MCL coexpression mm9:348: Difference between revisions
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{{MCL_coexpression_mm9 | 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of secondary male sexual characteristics;0.0428620973140022;20850!GO:0046543;development of secondary female sexual characteristics;0.0428620973140022;20850!GO:0001560;regulation of cell growth by extracellular stimulus;0.0428620973140022;235036!GO:0045136;development of secondary sexual characteristics;0.0428620973140022;20850!GO:0001553;luteinization;0.0428620973140022;20850!GO:0040008;regulation of growth;0.0428620973140022;20850,235036!GO:0001779;natural killer cell differentiation;0.0428620973140022;20850!GO:0045647;negative regulation of erythrocyte differentiation;0.0428620973140022;20850!GO:0045931;positive regulation of progression through mitotic cell cycle;0.0428620973140022;20850!GO:0045579;positive regulation of B cell differentiation;0.0428620973140022;20850!GO:0045885;positive regulation of survival gene product activity;0.0428620973140022;20850!GO:0006309;DNA fragmentation during apoptosis;0.0428620973140022;13347!GO:0019218;regulation of steroid metabolic process;0.0428620973140022;20850!GO:0030856;regulation of epithelial cell differentiation;0.0428620973140022;20850!GO:0000030;mannosyltransferase activity;0.0428620973140022;67556!GO:0042104;positive regulation of activated T cell proliferation;0.0428620973140022;20850!GO:0045086;positive regulation of interleukin-2 biosynthetic process;0.0428620973140022;20850!GO:0006921;cell structure disassembly during apoptosis;0.0428620973140022;13347!GO:0046006;regulation of activated T cell proliferation;0.0428620973140022;20850!GO:0045577;regulation of B cell differentiation;0.0428620973140022;20850!GO:0030262;apoptotic nuclear changes;0.0428620973140022;13347!GO:0045646;regulation of erythrocyte differentiation;0.0428620973140022;20850!GO:0031668;cellular response to extracellular stimulus;0.0428620973140022;235036!GO:0019915;sequestering of lipid;0.0438073878106892;20850!GO:0043029;T cell homeostasis;0.0438073878106892;20850!GO:0045884;regulation of survival gene product activity;0.0455952132937886;20850!GO:0045787;positive regulation of progression through cell cycle;0.0455952132937886;20850!GO:0030101;natural killer cell activation;0.0455952132937886;20850!GO:0045076;regulation of interleukin-2 biosynthetic process;0.0455952132937886;20850!GO:0006308;DNA catabolic process;0.0455952132937886;13347!GO:0050798;activated T cell proliferation;0.0455952132937886;20850!GO:0004289;subtilase activity;0.0455952132937886;18551!GO:0045621;positive regulation of lymphocyte differentiation;0.0455952132937886;20850!GO:0009991;response to extracellular stimulus;0.0455952132937886;235036!GO:0042094;interleukin-2 biosynthetic process;0.0455952132937886;20850!GO:0007595;lactation;0.0455952132937886;20850!GO:0032623;interleukin-2 production;0.0462434538972172;20850!GO:0050729;positive regulation of inflammatory response;0.0462434538972172;20850!GO:0031349;positive regulation of defense response;0.0462434538972172;20850!GO:0019216;regulation of lipid metabolic process;0.0462434538972172;20850!GO:0002260;lymphocyte homeostasis;0.0462434538972172;20850!GO:0045638;negative regulation of myeloid cell differentiation;0.0462434538972172;20850!GO:0051716;cellular response to stimulus;0.0462434538972172;235036!GO:0007346;regulation of progression through mitotic cell cycle;0.0462434538972172;20850!GO:0046489;phosphoinositide biosynthetic process;0.0462434538972172;67556!GO:0006506;GPI anchor biosynthetic process;0.0462434538972172;67556!GO:0042981;regulation of apoptosis;0.0462434538972172;20850,13347!GO:0043067;regulation of programmed cell death;0.0462434538972172;20850,13347!GO:0006505;GPI anchor metabolic process;0.0462434538972172;67556!GO:0040018;positive regulation of multicellular organism growth;0.0462434538972172;20850!GO:0030879;mammary gland development;0.0462434538972172;20850!GO:0022411;cellular component disassembly;0.0462434538972172;13347!GO:0045619;regulation of lymphocyte differentiation;0.0474254577769673;20850!GO:0045927;positive regulation of growth;0.048877223103783;20850!GO:0050871;positive regulation of B cell activation;0.048877223103783;20850!GO:0006997;nuclear organization and biogenesis;0.048877223103783;13347!GO:0001776;leukocyte homeostasis;0.048877223103783;20850!GO:0046661;male sex differentiation;0.048877223103783;20850!GO:0042102;positive regulation of T cell proliferation;0.048877223103783;20850!GO:0007259;JAK-STAT cascade;0.048877223103783;20850!GO:0048872;homeostasis of number of cells;0.048877223103783;20850!GO:0031347;regulation of defense response;0.048877223103783;20850!GO:0050727;regulation of inflammatory response;0.048877223103783;20850!GO:0022601;menstrual cycle phase;0.048877223103783;20850!GO:0009605;response to external stimulus;0.048877223103783;20850,235036!GO:0046474;glycerophospholipid biosynthetic process;0.048877223103783;67556!GO:0022602;menstrual cycle 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| ||
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| |||
| | |||
}} |
Latest revision as of 15:08, 17 September 2013
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
GO ID | GO name | FDR corrected p-value |
---|---|---|
GO:0046544 | development of secondary male sexual characteristics | 0.0428620973140022 |
GO:0046543 | development of secondary female sexual characteristics | 0.0428620973140022 |
GO:0001560 | regulation of cell growth by extracellular stimulus | 0.0428620973140022 |
GO:0045136 | development of secondary sexual characteristics | 0.0428620973140022 |
GO:0001553 | luteinization | 0.0428620973140022 |
GO:0040008 | regulation of growth | 0.0428620973140022 |
GO:0001779 | natural killer cell differentiation | 0.0428620973140022 |
GO:0045647 | negative regulation of erythrocyte differentiation | 0.0428620973140022 |
GO:0045931 | positive regulation of progression through mitotic cell cycle | 0.0428620973140022 |
GO:0045579 | positive regulation of B cell differentiation | 0.0428620973140022 |
GO:0045885 | positive regulation of survival gene product activity | 0.0428620973140022 |
GO:0006309 | DNA fragmentation during apoptosis | 0.0428620973140022 |
GO:0019218 | regulation of steroid metabolic process | 0.0428620973140022 |
GO:0030856 | regulation of epithelial cell differentiation | 0.0428620973140022 |
GO:0000030 | mannosyltransferase activity | 0.0428620973140022 |
GO:0042104 | positive regulation of activated T cell proliferation | 0.0428620973140022 |
GO:0045086 | positive regulation of interleukin-2 biosynthetic process | 0.0428620973140022 |
GO:0006921 | cell structure disassembly during apoptosis | 0.0428620973140022 |
GO:0046006 | regulation of activated T cell proliferation | 0.0428620973140022 |
GO:0045577 | regulation of B cell differentiation | 0.0428620973140022 |
GO:0030262 | apoptotic nuclear changes | 0.0428620973140022 |
GO:0045646 | regulation of erythrocyte differentiation | 0.0428620973140022 |
GO:0031668 | cellular response to extracellular stimulus | 0.0428620973140022 |
GO:0019915 | sequestering of lipid | 0.0438073878106892 |
GO:0043029 | T cell homeostasis | 0.0438073878106892 |
GO:0045884 | regulation of survival gene product activity | 0.0455952132937886 |
GO:0045787 | positive regulation of progression through cell cycle | 0.0455952132937886 |
GO:0030101 | natural killer cell activation | 0.0455952132937886 |
GO:0045076 | regulation of interleukin-2 biosynthetic process | 0.0455952132937886 |
GO:0006308 | DNA catabolic process | 0.0455952132937886 |
GO:0050798 | activated T cell proliferation | 0.0455952132937886 |
GO:0004289 | subtilase activity | 0.0455952132937886 |
GO:0045621 | positive regulation of lymphocyte differentiation | 0.0455952132937886 |
GO:0009991 | response to extracellular stimulus | 0.0455952132937886 |
GO:0042094 | interleukin-2 biosynthetic process | 0.0455952132937886 |
GO:0007595 | lactation | 0.0455952132937886 |
GO:0032623 | interleukin-2 production | 0.0462434538972172 |
GO:0050729 | positive regulation of inflammatory response | 0.0462434538972172 |
GO:0031349 | positive regulation of defense response | 0.0462434538972172 |
GO:0019216 | regulation of lipid metabolic process | 0.0462434538972172 |
GO:0002260 | lymphocyte homeostasis | 0.0462434538972172 |
GO:0045638 | negative regulation of myeloid cell differentiation | 0.0462434538972172 |
GO:0051716 | cellular response to stimulus | 0.0462434538972172 |
GO:0007346 | regulation of progression through mitotic cell cycle | 0.0462434538972172 |
GO:0046489 | phosphoinositide biosynthetic process | 0.0462434538972172 |
GO:0006506 | GPI anchor biosynthetic process | 0.0462434538972172 |
GO:0042981 | regulation of apoptosis | 0.0462434538972172 |
GO:0043067 | regulation of programmed cell death | 0.0462434538972172 |
GO:0006505 | GPI anchor metabolic process | 0.0462434538972172 |
GO:0040018 | positive regulation of multicellular organism growth | 0.0462434538972172 |
GO:0030879 | mammary gland development | 0.0462434538972172 |
GO:0022411 | cellular component disassembly | 0.0462434538972172 |
GO:0045619 | regulation of lymphocyte differentiation | 0.0474254577769673 |
GO:0045927 | positive regulation of growth | 0.048877223103783 |
GO:0050871 | positive regulation of B cell activation | 0.048877223103783 |
GO:0006997 | nuclear organization and biogenesis | 0.048877223103783 |
GO:0001776 | leukocyte homeostasis | 0.048877223103783 |
GO:0046661 | male sex differentiation | 0.048877223103783 |
GO:0042102 | positive regulation of T cell proliferation | 0.048877223103783 |
GO:0007259 | JAK-STAT cascade | 0.048877223103783 |
GO:0048872 | homeostasis of number of cells | 0.048877223103783 |
GO:0031347 | regulation of defense response | 0.048877223103783 |
GO:0050727 | regulation of inflammatory response | 0.048877223103783 |
GO:0022601 | menstrual cycle phase | 0.048877223103783 |
GO:0009605 | response to external stimulus | 0.048877223103783 |
GO:0046474 | glycerophospholipid biosynthetic process | 0.048877223103783 |
GO:0022602 | menstrual cycle process | 0.048877223103783 |
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 |
---|---|---|
hematopoietic cell | 2.38e-12 | 32 |
hematopoietic oligopotent progenitor cell | 2.38e-12 | 32 |
hematopoietic stem cell | 2.38e-12 | 32 |
angioblastic mesenchymal cell | 2.38e-12 | 32 |
hematopoietic multipotent progenitor cell | 2.38e-12 | 32 |
nucleate cell | 6.66e-11 | 16 |
hematopoietic lineage restricted progenitor cell | 5.63e-10 | 25 |
lymphoid lineage restricted progenitor cell | 1.32e-09 | 12 |
T cell | 7.22e-09 | 11 |
pro-T cell | 7.22e-09 | 11 |
lymphocyte | 1.27e-08 | 13 |
common lymphoid progenitor | 1.27e-08 | 13 |
mature alpha-beta T cell | 2.19e-08 | 9 |
alpha-beta T cell | 2.19e-08 | 9 |
immature T cell | 2.19e-08 | 9 |
mature T cell | 2.19e-08 | 9 |
immature alpha-beta T cell | 2.19e-08 | 9 |
CD4-positive, alpha-beta T cell | 1.23e-07 | 8 |
connective tissue cell | 4.63e-07 | 46 |
mesenchymal cell | 4.63e-07 | 46 |
Ontology term | p-value | n |
---|---|---|
hemopoietic organ | 2.45e-09 | 29 |
immune organ | 2.45e-09 | 29 |
hemolymphoid system | 3.86e-09 | 48 |
immune system | 3.86e-09 | 48 |
hematopoietic system | 5.66e-09 | 45 |
blood island | 5.66e-09 | 45 |
mixed endoderm/mesoderm-derived structure | 1.74e-08 | 35 |
segment of respiratory tract | 3.91e-08 | 27 |
thymus | 5.69e-08 | 23 |
neck | 5.69e-08 | 23 |
respiratory system epithelium | 5.69e-08 | 23 |
hemolymphoid system gland | 5.69e-08 | 23 |
pharyngeal epithelium | 5.69e-08 | 23 |
thymic region | 5.69e-08 | 23 |
pharyngeal gland | 5.69e-08 | 23 |
entire pharyngeal arch endoderm | 5.69e-08 | 23 |
thymus primordium | 5.69e-08 | 23 |
early pharyngeal endoderm | 5.69e-08 | 23 |
pharynx | 1.87e-07 | 24 |
upper respiratory tract | 1.87e-07 | 24 |
chordate pharynx | 1.87e-07 | 24 |
pharyngeal arch system | 1.87e-07 | 24 |
pharyngeal region of foregut | 1.87e-07 | 24 |
connective tissue | 4.63e-07 | 46 |
gland of gut | 7.52e-07 | 24 |
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 | 3.5408 |
MA0004.1 | 0.873644 |
MA0006.1 | 1.68471 |
MA0007.1 | 0.421767 |
MA0009.1 | 0.483331 |
MA0014.1 | 0.732965 |
MA0017.1 | 0.239891 |
MA0019.1 | 0.329708 |
MA0024.1 | 0.445298 |
MA0025.1 | 0.694475 |
MA0027.1 | 2.07936 |
MA0028.1 | 6.59825 |
MA0029.1 | 0.426655 |
MA0030.1 | 0.43227 |
MA0031.1 | 0.402033 |
MA0038.1 | 0.243815 |
MA0040.1 | 0.494317 |
MA0041.1 | 0.10094 |
MA0042.1 | 0.0939798 |
MA0043.1 | 1.39663 |
MA0046.1 | 0.514989 |
MA0048.1 | 0.206983 |
MA0050.1 | 0.506524 |
MA0051.1 | 1.99697 |
MA0052.1 | 0.501416 |
MA0055.1 | 0.0581823 |
MA0056.1 | 0 |
MA0057.1 | 1.05677 |
MA0058.1 | 1.55577 |
MA0059.1 | 2.85928 |
MA0060.1 | 1.20594 |
MA0061.1 | 2.3811 |
MA0063.1 | 0 |
MA0066.1 | 0.235725 |
MA0067.1 | 0.798606 |
MA0068.1 | 0.341633 |
MA0069.1 | 0.501715 |
MA0070.1 | 0.493176 |
MA0071.1 | 0.169125 |
MA0072.1 | 0.485733 |
MA0073.1 | 3.8418 |
MA0074.1 | 0.209912 |
MA0076.1 | 7.14289 |
MA0077.1 | 0.466808 |
MA0078.1 | 0.275441 |
MA0081.1 | 0.717402 |
MA0083.1 | 0.568641 |
MA0084.1 | 1.11388 |
MA0087.1 | 0.530004 |
MA0088.1 | 3.73648 |
MA0089.1 | 0 |
MA0090.1 | 0.392445 |
MA0091.1 | 0.153118 |
MA0092.1 | 0.124428 |
MA0093.1 | 0.496926 |
MA0095.1 | 0 |
MA0098.1 | 0 |
MA0100.1 | 0.584206 |
MA0101.1 | 2.26127 |
MA0103.1 | 0.253989 |
MA0105.1 | 3.9296 |
MA0106.1 | 1.40621 |
MA0107.1 | 2.45659 |
MA0108.2 | 0.348212 |
MA0109.1 | 0 |
MA0111.1 | 0.132626 |
MA0113.1 | 0.259904 |
MA0114.1 | 0.145706 |
MA0115.1 | 0.571881 |
MA0116.1 | 0.453258 |
MA0117.1 | 0.542889 |
MA0119.1 | 0.101951 |
MA0122.1 | 0.560692 |
MA0124.1 | 0.748494 |
MA0125.1 | 0.67944 |
MA0130.1 | 0 |
MA0131.1 | 1.56694 |
MA0132.1 | 0 |
MA0133.1 | 0 |
MA0135.1 | 0.602346 |
MA0136.1 | 1.19199 |
MA0139.1 | 0.425271 |
MA0140.1 | 0.201717 |
MA0141.1 | 0.0822433 |
MA0142.1 | 0.389844 |
MA0143.1 | 0.27232 |
MA0144.1 | 0.344625 |
MA0145.1 | 1.7347 |
MA0146.1 | 2.28351 |
MA0147.1 | 3.72014 |
MA0148.1 | 0.155077 |
MA0149.1 | 0.104621 |
MA0062.2 | 12.8238 |
MA0035.2 | 0.205003 |
MA0039.2 | 3.02406 |
MA0138.2 | 0.319705 |
MA0002.2 | 0.227684 |
MA0137.2 | 0.981229 |
MA0104.2 | 4.26801 |
MA0047.2 | 0.243248 |
MA0112.2 | 0.22235 |
MA0065.2 | 0.00234821 |
MA0150.1 | 0.135628 |
MA0151.1 | 0 |
MA0152.1 | 0.243327 |
MA0153.1 | 0.617506 |
MA0154.1 | 0.201776 |
MA0155.1 | 0.654367 |
MA0156.1 | 3.21167 |
MA0157.1 | 0.363212 |
MA0158.1 | 0 |
MA0159.1 | 0.696166 |
MA0160.1 | 0.156994 |
MA0161.1 | 0 |
MA0162.1 | 4.18474 |
MA0163.1 | 1.48165 |
MA0164.1 | 0.637671 |
MA0080.2 | 0.528447 |
MA0018.2 | 1.89645 |
MA0099.2 | 0.314682 |
MA0079.2 | 3.37134 |
MA0102.2 | 1.16504 |
MA0258.1 | 0.131525 |
MA0259.1 | 1.87279 |
MA0442.1 | 0 |