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{{Coexpression_clusters
{{Coexpression_clusters
|full_id=C218_tonsil_lymph_CD19_spleen_colon_appendix_salivary
|full_id=C218_tonsil_lymph_CD19_spleen_colon_appendix_salivary
|gostat_on_coexpression_clusters=GO:0003823!antigen binding!4.21115196817957e-05!28776;28299;28454$GO:0006955!immune response!5.67426408314668e-05!28776;28299;973;28454$GO:0002376!immune system process!6.98965686274625e-05!28776;28299;973;28454$GO:0019815!B cell receptor complex!0.00536865337511534!973$GO:0019814!immunoglobulin complex!0.00536865337511534!973$GO:0005771!multivesicular body!0.00596490702026829!973$GO:0050853!B cell receptor signaling pathway!0.0140557926159866!973$GO:0001772!immunological synapse!0.0178836616630865!973$GO:0042100!B cell proliferation!0.0178836616630865!973$GO:0050851!antigen receptor-mediated signaling pathway!0.0196590009575182!973$GO:0030183!B cell differentiation!0.0196590009575182!973$GO:0002429!immune response-activating cell surface receptor signaling pathway!0.0196590009575182!973$GO:0002768!immune response-regulating cell surface receptor signaling pathway!0.0196590009575182!973$GO:0002757!immune response-activating signal transduction!0.0196590009575182!973$GO:0002764!immune response-regulating signal transduction!0.0196590009575182!973$GO:0045121!lipid raft!0.023659252672592!973$GO:0009897!external side of plasma membrane!0.023659252672592!973$GO:0005770!late endosome!0.023659252672592!973$GO:0032943!mononuclear cell proliferation!0.023659252672592!973$GO:0046651!lymphocyte proliferation!0.023659252672592!973$GO:0042113!B cell activation!0.0259246100408165!973$GO:0030098!lymphocyte differentiation!0.0259598057034707!973$GO:0002253!activation of immune response!0.0275385060338675!973$GO:0050778!positive regulation of immune response!0.0306676533211757!973$GO:0002684!positive regulation of immune system process!0.0306676533211757!973$GO:0002521!leukocyte differentiation!0.0308542166241833!973$GO:0050776!regulation of immune response!0.0318196556640933!973$GO:0002682!regulation of immune system process!0.0318196556640933!973$GO:0051240!positive regulation of multicellular organismal process!0.0322514226524992!973$GO:0043235!receptor complex!0.0326537506581756!973$GO:0009986!cell surface!0.0424455817755085!973$GO:0046649!lymphocyte activation!0.043050663867282!973$GO:0030097!hemopoiesis!0.0433505808108114!973$GO:0048534!hemopoietic or lymphoid organ development!0.0448795842241041!973$GO:0045321!leukocyte activation!0.0448795842241041!973$GO:0002520!immune system development!0.0448795842241041!973$GO:0005768!endosome!0.0462833074571253!973$GO:0001775!cell activation!0.0487668118354535!973
|id=C218
|id=C218
}}
}}

Revision as of 17:36, 18 May 2012


Full id: C218_tonsil_lymph_CD19_spleen_colon_appendix_salivary



Phase1 CAGE Peaks

Hg19::chr14:106330824..106330846,-p1@IGHJ3
Hg19::chr14:106380481..106380483,-p@chr14:106380481..106380483
-
Hg19::chr14:106453155..106453176,-p1@IGHV1-2
Hg19::chr14:106471723..106471733,-p1@IGHV1-3
Hg19::chr14:106494587..106494603,-p1@IGHV2-5
Hg19::chr14:106512292..106512308,-p1@IGHV3-6
Hg19::chr14:106518922..106518940,-p1@IGHV3-7
Hg19::chr14:106539557..106539581,-p1@IGHV1-8
Hg19::chr14:106586656..106586668,-p1@IGHV3-13
Hg19::chr14:106668105..106668116,-p1@IGHV3-20
Hg19::chr14:106692191..106692211,-p1@IGHV3-21
Hg19::chr14:106725723..106725742,-p1@IGHV3-23
Hg19::chr14:106733624..106733650,-p1@IGHV1-24
Hg19::chr14:106746150..106746153,-p1@IGHV3-25
Hg19::chr14:106845840..106845851,-p1@IGHV3-35
Hg19::chr14:106967526..106967551,-p1@IGHV1-46
Hg19::chr14:106994333..106994352,-p1@IGHV3-48
Hg19::chr14:107013453..107013460,-p2@IGHV3-49
Hg19::chr14:107013465..107013481,-p1@IGHV3-49
Hg19::chr14:107035208..107035226,-p1@IGHV5-51
Hg19::chr14:107035284..107035314,-p2@IGHV5-51
Hg19::chr14:107078851..107078874,-p1@IGHV1-58
Hg19::chr14:107083690..107083722,-p1@IGHV4-59
Hg19::chr14:107099659..107099670,-p1@IGHV3-62
Hg19::chr14:107179265..107179287,-p1@IGHV2-70
Hg19::chr14:107183929..107183940,-p1@IGHV3-71
Hg19::chr14:107199464..107199472,-p1@IGHV3-72
Hg19::chr14:107211459..107211478,-p1@IGHV3-73
Hg19::chr14:107259809..107259829,-p1@uc001yta.1
Hg19::chr14:107281429..107281433,-p1@IGHV4-80
Hg19::chr19:42381173..42381198,+p2@CD79A
Hg19::chr22:17403095..17403096,-p1@IGKV2OR22-3
Hg19::chr22:22516550..22516571,+p1@IGLV4-60
Hg19::chr22:22677237..22677284,+p1@AY998676
Hg19::chr22:22681656..22681657,+p1@IGLV1-50
Hg19::chr22:22712089..22712103,+p1@IGLV1-47
Hg19::chr22:22723969..22723985,+p1@IGLV7-46
Hg19::chr22:22730353..22730360,+p1@IGLV5-45
Hg19::chr22:22735194..22735208,+p1@IGLV1-44
Hg19::chr22:22749343..22749360,+p1@IGLV7-43
Hg19::chr22:22764088..22764105,+p1@IGLV1-40
Hg19::chr22:22764110..22764121,+p2@IGLV1-40
Hg19::chr22:22781853..22781858,+p1@IGLV5-37
Hg19::chr22:22786288..22786295,+p1@IGLV1-36
Hg19::chr22:22922260..22922267,+p1@IGLV2-34
Hg19::chr22:23006897..23006908,+p1@ENST00000385099
Hg19::chr22:23010756..23010763,+p1@IGLV3-27
Hg19::chr22:23029172..23029186,+p2@IGLV3-25
Hg19::chr22:23029188..23029205,+p1@IGLV3-25
Hg19::chr22:23063100..23063117,+p1@IGLV3-19
Hg19::chr22:23077065..23077071,+p1@IGLV2-18
Hg19::chr22:23114284..23114291,+p1@IGLV3-12
Hg19::chr22:23134974..23134990,+p1@IGLV2-11
Hg19::chr22:23154239..23154246,+p1@IGLV3-10
Hg19::chr22:23161576..23161592,+p1@IGLV3-9
Hg19::chr22:23165272..23165278,+p1@MIR650
Hg19::chr22:23222894..23222909,+p1@IGLV3-1
Hg19::chr22:23227695..23227702,-p@chr22:23227695..23227702
-
Hg19::chr22:23227835..23227842,+p@chr22:23227835..23227842
+
Hg19::chr22:23237558..23237573,+p@chr22:23237558..23237573
+
Hg19::chr2:114163945..114163953,+p1@ENST00000453673
Hg19::chr2:89185050..89185069,+p1@uc002stl.2
Hg19::chr2:89247338..89247342,-p1@IGKV1-5
Hg19::chr2:89278535..89278547,-p1@IGKV3-7
Hg19::chr2:89399845..89399854,-p1@IGKV1-16
Hg19::chr2:89513402..89513412,-p1@IGKV1-27
Hg19::chr2:89890533..89890539,+p1@uc010yts.1
Hg19::chr2:95637982..95637984,-p1@ENST00000429316


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

GO IDGO nameFDR corrected p-value
GO:0003823antigen binding4.21115196817957e-05
GO:0006955immune response5.67426408314668e-05
GO:0002376immune system process6.98965686274625e-05
GO:0019815B cell receptor complex0.00536865337511534
GO:0019814immunoglobulin complex0.00536865337511534
GO:0005771multivesicular body0.00596490702026829
GO:0050853B cell receptor signaling pathway0.0140557926159866
GO:0001772immunological synapse0.0178836616630865
GO:0042100B cell proliferation0.0178836616630865
GO:0050851antigen receptor-mediated signaling pathway0.0196590009575182
GO:0030183B cell differentiation0.0196590009575182
GO:0002429immune response-activating cell surface receptor signaling pathway0.0196590009575182
GO:0002768immune response-regulating cell surface receptor signaling pathway0.0196590009575182
GO:0002757immune response-activating signal transduction0.0196590009575182
GO:0002764immune response-regulating signal transduction0.0196590009575182
GO:0045121lipid raft0.023659252672592
GO:0009897external side of plasma membrane0.023659252672592
GO:0005770late endosome0.023659252672592
GO:0032943mononuclear cell proliferation0.023659252672592
GO:0046651lymphocyte proliferation0.023659252672592
GO:0042113B cell activation0.0259246100408165
GO:0030098lymphocyte differentiation0.0259598057034707
GO:0002253activation of immune response0.0275385060338675
GO:0050778positive regulation of immune response0.0306676533211757
GO:0002684positive regulation of immune system process0.0306676533211757
GO:0002521leukocyte differentiation0.0308542166241833
GO:0050776regulation of immune response0.0318196556640933
GO:0002682regulation of immune system process0.0318196556640933
GO:0051240positive regulation of multicellular organismal process0.0322514226524992
GO:0043235receptor complex0.0326537506581756
GO:0009986cell surface0.0424455817755085
GO:0046649lymphocyte activation0.043050663867282
GO:0030097hemopoiesis0.0433505808108114
GO:0048534hemopoietic or lymphoid organ development0.0448795842241041
GO:0045321leukocyte activation0.0448795842241041
GO:0002520immune system development0.0448795842241041
GO:0005768endosome0.0462833074571253
GO:0001775cell activation0.0487668118354535



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>disease_data<br>

Cell Type
Ontology termp-valuen

Uber Anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen


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

"{{{coexpression_dpi_cluster_scores_median}}}" is not a number.

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