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Difference between revisions of "Template:Coexpression clusters"

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var motifs = ['motif1_TCGNAG','motif2_GCTGGAGG','motif3_CGCTNA','motif4_TGTCTA','motif5_CAGTGT','motif6_AAGACT','motif7_CGNATC','motif8_CCATGN','motif9_ANGGCT','motif10_SCGGAGASN','motif11_GCGANT','motif12_ACTAAG','motif13_GAGGATGCK','motif14_TCNACG','motif15_ACTGTG','motif16_ACCAG','motif17_CGCTAN','motif18_CATCAG','motif19_GYTGGMC','motif20_TGNAGC','motif21_TCTTGA','motif22_GGMCTG','motif23_CGCNAT','motif24_AGAACT','motif25_GATCCN','motif26_CTCCGCAGTA','motif27_CCTGCA','motif28_CGTNCA','motif29_TAGCTCGGCT','motif30_AGNTCC','motif31_AGNCGT','motif32_TRGNMCTNNT','motif33_AGAGCATGAGACGG','motif34_GANCCT','motif35_CGCCYAGA','motif36_AAGGAGRAN','motif37_GCTCGCA','motif38_TCGNCA','motif39_CCAAGT','motif40_ATGCGGAGGAG','motif41_TSACAA','motif42_CGNTCA','motif43_CCCWGT','motif44_TGAAGST','motif45_GCTCNGG','motif46_CGNAGT','motif47_CGAGTN','motif48_CANTCG','motif49_ACAGRG','motif50_GTCCNA','motif51_CGGNTA','motif52_CGNATG','motif53_ANGCTG','motif54_CGNGTA','motif55_CGTTATAGCC','motif56_GANCGT','motif57_AGGCAT','motif58_CGGNAT','motif59_NCWCCARNR','motif60_GCGNAT','motif61_KAYMGMTN','motif62_CGNGAT','motif63_GTNCCA','motif64_AGTCGN','motif65_TNGCGA','motif66_ACCGRTCA','motif67_GNTAAC','motif68_CTTTTAAAC','motif69_RYKNAAATC','motif70_MAATCGC','motif71_CTCCGCW','motif72_CAGAAMC','motif73_GAGCKMGC','motif74_TTKAAAY','motif75_AGCCGAGCGCT','motif76_GGAGCAGCCAAT','motif77_TCCTTGG','motif78_NCGNWGCAWN','motif79_ACATCTACAA','motif80_CTCTGAGAGAA','motif81_NGCAGAA','motif82_TTGAATCGCGG','motif83_TTWTAAA','motif84_GGKTTYT','motif85_TWNNGCSNA','motif86_CGCACAGACCGCGC','motif87_RCGCACWS','motif88_CCCTCTTT','motif89_CGCCGTGTTTA','motif90_TTATATCGC','motif91_TTCTTTCG','motif92_GCGKWWNAA','motif93_TANTMTCTRWAT','motif94_CATYTSA','motif95_AGCGAGCTAGC','motif96_TKNTTCTGTCTN','motif97_TTCCCT','motif98_GCCGAAGATT','motif99_GYGTSANACG','motif100_GCYTNCTC','motif101_NAGCAASA','motif102_GCAAMGT','motif103_CGGCTAWWT','motif104_GTWSGMT','motif105_KTNGNAGWMG','motif106_KCGCANTC','motif107_CGTCTGCGTA','motif108_AACKSARM','motif109_TCNMTMGC','motif110_AGTCGCAGCG','motif111_WWAATYCGCTCC','motif112_CGYGYAWT','motif113_YGAGCTRTG','motif114_AAACCCGCTC','motif115_CATCAACTAC','motif116_CCAARA','motif117_SKSNGCGCTSN','motif118_AATCCGGCT','motif119_TCAAAANCG','motif120_TTSMTGNNGKTG','motif121_TGCAWTGTA','motif122_TACAAYGGM','motif123_TTGATGCAGTGA','motif124_AATNCANCACT','motif125_TTTAACTCGT','motif126_AATGCAGTCG','motif127_TTTTTACCCTC','motif128_NNGNATRCGWN','motif129_CTCGTAATCT','motif130_TTTCAAACNCCC','motif131_CTGCTTAAATA','motif132_TCRCCAGWY','motif133_TWTAWAGTWGRAG','motif134_ATAAGAGAGGC','motif135_TNKYTGCAKA','motif136_GTCTGCGTCTCT','motif137_MAACAGAAGY','motif138_CTTTWANNYCC','motif139_CGTTCGAATT','motif140_WTAAATAACG','motif141_TTAAACGGC','motif142_TCATATAGAGAAGC','motif143_ATGATGTG','motif144_AAKCMSGT','motif145_GMAGWCGMAW','motif146_AGACGAAGA','motif147_ATATCCAGTG','motif148_NTCSYSTYT','motif149_CAAGCTGTACA','motif150_AGCACAGGCG','motif151_GCCYGTGCMKCW','motif152_GCKYRMKCGS','motif153_ACTYNYYATYG','motif154_GRWGGCAARCG','motif155_AATARSTCCC','motif156_ACTGTAGGACMT','motif157_AAACTWACC','motif158_SRCGWYACA','motif159_ACACATACTACA','motif160_AGCCGGTAACG','motif161_CGGCTTGATT','motif162_AGTTACCGTCA','motif163_GARTCGCCCTGTNA','motif164_AGCCGATTTG','motif165_AAAGTTACTG','motif166_TAMAACTTTGS','motif167_TTGGGTAGGAG','motif168_TCTCAGAGTATAAA','motif169_GCCTGGCC'];
 
var motifs = ['motif1_TCGNAG','motif2_GCTGGAGG','motif3_CGCTNA','motif4_TGTCTA','motif5_CAGTGT','motif6_AAGACT','motif7_CGNATC','motif8_CCATGN','motif9_ANGGCT','motif10_SCGGAGASN','motif11_GCGANT','motif12_ACTAAG','motif13_GAGGATGCK','motif14_TCNACG','motif15_ACTGTG','motif16_ACCAG','motif17_CGCTAN','motif18_CATCAG','motif19_GYTGGMC','motif20_TGNAGC','motif21_TCTTGA','motif22_GGMCTG','motif23_CGCNAT','motif24_AGAACT','motif25_GATCCN','motif26_CTCCGCAGTA','motif27_CCTGCA','motif28_CGTNCA','motif29_TAGCTCGGCT','motif30_AGNTCC','motif31_AGNCGT','motif32_TRGNMCTNNT','motif33_AGAGCATGAGACGG','motif34_GANCCT','motif35_CGCCYAGA','motif36_AAGGAGRAN','motif37_GCTCGCA','motif38_TCGNCA','motif39_CCAAGT','motif40_ATGCGGAGGAG','motif41_TSACAA','motif42_CGNTCA','motif43_CCCWGT','motif44_TGAAGST','motif45_GCTCNGG','motif46_CGNAGT','motif47_CGAGTN','motif48_CANTCG','motif49_ACAGRG','motif50_GTCCNA','motif51_CGGNTA','motif52_CGNATG','motif53_ANGCTG','motif54_CGNGTA','motif55_CGTTATAGCC','motif56_GANCGT','motif57_AGGCAT','motif58_CGGNAT','motif59_NCWCCARNR','motif60_GCGNAT','motif61_KAYMGMTN','motif62_CGNGAT','motif63_GTNCCA','motif64_AGTCGN','motif65_TNGCGA','motif66_ACCGRTCA','motif67_GNTAAC','motif68_CTTTTAAAC','motif69_RYKNAAATC','motif70_MAATCGC','motif71_CTCCGCW','motif72_CAGAAMC','motif73_GAGCKMGC','motif74_TTKAAAY','motif75_AGCCGAGCGCT','motif76_GGAGCAGCCAAT','motif77_TCCTTGG','motif78_NCGNWGCAWN','motif79_ACATCTACAA','motif80_CTCTGAGAGAA','motif81_NGCAGAA','motif82_TTGAATCGCGG','motif83_TTWTAAA','motif84_GGKTTYT','motif85_TWNNGCSNA','motif86_CGCACAGACCGCGC','motif87_RCGCACWS','motif88_CCCTCTTT','motif89_CGCCGTGTTTA','motif90_TTATATCGC','motif91_TTCTTTCG','motif92_GCGKWWNAA','motif93_TANTMTCTRWAT','motif94_CATYTSA','motif95_AGCGAGCTAGC','motif96_TKNTTCTGTCTN','motif97_TTCCCT','motif98_GCCGAAGATT','motif99_GYGTSANACG','motif100_GCYTNCTC','motif101_NAGCAASA','motif102_GCAAMGT','motif103_CGGCTAWWT','motif104_GTWSGMT','motif105_KTNGNAGWMG','motif106_KCGCANTC','motif107_CGTCTGCGTA','motif108_AACKSARM','motif109_TCNMTMGC','motif110_AGTCGCAGCG','motif111_WWAATYCGCTCC','motif112_CGYGYAWT','motif113_YGAGCTRTG','motif114_AAACCCGCTC','motif115_CATCAACTAC','motif116_CCAARA','motif117_SKSNGCGCTSN','motif118_AATCCGGCT','motif119_TCAAAANCG','motif120_TTSMTGNNGKTG','motif121_TGCAWTGTA','motif122_TACAAYGGM','motif123_TTGATGCAGTGA','motif124_AATNCANCACT','motif125_TTTAACTCGT','motif126_AATGCAGTCG','motif127_TTTTTACCCTC','motif128_NNGNATRCGWN','motif129_CTCGTAATCT','motif130_TTTCAAACNCCC','motif131_CTGCTTAAATA','motif132_TCRCCAGWY','motif133_TWTAWAGTWGRAG','motif134_ATAAGAGAGGC','motif135_TNKYTGCAKA','motif136_GTCTGCGTCTCT','motif137_MAACAGAAGY','motif138_CTTTWANNYCC','motif139_CGTTCGAATT','motif140_WTAAATAACG','motif141_TTAAACGGC','motif142_TCATATAGAGAAGC','motif143_ATGATGTG','motif144_AAKCMSGT','motif145_GMAGWCGMAW','motif146_AGACGAAGA','motif147_ATATCCAGTG','motif148_NTCSYSTYT','motif149_CAAGCTGTACA','motif150_AGCACAGGCG','motif151_GCCYGTGCMKCW','motif152_GCKYRMKCGS','motif153_ACTYNYYATYG','motif154_GRWGGCAARCG','motif155_AATARSTCCC','motif156_ACTGTAGGACMT','motif157_AAACTWACC','motif158_SRCGWYACA','motif159_ACACATACTACA','motif160_AGCCGGTAACG','motif161_CGGCTTGATT','motif162_AGTTACCGTCA','motif163_GARTCGCCCTGTNA','motif164_AGCCGATTTG','motif165_AAAGTTACTG','motif166_TAMAACTTTGS','motif167_TTGGGTAGGAG','motif168_TCTCAGAGTATAAA','motif169_GCCTGGCC'];
var pval = [</html>{{{tfbs_overrepresentation}}}<html>];
+
var pval = [</html>{{{tfbs_overrepresentation_for_novel_motifs}}}<html>];
 
var data = [];
 
var data = [];
 
for(i1=0;i1<motifs.length;i1++){
 
for(i1=0;i1<motifs.length;i1++){

Revision as of 03:47, 26 November 2012

Full id: {{{full_id}}}


Phase1 CAGE Peaks


Pathway enrichment analysis

Analyst: Emmanuel Dimont


GOStat results on Coexpression cluster

The results for GOStat analysis on co-expressed clusters("All" category). <br>Analyst: Erik Arner

GO IDGO nameFDR corrected p-value
{{{gostat_on_coexpression_clusters}}}


Sample ontology enrichment analysis

The results for enrichment analysis on the data of MCL co-expression cluster. That are sorted by ontologies each samples belonging. <br>Analyst: Hideya Kawaji

Cell Type
Ontology termp-valuen
[[{{{ontology_enrichment_celltype}}}|]]
Uber Anatomy
Ontology termp-valuen
[[{{{ontology_enrichment_uberon}}}|]]
Disease
Ontology termp-valuen
[[{{{ontology_enrichment_disease}}}|]]

TFBS overrepresentation

The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <br>Analyst: Michiel de Hoon

ENCODE TF ChIP-seq peak enrichment analysis

Method: For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br>Analyst: Erick Arner

No analysis results for this cluster


Relative expression of the co-expression cluster

<br>Analyst:

Expression error: Unrecognized punctuation character "{".