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MCL coexpression mm9:313: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9
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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.127160916153114,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0697794187286862,0,0.0771606661507038,0,0,0,0,0,0,0,0,0.104706797364561,0.18440492317299,0.213207239280454,0,0,0,0,0,0.113809739605487,0.247589497206297,0.0428469550828748,0.173020964792565,0,0.55277268477878,0.490840557167292,0.0501827898833331,0.0397493170902889,0,0.633819428689635,0.678185830762293,0.71158592685949,0.123224102318956,0.190030631017894,0,0.984555916185071,0.761674789470675,0.666273105712779,0.393249215744114,0.42099704087081,0.192901363035279,0,0.0316393102377815,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.20018311764962,0.289851583842164,0,0,0,0,0.278466377096388,0.163608743054207,0.0514050548005424,0.271637556546629,0.247272523425973,0.457895878829497,0.217211451419728,0,0,0,0,0,0,0,0.0609639314262262,0.0142930472775233,0,0.0388988969149198,0.0999233952154288,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.182442483712892,0.0425379529581421,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.357697805298242,0.336883187795113,0,0,0,0,0,0,0,0,0,0,0,0.215543090236368,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0631174576777382,0,0,0,0,0,0,0,0,0,0,0.324807369180142,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.328278395983124,0.376754964798171,0.331587424856164,0.520994929563668,0.374778587894724,0.514040340140897,0.442431372134241,0.51209791841336,0.481540585963464,0.447192125971848,0,0,0,0,0,0,0,0,0,0,0,0,0.0388749848471105,0.0269518943326477,0,0,0,0,0,0.0084309659785949,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0048790;maintenance of presynaptic active zone structure;0.00646469073576947;19339!GO:0031630;regulation of synaptic vesicle fusion to presynaptic membrane;0.00646469073576947;19339!GO:0051602;response to electrical stimulus;0.00646469073576947;19339!GO:0031629;synaptic vesicle fusion to presynaptic membrane;0.00646469073576947;19339!GO:0031338;regulation of vesicle fusion;0.00646469073576947;19339!GO:0050975;sensory perception of touch;0.00646469073576947;19339!GO:0006542;glutamine biosynthetic process;0.00861887926606475;14645!GO:0004356;glutamate-ammonia ligase activity;0.00861887926606475;14645!GO:0015018;galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity;0.00861887926606475;72727!GO:0016211;ammonia ligase activity;0.0105768461489581;14645!GO:0004965;GABA-B receptor activity;0.0105768461489581;54393!GO:0006906;vesicle fusion;0.0119318713726987;19339!GO:0016880;acid-ammonia (or amide) ligase activity;0.0119318713726987;14645!GO:0016188;synaptic vesicle maturation;0.0129251316475187;19339!GO:0003016;respiratory system process;0.0129251316475187;19339!GO:0048488;synaptic vesicle endocytosis;0.0193829176417405;19339!GO:0016079;synaptic vesicle exocytosis;0.0250775914657576;19339!GO:0016050;vesicle organization and biogenesis;0.0251874396635394;19339!GO:0007274;neuromuscular synaptic transmission;0.0251874396635394;19339!GO:0009084;glutamine family amino acid biosynthetic process;0.0251874396635394;14645!GO:0006541;glutamine metabolic process;0.0276739554004592;14645!GO:0017157;regulation of exocytosis;0.0316914421788287;19339!GO:0015020;glucuronosyltransferase activity;0.0319950096254669;72727!GO:0006944;membrane fusion;0.0354944803059186;19339!GO:0048489;synaptic vesicle transport;0.0356206229408446;19339!GO:0008067;metabotropic glutamate, GABA-B-like receptor activity;0.0387085213234202;54393!GO:0016917;GABA receptor activity;0.0401355710100174;54393!GO:0009064;glutamine family amino acid metabolic process;0.0413610703076045;14645!GO:0009791;post-embryonic development;0.0413610703076045;19339!GO:0005737;cytoplasm;0.0423500080886129;72727,14645,54393,19339!GO:0008652;amino acid biosynthetic process;0.0436708464995313;14645!
|gostat_on_MCL_coexpression=GO:0048790;maintenance of presynaptic active zone structure;0.00646469073576947;19339!GO:0031630;regulation of synaptic vesicle fusion to presynaptic membrane;0.00646469073576947;19339!GO:0051602;response to electrical stimulus;0.00646469073576947;19339!GO:0031629;synaptic vesicle fusion to presynaptic membrane;0.00646469073576947;19339!GO:0031338;regulation of vesicle fusion;0.00646469073576947;19339!GO:0050975;sensory perception of touch;0.00646469073576947;19339!GO:0006542;glutamine biosynthetic process;0.00861887926606475;14645!GO:0004356;glutamate-ammonia ligase activity;0.00861887926606475;14645!GO:0015018;galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity;0.00861887926606475;72727!GO:0016211;ammonia ligase activity;0.0105768461489581;14645!GO:0004965;GABA-B receptor activity;0.0105768461489581;54393!GO:0006906;vesicle fusion;0.0119318713726987;19339!GO:0016880;acid-ammonia (or amide) ligase activity;0.0119318713726987;14645!GO:0016188;synaptic vesicle maturation;0.0129251316475187;19339!GO:0003016;respiratory system process;0.0129251316475187;19339!GO:0048488;synaptic vesicle endocytosis;0.0193829176417405;19339!GO:0016079;synaptic vesicle exocytosis;0.0250775914657576;19339!GO:0016050;vesicle organization and biogenesis;0.0251874396635394;19339!GO:0007274;neuromuscular synaptic transmission;0.0251874396635394;19339!GO:0009084;glutamine family amino acid biosynthetic process;0.0251874396635394;14645!GO:0006541;glutamine metabolic process;0.0276739554004592;14645!GO:0017157;regulation of exocytosis;0.0316914421788287;19339!GO:0015020;glucuronosyltransferase activity;0.0319950096254669;72727!GO:0006944;membrane fusion;0.0354944803059186;19339!GO:0048489;synaptic vesicle transport;0.0356206229408446;19339!GO:0008067;metabotropic glutamate, GABA-B-like receptor activity;0.0387085213234202;54393!GO:0016917;GABA receptor activity;0.0401355710100174;54393!GO:0009064;glutamine family amino acid metabolic process;0.0413610703076045;14645!GO:0009791;post-embryonic development;0.0413610703076045;19339!GO:0005737;cytoplasm;0.0423500080886129;72727,14645,54393,19339!GO:0008652;amino acid biosynthetic process;0.0436708464995313;14645!
}}
}}

Revision as of 12:39, 11 October 2012


Phase1 CAGE Peaks

 Short description
Mm9::chr11:87156375..87156383,-p@chr11:87156375..87156383
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Mm9::chr12:92812009..92812012,-p1@ENSMUST00000116715
Mm9::chr16:50420236..50420246,-p@chr16:50420236..50420246
-
Mm9::chr17:37199615..37199652,+p9@Gabbr1
Mm9::chr17:57220111..57220144,+p@chr17:57220111..57220144
+
Mm9::chr17:57221069..57221081,-p@chr17:57221069..57221081
-
Mm9::chr17:57221131..57221148,-p@chr17:57221131..57221148
-
Mm9::chr18:31134922..31134933,-p@chr18:31134922..31134933
-
Mm9::chr18:82754715..82754729,-p@chr18:82754715..82754729
-
Mm9::chr19:8994922..8994936,+p3@B3gat3
Mm9::chr1:155756359..155756371,+p@chr1:155756359..155756371
+
Mm9::chr1:174204853..174204862,-p@chr1:174204853..174204862
-
Mm9::chr1:174223797..174223808,-p@chr1:174223797..174223808
-
Mm9::chr2:113632075..113632088,-p@chr2:113632075..113632088
-
Mm9::chr2:170174741..170174743,-p@chr2:170174741..170174743
-
Mm9::chr2:180889957..180889998,+p@chr2:180889957..180889998
+
Mm9::chr4:132999231..132999250,+p@chr4:132999231..132999250
+
Mm9::chr4:85034722..85034726,+p@chr4:85034722..85034726
+
Mm9::chr5:108948149..108948160,-p@chr5:108948149..108948160
-
Mm9::chr5:139494354..139494365,-p@chr5:139494354..139494365
-
Mm9::chr6:124711353..124711365,-p@chr6:124711353..124711365
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Mm9::chr6:124712740..124712754,-p@chr6:124712740..124712754
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Mm9::chr6:124716149..124716167,-p@chr6:124716149..124716167
-
Mm9::chr7:152100513..152100528,-p@chr7:152100513..152100528
-
Mm9::chr7:25784031..25784038,-p@chr7:25784031..25784038
-
Mm9::chr8:73279849..73279867,+p4@Rab3a


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

GO IDGO nameFDR corrected p-value
GO:0048790maintenance of presynaptic active zone structure0.00646469073576947
GO:0031630regulation of synaptic vesicle fusion to presynaptic membrane0.00646469073576947
GO:0051602response to electrical stimulus0.00646469073576947
GO:0031629synaptic vesicle fusion to presynaptic membrane0.00646469073576947
GO:0031338regulation of vesicle fusion0.00646469073576947
GO:0050975sensory perception of touch0.00646469073576947
GO:0006542glutamine biosynthetic process0.00861887926606475
GO:0004356glutamate-ammonia ligase activity0.00861887926606475
GO:0015018galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity0.00861887926606475
GO:0016211ammonia ligase activity0.0105768461489581
GO:0004965GABA-B receptor activity0.0105768461489581
GO:0006906vesicle fusion0.0119318713726987
GO:0016880acid-ammonia (or amide) ligase activity0.0119318713726987
GO:0016188synaptic vesicle maturation0.0129251316475187
GO:0003016respiratory system process0.0129251316475187
GO:0048488synaptic vesicle endocytosis0.0193829176417405
GO:0016079synaptic vesicle exocytosis0.0250775914657576
GO:0016050vesicle organization and biogenesis0.0251874396635394
GO:0007274neuromuscular synaptic transmission0.0251874396635394
GO:0009084glutamine family amino acid biosynthetic process0.0251874396635394
GO:0006541glutamine metabolic process0.0276739554004592
GO:0017157regulation of exocytosis0.0316914421788287
GO:0015020glucuronosyltransferase activity0.0319950096254669
GO:0006944membrane fusion0.0354944803059186
GO:0048489synaptic vesicle transport0.0356206229408446
GO:0008067metabotropic glutamate, GABA-B-like receptor activity0.0387085213234202
GO:0016917GABA receptor activity0.0401355710100174
GO:0009064glutamine family amino acid metabolic process0.0413610703076045
GO:0009791post-embryonic development0.0413610703076045
GO:0005737cytoplasm0.0423500080886129
GO:0008652amino acid biosynthetic process0.0436708464995313



Relative expression of the co-expression cluster over median <br>Analyst:




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


TFBS overrepresentation<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)

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