Personal tools

Coexpression cluster:C2046: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 1: Line 1:
{{Coexpression_clusters
{{Coexpression_clusters
|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0.0253380123032954,0,0,0,0,0,0,0,0,0,0.0372239667998708,0.0333255213310128,0.0155640985116367,0,0,0,0,0.0159384837110379,0,0,0,0,0,0.0964822187125919,0,0,0.0426472287497177,0,0,0,0.0554288857959305,0,0,0,0.059471406951755,0.0585869700440155,0.0395881292649441,0,0.144563486206373,0.128640158021542,0,0,0.0221345758837793,0,0.044019022825629,0.0426676010358367,0,0,0,0.0970731863693385,0,0.0953422116818955,0,0.105135476638947,0.0486718136065485,0.230946156920246,0.187012391839,0,0,0.0443862920286938,0,0,0,0.0440072811169217,0.0570307631790775,0.0170468433221759,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.280869378833208,0.213187946149763,0,0,0.0140556982955259,0.127066815687248,0,0.0042968548362333,0,0.100524817320763,0.133474480407003,0,0,0,0,0,0,0,0,0.946675252399269,0.727141313119475,0.922422395023726,0.822504148534141,0.810986884786895,1.00750193763997,0.845292291218133,0.724187312883846,0.774883438969943,1.10152842157736,1.08706089821054,1.10755112449608,1.05720432492548,1.01314525443398,1.12524149328767,1.05363620749361,1.00348620238328,1.08383540774255,0.933161959696748,0.876203177220254,0.948561931759736,0.167220434664695,0,0,0,0.0517815087208527,0,0,0.0659164972702785,0.177995261461346,0,0.0804327189696994,0.234429394610289,0.410789062203203,0.214008328288423,0.0306050835163469,0.0988023447642315,0,0.0436754743089772,0.375560520636921,0.0149268573621232,0,0,0,0.0250231115329353,0,0.0213518831813891,0,0,0,0,0,0,0,0,0,0,0.264083613245539,0,0,0,0.056986891976762,0.0212980973874494,0,0,0.018547768587321,0,0,0,0,0,0,0,0,0,0,0.0249913395934798,0.0270248130898286,0.0238698307237727,0.0409115770312979,0,0,0,0,0,0,0,0,0,0,0.0227189911195968,0,0,0,0,0,0.301628957602646,0.190324262888429,0,0,0,0,0,0,0.0098697068735087,0,0.0072946970136028,0,0,0,0,0,0,0,0.065524654332322,1.28068033259917,1.17242826660535,1.44598554087732,0,0,0,0.0759987250879058,0.0411959670084258,0,0,0,0,0,0,0.0716629827754725,0,0,0,0.0104980074297058,0,0,0,0,0,0,0,0.0077600540981627,0,0,0,0,0,0.051206238195096,0,0,0,0,0,0,0,0.193936859517678,0,0,0,0,0,0,0,0,0.0466451378069441,0,0,0,0,0,0,0,0,0,0.0338472174250825,0.165677980805453,0,0.0336314698420933,0,0.121395776796335,0,0.135259075394266,0.025130215685849,0,0,0,0,0,0,0,0,0,0,0,0.00277358507336296,0,0,0.0816237948221813,0,0.00670242638158285,0,0,0,0,0.0581251577752225,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.314554426376766,0.479800313615724,0.598114564090038,0.665385327591128,0,0,0,0,0,0,0,0,0,0,0.0809204694629444,0,0,0,0,0,0,0.0311120524600587,0,0,0.0221562293162451,0,0.0355204411879812,0.0185203277107455,0,0,0.0260799816909174,0,0,0,0,0.101300957769903,0,0,0,0,0,0,0,0,0,0,0,0.0205995959538448,0,0,0,0,0.0763365308398045,0,0.0473601724108001,0,0,0.054081314619107,0,0,0,0.0636295832405725,0,0,0,0.10189484167968,0,0,0.0203504163566182,0,0,0.0678648064197697,0,0,0,0,0.111397536387531,0,0.152211768507524,0,0,0,0,0.274705234976406,0.231337496347395,0,0.0774840089871068,0.0595013164145895,0,0.143720295652006,0,0.092929716227202,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0969702330272015,0,0,0,0,0,0,0,0,0,0,0.0519797593570815,0.095538322730246,0,0,0.299939478734351,0.085927862304962,0,0,0,0,0,0,0,0,0.0178084675523808,0,0.282720657359276,0.246860565723716,0,0.0211437342385579,0,0,0,0,0,0.146751418678924,0,0,0,0.0385280079017836,0,0,0,0.194582966922528,0,0,0,0,0,0,0,0.0341313022180871,0,0,0,0.136794782826479,0,0,0.0740370864888572,0,0,0,0,0.107157256199878,0.0190312847642998,0.311532009875218,0,0,0,0,0,0,0,0.0766487058255643,0,0,0.0287100059321783,0,0.14999995822066,0.101573401597197,0.103551833417506,0,0,0,0.026305991200413,0.504755939957845,0,0,0,0.0471971940941162,0.183230124976984,0.172187014549508,0,0.203727092635438,0.0570796948723415,0.00610526230009335,0,0,0,0,0,0,0.049385121926542,0.0202996665176856,0,0.289674511953251,0.138634960200695,0,0,0,0.117298608206931,0.0183655604191154,0.139824685950746,0,0,0.0595887750939149,0,0,0.157698073156171,0,0,0.0447888731272552,0.0343887543941694,0,0,0,0.0123529181538371,0.0216030789840009,0,0,0.0867990884895375,0.0372345204864606,0,0,0,0.480377760234161,0.237317092607162,0.741527119007924,0.207987149435883,0.253833435457749,0.249335480031382,0.313354242738078,0,0,0,0.0171970732235436,0.0141643201789606,0.0050677592991188,0.0199810269799673,0,0.0647231005398028,0.0323699351672233,0.0126652952465387,0,0,0,0.0497989345555453,0,0.0885992966038691,0.118489820714658,0.0416080517422001,0,0,0.11709348206417,0.167817312339998,0.0491952642346548,0,0,0.061367927484915,0,0,0,0.0443557613013715,0.0440759090637212,0,0.151085907562963,0.0116498922658173,0,0,0.307810634884982,0.251772360738633,0.471309475775122,0.348148839252852,0,0,0,0.0790082161590785,0.161172629305885,0.088457666127593,0.0462602741111948,0,0,0.0571029352778762,0.0588165083115251,0.150579717892474,0.0303683883268065,0.137537165784479,0,0.0255724795401185,0,0,0,0,0,0,0,0,0,0,0,0,0.0152632877566528,0,0.064400303912002,0,0,0.031340424028527,0,0.0358717659774601,0,0,0,0,0.0725618668317725,0,0,0.0727684793044645,0,0,0,0,0,0.0774983624147655,0,0,0.0452211708913631,0,0.066478294889431,0,0,0.077037350719103,0,0,0,0,0,0.0128025031915575,0,0,0,0,0.032401505438331,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0993065657552758,0.191635249296839,0.0321604437118685,0.0251965562002511,0.0334966634129058,0.0281311349329958,0.0171871181886544,0,0,0,0,0,0,0.113989594099369,0,0.177807641842697,0,0.125394621167623,0,0.0176160009216872,0,0.0389365540082927,0,0.0407972803666135,0.0756372526246955,0,0,0.221869214995554,0,0,0,0,0,0.029221504799661,0.147578602239411,0,0.0487161931533547,0.100432824979338,0,0.0242585478973525,0,0.0622638840012762,0.0480588092297004,0,0.333849486191643,0,0,0.137487054383555,0,0,0,0,0,0,0,0,0,0,0,0.04479482281067,0.04335192019789,0,0.0438394077697367,0,0,0.0930853961990085,0.11519878696711,0,0,0,0,0,0,0,0.0152127161009329,0.0470189381169708,0.187969080329579,0,0.180690259463116,0,0.110837424223946,0.0411598206894618,0.209584747198395,0,0.192774492376871,0.30858396309799,0,0,0,0,0.222812605226218,0,0.0581752393062885,0,0.0679945514065474,0.0633123080478035,0.298612527598465,0,0,0,0,0.0429183168067241,0.0337263901104942,0,0,0,0,0.15847433109522,0.0515534839118225,0.131126968433568,0.0060550475615718,0.16919553159398,0.300204637662727,0.0246542025336934,0.074166758861158,0,0.223936174104401,0.338389320814077,0.141665140580515,0.127828009549688,0.127539992391042,0.294744786500519,0.498093196819424,0,0,0,0.0186784233518874,0,0.253187517307657,0.173243825190641,0.16850103605486,0.19102640244437,0
|full_id=C2046_Lymphatic_Endothelial_Neutrophils_Renal_heart_Fibroblast_Hepatic
|full_id=C2046_Lymphatic_Endothelial_Neutrophils_Renal_heart_Fibroblast_Hepatic
|id=C2046
|id=C2046

Revision as of 14:43, 12 September 2012


Full id: C2046_Lymphatic_Endothelial_Neutrophils_Renal_heart_Fibroblast_Hepatic



Phase1 CAGE Peaks

Hg19::chr10:129785536..129785551,+p6@PTPRE
Hg19::chr5:176433333..176433349,-p11@UIMC1
Hg19::chr5:176433350..176433388,-p6@UIMC1
Hg19::chrX:15518923..15518936,+p1@BMX


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>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
adult organism3.25e-24115
circulatory system1.12e-14113
endothelium5.59e-1418
blood vessel endothelium5.59e-1418
cardiovascular system endothelium5.59e-1418
cardiovascular system1.71e-13110
multi-cellular organism8.48e-13659
anatomical system5.94e-12625
anatomical group9.83e-12626
tube4.49e-11194
splanchnic layer of lateral plate mesoderm5.23e-1184
anatomical conduit2.02e-10241
vessel5.08e-1069
simple squamous epithelium7.71e-1022
vasculature2.48e-0979
vascular system2.48e-0979
embryo8.90e-09612
epithelial tube9.13e-09118
blood vessel1.38e-0860
epithelial tube open at both ends1.38e-0860
blood vasculature1.38e-0860
vascular cord1.38e-0860
lateral plate mesoderm1.55e-08216
anatomical cluster1.96e-08286
squamous epithelium3.73e-0825
embryonic structure5.67e-08605
developing anatomical structure5.67e-08605
germ layer1.01e-07604
embryonic tissue1.01e-07604
presumptive structure1.01e-07604
epiblast (generic)1.01e-07604
endothelial tube1.01e-079
arterial system endothelium1.01e-079
endothelium of artery1.01e-079
mesoderm7.66e-07448
mesoderm-derived structure7.66e-07448
presumptive mesoderm7.66e-07448


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

This analysis result is provided for C0 - C305 clusters.

Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Coexpression_cluster:C2046&oldid=2136679"