User: adR

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adR50
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Posts by adR

<prev • 44 results • page 2 of 5 • next >
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correlation of genes
... Hello Dear Biostars, I would like to ask biology here. If a gene from tissue A shows a correlation with the gene in tissue B, does that tell something that both tissues might have a connection for some function? The data type is gene expression(RNA seq). Best, Amare ...
correlation rna-seq written 5 weeks ago by adR50 • updated 5 weeks ago by JC12k
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correlation of genes from two data sets
... Hi I have gene expression data from two different tissues of the same mice/organism. Let say tissue A and tissue B. The number and type of genes are similar in both tissues. I want to do a correlation analysis between genes of tissue A and Genes of tissue B. Here I created a simulation data and my ...
R correlation rna-seq written 7 weeks ago by adR50
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Comment: C: How to compare coexpression networks from two conditions with different sample s
... @kevin Blighe, could please give some more information on these vertex degree, hub score, and community structure? I am just doing correlation for two different conductions with the same number and type of genes and would like to understand how they can help me to compare my correlation matrixes Th ...
written 8 weeks ago by adR50
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gene network analysis
... Hi Dears, I want to study gene network analysis considering two independent KEGG enrichment results( two different tissues). So what I want to do is looking for the genes which are highly networked using the enrichment information of both together. One method I tried was **cnetplot using a clusterp ...
R network tutorial rna-seq written 8 weeks ago by adR50 • updated 8 weeks ago by Kevin Blighe67k
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Comment: C: How I can study cross-talk from two different tissue using gene expression profi
... Thanks for the answer Hamid! One more time If I can ask, is there any tool you know that integrate gene expression data to protein so that I may play and test my hypothesis. If It is totally impossible to test such question using RNAseq data, then I may look for something else. Thanks again! ...
written 9 weeks ago by adR50
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How I can study cross-talk from two different tissue using gene expression profile
... Hi every one, I am wondering if anyone knows how to find cross-tissue communication signaling using gene expression data set. I have a gene expression profile of two different but inter-connected tissue. I want to get an idea of how these tissues are communicating at the molecular level. So far, I ...
R rna-seq written 9 weeks ago by adR50
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Signal pathway impact analysis
... Hello Dears, I am just wondering if there is a way to apply a Bioconductor package SPIA for KEGG metabolic pathway. I found it interesting for the signaling pathway but couldn't see any pathway related to metabolism from my own analysis. Anyone knew this please share with me how I can apply to th ...
pathway R written 10 weeks ago by adR50 • updated 5 weeks ago by Biostar ♦♦ 20
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Comment: C: how to apply volcano plot for genes predicting a phenotype
... Yes I would like to colour shade the genes based on BMI! Thanks Kevin! ...
written 11 weeks ago by adR50
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Comment: C: how to apply volcano plot for genes predicting a phenotype
... Hi Kevin, I have a list of genes which predict a continuous variable BMI. I have no groups which I would like to compare but I would like to show positively and negatively correlated genes with BMI. For these purpose I am thinking to use regression estimate and pvalue. Do you think I can do that in ...
written 12 weeks ago by adR50
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how to apply volcano plot for genes predicting a phenotype
... Hey guys, Is it an intuitive way using volcano plots genes that predict a continuous phenotype e.g BMI? I know it perfectly works for differentially expressed genes. I would be happy if someone can give me some directions. Best, Amare ...
R enchanced volcanoplots volcanoplot written 12 weeks ago by adR50

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