lncBodyMap   >>  


Adrenal_Gland: WGCNA Modules and Pathway enrichments

Weighted gene coexpression analysis (WGCNA) of the Adrenal_Gland RNA-seq resulted in identification of modules comprising of protein coding genes and lncRNAs with correlated expression patterns. The genes in the coexpression modules were subjected to pathway enrichment to identify pathways in which the genes in the modules significantly enrich. Shown below is a graphical summary comprising of the modules and the pathways terms to which the genes in the respective module associate with. Viewers can shortlist the modules of interest based on the biological process of interest.


Graphical Summary of WGCNA modules


Significant Modules/Pathways

Genes in the coexpression modules identified by WGCNA analysis were further analyzed for pathway enrichment. All the pathways in which the genes from the coexpression modules significantly (q value < 0.05) enrich for are presented below. Viewers can browse the table or search for key pathway terms in the "search" window.
Full pathway enrichment results and the adjacency matrix of the modules of interest can be downloaded below:
Download: [ Modules Full list (CSV), Adjacency Matrices (tar.gz) ] or 
Adjacency Matrix per Module:
    M1 module
    M2 module
    M3 module
    M4 module
    M5 module
    M6 module
    M7 module
    M8 module
    M9 module
    M10 module
    M11 module
    M12 module
    M13 module
    M14 module
    M15 module
    M16 module
    M17 module
    M18 module
    M19 module
    M20 module
    M21 module
    M22 module
    M23 module
    M24 module
    M25 module
    M26 module
    M27 module
    M28 module
    M29 module
    M30 module
    M31 module
    M32 module
    M33 module
    M34 module
    M35 module
    M36 module
    M37 module
    M38 module
    M39 module
    M40 module
    M41 module
    M42 module



Notable Pathways:

To facilitate network analysis of the Adrenal_Gland RNA seq data, 25 notable pathways from the pathway enrichment data was selected. For each pathway, network image and json file was generated that comprises of the gene (in the indicated pathway) along with correlated lncRNAs. Viewers can look at the PNG file to view the network of download and open the cyjs file in Cytoscape for further exploration. (Green circular nodes: protein-coding genes, Orange triangle: lncRNAs)
 Module   ID  Gene Ratio  qvalue  Gene Count  Total Genes in module   lncrnas in module   Plot  Cytoscape JSON file
 M1  GO RIBONUCLEOPROTEIN COMPLEX BIOGENESIS   81/1868   0.002565013  81  2987  530  cyjs file 
 M16  GO MULTI ORGANISM METABOLIC PROCESS   81/227   6.31E-118  81  326  50  cyjs file 
 M12  GO ACTIVATION OF IMMUNE RESPONSE   52/327   9.45E-24  52  437  46  cyjs file 
 M3  GO SECRETION BY CELL   51/782   4.59E-06  51  1200  184  cyjs file 
 M3  GO REGULATION OF VESICLE MEDIATED TRANSPORT   45/782   0.000131789  45  1200  184  cyjs file 
 M6  GO COFACTOR METABOLIC PROCESS   45/463   2.37E-16  45  731  138  cyjs file 
 M11  GO BLOOD VESSEL MORPHOGENESIS   44/353   2.29E-18  44  461  43  cyjs file 
 M6  GO SMALL MOLECULE CATABOLIC PROCESS   44/463   5.93E-16  44  731  138  cyjs file 
 M12  GO REGULATION OF IMMUNE EFFECTOR PROCESS   42/327   5.34E-16  42  437  46  cyjs file 
 M3  GO REGULATION OF HORMONE LEVELS   40/782   0.007475003  40  1200  184  cyjs file 
 M6  GO GLYCOSYL COMPOUND METABOLIC PROCESS   37/463   8.14E-10  37  731  138  cyjs file 
 M12  GO ADAPTIVE IMMUNE RESPONSE   35/327   6.31E-16  35  437  46  cyjs file 
 M3  GO REGULATION OF TRANSMEMBRANE TRANSPORT   35/782   0.02076442  35  1200  184  cyjs file 
 M6  GO CELLULAR RESPIRATION   34/463   1.35E-19  34  731  138  cyjs file 
 M6  GO FATTY ACID METABOLIC PROCESS   34/463   1.58E-10  34  731  138  cyjs file 
 M12  GO LYMPHOCYTE ACTIVATION   33/327   2.28E-12  33  437  46  cyjs file 
 M18  GO POSITIVE REGULATION OF CATABOLIC PROCESS   32/202   2.46E-16  32  262  22  cyjs file 
 M6  GO CELLULAR AMINO ACID METABOLIC PROCESS   32/463   4.53E-08  32  731  138  cyjs file 
 M18  GO REGULATION OF INNATE IMMUNE RESPONSE   31/202   1.22E-16  31  262  22  cyjs file 
 M3  GO REGULATION OF BLOOD CIRCULATION   28/782   0.00888355  28  1200  184  cyjs file 
 M6  GO LIPID CATABOLIC PROCESS   26/463   2.87E-07  26  731  138  cyjs file 
 M6  GO CELLULAR LIPID CATABOLIC PROCESS   23/463   2.24E-09  23  731  138  cyjs file 
 M20  GO BLOOD VESSEL MORPHOGENESIS   22/189   2.11E-08  22  247  30  cyjs file 
 M3  GO REGULATION OF HEART CONTRACTION   22/782   0.018882369  22  1200  184  cyjs file