Coexpression cluster:C37: Difference between revisions
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{{Coexpression_clusters | {{Coexpression_clusters | ||
|full_id=C37_salivary_submaxillary_parotid_seminal_tongue_ductus_trachea | |full_id=C37_salivary_submaxillary_parotid_seminal_tongue_ductus_trachea | ||
|gostat_on_coexpression_clusters=GO:0046903!secretion!0.000143037779776816!525;6779;5284;362;50617;55690;1188;55503$GO:0031214!biomineral formation!0.000143037779776816!3346;525;50617;6779;3347$GO:0001503!ossification!0.000143037779776816!3346;525;50617;6779;3347$GO:0004869!cysteine protease inhibitor activity!0.000143037779776816!1473;1472;1469;1470$GO:0046849!bone remodeling!0.000143037779776816!3346;525;50617;6779;3347$GO:0007588!excretion!0.000143037779776816!362;525;50617;1188$GO:0048771!tissue remodeling!0.000175708979982803!3346;525;50617;6779;3347$GO:0016324!apical plasma membrane!0.000751494979317117!362;525;50617;1182$GO:0045177!apical part of cell!0.00169673922733692!362;525;50617;1182$GO:0009888!tissue development!0.00169711188910609!3346;525;50617;6779;3347;8538$GO:0022892!substrate-specific transporter activity!0.00169711188910609!6557;525;56606;115019;5284;1182;344905;486;6947;362;50617;1188;55503$GO:0006885!regulation of pH!0.0019057807084014!525;50617;1182$GO:0001501!skeletal development!0.00264035699267428!3346;525;50617;6779;3347$GO:0006811!ion transport!0.00264035699267428!54836;6557;525;115019;1182;344905;486;6947;50617;1188;55503$GO:0022857!transmembrane transporter activity!0.00271145939367049!6557;525;56606;115019;1182;344905;486;6947;362;50617;1188;55503$GO:0033176!proton-transporting V-type ATPase complex!0.0028474390787468!525;50617$GO:0016471!vacuolar proton-transporting V-type ATPase complex!0.0028474390787468!525;50617$GO:0022891!substrate-specific transmembrane transporter activity!0.00538704337765753!6557;525;56606;115019;1182;344905;486;6947;50617;1188;55503$GO:0015075!ion transmembrane transporter activity!0.00719916602517181!6557;525;115019;1182;344905;486;6947;50617;1188;55503$GO:0006812!cation transport!0.00719916602517181!486;54836;6947;6557;525;50617;55503;344905$GO:0050832!defense response to fungus!0.00719916602517181!3346;3347$GO:0009620!response to fungus!0.0176488723943194!3346;3347$GO:0006821!chloride transport!0.0179235375774165!6557;1188;1182$GO:0008509!anion transmembrane transporter activity!0.0193548222625774!6557;1188;115019;1182$GO:0004857!enzyme inhibitor activity!0.0276217274943027!84152;1473;1472;1469;1470$GO:0051234!establishment of localization!0.0303073119039209!525;6779;56606;5284;1182;344905;486;362;50617;55503;54836;6557;23677;115019;6947;55690;1188$GO:0004866!endopeptidase inhibitor activity!0.0303073119039209!1473;1472;1469;1470$GO:0048856!anatomical structure development!0.0303073119039209!57447;525;6779;3347;92304;9696;1908;3346;50617;8538;54959$GO:0015698!inorganic anion transport!0.0303073119039209!6557;1188;115019;1182$GO:0006805!xenobiotic metabolic process!0.0303073119039209!3346;3347$GO:0030414!protease inhibitor activity!0.0303073119039209!1473;1472;1469;1470$GO:0050801!ion homeostasis!0.0303073119039209!525;50617;56477;1182$GO:0022804!active transmembrane transporter activity!0.0303073119039209!486;6557;525;56606;115019;344905$GO:0044421!extracellular region part!0.0303073119039209!11272;10879;10321;56477;5554;54959;92304$GO:0042581!specific granule!0.0303073119039209!10321$GO:0048388!endosomal lumen acidification!0.0303073119039209!1182$GO:0009410!response to xenobiotic stimulus!0.0304903155620692!3346;3347$GO:0007605!sensory perception of sound!0.031844758974454!1908;525;50617$GO:0050954!sensory perception of mechanical stimulus!0.031844758974454!1908;525;50617$GO:0065008!regulation of biological quality!0.0350725703150292!1908;525;50617;6779;56477;1182;92304$GO:0005247!voltage-gated chloride channel activity!0.0380105546104302!1188;1182$GO:0048878!chemical homeostasis!0.0380105546104302!525;50617;56477;1182$GO:0015662!ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism!0.0380105546104302!486;525;344905$GO:0022844!voltage-gated anion channel activity!0.0390687960623424!1188;1182$GO:0006820!anion transport!0.0390687960623424!6557;1188;115019;1182$GO:0005615!extracellular space!0.0390687960623424!11272;10879;56477;5554;92304$GO:0044463!cell projection part!0.0390687960623424!9696;50617$GO:0046541!saliva secretion!0.0390687960623424!6779$GO:0000301!retrograde transport, vesicle recycling within Golgi!0.0390687960623424!55690$GO:0042637!catagen!0.0390687960623424!8538$GO:0016889!endodeoxyribonuclease activity, producing 3'-phosphomonoesters!0.0390687960623424!58511$GO:0004531!deoxyribonuclease II activity!0.0390687960623424!58511$GO:0008761!UDP-N-acetylglucosamine 2-epimerase activity!0.0390687960623424!10020$GO:0008511!sodium:potassium:chloride symporter activity!0.0390687960623424!6557$GO:0046848!hydroxyapatite binding!0.0390687960623424!6779$GO:0009384!N-acylmannosamine kinase activity!0.0390687960623424!10020$GO:0000042!protein targeting to Golgi!0.0390687960623424!55690$GO:0017158!regulation of calcium ion-dependent exocytosis!0.0390687960623424!55503$GO:0051179!localization!0.0449551098642048!525;6779;56606;5284;1182;344905;486;362;50617;55503;54836;6557;23677;115019;6947;55690;1188$GO:0042221!response to chemical stimulus!0.0497249727298682!3346;4025;3347;1503;56477$GO:0003883!CTP synthase activity!0.0497249727298682!1503$GO:0035253!ciliary rootlet!0.0497249727298682!9696$GO:0009397!folic acid and derivative catabolic process!0.0497249727298682!10840$GO:0006824!cobalt ion transport!0.0497249727298682!6947$GO:0006054!N-acetylneuraminate metabolic process!0.0497249727298682!10020$GO:0015087!cobalt ion transmembrane transporter activity!0.0497249727298682!6947$GO:0009258!10-formyltetrahydrofolate catabolic process!0.0497249727298682!10840$GO:0009256!10-formyltetrahydrofolate metabolic process!0.0497249727298682!10840 | |||
|id=C37 | |id=C37 | ||
}} | }} | ||
Revision as of 17:39, 18 May 2012
Full id: C37_salivary_submaxillary_parotid_seminal_tongue_ductus_trachea
Phase1 CAGE Peaks
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 ID | GO name | FDR corrected p-value |
|---|---|---|
| GO:0046903 | secretion | 0.000143037779776816 |
| GO:0031214 | biomineral formation | 0.000143037779776816 |
| GO:0001503 | ossification | 0.000143037779776816 |
| GO:0004869 | cysteine protease inhibitor activity | 0.000143037779776816 |
| GO:0046849 | bone remodeling | 0.000143037779776816 |
| GO:0007588 | excretion | 0.000143037779776816 |
| GO:0048771 | tissue remodeling | 0.000175708979982803 |
| GO:0016324 | apical plasma membrane | 0.000751494979317117 |
| GO:0045177 | apical part of cell | 0.00169673922733692 |
| GO:0009888 | tissue development | 0.00169711188910609 |
| GO:0022892 | substrate-specific transporter activity | 0.00169711188910609 |
| GO:0006885 | regulation of pH | 0.0019057807084014 |
| GO:0001501 | skeletal development | 0.00264035699267428 |
| GO:0006811 | ion transport | 0.00264035699267428 |
| GO:0022857 | transmembrane transporter activity | 0.00271145939367049 |
| GO:0033176 | proton-transporting V-type ATPase complex | 0.0028474390787468 |
| GO:0016471 | vacuolar proton-transporting V-type ATPase complex | 0.0028474390787468 |
| GO:0022891 | substrate-specific transmembrane transporter activity | 0.00538704337765753 |
| GO:0015075 | ion transmembrane transporter activity | 0.00719916602517181 |
| GO:0006812 | cation transport | 0.00719916602517181 |
| GO:0050832 | defense response to fungus | 0.00719916602517181 |
| GO:0009620 | response to fungus | 0.0176488723943194 |
| GO:0006821 | chloride transport | 0.0179235375774165 |
| GO:0008509 | anion transmembrane transporter activity | 0.0193548222625774 |
| GO:0004857 | enzyme inhibitor activity | 0.0276217274943027 |
| GO:0051234 | establishment of localization | 0.0303073119039209 |
| GO:0004866 | endopeptidase inhibitor activity | 0.0303073119039209 |
| GO:0048856 | anatomical structure development | 0.0303073119039209 |
| GO:0015698 | inorganic anion transport | 0.0303073119039209 |
| GO:0006805 | xenobiotic metabolic process | 0.0303073119039209 |
| GO:0030414 | protease inhibitor activity | 0.0303073119039209 |
| GO:0050801 | ion homeostasis | 0.0303073119039209 |
| GO:0022804 | active transmembrane transporter activity | 0.0303073119039209 |
| GO:0044421 | extracellular region part | 0.0303073119039209 |
| GO:0042581 | specific granule | 0.0303073119039209 |
| GO:0048388 | endosomal lumen acidification | 0.0303073119039209 |
| GO:0009410 | response to xenobiotic stimulus | 0.0304903155620692 |
| GO:0007605 | sensory perception of sound | 0.031844758974454 |
| GO:0050954 | sensory perception of mechanical stimulus | 0.031844758974454 |
| GO:0065008 | regulation of biological quality | 0.0350725703150292 |
| GO:0005247 | voltage-gated chloride channel activity | 0.0380105546104302 |
| GO:0048878 | chemical homeostasis | 0.0380105546104302 |
| GO:0015662 | ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism | 0.0380105546104302 |
| GO:0022844 | voltage-gated anion channel activity | 0.0390687960623424 |
| GO:0006820 | anion transport | 0.0390687960623424 |
| GO:0005615 | extracellular space | 0.0390687960623424 |
| GO:0044463 | cell projection part | 0.0390687960623424 |
| GO:0046541 | saliva secretion | 0.0390687960623424 |
| GO:0000301 | retrograde transport, vesicle recycling within Golgi | 0.0390687960623424 |
| GO:0042637 | catagen | 0.0390687960623424 |
| GO:0016889 | endodeoxyribonuclease activity, producing 3'-phosphomonoesters | 0.0390687960623424 |
| GO:0004531 | deoxyribonuclease II activity | 0.0390687960623424 |
| GO:0008761 | UDP-N-acetylglucosamine 2-epimerase activity | 0.0390687960623424 |
| GO:0008511 | sodium:potassium:chloride symporter activity | 0.0390687960623424 |
| GO:0046848 | hydroxyapatite binding | 0.0390687960623424 |
| GO:0009384 | N-acylmannosamine kinase activity | 0.0390687960623424 |
| GO:0000042 | protein targeting to Golgi | 0.0390687960623424 |
| GO:0017158 | regulation of calcium ion-dependent exocytosis | 0.0390687960623424 |
| GO:0051179 | localization | 0.0449551098642048 |
| GO:0042221 | response to chemical stimulus | 0.0497249727298682 |
| GO:0003883 | CTP synthase activity | 0.0497249727298682 |
| GO:0035253 | ciliary rootlet | 0.0497249727298682 |
| GO:0009397 | folic acid and derivative catabolic process | 0.0497249727298682 |
| GO:0006824 | cobalt ion transport | 0.0497249727298682 |
| GO:0006054 | N-acetylneuraminate metabolic process | 0.0497249727298682 |
| GO:0015087 | cobalt ion transmembrane transporter activity | 0.0497249727298682 |
| GO:0009258 | 10-formyltetrahydrofolate catabolic process | 0.0497249727298682 |
| GO:0009256 | 10-formyltetrahydrofolate metabolic process | 0.0497249727298682 |
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>
| Ontology term | p-value | n |
|---|
| Ontology term | p-value | n |
|---|
| Ontology term | p-value | n |
|---|
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.
