene lists, with each set containing 100 gene lists. Each set contained 50, 100, 200, 300, 400, or 500 genes, denoted by R50, R100, R200, R300, R400, and R500, respectively. Networks were built from each gene list using <t>MetaCore</t> GeneGo database and were used to calculate a 95% CI curve. GWAS denotes network from GWAS data; FFPE denotes network from transcriptomic profiling data; and GWAS+FFPE+core denotes networks built from combining GWAS data, transcriptomic profiling data, and a core gene list.
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    Image Search Results


    Transcriptional regulatory network of mutant Htt–expressing cortical neurons. A mutant Htt–associated transcriptional network was generated from differentially expressed genes (FDR < 0.05, average CPM > 0.5) identified by RNA-Seq analysis with the primary cortical neuron model of HD, using GeneGo MetaCore as described under “Experimental procedures.” 77 interactions with 13 transcription factors (oval, |log2FC| > 1.5) and 20 targets (box, |log2FC| > 1) are shown. The connections between genes represent transcriptional regulation, protein binding, or posttranslational modification (phosphorylation). Color denotes log2FC. See also Table S5.

    Journal: The Journal of Biological Chemistry

    Article Title: The role of Twist1 in mutant huntingtin–induced transcriptional alterations and neurotoxicity

    doi: 10.1074/jbc.RA117.001211

    Figure Lengend Snippet: Transcriptional regulatory network of mutant Htt–expressing cortical neurons. A mutant Htt–associated transcriptional network was generated from differentially expressed genes (FDR < 0.05, average CPM > 0.5) identified by RNA-Seq analysis with the primary cortical neuron model of HD, using GeneGo MetaCore as described under “Experimental procedures.” 77 interactions with 13 transcription factors (oval, |log2FC| > 1.5) and 20 targets (box, |log2FC| > 1) are shown. The connections between genes represent transcriptional regulation, protein binding, or posttranslational modification (phosphorylation). Color denotes log2FC. See also Table S5.

    Article Snippet: The core regulatory network was assembled using the knowledge-based GeneGO MetaCore database from 1217 differentially expressed genes between Htt-72Q– and Htt-25Q–expressing cortical neurons in RNA-Seq analysis (genes with FDR < 0.05, |log 2 FC| > 1, and average CPM > 0.5 from Table S1 ) and was composed of 13 transcription factors (TFs) (|log 2 FC| > 1.5) that interact with one or more TFs and 20 target genes that are regulated by at least two of the 13 TFs, with a total of 77 interactions ( and Table S5 ).

    Techniques: Mutagenesis, Expressing, Generated, RNA Sequencing Assay, Protein Binding, Modification

    Distribution of networks built by randomly selected genes. From a total of 24,847 genes, we randomly generated 6 sets of gene lists, with each set containing 100 gene lists. Each set contained 50, 100, 200, 300, 400, or 500 genes, denoted by R50, R100, R200, R300, R400, and R500, respectively. Networks were built from each gene list using MetaCore GeneGo database and were used to calculate a 95% CI curve. GWAS denotes network from GWAS data; FFPE denotes network from transcriptomic profiling data; and GWAS+FFPE+core denotes networks built from combining GWAS data, transcriptomic profiling data, and a core gene list.

    Journal: EBioMedicine

    Article Title: Multi-Omics Analysis Reveals a HIF Network and Hub Gene EPAS1 Associated with Lung Adenocarcinoma

    doi: 10.1016/j.ebiom.2018.05.024

    Figure Lengend Snippet: Distribution of networks built by randomly selected genes. From a total of 24,847 genes, we randomly generated 6 sets of gene lists, with each set containing 100 gene lists. Each set contained 50, 100, 200, 300, 400, or 500 genes, denoted by R50, R100, R200, R300, R400, and R500, respectively. Networks were built from each gene list using MetaCore GeneGo database and were used to calculate a 95% CI curve. GWAS denotes network from GWAS data; FFPE denotes network from transcriptomic profiling data; and GWAS+FFPE+core denotes networks built from combining GWAS data, transcriptomic profiling data, and a core gene list.

    Article Snippet: Networks were built from each gene list using MetaCore GeneGo database and were used to calculate a 95% CI curve.

    Techniques: Generated