Coexpression cluster:C14: Difference between revisions
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|ontology_enrichment_uberon=UBERON:0007023!9.47e-47!115;UBERON:0001049!1.00e-15!57;UBERON:0005068!1.00e-15!57;UBERON:0006241!1.00e-15!57;UBERON:0007135!1.00e-15!57;UBERON:0003080!9.13e-13!42;UBERON:0002780!2.15e-12!41;UBERON:0001890!2.15e-12!41;UBERON:0006240!2.15e-12!41;UBERON:0002616!8.18e-12!59;UBERON:0002193!1.10e-11!112;UBERON:0002390!3.09e-11!102;UBERON:0003061!3.09e-11!102;UBERON:0002020!9.78e-11!34;UBERON:0003528!9.78e-11!34;UBERON:0001893!1.52e-10!34;UBERON:0002791!3.34e-10!33;UBERON:0001869!8.29e-10!32;UBERON:0002619!9.67e-10!22;UBERON:0000955!4.80e-09!69;UBERON:0006238!4.80e-09!69;UBERON:0001950!5.07e-09!20;UBERON:0003075!1.41e-08!86;UBERON:0007284!1.41e-08!86;UBERON:0001017!6.06e-08!82;UBERON:0005743!1.26e-07!86;UBERON:0000956!2.18e-07!25;UBERON:0000203!2.18e-07!25;UBERON:0002405!3.18e-07!115;UBERON:0002346!6.21e-07!90;UBERON:0002371!9.85e-07!80 | |ontology_enrichment_uberon=UBERON:0007023!9.47e-47!115;UBERON:0001049!1.00e-15!57;UBERON:0005068!1.00e-15!57;UBERON:0006241!1.00e-15!57;UBERON:0007135!1.00e-15!57;UBERON:0003080!9.13e-13!42;UBERON:0002780!2.15e-12!41;UBERON:0001890!2.15e-12!41;UBERON:0006240!2.15e-12!41;UBERON:0002616!8.18e-12!59;UBERON:0002193!1.10e-11!112;UBERON:0002390!3.09e-11!102;UBERON:0003061!3.09e-11!102;UBERON:0002020!9.78e-11!34;UBERON:0003528!9.78e-11!34;UBERON:0001893!1.52e-10!34;UBERON:0002791!3.34e-10!33;UBERON:0001869!8.29e-10!32;UBERON:0002619!9.67e-10!22;UBERON:0000955!4.80e-09!69;UBERON:0006238!4.80e-09!69;UBERON:0001950!5.07e-09!20;UBERON:0003075!1.41e-08!86;UBERON:0007284!1.41e-08!86;UBERON:0001017!6.06e-08!82;UBERON:0005743!1.26e-07!86;UBERON:0000956!2.18e-07!25;UBERON:0000203!2.18e-07!25;UBERON:0002405!3.18e-07!115;UBERON:0002346!6.21e-07!90;UBERON:0002371!9.85e-07!80 | ||
|pathway_enrichment=0.000336791503658971;0.0304555745451612;7;167;Protein processing in endoplasmic reticulum (KEGG):04141!0.000527303974350957;0.0370870461960173;5;85;ECM-receptor interaction (KEGG):04512!6.42483499828647e-05;0.0169234525039538;6;88;Hematopoietic cell lineage (KEGG):04640!0.000260271859383207;0.0274586811649283;5;73;AMPK signaling (Wikipathways):WP1403!0.000213885507113271;0.0270779052005401;7;155;TGF-beta Receptor Signaling Pathway (Wikipathways):WP366!0.000707407185025958;0.0407080680110392;4;52;Signaling by EGFR (Reactome):REACT_9417!4.00513983946407e-06;0.00253525351838075;15;466;Hemostasis (Reactome):REACT_604!0.000156450113757614;0.0247582305021424;3;14;Metabolism of porphyrins (Reactome):REACT_9431!0.000665689659306034;0.0407080680110392;16;816;TGF beta receptor up reg. targets (Netpath):NetPath_7!0.000519565495962716;0.0370870461960173;9;295;IL-2 down reg. targets (Netpath):NetPath_14!0.000928362010381114;0.0489710960476038;3;25;IL-9 up reg. targets (Netpath):NetPath_20!8.02059360376957e-05;0.0169234525039538;5;57;{UBE2D1,58} (Static Module):NA | |pathway_enrichment=0.000336791503658971;0.0304555745451612;7;167;Protein processing in endoplasmic reticulum (KEGG):04141!0.000527303974350957;0.0370870461960173;5;85;ECM-receptor interaction (KEGG):04512!6.42483499828647e-05;0.0169234525039538;6;88;Hematopoietic cell lineage (KEGG):04640!0.000260271859383207;0.0274586811649283;5;73;AMPK signaling (Wikipathways):WP1403!0.000213885507113271;0.0270779052005401;7;155;TGF-beta Receptor Signaling Pathway (Wikipathways):WP366!0.000707407185025958;0.0407080680110392;4;52;Signaling by EGFR (Reactome):REACT_9417!4.00513983946407e-06;0.00253525351838075;15;466;Hemostasis (Reactome):REACT_604!0.000156450113757614;0.0247582305021424;3;14;Metabolism of porphyrins (Reactome):REACT_9431!0.000665689659306034;0.0407080680110392;16;816;TGF beta receptor up reg. targets (Netpath):NetPath_7!0.000519565495962716;0.0370870461960173;9;295;IL-2 down reg. targets (Netpath):NetPath_14!0.000928362010381114;0.0489710960476038;3;25;IL-9 up reg. targets (Netpath):NetPath_20!8.02059360376957e-05;0.0169234525039538;5;57;{UBE2D1,58} (Static Module):NA | ||
|tf_chipseq_enrich=CCNT2#905;227:1.4646820345932:1.25266096107353e-09:1.13960503583239e-07!ETS1#2113;139:1.37708530365186:7.73580463387778e-05:0.00119250140244659!GABPB1#2553;182:1.30989659692989:8.13123262368656e-05:0.00123200029593095!GATA1#2623;254:3.50745241194024:9.59849317617414e-71:1.05521792508047e-67!GATA2#2624;163:2.11550292522332:1.27556421556868e-19:3.14194931862683e-17!HDAC2#3066;101:1.37981430132307:0.000741521024268053:0.00584040077326781!HMGN3#9324;178:1.48246588060734:5.74049650429428e-08:3.58571599528702e-06!IRF1#3659;168:1.30656161975431:0.000183264390548931:0.00221938192074905!JUNB#3726;62:1.93264686854268:1.04568218383744e-06:4.36142178904946e-05!MAFK#7975;72:1.98701913026859:4.86811566867162e-08:3.14228141112729e-06!NFE2#4778;26:2.04410466083743:0.000627777244659712:0.00516702873788444!REST#5978;144:1.4150754940147:1.52620743042333e-05:0.000358353367414528!SIRT6#51548;30:4.69363759643661:7.04758653649236e-12:8.96519963806e-10!SMARCA4#6597;38:6.06629768401196:3.25187758155549e-18:7.27243774604013e-16!STAT2#6773;40:2.6584020849874:4.57395528470687e-08:2.99122927977145e-06!TAL1#6886;186:5.65739582688786:3.61081360701643e-82:4.54349111208662e-79!ZBTB7A#51341;186:1.39252050026977:1.81369169789352e-06:6.79656071892004e-05 | |||
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| ||
}} | }} |
Revision as of 13:28, 5 September 2012
Full id: C14_Whole_blood_Reticulocytes_liver_Neutrophils_Eosinophils_spleen
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 |
---|---|---|---|---|
0.000336791503658971 | 0.0304555745451612 | 7 | 167 | Protein processing in endoplasmic reticulum (KEGG):04141 |
0.000527303974350957 | 0.0370870461960173 | 5 | 85 | ECM-receptor interaction (KEGG):04512 |
6.42483499828647e-05 | 0.0169234525039538 | 6 | 88 | Hematopoietic cell lineage (KEGG):04640 |
0.000260271859383207 | 0.0274586811649283 | 5 | 73 | AMPK signaling (Wikipathways):WP1403 |
0.000213885507113271 | 0.0270779052005401 | 7 | 155 | TGF-beta Receptor Signaling Pathway (Wikipathways):WP366 |
0.000707407185025958 | 0.0407080680110392 | 4 | 52 | Signaling by EGFR (Reactome):REACT_9417 |
4.00513983946407e-06 | 0.00253525351838075 | 15 | 466 | Hemostasis (Reactome):REACT_604 |
0.000156450113757614 | 0.0247582305021424 | 3 | 14 | Metabolism of porphyrins (Reactome):REACT_9431 |
0.000665689659306034 | 0.0407080680110392 | 16 | 816 | TGF beta receptor up reg. targets (Netpath):NetPath_7 |
0.000519565495962716 | 0.0370870461960173 | 9 | 295 | IL-2 down reg. targets (Netpath):NetPath_14 |
0.000928362010381114 | 0.0489710960476038 | 3 | 25 | IL-9 up reg. targets (Netpath):NetPath_20 |
8.02059360376957e-05 | 0.0169234525039538 | 5 | 57 | {UBE2D1,58} (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:0044424 | intracellular part | 3.86828216149636e-16 |
GO:0005515 | protein binding | 3.86828216149636e-16 |
GO:0005737 | cytoplasm | 3.05887389824741e-15 |
GO:0005622 | intracellular | 1.60039458602344e-14 |
GO:0043231 | intracellular membrane-bound organelle | 1.02504633910021e-09 |
GO:0043227 | membrane-bound organelle | 1.02504633910021e-09 |
GO:0044464 | cell part | 1.44742677784228e-09 |
GO:0043229 | intracellular organelle | 1.54995594128713e-08 |
GO:0043226 | organelle | 1.54995594128713e-08 |
GO:0065008 | regulation of biological quality | 1.54995594128713e-08 |
GO:0065007 | biological regulation | 2.40313461579588e-08 |
GO:0048523 | negative regulation of cellular process | 2.69729592706201e-08 |
GO:0048519 | negative regulation of biological process | 9.85450445254966e-08 |
GO:0008134 | transcription factor binding | 1.93690750314942e-07 |
GO:0032502 | developmental process | 4.86232654506327e-07 |
GO:0006916 | anti-apoptosis | 2.78649306232853e-06 |
GO:0043066 | negative regulation of apoptosis | 3.91257948778533e-06 |
GO:0043069 | negative regulation of programmed cell death | 4.22401354163432e-06 |
GO:0003712 | transcription cofactor activity | 7.47649446803695e-06 |
GO:0048869 | cellular developmental process | 1.31998153573406e-05 |
GO:0030154 | cell differentiation | 1.31998153573406e-05 |
GO:0044444 | cytoplasmic part | 1.61369213257983e-05 |
GO:0006512 | ubiquitin cycle | 2.01894110106945e-05 |
GO:0007275 | multicellular organismal development | 2.52388812180108e-05 |
GO:0005634 | nucleus | 3.01414471307437e-05 |
GO:0048856 | anatomical structure development | 4.17838804622281e-05 |
GO:0050789 | regulation of biological process | 4.94649622745424e-05 |
GO:0006950 | response to stress | 0.00010318476274506 |
GO:0050794 | regulation of cellular process | 0.000298838590662322 |
GO:0006464 | protein modification process | 0.000586861989116044 |
GO:0044237 | cellular metabolic process | 0.000656761511617297 |
GO:0006915 | apoptosis | 0.000751278671542533 |
GO:0012501 | programmed cell death | 0.000793999526724725 |
GO:0048468 | cell development | 0.000793999526724725 |
GO:0048513 | organ development | 0.000804803175482128 |
GO:0006629 | lipid metabolic process | 0.000865906107092823 |
GO:0007599 | hemostasis | 0.000865906107092823 |
GO:0015669 | gas transport | 0.000942875336043332 |
GO:0030218 | erythrocyte differentiation | 0.00104102800697993 |
GO:0042802 | identical protein binding | 0.00106460632569846 |
GO:0048731 | system development | 0.00115228789603633 |
GO:0008219 | cell death | 0.00115228789603633 |
GO:0016265 | death | 0.00115228789603633 |
GO:0043412 | biopolymer modification | 0.00116682945582929 |
GO:0009605 | response to external stimulus | 0.00131752867097204 |
GO:0006366 | transcription from RNA polymerase II promoter | 0.00144129751212433 |
GO:0030099 | myeloid cell differentiation | 0.00174374080124054 |
GO:0002520 | immune system development | 0.00174374080124054 |
GO:0050878 | regulation of body fluid levels | 0.00174374080124054 |
GO:0042981 | regulation of apoptosis | 0.0018549900930002 |
GO:0032501 | multicellular organismal process | 0.00196338878985991 |
GO:0043067 | regulation of programmed cell death | 0.00196931957694 |
GO:0044255 | cellular lipid metabolic process | 0.00203787205015007 |
GO:0042060 | wound healing | 0.00203940550435774 |
GO:0044238 | primary metabolic process | 0.00203940550435774 |
GO:0006631 | fatty acid metabolic process | 0.00206350112254941 |
GO:0048489 | synaptic vesicle transport | 0.00285372992608085 |
GO:0042541 | hemoglobin biosynthetic process | 0.00407891375788556 |
GO:0043687 | post-translational protein modification | 0.00454634781902437 |
GO:0007596 | blood coagulation | 0.00489055336502819 |
GO:0008283 | cell proliferation | 0.00489055336502819 |
GO:0050817 | coagulation | 0.00520273833594429 |
GO:0030097 | hemopoiesis | 0.00542646433036524 |
GO:0019222 | regulation of metabolic process | 0.0055435778452295 |
GO:0020027 | hemoglobin metabolic process | 0.00604454749367658 |
GO:0003714 | transcription corepressor activity | 0.00610440320788718 |
GO:0030863 | cortical cytoskeleton | 0.00665576721456721 |
GO:0048534 | hemopoietic or lymphoid organ development | 0.00738740309963826 |
GO:0042221 | response to chemical stimulus | 0.00752973543726623 |
GO:0005344 | oxygen transporter activity | 0.00803772639368537 |
GO:0008634 | negative regulation of survival gene product activity | 0.008271163445777 |
GO:0005833 | hemoglobin complex | 0.00871761287976628 |
GO:0016192 | vesicle-mediated transport | 0.00902206906562718 |
GO:0009266 | response to temperature stimulus | 0.00942332635354197 |
GO:0043283 | biopolymer metabolic process | 0.00997650568506621 |
GO:0003713 | transcription coactivator activity | 0.00997650568506621 |
GO:0015671 | oxygen transport | 0.0100226917756814 |
GO:0006633 | fatty acid biosynthetic process | 0.0117075465256688 |
GO:0008201 | heparin binding | 0.0134557517997333 |
GO:0009409 | response to cold | 0.0136055716323775 |
GO:0000082 | G1/S transition of mitotic cell cycle | 0.0137388507874402 |
GO:0016874 | ligase activity | 0.0137388507874402 |
GO:0001505 | regulation of neurotransmitter levels | 0.0141208383127778 |
GO:0016879 | ligase activity, forming carbon-nitrogen bonds | 0.015691229202619 |
GO:0032787 | monocarboxylic acid metabolic process | 0.0158678518737985 |
GO:0004726 | non-membrane spanning protein tyrosine phosphatase activity | 0.0162147894617863 |
GO:0046394 | carboxylic acid biosynthetic process | 0.0168035061759076 |
GO:0016053 | organic acid biosynthetic process | 0.0168035061759076 |
GO:0016564 | transcription repressor activity | 0.0171634368392291 |
GO:0045595 | regulation of cell differentiation | 0.01726295711208 |
GO:0051329 | interphase of mitotic cell cycle | 0.0177558485168188 |
GO:0043170 | macromolecule metabolic process | 0.0181688375285124 |
GO:0030145 | manganese ion binding | 0.0181688375285124 |
GO:0016881 | acid-amino acid ligase activity | 0.0181688375285124 |
GO:0005783 | endoplasmic reticulum | 0.0192811633457516 |
GO:0051325 | interphase | 0.0208019397700196 |
GO:0016563 | transcription activator activity | 0.0212467473770187 |
GO:0051881 | regulation of mitochondrial membrane potential | 0.0213675027516647 |
GO:0004385 | guanylate kinase activity | 0.0213675027516647 |
GO:0051179 | localization | 0.0227832642577278 |
GO:0044448 | cell cortex part | 0.0251702236056491 |
GO:0004842 | ubiquitin-protein ligase activity | 0.026942012955915 |
GO:0019787 | small conjugating protein ligase activity | 0.026942012955915 |
GO:0031323 | regulation of cellular metabolic process | 0.026942012955915 |
GO:0009628 | response to abiotic stimulus | 0.026942012955915 |
GO:0008639 | small protein conjugating enzyme activity | 0.0273986179041584 |
GO:0006357 | regulation of transcription from RNA polymerase II promoter | 0.027819095881727 |
GO:0009611 | response to wounding | 0.027819095881727 |
GO:0007050 | cell cycle arrest | 0.0279646557674465 |
GO:0008610 | lipid biosynthetic process | 0.0285572362548608 |
GO:0005740 | mitochondrial envelope | 0.0308017995412723 |
GO:0030518 | steroid hormone receptor signaling pathway | 0.0325335466931022 |
GO:0051234 | establishment of localization | 0.0330636097732401 |
GO:0016043 | cellular component organization and biogenesis | 0.0354149010925189 |
GO:0005539 | glycosaminoglycan binding | 0.0361026315768056 |
GO:0009653 | anatomical structure morphogenesis | 0.0377863862909234 |
GO:0030522 | intracellular receptor-mediated signaling pathway | 0.0377863862909234 |
GO:0016628 | oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor | 0.0377863862909234 |
GO:0045884 | regulation of survival gene product activity | 0.0377863862909234 |
GO:0006783 | heme biosynthetic process | 0.0377863862909234 |
GO:0006810 | transport | 0.0392442826614405 |
GO:0019825 | oxygen binding | 0.0408346909703294 |
GO:0030247 | polysaccharide binding | 0.0408346909703294 |
GO:0016525 | negative regulation of angiogenesis | 0.0412967987518913 |
GO:0046983 | protein dimerization activity | 0.0422800634718975 |
GO:0042127 | regulation of cell proliferation | 0.044559795013311 |
GO:0016044 | membrane organization and biogenesis | 0.0460386449052307 |
GO:0006355 | regulation of transcription, DNA-dependent | 0.0460386449052307 |
GO:0005794 | Golgi apparatus | 0.0460386449052307 |
GO:0019905 | syntaxin binding | 0.0460386449052307 |
GO:0001871 | pattern binding | 0.0460386449052307 |
GO:0005938 | cell cortex | 0.0460386449052307 |
GO:0042168 | heme metabolic process | 0.0460386449052307 |
GO:0046986 | negative regulation of hemoglobin biosynthetic process | 0.0460386449052307 |
GO:0004310 | farnesyl-diphosphate farnesyltransferase activity | 0.0460386449052307 |
GO:0045993 | negative regulation of translational initiation by iron | 0.0460386449052307 |
GO:0015378 | sodium:chloride symporter activity | 0.0460386449052307 |
GO:0016449 | lambda DNA polymerase activity | 0.0460386449052307 |
GO:0033273 | response to vitamin | 0.0460386449052307 |
GO:0031462 | Cul2-RING ubiquitin ligase complex | 0.0460386449052307 |
GO:0046984 | regulation of hemoglobin biosynthetic process | 0.0460386449052307 |
GO:0004316 | 3-oxoacyl-[acyl-carrier-protein] reductase activity | 0.0460386449052307 |
GO:0019171 | 3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity | 0.0460386449052307 |
GO:0016446 | somatic hypermutation of immunoglobulin genes | 0.0460386449052307 |
GO:0004193 | cathepsin E activity | 0.0460386449052307 |
GO:0015670 | carbon dioxide transport | 0.0460386449052307 |
GO:0009589 | detection of UV | 0.0460386449052307 |
GO:0005517 | calmodulin inhibitor activity | 0.0460386449052307 |
GO:0042587 | glycogen granule | 0.0460386449052307 |
GO:0032526 | response to retinoic acid | 0.0460386449052307 |
GO:0033189 | response to vitamin A | 0.0460386449052307 |
GO:0004313 | [acyl-carrier-protein] S-acetyltransferase activity | 0.0460386449052307 |
GO:0042602 | flavin reductase activity | 0.0460386449052307 |
GO:0002566 | somatic diversification of immune receptors via somatic mutation | 0.0460386449052307 |
GO:0032810 | sterol response element binding | 0.0460386449052307 |
GO:0048250 | mitochondrial iron ion transport | 0.0460386449052307 |
GO:0016631 | enoyl-[acyl-carrier-protein] reductase activity | 0.0460386449052307 |
GO:0004319 | enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity | 0.0460386449052307 |
GO:0033280 | response to vitamin D | 0.0460386449052307 |
GO:0045653 | negative regulation of megakaryocyte differentiation | 0.0460386449052307 |
GO:0004317 | 3-hydroxypalmitoyl-[acyl-carrier-protein] dehydratase activity | 0.0460386449052307 |
GO:0010468 | regulation of gene expression | 0.0466306318434331 |
GO:0000149 | SNARE binding | 0.0478291553500786 |
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 |
---|---|---|
myeloid cell | 1.18e-13 | 112 |
common myeloid progenitor | 1.18e-13 | 112 |
hematopoietic stem cell | 1.27e-13 | 172 |
angioblastic mesenchymal cell | 1.27e-13 | 172 |
hematopoietic oligopotent progenitor cell | 6.07e-13 | 165 |
hematopoietic multipotent progenitor cell | 6.07e-13 | 165 |
myeloid leukocyte | 9.92e-13 | 76 |
hematopoietic cell | 1.03e-11 | 182 |
CD14-positive, CD16-negative classical monocyte | 2.27e-11 | 42 |
leukocyte | 1.18e-10 | 140 |
myeloid lineage restricted progenitor cell | 4.87e-10 | 70 |
classical monocyte | 1.54e-09 | 45 |
hematopoietic lineage restricted progenitor cell | 5.14e-09 | 124 |
granulocyte monocyte progenitor cell | 1.94e-08 | 71 |
nongranular leukocyte | 5.38e-08 | 119 |
monopoietic cell | 1.53e-07 | 63 |
monocyte | 1.53e-07 | 63 |
monoblast | 1.53e-07 | 63 |
promonocyte | 1.53e-07 | 63 |
macrophage dendritic cell progenitor | 4.03e-07 | 65 |
Ontology term | p-value | n |
---|---|---|
adult organism | 9.47e-47 | 115 |
neural tube | 1.00e-15 | 57 |
neural rod | 1.00e-15 | 57 |
future spinal cord | 1.00e-15 | 57 |
neural keel | 1.00e-15 | 57 |
anterior neural tube | 9.13e-13 | 42 |
regional part of forebrain | 2.15e-12 | 41 |
forebrain | 2.15e-12 | 41 |
future forebrain | 2.15e-12 | 41 |
regional part of brain | 8.18e-12 | 59 |
hemolymphoid system | 1.10e-11 | 112 |
hematopoietic system | 3.09e-11 | 102 |
blood island | 3.09e-11 | 102 |
gray matter | 9.78e-11 | 34 |
brain grey matter | 9.78e-11 | 34 |
telencephalon | 1.52e-10 | 34 |
regional part of telencephalon | 3.34e-10 | 33 |
cerebral hemisphere | 8.29e-10 | 32 |
regional part of cerebral cortex | 9.67e-10 | 22 |
brain | 4.80e-09 | 69 |
future brain | 4.80e-09 | 69 |
neocortex | 5.07e-09 | 20 |
neural plate | 1.41e-08 | 86 |
presumptive neural plate | 1.41e-08 | 86 |
central nervous system | 6.06e-08 | 82 |
cerebral cortex | 2.18e-07 | 25 |
pallium | 2.18e-07 | 25 |
immune system | 3.18e-07 | 115 |
neurectoderm | 6.21e-07 | 90 |
bone marrow | 9.85e-07 | 80 |
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
(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)
TF | #promoters | Enrichment | p-value | q-value |
---|---|---|---|---|
CCNT2#905 | 227 | 1.4646820345932 | 1.25266096107353e-09 | 1.13960503583239e-07 |
ETS1#2113 | 139 | 1.37708530365186 | 7.73580463387778e-05 | 0.00119250140244659 |
GABPB1#2553 | 182 | 1.30989659692989 | 8.13123262368656e-05 | 0.00123200029593095 |
GATA1#2623 | 254 | 3.50745241194024 | 9.59849317617414e-71 | 1.05521792508047e-67 |
GATA2#2624 | 163 | 2.11550292522332 | 1.27556421556868e-19 | 3.14194931862683e-17 |
HDAC2#3066 | 101 | 1.37981430132307 | 0.000741521024268053 | 0.00584040077326781 |
HMGN3#9324 | 178 | 1.48246588060734 | 5.74049650429428e-08 | 3.58571599528702e-06 |
IRF1#3659 | 168 | 1.30656161975431 | 0.000183264390548931 | 0.00221938192074905 |
JUNB#3726 | 62 | 1.93264686854268 | 1.04568218383744e-06 | 4.36142178904946e-05 |
MAFK#7975 | 72 | 1.98701913026859 | 4.86811566867162e-08 | 3.14228141112729e-06 |
NFE2#4778 | 26 | 2.04410466083743 | 0.000627777244659712 | 0.00516702873788444 |
REST#5978 | 144 | 1.4150754940147 | 1.52620743042333e-05 | 0.000358353367414528 |
SIRT6#51548 | 30 | 4.69363759643661 | 7.04758653649236e-12 | 8.96519963806e-10 |
SMARCA4#6597 | 38 | 6.06629768401196 | 3.25187758155549e-18 | 7.27243774604013e-16 |
STAT2#6773 | 40 | 2.6584020849874 | 4.57395528470687e-08 | 2.99122927977145e-06 |
TAL1#6886 | 186 | 5.65739582688786 | 3.61081360701643e-82 | 4.54349111208662e-79 |
ZBTB7A#51341 | 186 | 1.39252050026977 | 1.81369169789352e-06 | 6.79656071892004e-05 |
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
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