Coexpression cluster:C6: Difference between revisions
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| ||
|tfbs_overrepresentation_for_novel_motifs=0.00140989,1.34668e-13,1.27428e-05,1.33706,5.41166,0.79929,0.000153159,0.158392,0.907073,4.33947e-16,0.00303769,3.64844,0.000336163,0.00267328,2.70684,0.557923,6.55207e-05,1.52629,0.0119284,0.141277,0.510913,0.018937,1.06285e-10,1.54226,0.00933599,8.85637e-05,0.0524217,0.000887935,0.000756564,0.00161184,0.00135118,0.0675913,1.27846e-05,0.121438,3.40469e-08,1.3706e-12,8.77538e-15,0.000313528,3.80626,9.16738e-13,5.4098,0.00017915,5.52475,0.0403853,6.29296e-06,3.26001e-05,0.028977,0.0046681,3.95706,0.0324696,3.39791e-05,0.0330709,1.26603,0.00345666,0.76264,0.0345299,1.83782,0.000352919,0.650852,5.7911e-06,0.00582166,1.17768e-05,0.288408,0.001878,1.38864e-05,0.00270021,0.590467,1.36643,2.60333,0.00989592,1.24755e-08,3.78084,0,0.998506,4.82164e-17,0.00193254,0.883128,0.109626,0.497071,1.28438,1.78295,0.00908783,0.410845,7.56595,0.00837971,0,9.56849e-06,0.230812,0.0126866,0.369298,0.0564751,0.318704,0.472634,6.36042,3.37515e-16,0.755544,4.001,0.000517303,0.901851,0.537454,1.1262,0.429201,0.0976483,0.0723727,0.00143428,1.81249e-11,2.96182e-05,0.154852,0.000564577,2.94602e-14,0.0349511,0.0521637,1.27783,0.00288713,0.185865,0.481889,0,3.87593e-05,0.273487,0.767283,0.918429,0.46729,2.69536,2.12446,0.487552,0.0722071,1.03933,0.0939904,0.666276,0.830164,0.64327,1.30885,0.774594,1.29223,0.491343,0.0846636,1.42261,0.107427,0.236771,0.341469,0.0567965,2.02177,1.81785,0.164626,0.228624,0.0216403,1.39984,0.155454,0.116733,0.000737397,9.94908e-05,0,1.24225,0.000363219,0.490587,1.57068,0.747218,3.63363,0.00136823,3.16924e-07,0.139295,0.900908,1.46652,0.0148717,1.99161,0.499302,0.000501061,3.32345,0 | |tfbs_overrepresentation_for_novel_motifs=0.00140989,1.34668e-13,1.27428e-05,1.33706,5.41166,0.79929,0.000153159,0.158392,0.907073,4.33947e-16,0.00303769,3.64844,0.000336163,0.00267328,2.70684,0.557923,6.55207e-05,1.52629,0.0119284,0.141277,0.510913,0.018937,1.06285e-10,1.54226,0.00933599,8.85637e-05,0.0524217,0.000887935,0.000756564,0.00161184,0.00135118,0.0675913,1.27846e-05,0.121438,3.40469e-08,1.3706e-12,8.77538e-15,0.000313528,3.80626,9.16738e-13,5.4098,0.00017915,5.52475,0.0403853,6.29296e-06,3.26001e-05,0.028977,0.0046681,3.95706,0.0324696,3.39791e-05,0.0330709,1.26603,0.00345666,0.76264,0.0345299,1.83782,0.000352919,0.650852,5.7911e-06,0.00582166,1.17768e-05,0.288408,0.001878,1.38864e-05,0.00270021,0.590467,1.36643,2.60333,0.00989592,1.24755e-08,3.78084,0,0.998506,4.82164e-17,0.00193254,0.883128,0.109626,0.497071,1.28438,1.78295,0.00908783,0.410845,7.56595,0.00837971,0,9.56849e-06,0.230812,0.0126866,0.369298,0.0564751,0.318704,0.472634,6.36042,3.37515e-16,0.755544,4.001,0.000517303,0.901851,0.537454,1.1262,0.429201,0.0976483,0.0723727,0.00143428,1.81249e-11,2.96182e-05,0.154852,0.000564577,2.94602e-14,0.0349511,0.0521637,1.27783,0.00288713,0.185865,0.481889,0,3.87593e-05,0.273487,0.767283,0.918429,0.46729,2.69536,2.12446,0.487552,0.0722071,1.03933,0.0939904,0.666276,0.830164,0.64327,1.30885,0.774594,1.29223,0.491343,0.0846636,1.42261,0.107427,0.236771,0.341469,0.0567965,2.02177,1.81785,0.164626,0.228624,0.0216403,1.39984,0.155454,0.116733,0.000737397,9.94908e-05,0,1.24225,0.000363219,0.490587,1.57068,0.747218,3.63363,0.00136823,3.16924e-07,0.139295,0.900908,1.46652,0.0148717,1.99161,0.499302,0.000501061,3.32345,0 | ||
|tfbs_overrepresentation_jaspar=MA0003.1;0,MA0004.1;0.0233501,MA0006.1;1.40456e-05,MA0007.1;0.0477254,MA0009.1;1.11921,MA0014.1;0,MA0017.1;0.287854,MA0019.1;1.34934,MA0024.1;4.77267e-05,MA0025.1;0.875853,MA0027.1;0.252565,MA0028.1;4.82164e-17,MA0029.1;0.0732624,MA0030.1;0.363581,MA0031.1;0.151077,MA0038.1;1.1524,MA0040.1;1.03834,MA0041.1;1.81154,MA0042.1;1.47608,MA0043.1;2.77918,MA0046.1;0.00741003,MA0048.1;1.71494e-07,MA0050.1;1.76524,MA0051.1;0.772314,MA0052.1;7.02629,MA0055.1;1.22896e-11,MA0056.1;0,MA0057.1;9.51666e-08,MA0058.1;0.00928771,MA0059.1;4.68026e-06,MA0060.1;0,MA0061.1;63.3072,MA0063.1;0,MA0066.1;1.62354,MA0067.1;0.929587,MA0068.1;1.98273e-06,MA0069.1;0.942458,MA0070.1;0.14497,MA0071.1;2.00982,MA0072.1;0.588316,MA0073.1;0,MA0074.1;0.475786,MA0076.1;4.38516e-09,MA0077.1;0.176947,MA0078.1;0.209618,MA0081.1;2.79614,MA0083.1;0.020818,MA0084.1;0.723615,MA0087.1;0.41665,MA0088.1;2.97423e-11,MA0089.1;0,MA0090.1;1.49533,MA0091.1;0.230096,MA0092.1;3.33793,MA0093.1;0.00246061,MA0095.1;0,MA0098.1;0,MA0100.1;0.0119085,MA0101.1;63.8209,MA0103.1;1.75441e-09,MA0105.1;13.8907,MA0106.1;0.644113,MA0107.1;89.4199,MA0108.2;0.203593,MA0109.1;0,MA0111.1;0.415929,MA0113.1;0.177022,MA0114.1;0.0199176,MA0115.1;0.212859,MA0116.1;0.0548646,MA0117.1;0.304538,MA0119.1;0.0115293,MA0122.1;0.115221,MA0124.1;0.773725,MA0125.1;0.971051,MA0130.1;0,MA0131.1;1.12183e-05,MA0132.1;0,MA0133.1;0,MA0135.1;0.558262,MA0136.1;4.99847,MA0139.1;4.82164e-17,MA0140.1;1.36675e-05,MA0141.1;3.33478,MA0142.1;0.779888,MA0143.1;0.901626,MA0144.1;2.29353,MA0145.1;0.00120224,MA0146.1;0,MA0147.1;6.43675e-08,MA0148.1;0.633255,MA0149.1;0.000117125,MA0062.2;7.1041e-12,MA0035.2;0.00309098,MA0039.2;0,MA0138.2;0.000158999,MA0002.2;13.0476,MA0137.2;0.942672,MA0104.2;3.17292e-10,MA0047.2;0.307069,MA0112.2;0.00580502,MA0065.2;0.000175111,MA0150.1;22.8928,MA0151.1;0,MA0152.1;0.950398,MA0153.1;0.50045,MA0154.1;1.52118,MA0155.1;1.02508e-13,MA0156.1;2.14019,MA0157.1;0.739868,MA0158.1;0,MA0159.1;0.0881673,MA0160.1;2.38173,MA0161.1;0,MA0162.1;0,MA0163.1;0,MA0164.1;0.292337,MA0080.2;22.5657,MA0018.2;0.0395919,MA0099.2;62.3281,MA0079.2;0,MA0102.2;4.48298,MA0258.1;0.616727,MA0259.1;4.14439e-06,MA0442.1;0 | |||
}} | }} | ||
Revision as of 17:57, 22 January 2013
Full id: C6_CD14_Eosinophils_Basophils_Peripheral_CD34_Natural_immature
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
| p.value | FDR | nGenes | nPathway | Name |
|---|---|---|---|---|
| 0.00172825128463486 | 0.037723553902547 | 4 | 189 | Chemokine signaling pathway (KEGG):04062 |
| 0.0016442265762792 | 0.0371712650994548 | 3 | 86 | Apoptosis (KEGG):04210 |
| 0.000550272559222643 | 0.0193512516659963 | 3 | 59 | NOD-like receptor signaling pathway (KEGG):04621 |
| 0.00102466022826903 | 0.0324304962247149 | 3 | 73 | Leishmaniasis (KEGG):05140 |
| 8.32052292651293e-06 | 0.00153381594094863 | 6 | 176 | Influenza A (KEGG):05164 |
| 0.000173506173738816 | 0.00915245066472252 | 3 | 40 | NOD pathway (Wikipathways):WP1433 |
| 0.000318679660048518 | 0.0142465599027021 | 2 | 10 | Serotonin Transporter Activity (Wikipathways):WP1455 |
| 2.2721434999518e-05 | 0.00204375375225366 | 4 | 61 | Selenium Pathway (Wikipathways):WP15 |
| 1.20059359167133e-05 | 0.00153381594094863 | 4 | 52 | Vitamin B12 Metabolism (Wikipathways):WP1533 |
| 2.58294313081031e-05 | 0.00204375375225366 | 4 | 63 | Folate Metabolism (Wikipathways):WP176 |
| 0.00138406994691564 | 0.0365048448499001 | 3 | 81 | Apoptosis Modulation and Signaling (Wikipathways):WP1772 |
| 1.21154497705263e-05 | 0.00153381594094863 | 6 | 188 | TNF-alpha/NF-kB Signaling Pathway (Wikipathways):WP231 |
| 0.00158993478332769 | 0.0371712650994548 | 3 | 85 | Apoptosis (Wikipathways):WP254 |
| 0.00160191984646584 | 0.0371712650994548 | 2 | 22 | EBV LMP1 signaling (Wikipathways):WP262 |
| 6.37913525735024e-05 | 0.00448665846433634 | 5 | 155 | Myometrial Relaxation and Contraction Pathways (Wikipathways):WP289 |
| 5.1741638008334e-06 | 0.00153381594094863 | 6 | 162 | MAPK signaling pathway (Wikipathways):WP382 |
| 0.00119206838039819 | 0.0340099247015677 | 2 | 19 | Apoptosis Modulation by HSP70 (Wikipathways):WP384 |
| 0.002238098707007 | 0.0472238827178477 | 2 | 26 | Oxidative Stress (Wikipathways):WP408 |
| 0.000317955734175987 | 0.0142465599027021 | 3 | 49 | Diurnally regulated genes with circadian orthologs (Wikipathways):WP410 |
| 0.000337596206225169 | 0.0142465599027021 | 3 | 50 | Type II interferon signaling (IFNG) (Wikipathways):WP619 |
| 0.00158993478332769 | 0.0371712650994548 | 3 | 85 | Integrin cell surface interactions (Reactome):REACT_13552 |
| 0.0011199874329472 | 0.0337596211931228 | 5 | 289 | Metabolism of lipids and lipoproteins (Reactome):REACT_22258 |
| 0.000370370870185967 | 0.0146527975517323 | 4 | 125 | Integration of energy metabolism (Reactome):REACT_1505 |
| 0.000168540052754507 | 0.00915245066472252 | 9 | 740 | TGF beta receptor down reg. targets (Netpath):NetPath_7 |
| 5.58065191987273e-07 | 0.000353255266527944 | 12 | 728 | TNF alpha/NF-kB up reg. targets (Netpath):NetPath_9 |
| 0.00123574765898271 | 0.0340099247015677 | 6 | 441 | AR up reg. targets (Netpath):NetPath_2 |
| 0.000831682595547055 | 0.0277081622621729 | 4 | 155 | IL-1 up reg. targets (Netpath):NetPath_13 |
| 2.21542888487209e-05 | 0.00204375375225366 | 8 | 433 | IL-2 up reg. targets (Netpath):NetPath_14 |
| 0.000442340270634371 | 0.0164706700771504 | 4 | 131 | IL-5 up reg. targets (Netpath):NetPath_17 |
| 9.7124582608207e-05 | 0.0061479860790995 | 3 | 33 | {NFKB1,33} (Static Module):NA |
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:0005515 | protein binding | 2.29416174375804e-07 |
| GO:0005737 | cytoplasm | 3.14080397390456e-05 |
| GO:0033700 | phospholipid efflux | 0.000682501846355311 |
| GO:0055091 | phospholipid homeostasis | 0.000682501846355311 |
| GO:0048869 | cellular developmental process | 0.00157011851707171 |
| GO:0030154 | cell differentiation | 0.00157011851707171 |
| GO:0006915 | apoptosis | 0.00157011851707171 |
| GO:0032366 | intracellular sterol transport | 0.00157011851707171 |
| GO:0032365 | intracellular lipid transport | 0.00157011851707171 |
| GO:0032367 | intracellular cholesterol transport | 0.00157011851707171 |
| GO:0012501 | programmed cell death | 0.00157011851707171 |
| GO:0008219 | cell death | 0.00199630057629326 |
| GO:0016265 | death | 0.00199630057629326 |
| GO:0044459 | plasma membrane part | 0.00217051162032791 |
| GO:0048519 | negative regulation of biological process | 0.00230144550315424 |
| GO:0007154 | cell communication | 0.002397883239342 |
| GO:0033344 | cholesterol efflux | 0.002397883239342 |
| GO:0042979 | ornithine decarboxylase regulator activity | 0.00316692735386203 |
| GO:0050789 | regulation of biological process | 0.00425337336641725 |
| GO:0044424 | intracellular part | 0.00450580449669052 |
| GO:0050702 | interleukin-1 beta secretion | 0.00579697917516031 |
| GO:0048523 | negative regulation of cellular process | 0.00590658375459338 |
| GO:0017127 | cholesterol transporter activity | 0.00590658375459338 |
| GO:0050701 | interleukin-1 secretion | 0.00590658375459338 |
| GO:0065007 | biological regulation | 0.00590658375459338 |
| GO:0007165 | signal transduction | 0.00590658375459338 |
| GO:0042803 | protein homodimerization activity | 0.00591115842464567 |
| GO:0032502 | developmental process | 0.00623728819091024 |
| GO:0015248 | sterol transporter activity | 0.00700970298440716 |
| GO:0045639 | positive regulation of myeloid cell differentiation | 0.00700970298440716 |
| GO:0045934 | negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 0.00726833604018329 |
| GO:0048522 | positive regulation of cellular process | 0.0073396312809018 |
| GO:0048468 | cell development | 0.00819798682992823 |
| GO:0050794 | regulation of cellular process | 0.00819798682992823 |
| GO:0043433 | negative regulation of transcription factor activity | 0.00896430564248539 |
| GO:0008203 | cholesterol metabolic process | 0.00896430564248539 |
| GO:0055088 | lipid homeostasis | 0.0096051926651879 |
| GO:0015485 | cholesterol binding | 0.0096051926651879 |
| GO:0015918 | sterol transport | 0.0100465450591694 |
| GO:0030301 | cholesterol transport | 0.0100465450591694 |
| GO:0042802 | identical protein binding | 0.0100465450591694 |
| GO:0046983 | protein dimerization activity | 0.0100542458201814 |
| GO:0005887 | integral to plasma membrane | 0.0104065508860288 |
| GO:0006171 | cAMP biosynthetic process | 0.0104065508860288 |
| GO:0048518 | positive regulation of biological process | 0.0105872248459267 |
| GO:0031226 | intrinsic to plasma membrane | 0.0105872248459267 |
| GO:0031324 | negative regulation of cellular metabolic process | 0.0105872248459267 |
| GO:0050663 | cytokine secretion | 0.0105872248459267 |
| GO:0009889 | regulation of biosynthetic process | 0.0108387075050792 |
| GO:0016125 | sterol metabolic process | 0.0111466157922292 |
| GO:0008202 | steroid metabolic process | 0.0115317664946074 |
| GO:0046058 | cAMP metabolic process | 0.0116310481177995 |
| GO:0015914 | phospholipid transport | 0.0116310481177995 |
| GO:0009892 | negative regulation of metabolic process | 0.016677554322414 |
| GO:0032934 | sterol binding | 0.016677554322414 |
| GO:0009058 | biosynthetic process | 0.016677554322414 |
| GO:0001816 | cytokine production | 0.016677554322414 |
| GO:0006066 | alcohol metabolic process | 0.0174849754821528 |
| GO:0000287 | magnesium ion binding | 0.0175330849197192 |
| GO:0044238 | primary metabolic process | 0.0196485340868951 |
| GO:0043226 | organelle | 0.0196485340868951 |
| GO:0005548 | phospholipid transporter activity | 0.0196485340868951 |
| GO:0005886 | plasma membrane | 0.0196485340868951 |
| GO:0005622 | intracellular | 0.0196485340868951 |
| GO:0030218 | erythrocyte differentiation | 0.0196485340868951 |
| GO:0045637 | regulation of myeloid cell differentiation | 0.0196485340868951 |
| GO:0006954 | inflammatory response | 0.0196485340868951 |
| GO:0016481 | negative regulation of transcription | 0.0196485340868951 |
| GO:0001891 | phagocytic cup | 0.0196485340868951 |
| GO:0042713 | sperm ejaculation | 0.0196485340868951 |
| GO:0004925 | prolactin receptor activity | 0.0196485340868951 |
| GO:0042976 | activation of JAK protein | 0.0196485340868951 |
| GO:0009720 | detection of hormone stimulus | 0.0196485340868951 |
| GO:0042977 | tyrosine phosphorylation of JAK2 protein | 0.0196485340868951 |
| GO:0004164 | diphthine synthase activity | 0.0196485340868951 |
| GO:0060155 | platelet dense granule organization and biogenesis | 0.0196485340868951 |
| GO:0043084 | penile erection | 0.0196485340868951 |
| GO:0019534 | toxin transporter activity | 0.0196485340868951 |
| GO:0043691 | reverse cholesterol transport | 0.0196485340868951 |
| GO:0042978 | ornithine decarboxylase activator activity | 0.0196485340868951 |
| GO:0033036 | macromolecule localization | 0.0219002224729535 |
| GO:0009190 | cyclic nucleotide biosynthetic process | 0.024870873544761 |
| GO:0009967 | positive regulation of signal transduction | 0.0272347163458986 |
| GO:0001726 | ruffle | 0.0280118576607125 |
| GO:0045121 | lipid raft | 0.0291643558601784 |
| GO:0045597 | positive regulation of cell differentiation | 0.0291643558601784 |
| GO:0042981 | regulation of apoptosis | 0.0291643558601784 |
| GO:0043231 | intracellular membrane-bound organelle | 0.0291643558601784 |
| GO:0043067 | regulation of programmed cell death | 0.0291643558601784 |
| GO:0043227 | membrane-bound organelle | 0.0291643558601784 |
| GO:0009726 | detection of endogenous stimulus | 0.0291643558601784 |
| GO:0033363 | secretory granule organization and biogenesis | 0.0291643558601784 |
| GO:0017182 | peptidyl-diphthamide metabolic process | 0.0291643558601784 |
| GO:0017183 | peptidyl-diphthamide biosynthetic process from peptidyl-histidine | 0.0291643558601784 |
| GO:0030810 | positive regulation of nucleotide biosynthetic process | 0.0291643558601784 |
| GO:0030816 | positive regulation of cAMP metabolic process | 0.0291643558601784 |
| GO:0045981 | positive regulation of nucleotide metabolic process | 0.0291643558601784 |
| GO:0030801 | positive regulation of cyclic nucleotide metabolic process | 0.0291643558601784 |
| GO:0030349 | syntaxin-13 binding | 0.0291643558601784 |
| GO:0001660 | fever | 0.0291643558601784 |
| GO:0030804 | positive regulation of cyclic nucleotide biosynthetic process | 0.0291643558601784 |
| GO:0047372 | acylglycerol lipase activity | 0.0291643558601784 |
| GO:0030819 | positive regulation of cAMP biosynthetic process | 0.0291643558601784 |
| GO:0032755 | positive regulation of interleukin-6 production | 0.0291643558601784 |
| GO:0048186 | inhibin beta-A binding | 0.0291643558601784 |
| GO:0019964 | interferon-gamma binding | 0.0291643558601784 |
| GO:0004906 | interferon-gamma receptor activity | 0.0291643558601784 |
| GO:0009187 | cyclic nucleotide metabolic process | 0.0291643558601784 |
| GO:0043229 | intracellular organelle | 0.0291643558601784 |
| GO:0005765 | lysosomal membrane | 0.0296876900130799 |
| GO:0006952 | defense response | 0.0296876900130799 |
| GO:0051090 | regulation of transcription factor activity | 0.0305373741189356 |
| GO:0006417 | regulation of translation | 0.0335871816749354 |
| GO:0007243 | protein kinase cascade | 0.0345198462866372 |
| GO:0009306 | protein secretion | 0.0354763570020472 |
| GO:0048609 | reproductive process in a multicellular organism | 0.0354763570020472 |
| GO:0032504 | multicellular organism reproduction | 0.0354763570020472 |
| GO:0003836 | beta-galactoside alpha-2,3-sialyltransferase activity | 0.0354763570020472 |
| GO:0007171 | transmembrane receptor protein tyrosine kinase activation (dimerization) | 0.0354763570020472 |
| GO:0060011 | Sertoli cell proliferation | 0.0354763570020472 |
| GO:0042420 | dopamine catabolic process | 0.0354763570020472 |
| GO:0042405 | nuclear inclusion body | 0.0354763570020472 |
| GO:0016973 | poly(A)+ mRNA export from nucleus | 0.0354763570020472 |
| GO:0003875 | ADP-ribosylarginine hydrolase activity | 0.0354763570020472 |
| GO:0042424 | catecholamine catabolic process | 0.0354763570020472 |
| GO:0045651 | positive regulation of macrophage differentiation | 0.0354763570020472 |
| GO:0007143 | female meiosis | 0.0354763570020472 |
| GO:0045335 | phagocytic vesicle | 0.0354763570020472 |
| GO:0032927 | positive regulation of activin receptor signaling pathway | 0.0354763570020472 |
| GO:0008294 | calcium- and calmodulin-responsive adenylate cyclase activity | 0.0354763570020472 |
| GO:0045071 | negative regulation of viral genome replication | 0.0354763570020472 |
| GO:0051725 | protein amino acid de-ADP-ribosylation | 0.0354763570020472 |
| GO:0031326 | regulation of cellular biosynthetic process | 0.0354763570020472 |
| GO:0005774 | vacuolar membrane | 0.0358571271787439 |
| GO:0006366 | transcription from RNA polymerase II promoter | 0.0358571271787439 |
| GO:0045892 | negative regulation of transcription, DNA-dependent | 0.0366564692384988 |
| GO:0044437 | vacuolar part | 0.0372646447348745 |
| GO:0032501 | multicellular organismal process | 0.0372646447348745 |
| GO:0007254 | JNK cascade | 0.0380336914120694 |
| GO:0009100 | glycoprotein metabolic process | 0.0380819915798699 |
| GO:0044425 | membrane part | 0.0391948093775586 |
| GO:0006629 | lipid metabolic process | 0.0391948093775586 |
| GO:0051094 | positive regulation of developmental process | 0.0391948093775586 |
| GO:0031098 | stress-activated protein kinase signaling pathway | 0.0391948093775586 |
| GO:0044464 | cell part | 0.0391948093775586 |
| GO:0065009 | regulation of a molecular function | 0.0391948093775586 |
| GO:0044249 | cellular biosynthetic process | 0.0391948093775586 |
| GO:0004896 | hematopoietin/interferon-class (D200-domain) cytokine receptor activity | 0.0391948093775586 |
| GO:0009611 | response to wounding | 0.0391948093775586 |
| GO:0044237 | cellular metabolic process | 0.0391948093775586 |
| GO:0009891 | positive regulation of biosynthetic process | 0.0391948093775586 |
| GO:0048154 | S100 beta binding | 0.0391948093775586 |
| GO:0016286 | small conductance calcium-activated potassium channel activity | 0.0391948093775586 |
| GO:0043353 | enucleate erythrocyte differentiation | 0.0391948093775586 |
| GO:0031649 | heat generation | 0.0391948093775586 |
| GO:0048184 | follistatin binding | 0.0391948093775586 |
| GO:0007320 | insemination | 0.0391948093775586 |
| GO:0048525 | negative regulation of viral reproduction | 0.0391948093775586 |
| GO:0032675 | regulation of interleukin-6 production | 0.0391948093775586 |
| GO:0032088 | inhibition of NF-kappaB transcription factor | 0.0391948093775586 |
| GO:0031252 | leading edge | 0.0399798284812073 |
| GO:0007242 | intracellular signaling cascade | 0.0399798284812073 |
| GO:0006576 | biogenic amine metabolic process | 0.0416909424446509 |
| GO:0031323 | regulation of cellular metabolic process | 0.0439331099493751 |
| GO:0005773 | vacuole | 0.0439331099493751 |
| GO:0004702 | receptor signaling protein serine/threonine kinase activity | 0.0439331099493751 |
| GO:0030099 | myeloid cell differentiation | 0.0439331099493751 |
| GO:0042347 | negative regulation of NF-kappaB import into nucleus | 0.0440008996272566 |
| GO:0045410 | positive regulation of interleukin-6 biosynthetic process | 0.0440008996272566 |
| GO:0032925 | regulation of activin receptor signaling pathway | 0.0440008996272566 |
| GO:0002763 | positive regulation of myeloid leukocyte differentiation | 0.0440008996272566 |
| GO:0030817 | regulation of cAMP biosynthetic process | 0.0440008996272566 |
| GO:0032924 | activin receptor signaling pathway | 0.0440008996272566 |
| GO:0019961 | interferon binding | 0.0440008996272566 |
| GO:0045648 | positive regulation of erythrocyte differentiation | 0.0440008996272566 |
| GO:0004904 | interferon receptor activity | 0.0440008996272566 |
| GO:0007620 | copulation | 0.0440008996272566 |
| GO:0045649 | regulation of macrophage differentiation | 0.0440008996272566 |
| GO:0051606 | detection of stimulus | 0.044116196602511 |
| GO:0051028 | mRNA transport | 0.0460024150911983 |
| GO:0005496 | steroid binding | 0.0484052921109816 |
| GO:0009165 | nucleotide biosynthetic process | 0.0484052921109816 |
| GO:0017002 | activin receptor activity | 0.0484052921109816 |
| GO:0015198 | oligopeptide transporter activity | 0.0484052921109816 |
| GO:0030802 | regulation of cyclic nucleotide biosynthetic process | 0.0484052921109816 |
| GO:0030808 | regulation of nucleotide biosynthetic process | 0.0484052921109816 |
| GO:0045080 | positive regulation of chemokine biosynthetic process | 0.0484052921109816 |
| GO:0008073 | ornithine decarboxylase inhibitor activity | 0.0484052921109816 |
| GO:0005776 | autophagic vacuole | 0.0484052921109816 |
| GO:0016234 | inclusion body | 0.0484052921109816 |
| GO:0050811 | GABA receptor binding | 0.0484052921109816 |
| GO:0030814 | regulation of cAMP metabolic process | 0.0484052921109816 |
| GO:0048185 | activin binding | 0.0484052921109816 |
| GO:0043085 | positive regulation of catalytic activity | 0.0484052921109816 |
| GO:0006694 | steroid biosynthetic process | 0.0496781190108698 |
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 |
|---|---|---|
| bone marrow | 3.98e-73 | 76 |
| bone element | 2.99e-67 | 82 |
| hematopoietic system | 2.97e-65 | 98 |
| blood island | 2.97e-65 | 98 |
| skeletal element | 1.27e-60 | 90 |
| hemolymphoid system | 1.71e-58 | 108 |
| immune system | 2.00e-58 | 93 |
| skeletal system | 8.27e-54 | 100 |
| musculoskeletal system | 4.59e-29 | 167 |
| lateral plate mesoderm | 2.79e-27 | 203 |
| connective tissue | 6.71e-16 | 371 |
| mesoderm | 1.52e-14 | 315 |
| mesoderm-derived structure | 1.52e-14 | 315 |
| presumptive mesoderm | 1.52e-14 | 315 |
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) |
|---|---|
| MA0003.1 | 0 |
| MA0004.1 | 0.0233501 |
| MA0006.1 | 1.40456e-05 |
| MA0007.1 | 0.0477254 |
| MA0009.1 | 1.11921 |
| MA0014.1 | 0 |
| MA0017.1 | 0.287854 |
| MA0019.1 | 1.34934 |
| MA0024.1 | 4.77267e-05 |
| MA0025.1 | 0.875853 |
| MA0027.1 | 0.252565 |
| MA0028.1 | 4.82164e-17 |
| MA0029.1 | 0.0732624 |
| MA0030.1 | 0.363581 |
| MA0031.1 | 0.151077 |
| MA0038.1 | 1.1524 |
| MA0040.1 | 1.03834 |
| MA0041.1 | 1.81154 |
| MA0042.1 | 1.47608 |
| MA0043.1 | 2.77918 |
| MA0046.1 | 0.00741003 |
| MA0048.1 | 1.71494e-07 |
| MA0050.1 | 1.76524 |
| MA0051.1 | 0.772314 |
| MA0052.1 | 7.02629 |
| MA0055.1 | 1.22896e-11 |
| MA0056.1 | 0 |
| MA0057.1 | 9.51666e-08 |
| MA0058.1 | 0.00928771 |
| MA0059.1 | 4.68026e-06 |
| MA0060.1 | 0 |
| MA0061.1 | 63.3072 |
| MA0063.1 | 0 |
| MA0066.1 | 1.62354 |
| MA0067.1 | 0.929587 |
| MA0068.1 | 1.98273e-06 |
| MA0069.1 | 0.942458 |
| MA0070.1 | 0.14497 |
| MA0071.1 | 2.00982 |
| MA0072.1 | 0.588316 |
| MA0073.1 | 0 |
| MA0074.1 | 0.475786 |
| MA0076.1 | 4.38516e-09 |
| MA0077.1 | 0.176947 |
| MA0078.1 | 0.209618 |
| MA0081.1 | 2.79614 |
| MA0083.1 | 0.020818 |
| MA0084.1 | 0.723615 |
| MA0087.1 | 0.41665 |
| MA0088.1 | 2.97423e-11 |
| MA0089.1 | 0 |
| MA0090.1 | 1.49533 |
| MA0091.1 | 0.230096 |
| MA0092.1 | 3.33793 |
| MA0093.1 | 0.00246061 |
| MA0095.1 | 0 |
| MA0098.1 | 0 |
| MA0100.1 | 0.0119085 |
| MA0101.1 | 63.8209 |
| MA0103.1 | 1.75441e-09 |
| MA0105.1 | 13.8907 |
| MA0106.1 | 0.644113 |
| MA0107.1 | 89.4199 |
| MA0108.2 | 0.203593 |
| MA0109.1 | 0 |
| MA0111.1 | 0.415929 |
| MA0113.1 | 0.177022 |
| MA0114.1 | 0.0199176 |
| MA0115.1 | 0.212859 |
| MA0116.1 | 0.0548646 |
| MA0117.1 | 0.304538 |
| MA0119.1 | 0.0115293 |
| MA0122.1 | 0.115221 |
| MA0124.1 | 0.773725 |
| MA0125.1 | 0.971051 |
| MA0130.1 | 0 |
| MA0131.1 | 1.12183e-05 |
| MA0132.1 | 0 |
| MA0133.1 | 0 |
| MA0135.1 | 0.558262 |
| MA0136.1 | 4.99847 |
| MA0139.1 | 4.82164e-17 |
| MA0140.1 | 1.36675e-05 |
| MA0141.1 | 3.33478 |
| MA0142.1 | 0.779888 |
| MA0143.1 | 0.901626 |
| MA0144.1 | 2.29353 |
| MA0145.1 | 0.00120224 |
| MA0146.1 | 0 |
| MA0147.1 | 6.43675e-08 |
| MA0148.1 | 0.633255 |
| MA0149.1 | 0.000117125 |
| MA0062.2 | 7.1041e-12 |
| MA0035.2 | 0.00309098 |
| MA0039.2 | 0 |
| MA0138.2 | 0.000158999 |
| MA0002.2 | 13.0476 |
| MA0137.2 | 0.942672 |
| MA0104.2 | 3.17292e-10 |
| MA0047.2 | 0.307069 |
| MA0112.2 | 0.00580502 |
| MA0065.2 | 0.000175111 |
| MA0150.1 | 22.8928 |
| MA0151.1 | 0 |
| MA0152.1 | 0.950398 |
| MA0153.1 | 0.50045 |
| MA0154.1 | 1.52118 |
| MA0155.1 | 1.02508e-13 |
| MA0156.1 | 2.14019 |
| MA0157.1 | 0.739868 |
| MA0158.1 | 0 |
| MA0159.1 | 0.0881673 |
| MA0160.1 | 2.38173 |
| MA0161.1 | 0 |
| MA0162.1 | 0 |
| MA0163.1 | 0 |
| MA0164.1 | 0.292337 |
| MA0080.2 | 22.5657 |
| MA0018.2 | 0.0395919 |
| MA0099.2 | 62.3281 |
| MA0079.2 | 0 |
| MA0102.2 | 4.48298 |
| MA0258.1 | 0.616727 |
| MA0259.1 | 4.14439e-06 |
| MA0442.1 | 0 |
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
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
| TF | #promoters | Enrichment | p-value | q-value |
|---|---|---|---|---|
| BATF#10538 | 436 | 4.76874790365711 | 7.26402773042131e-165 | 2.23131703569845e-161 |
| BCL11A#53335 | 365 | 4.64968617549016 | 4.64864887127967e-133 | 1.1290703243432e-129 |
| BCL3#602 | 155 | 2.40449076541511 | 6.57443049044579e-23 | 1.90201370080794e-20 |
| CEBPB#1051 | 544 | 1.94715056508698 | 1.2241440229389e-53 | 9.75941813829891e-51 |
| EBF1#1879 | 671 | 2.68353805749789 | 2.70978364828282e-130 | 6.4319794191593e-127 |
| EP300#2033 | 616 | 1.87370817393511 | 3.66069328899217e-56 | 3.08321892265365e-53 |
| FOS#2353 | 583 | 2.3555491446275 | 5.9781925151765e-88 | 8.10852529990284e-85 |
| FOSL1#8061 | 207 | 3.69138347610652 | 1.91629595345543e-57 | 1.6678002756911e-54 |
| FOSL2#2355 | 262 | 1.99178830641902 | 6.05033884345615e-26 | 1.99965613440417e-23 |
| FOXA2#3170 | 117 | 1.29401179122669 | 0.00328093600771632 | 0.0169901663878364 |
| GATA2#2624 | 385 | 2.20332227993637 | 1.70065000800761e-48 | 1.19204151802891e-45 |
| IRF4#3662 | 292 | 2.87338918030053 | 3.79178251499373e-58 | 3.47377170248623e-55 |
| JUN#3725 | 492 | 2.76439692978423 | 8.83252939380048e-96 | 1.3768067721778e-92 |
| JUNB#3726 | 220 | 3.02395113837479 | 5.97792668412933e-47 | 3.9766158277948e-44 |
| JUND#3727 | 544 | 1.70862019954101 | 3.17285305761613e-37 | 1.682079190276e-34 |
| MAFF#23764 | 114 | 2.88277981133981 | 5.49356136802477e-23 | 1.59816728611459e-20 |
| MAFK#7975 | 197 | 2.39732574232263 | 8.89834741357204e-29 | 3.35499821489549e-26 |
| MAX#4149 | 416 | 1.20532693836864 | 2.58828390391553e-05 | 0.00055943249718757 |
| MEF2A#4205 | 340 | 2.86156197093802 | 9.20721704224228e-68 | 9.5207182245024e-65 |
| MEF2C#4208 | 199 | 3.69149508039164 | 3.29710349381751e-55 | 2.73290628405402e-52 |
| NFKB1#4790 | 752 | 1.85317633362989 | 1.35290696615076e-69 | 1.42723485492746e-66 |
| NR3C1#2908 | 302 | 2.03046836372441 | 2.27219718500397e-31 | 9.68595925733183e-29 |
| NR4A1#3164 | 4 | 4.95484856811586 | 0.00883210029332918 | 0.0335350731671274 |
| PAX5#5079 | 505 | 1.51240709171298 | 3.43107915779477e-22 | 9.65871903398726e-20 |
| PBX3#5090 | 137 | 1.34813122500402 | 0.000325841489061526 | 0.00332362137670639 |
| POLR2A#5430 | 1231 | 1.18702957357117 | 7.50101380682326e-17 | 1.5211619047977e-14 |
| POU2F2#5452 | 382 | 1.56198445893922 | 1.24295534692993e-18 | 2.86562943660077e-16 |
| PRDM1#639 | 33 | 1.9534896904608 | 0.000289002499974373 | 0.00306988731639783 |
| RAD21#5885 | 290 | 1.34843279285242 | 1.35529532175426e-07 | 7.70526337009761e-06 |
| RXRA#6256 | 173 | 1.5594561136372 | 9.64134073379469e-09 | 7.328471505799e-07 |
| SIRT6#51548 | 29 | 2.00067971069184 | 0.000447953607292459 | 0.00416819554454892 |
| SMARCA4#6597 | 28 | 1.971012704365 | 0.00069609572826958 | 0.00560434333678282 |
| SMARCB1#6598 | 177 | 1.45070978592944 | 7.24984902114776e-07 | 3.23023456450363e-05 |
| SMARCC1#6599 | 126 | 2.47040111103438 | 9.76059560775561e-20 | 2.42711153494854e-17 |
| SMC3#9126 | 209 | 1.41194026250156 | 4.55361764321007e-07 | 2.15876202015078e-05 |
| SPI1#6688 | 643 | 2.36882802693314 | 1.1156325763837e-99 | 1.87928307491834e-96 |
| SRF#6722 | 206 | 1.27625447777574 | 0.000231586708018714 | 0.00254650286363092 |
| STAT3#6774 | 653 | 3.08451308627828 | 1.55395003293912e-155 | 4.38629695919266e-152 |
| TAL1#6886 | 118 | 1.58262091061425 | 1.14396279614118e-06 | 4.67061495176657e-05 |
| TCF12#6938 | 364 | 1.7381882462487 | 2.82237626637732e-25 | 9.06972784259019e-23 |
| TFAP2A#7020 | 170 | 1.26096445595763 | 0.00134263867781639 | 0.00889350167263688 |
| TFAP2C#7022 | 252 | 1.22313678028055 | 0.000566501895839667 | 0.0048305757266165 |
| TRIM28#10155 | 151 | 1.26051606728093 | 0.0024734181294436 | 0.013895713610595 |
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
