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{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,1.02449797682864,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.126728110199234,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|full_id=C127_maxillary_small_hepatoblastoma_hepatocellular_alveolar_colon_argyrophil
|full_id=C127_maxillary_small_hepatoblastoma_hepatocellular_alveolar_colon_argyrophil
|id=C127
|id=C127

Revision as of 13:47, 12 September 2012


Full id: C127_maxillary_small_hepatoblastoma_hepatocellular_alveolar_colon_argyrophil



Phase1 CAGE Peaks

Hg19::chr10:111171762..111171773,-p@chr10:111171762..111171773
-
Hg19::chr10:115327155..115327166,+p5@HABP2
Hg19::chr10:115939099..115939117,+p2@TDRD1
Hg19::chr10:115999510..115999521,+p5@VWA2
Hg19::chr10:1895618..1895626,+p@chr10:1895618..1895626
+
Hg19::chr10:72576444..72576454,+p12@SGPL1
Hg19::chr10:72576468..72576497,+p2@SGPL1
Hg19::chr10:72576503..72576516,+p11@SGPL1
Hg19::chr10:72576547..72576568,+p10@SGPL1
Hg19::chr11:36489757..36489777,+p@chr11:36489757..36489777
+
Hg19::chr11:69633471..69633482,+p@chr11:69633471..69633482
+
Hg19::chr11:69633974..69633997,-p1@FGF3
Hg19::chr11:69634335..69634346,-p6@FGF3
Hg19::chr11:69634506..69634517,-p5@FGF3
Hg19::chr11:71939032..71939040,+p23@INPPL1
Hg19::chr11:78177177..78177186,-p@chr11:78177177..78177186
-
Hg19::chr12:130617921..130617932,+p@chr12:130617921..130617932
+
Hg19::chr12:130617944..130617953,+p@chr12:130617944..130617953
+
Hg19::chr12:130822499..130822514,+p5@PIWIL1
Hg19::chr12:130822519..130822529,+p7@PIWIL1
Hg19::chr12:79406759..79406766,+p@chr12:79406759..79406766
+
Hg19::chr12:79611340..79611358,+p1@AB384875
Hg19::chr12:79611372..79611384,+p2@AB384875
Hg19::chr12:92247545..92247559,-p@chr12:92247545..92247559
-
Hg19::chr12:92247594..92247605,-p@chr12:92247594..92247605
-
Hg19::chr12:92247611..92247618,-p@chr12:92247611..92247618
-
Hg19::chr12:92247626..92247635,-p@chr12:92247626..92247635
-
Hg19::chr12:92247725..92247764,+p@chr12:92247725..92247764
+
Hg19::chr13:101081145..101081150,+p@chr13:101081145..101081150
+
Hg19::chr14:106922517..106922528,-p@chr14:106922517..106922528
-
Hg19::chr14:51338763..51338776,+p3@ABHD12B
Hg19::chr14:51338801..51338814,+p2@ABHD12B
Hg19::chr14:51338816..51338857,+p1@ABHD12B
Hg19::chr14:61952109..61952155,+p@chr14:61952109..61952155
+
Hg19::chr14:79331180..79331190,+p@chr14:79331180..79331190
+
Hg19::chr14:79331221..79331232,+p@chr14:79331221..79331232
+
Hg19::chr14:79331250..79331261,+p@chr14:79331250..79331261
+
Hg19::chr14:79331318..79331327,+p@chr14:79331318..79331327
+
Hg19::chr14:79502968..79502972,+p@chr14:79502968..79502972
+
Hg19::chr15:46241272..46241278,+p@chr15:46241272..46241278
+
Hg19::chr15:46282024..46282028,+p@chr15:46282024..46282028
+
Hg19::chr15:46316623..46316627,+p@chr15:46316623..46316627
+
Hg19::chr15:46351173..46351177,+p@chr15:46351173..46351177
+
Hg19::chr15:46499592..46499596,+p@chr15:46499592..46499596
+
Hg19::chr15:46595297..46595301,+p@chr15:46595297..46595301
+
Hg19::chr15:67649625..67649632,+p10@IQCH
Hg19::chr15:67649672..67649692,+p4@IQCH
Hg19::chr16:50539857..50539869,+p@chr16:50539857..50539869
+
Hg19::chr16:50539874..50539887,+p@chr16:50539874..50539887
+
Hg19::chr16:50581680..50581691,+p@chr16:50581680..50581691
+
Hg19::chr16:50581702..50581732,+p@chr16:50581702..50581732
+
Hg19::chr16:50582222..50582230,+p2@NKD1
Hg19::chr16:50582298..50582316,+p1@NKD1
Hg19::chr16:68420720..68420727,-p@chr16:68420720..68420727
-
Hg19::chr17:17529513..17529535,-p@chr17:17529513..17529535
-
Hg19::chr17:17529540..17529545,-p@chr17:17529540..17529545
-
Hg19::chr17:69077405..69077409,+p@chr17:69077405..69077409
+
Hg19::chr17:79974342..79974365,+p@chr17:79974342..79974365
+
Hg19::chr17:908734..908738,+p3@BC129815
Hg19::chr17:908765..908774,+p2@BC129815
Hg19::chr18:37322033..37322043,+p@chr18:37322033..37322043
+
Hg19::chr18:8625916..8625925,+p@chr18:8625916..8625925
+
Hg19::chr19:36222531..36222539,+p@chr19:36222531..36222539
+
Hg19::chr19:46518842..46518860,+p@chr19:46518842..46518860
+
Hg19::chr19:46519977..46519985,-p@chr19:46519977..46519985
-
Hg19::chr19:46580353..46580358,-p1@AK057802
Hg19::chr19:46580361..46580396,-p2@ENST00000366172
p2@uc002pdz.1
Hg19::chr19:46580415..46580420,-p10@ENST00000366172
p10@uc002pdz.1
Hg19::chr19:46580452..46580460,-p9@ENST00000366172
p9@uc002pdz.1
Hg19::chr19:46580826..46580845,-p3@ENST00000366172
p3@uc002pdz.1
Hg19::chr19:46580912..46580923,-p4@ENST00000366172
p4@uc002pdz.1
Hg19::chr1:11000123..11000131,-p@chr1:11000123..11000131
-
Hg19::chr1:172613350..172613353,+p@chr1:172613350..172613353
+
Hg19::chr1:213822723..213822727,-p@chr1:213822723..213822727
-
Hg19::chr1:213822756..213822765,-p@chr1:213822756..213822765
-
Hg19::chr20:33565400..33565413,+p7@MYH7B
Hg19::chr20:36470640..36470649,+p6@CTNNBL1
Hg19::chr20:36470708..36470717,+p10@CTNNBL1
Hg19::chr20:36470727..36470734,+p11@CTNNBL1
Hg19::chr20:5681874..5681885,+p@chr20:5681874..5681885
+
Hg19::chr21:46193671..46193689,-p9@UBE2G2
Hg19::chr21:46194934..46194979,-p17@UBE2G2
Hg19::chr2:175389279..175389282,+p@chr2:175389279..175389282
+
Hg19::chr2:223043326..223043344,-p@chr2:223043326..223043344
-
Hg19::chr2:99909329..99909333,-p@chr2:99909329..99909333
-
Hg19::chr3:11675723..11675735,-p@chr3:11675723..11675735
-
Hg19::chr3:11675748..11675759,-p@chr3:11675748..11675759
-
Hg19::chr3:11675763..11675778,-p@chr3:11675763..11675778
-
Hg19::chr3:129690202..129690210,-p@chr3:129690202..129690210
-
Hg19::chr3:137483141..137483162,+p1@SOX14
Hg19::chr3:193656555..193656579,-p@chr3:193656555..193656579
-
Hg19::chr3:193678383..193678395,+p@chr3:193678383..193678395
+
Hg19::chr3:195943343..195943360,+p3@OSTalpha
Hg19::chr3:52643526..52643537,-p8@PBRM1
Hg19::chr3:86926149..86926150,+p@chr3:86926149..86926150
+
Hg19::chr3:95928627..95928643,-p@chr3:95928627..95928643
-
Hg19::chr3:95928653..95928656,-p@chr3:95928653..95928656
-
Hg19::chr3:95928667..95928672,-p@chr3:95928667..95928672
-
Hg19::chr3:95928676..95928681,-p@chr3:95928676..95928681
-
Hg19::chr3:95928689..95928701,-p@chr3:95928689..95928701
-
Hg19::chr4:16460563..16460585,+p@chr4:16460563..16460585
+
Hg19::chr5:115481500..115481504,+p@chr5:115481500..115481504
+
Hg19::chr5:146939412..146939419,+p2@LOC153469
Hg19::chr5:146939429..146939436,+p3@LOC153469
Hg19::chr5:16737865..16737876,-p@chr5:16737865..16737876
-
Hg19::chr5:175298205..175298209,-p@chr5:175298205..175298209
-
Hg19::chr5:175298256..175298267,-p@chr5:175298256..175298267
-
Hg19::chr6:138428938..138428953,-p8@PERP
Hg19::chr6:138428975..138428985,-p13@PERP
Hg19::chr6:56507200..56507216,-p@chr6:56507200..56507216
-
Hg19::chr6:56507254..56507276,-p@chr6:56507254..56507276
-
Hg19::chr7:120778392..120778412,-p@chr7:120778392..120778412
-
Hg19::chr7:120789549..120789552,+p44@C7orf58
Hg19::chr7:120789556..120789585,+p11@C7orf58
Hg19::chr7:120789593..120789628,+p10@C7orf58
Hg19::chr7:123634848..123634862,+p1@uc010lkv.1
Hg19::chr7:47728559..47728598,+p@chr7:47728559..47728598
+
Hg19::chr7:80086544..80086546,-p@chr7:80086544..80086546
-
Hg19::chr7:80141328..80141339,-p2@GNAT3
Hg19::chr7:80141358..80141392,-p1@GNAT3
Hg19::chr7:80141406..80141411,-p3@GNAT3
Hg19::chr7:93169246..93169258,+p@chr7:93169246..93169258
+
Hg19::chr8:117816627..117816634,+p@chr8:117816627..117816634
+
Hg19::chr8:117816648..117816663,+p@chr8:117816648..117816663
+
Hg19::chr8:48079099..48079105,-p@chr8:48079099..48079105
-
Hg19::chr8:48079110..48079116,-p@chr8:48079110..48079116
-
Hg19::chr8:74985038..74985063,+p@chr8:74985038..74985063
+
Hg19::chr9:11935598..11935637,+p@chr9:11935598..11935637
+
Hg19::chr9:135932153..135932160,+p@chr9:135932153..135932160
+
Hg19::chr9:140335777..140335785,-p3@ENTPD8
Hg19::chr9:140335789..140335818,-p1@ENTPD8
Hg19::chr9:140348364..140348386,-p@chr9:140348364..140348386
-
Hg19::chr9:140348397..140348421,-p@chr9:140348397..140348421
-
Hg19::chr9:140348438..140348460,-p@chr9:140348438..140348460
-
Hg19::chrX:10645724..10645735,-p12@MID1
Hg19::chrX:11455274..11455297,-p@chrX:11455274..11455297
-
Hg19::chrX:11460430..11460434,-p@chrX:11460430..11460434
-
Hg19::chrX:11502792..11502801,-p@chrX:11502792..11502801
-
Hg19::chrX:11502822..11502831,-p@chrX:11502822..11502831
-
Hg19::chrX:11503012..11503022,-p@chrX:11503012..11503022
-
Hg19::chrX:151620193..151620201,-p4@GABRA3


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data

No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism1.36e-31115
neural tube2.09e-2657
neural rod2.09e-2657
future spinal cord2.09e-2657
neural keel2.09e-2657
central nervous system2.53e-2482
regional part of nervous system7.65e-2194
nervous system7.65e-2194
regional part of brain1.02e-2059
brain1.81e-2069
future brain1.81e-2069
anterior neural tube1.85e-2042
regional part of forebrain1.98e-2041
forebrain1.98e-2041
future forebrain1.98e-2041
neural plate1.55e-1886
presumptive neural plate1.55e-1886
neurectoderm5.00e-1890
telencephalon1.10e-1634
gray matter1.35e-1634
brain grey matter1.35e-1634
regional part of telencephalon3.92e-1633
cerebral hemisphere1.23e-1532
ectoderm-derived structure2.86e-14169
ectoderm3.75e-14173
presumptive ectoderm3.75e-14173
anterior region of body1.44e-13129
craniocervical region1.44e-13129
regional part of cerebral cortex2.56e-1322
pre-chordal neural plate3.46e-1361
head2.32e-12123
neocortex2.56e-1220
cerebral cortex4.09e-1225
pallium4.09e-1225
organ3.23e-11511
embryo3.41e-07612
posterior neural tube3.83e-0715
chordal neural plate3.83e-0715


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>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. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> 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><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data

No analysis results for this cluster

Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data

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