MCL coexpression mm9:799: Difference between revisions
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{{MCL_coexpression_mm9 | 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007035;vacuolar acidification;0.0157769315378812;11984!GO:0045851;pH reduction;0.0157769315378812;11984!GO:0051452;cellular pH reduction;0.0157769315378812;11984!GO:0051453;regulation of cellular pH;0.0157769315378812;11984!GO:0007042;lysosomal lumen acidification;0.0157769315378812;11984!GO:0030641;cellular hydrogen ion homeostasis;0.0197195436675489;11984!GO:0004630;phospholipase D activity;0.0250893514230226;18807!GO:0033176;proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0016471;vacuolar proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0030004;cellular monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0055067;monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0045309;protein phosphorylated amino acid binding;0.0262819222260888;19261!GO:0006910;phagocytosis, recognition;0.0331763951638302;19261!GO:0051219;phosphoprotein binding;0.0331763951638302;19261!GO:0006911;phagocytosis, 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process;0.0426270730378642;11984!GO:0006753;nucleoside phosphate metabolic process;0.0426270730378642;11984!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0426270730378642;11984!GO:0016469;proton-transporting two-sector ATPase complex;0.0426270730378642;11984!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0426270730378642;11984!GO:0006909;phagocytosis;0.0426270730378642;19261!GO:0007015;actin filament organization;0.0426270730378642;19261!GO:0046034;ATP metabolic process;0.0426270730378642;11984!GO:0008037;cell recognition;0.0426270730378642;19261!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0004620;phospholipase activity;0.0426270730378642;18807!GO:0019829;cation-transporting ATPase 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| |||
|gostat_on_MCL_coexpression=GO:0007035;vacuolar acidification;0.0157769315378812;11984!GO:0045851;pH reduction;0.0157769315378812;11984!GO:0051452;cellular pH reduction;0.0157769315378812;11984!GO:0051453;regulation of cellular pH;0.0157769315378812;11984!GO:0007042;lysosomal lumen acidification;0.0157769315378812;11984!GO:0030641;cellular hydrogen ion homeostasis;0.0197195436675489;11984!GO:0004630;phospholipase D activity;0.0250893514230226;18807!GO:0033176;proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0016471;vacuolar proton-transporting V-type ATPase complex;0.0250893514230226;11984!GO:0030004;cellular monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0055067;monovalent inorganic cation homeostasis;0.0250893514230226;11984!GO:0045309;protein phosphorylated amino acid binding;0.0262819222260888;19261!GO:0006910;phagocytosis, recognition;0.0331763951638302;19261!GO:0051219;phosphoprotein binding;0.0331763951638302;19261!GO:0006911;phagocytosis, engulfment;0.0331763951638302;19261!GO:0007040;lysosome organization and biogenesis;0.0331763951638302;11984!GO:0050766;positive regulation of phagocytosis;0.0331763951638302;19261!GO:0050764;regulation of phagocytosis;0.0331763951638302;19261!GO:0005774;vacuolar membrane;0.0331763951638302;11984!GO:0006885;regulation of pH;0.035451443793266;11984!GO:0007033;vacuole organization and biogenesis;0.0356360882026992;11984!GO:0044437;vacuolar part;0.0358036526335401;11984!GO:0045807;positive regulation of endocytosis;0.0359563649399432;19261!GO:0008553;hydrogen-exporting ATPase activity, phosphorylative mechanism;0.0393710703231679;11984!GO:0015985;energy coupled proton transport, down electrochemical gradient;0.0426270730378642;11984!GO:0015986;ATP synthesis coupled proton transport;0.0426270730378642;11984!GO:0051050;positive regulation of transport;0.0426270730378642;19261!GO:0030100;regulation of endocytosis;0.0426270730378642;19261!GO:0006754;ATP biosynthetic process;0.0426270730378642;11984!GO:0006753;nucleoside phosphate metabolic process;0.0426270730378642;11984!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0426270730378642;11984!GO:0016469;proton-transporting two-sector ATPase complex;0.0426270730378642;11984!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0426270730378642;11984!GO:0006909;phagocytosis;0.0426270730378642;19261!GO:0007015;actin filament organization;0.0426270730378642;19261!GO:0046034;ATP metabolic process;0.0426270730378642;11984!GO:0008037;cell recognition;0.0426270730378642;19261!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0004620;phospholipase activity;0.0426270730378642;18807!GO:0019829;cation-transporting ATPase activity;0.0426270730378642;11984!GO:0009142;nucleoside triphosphate biosynthetic process;0.0426270730378642;11984!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0009199;ribonucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0006119;oxidative phosphorylation;0.0426270730378642;11984!GO:0009144;purine nucleoside triphosphate metabolic process;0.0426270730378642;11984!GO:0015992;proton transport;0.0432289395035572;11984!GO:0006752;group transfer coenzyme metabolic process;0.0432289395035572;11984!GO:0009141;nucleoside triphosphate metabolic process;0.0432289395035572;11984!GO:0009152;purine ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0006818;hydrogen transport;0.0432289395035572;11984!GO:0015662;ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism;0.0432289395035572;11984!GO:0009260;ribonucleotide biosynthetic process;0.0432289395035572;11984!GO:0016298;lipase activity;0.0432289395035572;18807!GO:0007160;cell-matrix adhesion;0.0432289395035572;19261!GO:0009150;purine ribonucleotide metabolic process;0.0432289395035572;11984!GO:0008081;phosphoric diester hydrolase activity;0.0432289395035572;18807!GO:0006164;purine nucleotide biosynthetic process;0.0432289395035572;11984!GO:0031589;cell-substrate adhesion;0.0438092038771068;19261!GO:0009259;ribonucleotide metabolic process;0.0450093633137073;11984!GO:0006163;purine nucleotide metabolic process;0.0467984890472701;11984! | |||
|ontology_enrichment_celltype=CL:0000055!2.30e-10!49;CL:0000117!5.75e-09!23;CL:0000337!5.75e-09!23;CL:0002319!2.36e-08!43;CL:0000221!3.62e-08!44;CL:0000133!3.62e-08!44;CL:0000393!4.28e-08!39;CL:0000211!4.28e-08!39 | |||
|ontology_enrichment_disease= | |||
|ontology_enrichment_uberon=UBERON:0001017!2.46e-23!73;UBERON:0004121!3.06e-23!95;UBERON:0000924!3.06e-23!95;UBERON:0006601!3.06e-23!95;UBERON:0000073!4.38e-23!54;UBERON:0001016!6.54e-23!75;UBERON:0001049!7.04e-22!52;UBERON:0005068!7.04e-22!52;UBERON:0006241!7.04e-22!52;UBERON:0007135!7.04e-22!52;UBERON:0000955!2.98e-19!47;UBERON:0006238!2.98e-19!47;UBERON:0002616!1.34e-18!46;UBERON:0010371!1.82e-18!73;UBERON:0002346!4.08e-18!64;UBERON:0003075!4.08e-18!64;UBERON:0007284!4.08e-18!64;UBERON:0002020!6.00e-16!34;UBERON:0003080!1.41e-15!40;UBERON:0010314!2.55e-15!92;UBERON:0002780!5.52e-15!39;UBERON:0001890!5.52e-15!39;UBERON:0006240!5.52e-15!39;UBERON:0003528!1.88e-13!29;UBERON:0002791!1.88e-13!29;UBERON:0001893!1.88e-13!29;UBERON:0004111!2.24e-13!122;UBERON:0003056!4.46e-13!49;UBERON:0000025!4.52e-12!114;UBERON:0000956!1.07e-09!21;UBERON:0001869!1.07e-09!21;UBERON:0000203!1.07e-09!21;UBERON:0002619!1.42e-09!17;UBERON:0002021!8.98e-08!10;UBERON:0000411!8.98e-08!10;UBERON:0001950!8.98e-08!10;UBERON:0007023!1.29e-07!51;UBERON:0003076!4.73e-07!12;UBERON:0003057!4.73e-07!12 | |||
}} |
Latest revision as of 15:54, 17 September 2013
Phase1 CAGE Peaks
Short description | |
---|---|
Mm9::chr11:95574072..95574082,- | p1@ENSMUST00000155531 p1@uc007lao.1 |
Mm9::chr15:98571806..98571818,- | p@chr15:98571806..98571818 - |
Mm9::chr16:4879810..4879836,- | p1@Fam100a |
Mm9::chr17:24306359..24306395,- | p1@Atp6v0c |
Mm9::chr17:24306593..24306658,- | p2@Atp6v0c |
Mm9::chr2:129419264..129419336,+ | p2@Sirpa |
Mm9::chr5:139960374..139960427,- | p1@Zfand2a |
Mm9::chr7:28326103..28326131,+ | p@chr7:28326103..28326131 + |
Mm9::chr7:28327793..28327828,- | p1@Pld3 |
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 ID | GO name | FDR corrected p-value |
---|---|---|
GO:0007035 | vacuolar acidification | 0.0157769315378812 |
GO:0045851 | pH reduction | 0.0157769315378812 |
GO:0051452 | cellular pH reduction | 0.0157769315378812 |
GO:0051453 | regulation of cellular pH | 0.0157769315378812 |
GO:0007042 | lysosomal lumen acidification | 0.0157769315378812 |
GO:0030641 | cellular hydrogen ion homeostasis | 0.0197195436675489 |
GO:0004630 | phospholipase D activity | 0.0250893514230226 |
GO:0033176 | proton-transporting V-type ATPase complex | 0.0250893514230226 |
GO:0016471 | vacuolar proton-transporting V-type ATPase complex | 0.0250893514230226 |
GO:0030004 | cellular monovalent inorganic cation homeostasis | 0.0250893514230226 |
GO:0055067 | monovalent inorganic cation homeostasis | 0.0250893514230226 |
GO:0045309 | protein phosphorylated amino acid binding | 0.0262819222260888 |
GO:0006910 | phagocytosis, recognition | 0.0331763951638302 |
GO:0051219 | phosphoprotein binding | 0.0331763951638302 |
GO:0006911 | phagocytosis, engulfment | 0.0331763951638302 |
GO:0007040 | lysosome organization and biogenesis | 0.0331763951638302 |
GO:0050766 | positive regulation of phagocytosis | 0.0331763951638302 |
GO:0050764 | regulation of phagocytosis | 0.0331763951638302 |
GO:0005774 | vacuolar membrane | 0.0331763951638302 |
GO:0006885 | regulation of pH | 0.035451443793266 |
GO:0007033 | vacuole organization and biogenesis | 0.0356360882026992 |
GO:0044437 | vacuolar part | 0.0358036526335401 |
GO:0045807 | positive regulation of endocytosis | 0.0359563649399432 |
GO:0008553 | hydrogen-exporting ATPase activity, phosphorylative mechanism | 0.0393710703231679 |
GO:0015985 | energy coupled proton transport, down electrochemical gradient | 0.0426270730378642 |
GO:0015986 | ATP synthesis coupled proton transport | 0.0426270730378642 |
GO:0051050 | positive regulation of transport | 0.0426270730378642 |
GO:0030100 | regulation of endocytosis | 0.0426270730378642 |
GO:0006754 | ATP biosynthetic process | 0.0426270730378642 |
GO:0006753 | nucleoside phosphate metabolic process | 0.0426270730378642 |
GO:0046933 | hydrogen ion transporting ATP synthase activity, rotational mechanism | 0.0426270730378642 |
GO:0016469 | proton-transporting two-sector ATPase complex | 0.0426270730378642 |
GO:0046961 | hydrogen ion transporting ATPase activity, rotational mechanism | 0.0426270730378642 |
GO:0006909 | phagocytosis | 0.0426270730378642 |
GO:0007015 | actin filament organization | 0.0426270730378642 |
GO:0046034 | ATP metabolic process | 0.0426270730378642 |
GO:0008037 | cell recognition | 0.0426270730378642 |
GO:0009145 | purine nucleoside triphosphate biosynthetic process | 0.0426270730378642 |
GO:0009206 | purine ribonucleoside triphosphate biosynthetic process | 0.0426270730378642 |
GO:0009201 | ribonucleoside triphosphate biosynthetic process | 0.0426270730378642 |
GO:0004620 | phospholipase activity | 0.0426270730378642 |
GO:0019829 | cation-transporting ATPase activity | 0.0426270730378642 |
GO:0009142 | nucleoside triphosphate biosynthetic process | 0.0426270730378642 |
GO:0009205 | purine ribonucleoside triphosphate metabolic process | 0.0426270730378642 |
GO:0009199 | ribonucleoside triphosphate metabolic process | 0.0426270730378642 |
GO:0006119 | oxidative phosphorylation | 0.0426270730378642 |
GO:0009144 | purine nucleoside triphosphate metabolic process | 0.0426270730378642 |
GO:0015992 | proton transport | 0.0432289395035572 |
GO:0006752 | group transfer coenzyme metabolic process | 0.0432289395035572 |
GO:0009141 | nucleoside triphosphate metabolic process | 0.0432289395035572 |
GO:0009152 | purine ribonucleotide biosynthetic process | 0.0432289395035572 |
GO:0006818 | hydrogen transport | 0.0432289395035572 |
GO:0015662 | ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism | 0.0432289395035572 |
GO:0009260 | ribonucleotide biosynthetic process | 0.0432289395035572 |
GO:0016298 | lipase activity | 0.0432289395035572 |
GO:0007160 | cell-matrix adhesion | 0.0432289395035572 |
GO:0009150 | purine ribonucleotide metabolic process | 0.0432289395035572 |
GO:0008081 | phosphoric diester hydrolase activity | 0.0432289395035572 |
GO:0006164 | purine nucleotide biosynthetic process | 0.0432289395035572 |
GO:0031589 | cell-substrate adhesion | 0.0438092038771068 |
GO:0009259 | ribonucleotide metabolic process | 0.0450093633137073 |
GO:0006163 | purine nucleotide metabolic process | 0.0467984890472701 |
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><br>
Ontology term | p-value | n |
---|---|---|
non-terminally differentiated cell | 2.30e-10 | 49 |
CNS neuron (sensu Vertebrata) | 5.75e-09 | 23 |
neuroblast (sensu Vertebrata) | 5.75e-09 | 23 |
neural cell | 2.36e-08 | 43 |
ectodermal cell | 3.62e-08 | 44 |
neurectodermal cell | 3.62e-08 | 44 |
electrically responsive cell | 4.28e-08 | 39 |
electrically active cell | 4.28e-08 | 39 |
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) |
---|---|
MA0003.1 | 3.51844 |
MA0004.1 | 0.394951 |
MA0006.1 | 0.670874 |
MA0007.1 | 0.38073 |
MA0009.1 | 0.82278 |
MA0014.1 | 3.05062 |
MA0017.1 | 0.26239 |
MA0019.1 | 0.642876 |
MA0024.1 | 0.779446 |
MA0025.1 | 1.05446 |
MA0027.1 | 2.46647 |
MA0028.1 | 0.24786 |
MA0029.1 | 0.757957 |
MA0030.1 | 0.764448 |
MA0031.1 | 0.729293 |
MA0038.1 | 0.534262 |
MA0040.1 | 0.835181 |
MA0041.1 | 0.323687 |
MA0042.1 | 0.311486 |
MA0043.1 | 0.918718 |
MA0046.1 | 0.858391 |
MA0048.1 | 0.589612 |
MA0050.1 | 0.431976 |
MA0051.1 | 0.542972 |
MA0052.1 | 0.84317 |
MA0055.1 | 0.424109 |
MA0056.1 | 0 |
MA0057.1 | 1.93392 |
MA0058.1 | 0.305206 |
MA0059.1 | 0.316585 |
MA0060.1 | 0.169058 |
MA0061.1 | 0.194456 |
MA0063.1 | 0 |
MA0066.1 | 0.523573 |
MA0067.1 | 1.16502 |
MA0068.1 | 0.563625 |
MA0069.1 | 0.843506 |
MA0070.1 | 0.833895 |
MA0071.1 | 0.431174 |
MA0072.1 | 0.825495 |
MA0073.1 | 5.13002 |
MA0074.1 | 0.488775 |
MA0076.1 | 0.279739 |
MA0077.1 | 0.804033 |
MA0078.1 | 0.575205 |
MA0081.1 | 0.338098 |
MA0083.1 | 0.917931 |
MA0084.1 | 1.49188 |
MA0087.1 | 0.87515 |
MA0088.1 | 0.728131 |
MA0089.1 | 0 |
MA0090.1 | 0.362551 |
MA0091.1 | 0.407455 |
MA0092.1 | 0.362847 |
MA0093.1 | 0.2553 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.477594 |
MA0101.1 | 0.324888 |
MA0103.1 | 0.272167 |
MA0105.1 | 0.109964 |
MA0106.1 | 0.582805 |
MA0107.1 | 0.266586 |
MA0108.2 | 0.665343 |
MA0109.1 | 0 |
MA0111.1 | 0.375908 |
MA0113.1 | 0.555251 |
MA0114.1 | 0.561811 |
MA0115.1 | 0.921497 |
MA0116.1 | 0.238371 |
MA0117.1 | 0.88947 |
MA0119.1 | 0.325434 |
MA0122.1 | 0.909168 |
MA0124.1 | 1.11203 |
MA0125.1 | 1.03833 |
MA0130.1 | 0 |
MA0131.1 | 0.638414 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.954884 |
MA0136.1 | 0.508047 |
MA0139.1 | 0.441109 |
MA0140.1 | 0.477483 |
MA0141.1 | 0.29014 |
MA0142.1 | 0.714976 |
MA0143.1 | 0.571221 |
MA0144.1 | 0.195095 |
MA0145.1 | 0.77191 |
MA0146.1 | 1.09957 |
MA0147.1 | 0.205697 |
MA0148.1 | 0.410398 |
MA0149.1 | 0.330018 |
MA0062.2 | 0.113962 |
MA0035.2 | 1.21101 |
MA0039.2 | 1.67243 |
MA0138.2 | 0.630612 |
MA0002.2 | 0.145685 |
MA0137.2 | 0.287486 |
MA0104.2 | 0.157347 |
MA0047.2 | 0.533516 |
MA0112.2 | 0.200175 |
MA0065.2 | 0.200864 |
MA0150.1 | 0.380623 |
MA0151.1 | 0 |
MA0152.1 | 0.53362 |
MA0153.1 | 0.971406 |
MA0154.1 | 0.581988 |
MA0155.1 | 0.490492 |
MA0156.1 | 0.278949 |
MA0157.1 | 0.683365 |
MA0158.1 | 0 |
MA0159.1 | 0.214506 |
MA0160.1 | 0.413266 |
MA0161.1 | 0 |
MA0162.1 | 1.61761 |
MA0163.1 | 2.42374 |
MA0164.1 | 1.26737 |
MA0080.2 | 0.267388 |
MA0018.2 | 1.28741 |
MA0099.2 | 0.624421 |
MA0079.2 | 5.6867 |
MA0102.2 | 1.5442 |
MA0258.1 | 0.180934 |
MA0259.1 | 0.571417 |
MA0442.1 | 0 |