Coexpression cluster:C241
From FANTOM5_SSTAR
Full id: C241_Reticulocytes_chronic_Tracheal_Hodgkin_Endothelial_Hair_thymus
Phase1 CAGE Peaks
| Hg19::chr1:149858227..149858237,- | p1@HIST2H2BE |
| Hg19::chr1:149858461..149858479,+ | p1@BOLA1 |
| Hg19::chr1:149859507..149859521,- | p1@HIST2H2AB |
| Hg19::chr6:26020672..26020689,+ | p10@HIST1H3A p10@HIST1H3B p10@HIST1H3C p10@HIST1H3D p10@HIST1H3E p10@HIST1H3F p10@HIST1H3G p10@HIST1H3I p10@HIST1H3J p11@HIST1H3H |
| Hg19::chr6:26021869..26021887,+ | p8@HIST1H4A p8@HIST1H4B p8@HIST1H4D p8@HIST1H4E p8@HIST1H4H p8@HIST1H4I p8@HIST1H4J p8@HIST1H4K p8@HIST1H4L p8@HIST2H4A p8@HIST2H4B p8@HIST4H4 p9@HIST1H4C p9@HIST1H4F |
| Hg19::chr6:26027503..26027522,- | p2@HIST1H4A p2@HIST1H4B p2@HIST1H4D p2@HIST1H4E p2@HIST1H4F p2@HIST1H4H p2@HIST1H4I p2@HIST1H4J p2@HIST1H4K p2@HIST1H4L p2@HIST2H4A p2@HIST2H4B p2@HIST4H4 p3@HIST1H4C |
| Hg19::chr6:26032319..26032337,- | p1@HIST1H3A p1@HIST1H3B p1@HIST1H3C p1@HIST1H3D p1@HIST1H3E p1@HIST1H3F p1@HIST1H3G p1@HIST1H3H p1@HIST1H3I p1@HIST1H3J |
| Hg19::chr6:26033837..26033852,- | p1@HIST1H2AB p2@HIST1H2AE |
| Hg19::chr6:26043932..26043947,- | p1@HIST1H2BB |
| Hg19::chr6:26045603..26045639,+ | p2@HIST1H3A p2@HIST1H3B p2@HIST1H3C p2@HIST1H3D p2@HIST1H3E p2@HIST1H3F p2@HIST1H3G p2@HIST1H3I p2@HIST1H3J p3@HIST1H3H |
| Hg19::chr6:26045645..26045670,+ | p12@HIST1H3C |
| Hg19::chr6:26045671..26045688,+ | p13@HIST1H3C |
| Hg19::chr6:26056695..26056701,- | p1@HIST1H1C |
| Hg19::chr6:26104154..26104169,+ | p1@HIST1H4C |
| Hg19::chr6:26124147..26124168,- | p1@HIST1H2BC p1@HIST1H2BE p1@HIST1H2BF p1@HIST1H2BG p1@HIST1H2BI |
| Hg19::chr6:26124393..26124422,+ | p1@HIST1H2AC |
| Hg19::chr6:26156551..26156564,+ | p1@HIST1H1E |
| Hg19::chr6:26158343..26158366,+ | p1@HIST1H2BD |
| Hg19::chr6:26183977..26184005,+ | p5@HIST1H2BE |
| Hg19::chr6:26189331..26189346,- | p3@HIST1H4A p3@HIST1H4B p3@HIST1H4D p3@HIST1H4E p3@HIST1H4F p3@HIST1H4H p3@HIST1H4I p3@HIST1H4J p3@HIST1H4K p3@HIST1H4L p3@HIST2H4A p3@HIST2H4B p3@HIST4H4 p4@HIST1H4C |
| Hg19::chr6:26197500..26197521,- | p10@HIST1H3H p9@HIST1H3A p9@HIST1H3B p9@HIST1H3C p9@HIST1H3D p9@HIST1H3E p9@HIST1H3F p9@HIST1H3G p9@HIST1H3I p9@HIST1H3J |
| Hg19::chr6:26199499..26199528,- | p3@HIST1H3A p3@HIST1H3B p3@HIST1H3C p3@HIST1H3D p3@HIST1H3E p3@HIST1H3F p3@HIST1H3G p3@HIST1H3I p3@HIST1H3J p4@HIST1H3H |
| Hg19::chr6:26199709..26199720,+ | p5@HIST1H2BC p5@HIST1H2BF p5@HIST1H2BG p5@HIST1H2BI p6@HIST1H2BE |
| Hg19::chr6:26199737..26199754,+ | p2@HIST1H2BC p2@HIST1H2BE p2@HIST1H2BF p2@HIST1H2BG p2@HIST1H2BI |
| Hg19::chr6:26204825..26204845,+ | p1@HIST1H4A p1@HIST1H4B p1@HIST1H4D p1@HIST1H4E p1@HIST1H4F p1@HIST1H4H p1@HIST1H4I p1@HIST1H4J p1@HIST1H4K p1@HIST1H4L p1@HIST2H4A p1@HIST2H4B p1@HIST4H4 p2@HIST1H4C |
| Hg19::chr6:26216901..26216926,- | p4@HIST1H2BC p4@HIST1H2BE p4@HIST1H2BF p4@HIST1H2BG p4@HIST1H2BI |
| Hg19::chr6:26217140..26217155,+ | p1@HIST1H2AE |
| Hg19::chr6:26217159..26217170,+ | p2@HIST1H2AB p3@HIST1H2AE |
| Hg19::chr6:26235206..26235224,- | p1@HIST1H1D |
| Hg19::chr6:26250853..26250874,- | p7@HIST1H3A p7@HIST1H3B p7@HIST1H3C p7@HIST1H3D p7@HIST1H3E p7@HIST1H3F p7@HIST1H3G p7@HIST1H3I p7@HIST1H3J p8@HIST1H3H |
| Hg19::chr6:26251822..26251833,+ | p2@HIST1H2BH |
| Hg19::chr6:26251835..26251848,+ | p1@HIST1H2BH |
| Hg19::chr6:26251938..26251963,+ | p4@HIST1H2BH |
| Hg19::chr6:26271633..26271648,- | p8@HIST1H3A p8@HIST1H3B p8@HIST1H3C p8@HIST1H3D p8@HIST1H3E p8@HIST1H3F p8@HIST1H3G p8@HIST1H3I p8@HIST1H3J p9@HIST1H3H |
| Hg19::chr6:26273152..26273175,+ | p3@HIST1H2BC p3@HIST1H2BE p3@HIST1H2BF p3@HIST1H2BG p3@HIST1H2BI |
| Hg19::chr6:26285754..26285769,- | p4@HIST1H4A p4@HIST1H4B p4@HIST1H4D p4@HIST1H4E p4@HIST1H4F p4@HIST1H4H p4@HIST1H4I p4@HIST1H4J p4@HIST1H4K p4@HIST1H4L p4@HIST2H4A p4@HIST2H4B p4@HIST4H4 p5@HIST1H4C |
| Hg19::chr6:27100565..27100582,- | p1@HIST1H2BJ |
| Hg19::chr6:27100811..27100830,+ | p2@HIST1H2AG |
| Hg19::chr6:27107053..27107068,+ | p6@HIST1H4A p6@HIST1H4B p6@HIST1H4D p6@HIST1H4E p6@HIST1H4F p6@HIST1H4H p6@HIST1H4I p6@HIST1H4J p6@HIST1H4K p6@HIST1H4L p6@HIST2H4A p6@HIST2H4B p6@HIST4H4 p7@HIST1H4C |
| Hg19::chr6:27114620..27114642,- | p1@HIST1H2BK |
| Hg19::chr6:27114873..27114896,+ | p2@HIST1H2AH |
| Hg19::chr6:27775694..27775714,- | p1@HIST1H2BL |
| Hg19::chr6:27775943..27775958,+ | p2@HIST1H2AI p2@HIST1H3H |
| Hg19::chr6:27777819..27777836,+ | p6@HIST1H3A p6@HIST1H3B p6@HIST1H3C p6@HIST1H3D p6@HIST1H3E p6@HIST1H3F p6@HIST1H3G p6@HIST1H3I p6@HIST1H3J p7@HIST1H3H |
| Hg19::chr6:27782128..27782154,+ | p@chr6:27782128..27782154 + |
| Hg19::chr6:27782548..27782562,- | p1@HIST1H2AJ |
| Hg19::chr6:27782788..27782823,+ | p1@HIST1H2BM |
| Hg19::chr6:27806140..27806160,- | p2@HIST1H2AK p2@HIST1H2AM p3@HIST1H2AG p3@HIST1H2AH p3@HIST1H2AI p3@HIST1H2AL |
| Hg19::chr6:27806319..27806356,+ | p1@HIST1H2BN |
| Hg19::chr6:27833087..27833103,+ | p2@HIST1H2AL |
| Hg19::chr6:27835357..27835375,- | p1@HIST1H1B |
| Hg19::chr6:27840112..27840133,- | p4@HIST1H3A p4@HIST1H3B p4@HIST1H3C p4@HIST1H3D p4@HIST1H3E p4@HIST1H3F p4@HIST1H3G p4@HIST1H3I p4@HIST1H3J p5@HIST1H3H |
| Hg19::chr6:27841303..27841318,- | p5@HIST1H4A p5@HIST1H4B p5@HIST1H4D p5@HIST1H4E p5@HIST1H4F p5@HIST1H4H p5@HIST1H4I p5@HIST1H4J p5@HIST1H4K p5@HIST1H4L p5@HIST2H4A p5@HIST2H4B p5@HIST4H4 p6@HIST1H4C |
| Hg19::chr6:27858597..27858611,- | p5@HIST1H3A p5@HIST1H3B p5@HIST1H3C p5@HIST1H3D p5@HIST1H3E p5@HIST1H3F p5@HIST1H3G p5@HIST1H3I p5@HIST1H3J p6@HIST1H3H |
| Hg19::chr6:27860929..27860940,- | p3@HIST1H2AK p3@HIST1H2AM p4@HIST1H2AG p4@HIST1H2AH p4@HIST1H2AI p4@HIST1H2AL |
| Hg19::chr6:27860956..27860973,- | p1@HIST1H2AG p1@HIST1H2AH p1@HIST1H2AI p1@HIST1H2AK p1@HIST1H2AL p1@HIST1H2AM |
| Hg19::chr6:27861190..27861217,+ | p1@HIST1H2BO |
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 |
|---|---|---|---|---|
| 5.99867518672387e-43 | 3.79716139319621e-40 | 20 | 138 | Systemic lupus erythematosus (KEGG):05322 |
| 5.63622937924873e-21 | 8.91933299266112e-19 | 12 | 168 | Transcription (Reactome):REACT_1788 |
| 7.84918119551512e-06 | 0.000828088616126846 | 4 | 147 | Apoptosis (Reactome):REACT_578 |
| 3.04922576076662e-25 | 6.43386635521756e-23 | 12 | 77 | Chromosome Maintenance (Reactome):REACT_22172 |
| 1.73801363727582e-07 | 2.20032526479119e-05 | 6 | 295 | IL-2 down reg. targets (Netpath):NetPath_14 |
| 6.65759954444847e-05 | 0.00602037215947983 | 2 | 14 | {HIST3H3,14} (Static Module):NA |
| 3.75950083391575e-26 | 1.18988201393433e-23 | 10 | 23 | {NAP1L1,23} (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:0000786 | nucleosome | 1.87240583009347e-47 |
| GO:0006334 | nucleosome assembly | 1.24319715022904e-43 |
| GO:0031497 | chromatin assembly | 8.59066900014577e-43 |
| GO:0006333 | chromatin assembly or disassembly | 1.68503280504556e-40 |
| GO:0065004 | protein-DNA complex assembly | 2.63900901022237e-40 |
| GO:0000785 | chromatin | 3.40333775091688e-39 |
| GO:0006325 | establishment and/or maintenance of chromatin architecture | 2.79277149428791e-36 |
| GO:0006323 | DNA packaging | 3.20258264069125e-36 |
| GO:0044427 | chromosomal part | 4.05997084508814e-36 |
| GO:0005694 | chromosome | 6.27988319008739e-35 |
| GO:0051276 | chromosome organization and biogenesis | 6.27988319008739e-35 |
| GO:0065003 | macromolecular complex assembly | 6.17057389922228e-32 |
| GO:0022607 | cellular component assembly | 2.47748302547154e-31 |
| GO:0006259 | DNA metabolic process | 1.3234334413781e-27 |
| GO:0006996 | organelle organization and biogenesis | 6.92115581620494e-26 |
| GO:0043234 | protein complex | 2.21798198387936e-20 |
| GO:0043232 | intracellular non-membrane-bound organelle | 2.54356941516884e-20 |
| GO:0043228 | non-membrane-bound organelle | 2.54356941516884e-20 |
| GO:0016043 | cellular component organization and biogenesis | 2.41082496854606e-19 |
| GO:0003677 | DNA binding | 8.81390916446168e-19 |
| GO:0032991 | macromolecular complex | 6.43074720407152e-18 |
| GO:0044446 | intracellular organelle part | 1.9981622722602e-17 |
| GO:0044422 | organelle part | 2.0058261240859e-17 |
| GO:0006139 | nucleobase, nucleoside, nucleotide and nucleic acid metabolic process | 1.93426613118056e-14 |
| GO:0005634 | nucleus | 3.73806364802859e-14 |
| GO:0003676 | nucleic acid binding | 9.93882761845355e-14 |
| GO:0043231 | intracellular membrane-bound organelle | 5.09762757670053e-12 |
| GO:0043227 | membrane-bound organelle | 5.09762757670053e-12 |
| GO:0043283 | biopolymer metabolic process | 6.80345903204537e-12 |
| GO:0043229 | intracellular organelle | 2.82945618182235e-09 |
| GO:0043226 | organelle | 2.82945618182235e-09 |
| GO:0016584 | nucleosome positioning | 3.30511061749485e-09 |
| GO:0043170 | macromolecule metabolic process | 7.1455221981178e-09 |
| GO:0044237 | cellular metabolic process | 2.11542148816235e-07 |
| GO:0044238 | primary metabolic process | 2.48135321557574e-07 |
| GO:0044424 | intracellular part | 3.50192310313866e-07 |
| GO:0005622 | intracellular | 8.50752770264734e-06 |
| GO:0042742 | defense response to bacterium | 3.71707117147414e-05 |
| GO:0009617 | response to bacterium | 5.02592023955664e-05 |
| GO:0051707 | response to other organism | 0.000350500324494739 |
| GO:0009607 | response to biotic stimulus | 0.000917422283520578 |
| GO:0051704 | multi-organism process | 0.00134820086403117 |
| GO:0006952 | defense response | 0.00645472099872346 |
| GO:0044464 | cell part | 0.00693752947648842 |
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><br>disease_data<br>
| Ontology term | p-value | n |
|---|---|---|
| animal cell | 3.91e-13 | 679 |
| eukaryotic cell | 3.91e-13 | 679 |
| native cell | 5.82e-12 | 722 |
| embryonic cell | 7.93e-10 | 248 |
| somatic cell | 6.81e-09 | 591 |
| lymphocyte | 4.24e-07 | 53 |
| common lymphoid progenitor | 4.24e-07 | 53 |
| lymphoid lineage restricted progenitor cell | 8.75e-07 | 52 |
| Ontology term | p-value | n |
|---|---|---|
| hematologic cancer | 9.27e-17 | 51 |
| immune system cancer | 9.27e-17 | 51 |
| leukemia | 1.22e-13 | 39 |
| myeloid leukemia | 5.90e-10 | 31 |
| cancer | 1.66e-09 | 235 |
| disease of cellular proliferation | 9.93e-09 | 239 |
| organ system cancer | 9.53e-07 | 137 |
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
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