Coexpression cluster:C78

Full id: C78_lymphoma_plasma_tonsil_appendix_lymph_seminal_trachea

Phase1 CAGE Peaks

Hg19::chr10:104408911..104408922,+	p33@TRIM8
Hg19::chr10:73843883..73843895,-	p@chr10:73843883..73843895 -
Hg19::chr11:114997342..114997344,-	p@chr11:114997342..114997344 -
Hg19::chr11:117529753..117529772,+	p@chr11:117529753..117529772 +
Hg19::chr11:117562371..117562376,+	p@chr11:117562371..117562376 +
Hg19::chr11:117584498..117584510,-	p@chr11:117584498..117584510 -
Hg19::chr11:117869110..117869140,+	p@chr11:117869110..117869140 +
Hg19::chr11:117880947..117880949,+	p@chr11:117880947..117880949 +
Hg19::chr11:117997240..117997243,+	p@chr11:117997240..117997243 +
Hg19::chr11:14346810..14346831,-	p@chr11:14346810..14346831 -
Hg19::chr11:44625962..44625976,+	p3@CD82
Hg19::chr11:44626756..44626775,+	p@chr11:44626756..44626775 +
Hg19::chr11:47540590..47540594,-	p@chr11:47540590..47540594 -
Hg19::chr11:58869930..58869933,-	p@chr11:58869930..58869933 -
Hg19::chr11:70309490..70309499,+	p@chr11:70309490..70309499 +
Hg19::chr11:70309509..70309517,+	p@chr11:70309509..70309517 +
Hg19::chr11:71932260..71932267,+	p@chr11:71932260..71932267 +
Hg19::chr11:71932297..71932318,+	p@chr11:71932297..71932318 +
Hg19::chr11:76849253..76849265,+	p@chr11:76849253..76849265 +
Hg19::chr11:82682690..82682696,+	p@chr11:82682690..82682696 +
Hg19::chr11:87069705..87069724,+	p@chr11:87069705..87069724 +
Hg19::chr11:87070681..87070692,+	p@chr11:87070681..87070692 +
Hg19::chr11:87070763..87070778,+	p@chr11:87070763..87070778 +
Hg19::chr11:87070789..87070800,+	p@chr11:87070789..87070800 +
Hg19::chr11:87070802..87070805,+	p@chr11:87070802..87070805 +
Hg19::chr11:87070807..87070824,+	p@chr11:87070807..87070824 +
Hg19::chr11:87070835..87070853,+	p@chr11:87070835..87070853 +
Hg19::chr11:87139804..87139805,+	p@chr11:87139804..87139805 +
Hg19::chr11:87149226..87149230,+	p@chr11:87149226..87149230 +
Hg19::chr11:87288882..87288883,+	p@chr11:87288882..87288883 +
Hg19::chr11:9630903..9630932,+	p@chr11:9630903..9630932 +
Hg19::chr12:104806373..104806375,+	p@chr12:104806373..104806375 +
Hg19::chr12:122429485..122429491,+	p@chr12:122429485..122429491 +
Hg19::chr12:14818964..14818977,-	p@chr12:14818964..14818977 -
Hg19::chr12:1635141..1635152,-	p@chr12:1635141..1635152 -
Hg19::chr12:50616792..50616804,-	p29@LIMA1
Hg19::chr12:6373654..6373663,-	p@chr12:6373654..6373663 -
Hg19::chr12:6373673..6373676,-	p@chr12:6373673..6373676 -
Hg19::chr13:111836521..111836524,+	p@chr13:111836521..111836524 +
Hg19::chr13:20138987..20138997,-	p4@CASC4P1
Hg19::chr13:30053711..30053718,+	p14@MTUS2
Hg19::chr13:99772217..99772259,+	p@chr13:99772217..99772259 +
Hg19::chr14:106829729..106829758,-	p1@AF460702 p1@AF460703 p1@AF460708 p1@AF460709 p1@AF460728 p1@AF460785 p1@AF460821 p1@AF460837 p1@AY003807 p1@AY003817
Hg19::chr14:106830057..106830075,-	p1@IGHV4-34
Hg19::chr14:106830186..106830197,+	p@chr14:106830186..106830197 +
Hg19::chr14:22961783..22961799,+	p2@TRAJ47
Hg19::chr14:68962457..68962464,-	p@chr14:68962457..68962464 -
Hg19::chr15:31518293..31518296,-	p@chr15:31518293..31518296 -
Hg19::chr15:33502141..33502147,-	p@chr15:33502141..33502147 -
Hg19::chr15:44069156..44069208,-	p1@ELL3
Hg19::chr15:52043573..52043583,-	p16@LYSMD2
Hg19::chr15:52043594..52043603,-	p13@LYSMD2
Hg19::chr15:52043631..52043657,-	p5@LYSMD2
Hg19::chr15:55823075..55823084,-	p@chr15:55823075..55823084 -
Hg19::chr15:55823098..55823101,-	p@chr15:55823098..55823101 -
Hg19::chr15:55823115..55823128,-	p@chr15:55823115..55823128 -
Hg19::chr15:55853684..55853690,-	p@chr15:55853684..55853690 -
Hg19::chr15:55912113..55912120,-	p@chr15:55912113..55912120 -
Hg19::chr15:56034498..56034508,-	p8@PRTG
Hg19::chr15:56657670..56657684,+	p2@TEX9
Hg19::chr15:56657750..56657757,+	p6@TEX9
Hg19::chr15:56657762..56657777,+	p3@TEX9
Hg19::chr15:56660199..56660216,+	p@chr15:56660199..56660216 +
Hg19::chr15:59665311..59665320,-	p6@MYO1E
Hg19::chr15:65598581..65598584,+	p@chr15:65598581..65598584 +
Hg19::chr15:66639676..66639681,-	p1@SCARNA14
Hg19::chr15:75045274..75045289,+	p@chr15:75045274..75045289 +
Hg19::chr15:75045322..75045331,+	p@chr15:75045322..75045331 +
Hg19::chr15:75045336..75045349,+	p@chr15:75045336..75045349 +
Hg19::chr15:75090972..75090998,+	p10@CSK
Hg19::chr15:79310342..79310352,-	p17@RASGRF1
Hg19::chr15:79310355..79310371,-	p11@RASGRF1
Hg19::chr15:79310374..79310377,-	p36@RASGRF1
Hg19::chr15:80309724..80309729,+	p@chr15:80309724..80309729 +
Hg19::chr15:80351292..80351293,+	p@chr15:80351292..80351293 +
Hg19::chr15:80679172..80679178,+	p@chr15:80679172..80679178 +
Hg19::chr15:92558635..92558641,-	p@chr15:92558635..92558641 -
Hg19::chr15:94775536..94775559,+	p@chr15:94775536..94775559 +
Hg19::chr16:10881531..10881535,+	p@chr16:10881531..10881535 +
Hg19::chr16:11876415..11876429,-	p7@ZC3H7A
Hg19::chr16:11876441..11876442,-	p19@ZC3H7A
Hg19::chr16:14700008..14700028,-	p@chr16:14700008..14700028 -
Hg19::chr16:14700034..14700044,-	p@chr16:14700034..14700044 -
Hg19::chr16:3013625..3013631,+	p@chr16:3013625..3013631 +
Hg19::chr16:81819275..81819302,+	p6@PLCG2
Hg19::chr16:81819343..81819380,+	p4@PLCG2
Hg19::chr17:71146957..71146959,-	p@chr17:71146957..71146959 -
Hg19::chr18:31431849..31431857,+	p@chr18:31431849..31431857 +
Hg19::chr18:31431876..31431886,+	p@chr18:31431876..31431886 +
Hg19::chr18:31433349..31433357,-	p@chr18:31433349..31433357 -
Hg19::chr18:53089770..53089786,-	p65@TCF4
Hg19::chr18:53091056..53091059,-	p@chr18:53091056..53091059 -
Hg19::chr18:53108451..53108463,+	p@chr18:53108451..53108463 +
Hg19::chr18:55731673..55731688,+	p@chr18:55731673..55731688 +
Hg19::chr18:57660580..57660582,+	p@chr18:57660580..57660582 +
Hg19::chr18:60383513..60383553,+	p7@PHLPP1
Hg19::chr18:60388140..60388163,+	p@chr18:60388140..60388163 +
Hg19::chr18:60499385..60499426,+	p21@PHLPP1
Hg19::chr18:66202348..66202355,-	p@chr18:66202348..66202355 -
Hg19::chr19:19257943..19257954,-	p@chr19:19257943..19257954 -
Hg19::chr1:180072160..180072175,-	p@chr1:180072160..180072175 -
Hg19::chr1:180072332..180072341,+	p@chr1:180072332..180072341 +
Hg19::chr1:180072353..180072366,+	p@chr1:180072353..180072366 +
Hg19::chr1:182641988..182641999,-	p9@RGS8
Hg19::chr1:182642017..182642048,-	p4@RGS8
Hg19::chr1:186213525..186213537,-	p@chr1:186213525..186213537 -
Hg19::chr1:208045570..208045580,+	p@chr1:208045570..208045580 +
Hg19::chr1:210407452..210407474,-	p4@C1orf133
Hg19::chr1:210407482..210407529,-	p3@C1orf133
Hg19::chr1:226421173..226421184,+	p@chr1:226421173..226421184 +
Hg19::chr1:245121040..245121045,+	p@chr1:245121040..245121045 +
Hg19::chr1:32788347..32788349,+	p@chr1:32788347..32788349 +
Hg19::chr1:51982974..51982989,-	p@chr1:51982974..51982989 -
Hg19::chr20:42948601..42948615,-	p@chr20:42948601..42948615 -
Hg19::chr20:45891250..45891274,-	p32@ZMYND8
Hg19::chr20:46040915..46040932,-	p1@ENST00000437920
Hg19::chr20:46040936..46040941,-	p5@ENST00000437920
Hg19::chr20:46040959..46040976,-	p2@ENST00000437920
Hg19::chr20:46041046..46041090,-	p4@ENST00000437920
Hg19::chr20:46041421..46041448,-	p3@ENST00000437920
Hg19::chr20:52681625..52681628,+	p@chr20:52681625..52681628 +
Hg19::chr21:30494439..30494452,+	p19@C21orf7
Hg19::chr21:37914899..37914918,-	p12@CLDN14
Hg19::chr21:37915034..37915039,-	p9@CLDN14
Hg19::chr21:37915073..37915087,-	p2@CLDN14
Hg19::chr21:37915094..37915101,-	p8@CLDN14
Hg19::chr21:37915193..37915204,-	p4@CLDN14
Hg19::chr22:18256469..18256483,-	p14@BID
Hg19::chr22:18279301..18279311,+	p@chr22:18279301..18279311 +
Hg19::chr22:24145958..24145959,+	p@chr22:24145958..24145959 +
Hg19::chr22:47165360..47165407,+	p@chr22:47165360..47165407 +
Hg19::chr22:50149717..50149720,+	p@chr22:50149717..50149720 +
Hg19::chr2:153399146..153399151,+	p20@FMNL2
Hg19::chr2:20062898..20062903,-	p@chr2:20062898..20062903 -
Hg19::chr2:31476953..31476977,+	p@chr2:31476953..31476977 +
Hg19::chr2:54696946..54696961,+	p@chr2:54696946..54696961 +
Hg19::chr2:54696969..54696979,+	p@chr2:54696969..54696979 +
Hg19::chr2:55015300..55015317,+	p@chr2:55015300..55015317 +
Hg19::chr2:55020539..55020543,+	p@chr2:55020539..55020543 +
Hg19::chr2:55126919..55126921,+	p@chr2:55126919..55126921 +
Hg19::chr2:55132376..55132377,+	p@chr2:55132376..55132377 +
Hg19::chr2:61200338..61200343,+	p@chr2:61200338..61200343 +
Hg19::chr2:64317528..64317532,-	p@chr2:64317528..64317532 -
Hg19::chr2:64317558..64317577,-	p@chr2:64317558..64317577 -
Hg19::chr2:89162439..89162454,-	p@chr2:89162439..89162454 -
Hg19::chr2:89442468..89442511,-	p1@L28043 p1@L28045 p1@L28046 p1@M26437 p1@M26438 p1@Z34913
Hg19::chr2:89442729..89442739,-	p4@IGKV3-20
Hg19::chr2:89442808..89442811,-	p3@IGKV3-20
Hg19::chr3:16476263..16476279,-	p15@RFTN1
Hg19::chr3:16552633..16552645,-	p@chr3:16552633..16552645 -
Hg19::chr3:16552661..16552674,-	p@chr3:16552661..16552674 -
Hg19::chr3:16552683..16552697,-	p@chr3:16552683..16552697 -
Hg19::chr3:170078965..170078975,+	p23@SKIL
Hg19::chr3:170078979..170078989,+	p24@SKIL
Hg19::chr3:17442152..17442172,+	p@chr3:17442152..17442172 +
Hg19::chr3:188299733..188299736,-	p@chr3:188299733..188299736 -
Hg19::chr3:194816001..194816012,+	p@chr3:194816001..194816012 +
Hg19::chr3:195267526..195267531,+	p@chr3:195267526..195267531 +
Hg19::chr3:30710958..30710960,-	p@chr3:30710958..30710960 -
Hg19::chr3:31918351..31918363,-	p13@OSBPL10
Hg19::chr3:31918364..31918375,-	p9@OSBPL10
Hg19::chr3:31918379..31918390,-	p10@OSBPL10
Hg19::chr3:53778605..53778645,+	p@chr3:53778605..53778645 +
Hg19::chr5:130204823..130204828,-	p@chr5:130204823..130204828 -
Hg19::chr5:133880087..133880098,+	p23@PHF15
Hg19::chr5:133880100..133880110,+	p28@PHF15
Hg19::chr5:133886807..133886836,+	p@chr5:133886807..133886836 +
Hg19::chr5:171702188..171702197,-	p@chr5:171702188..171702197 -
Hg19::chr5:177751110..177751118,-	p@chr5:177751110..177751118 -
Hg19::chr5:35729957..35729972,+	p@chr5:35729957..35729972 +
Hg19::chr5:79963994..79963998,-	p@chr5:79963994..79963998 -
Hg19::chr5:96691647..96691659,+	p@chr5:96691647..96691659 +
Hg19::chr6:119669325..119669334,-	p@chr6:119669325..119669334 -
Hg19::chr6:134275379..134275381,-	p@chr6:134275379..134275381 -
Hg19::chr6:135149663..135149673,-	p@chr6:135149663..135149673 -
Hg19::chr6:150938045..150938069,+	p@chr6:150938045..150938069 +
Hg19::chr6:159501980..159501983,-	p@chr6:159501980..159501983 -
Hg19::chr6:166298831..166298836,-	p@chr6:166298831..166298836 -
Hg19::chr6:1738561..1738567,-	p@chr6:1738561..1738567 -
Hg19::chr6:1738571..1738593,-	p@chr6:1738571..1738593 -
Hg19::chr6:31391394..31391405,-	p@chr6:31391394..31391405 -
Hg19::chr6:73351184..73351201,+	p@chr6:73351184..73351201 +
Hg19::chr7:101460965..101460970,+	p@chr7:101460965..101460970 +
Hg19::chr7:101461135..101461143,+	p@chr7:101461135..101461143 +
Hg19::chr7:101461145..101461152,+	p@chr7:101461145..101461152 +
Hg19::chr7:101505970..101505985,+	p@chr7:101505970..101505985 +
Hg19::chr7:101632822..101632825,-	p@chr7:101632822..101632825 -
Hg19::chr7:101633370..101633404,+	p@chr7:101633370..101633404 +
Hg19::chr7:101923267..101923278,+	p@chr7:101923267..101923278 +
Hg19::chr7:101932726..101932729,+	p@chr7:101932726..101932729 +
Hg19::chr7:101932743..101932764,+	p@chr7:101932743..101932764 +
Hg19::chr7:102085675..102085686,-	p@chr7:102085675..102085686 -
Hg19::chr7:17500294..17500304,-	p1@ENST00000439046
Hg19::chr7:22401303..22401305,+	p@chr7:22401303..22401305 +
Hg19::chr7:22475507..22475523,-	p@chr7:22475507..22475523 -
Hg19::chr7:36232622..36232647,+	p@chr7:36232622..36232647 +
Hg19::chr7:92157154..92157190,+	p@chr7:92157154..92157190 +
Hg19::chr7:92157696..92157707,-	p2@PEX1
Hg19::chr7:92157747..92157758,-	p3@PEX1
Hg19::chr7:92157760..92157854,-	p1@PEX1
Hg19::chr7:92158083..92158131,+	p1@RBM48
Hg19::chr7:92193537..92193583,-	p@chr7:92193537..92193583 -
Hg19::chr7:92219657..92219676,-	p2@FAM133B
Hg19::chr7:92219698..92219713,-	p1@FAM133B
Hg19::chr7:92442731..92442739,-	p@chr7:92442731..92442739 -
Hg19::chr7:92442913..92442927,+	p@chr7:92442913..92442927 +
Hg19::chr7:92462716..92462727,-	p43@CDK6
Hg19::chr7:93652116..93652122,+	p1@ENST00000415536
Hg19::chr7:96745751..96745755,-	p@chr7:96745751..96745755 -
Hg19::chr7:98841121..98841133,+	p@chr7:98841121..98841133 +
Hg19::chr7:98893457..98893458,-	p@chr7:98893457..98893458 -
Hg19::chr7:98923353..98923362,-	p@chr7:98923353..98923362 -
Hg19::chr7:98923527..98923537,-	p@chr7:98923527..98923537 -
Hg19::chr7:98928556..98928573,-	p@chr7:98928556..98928573 -
Hg19::chr8:11251617..11251658,+	p1@C8orf12
Hg19::chr8:11251682..11251699,+	p4@C8orf12
Hg19::chr8:129203016..129203026,-	p@chr8:129203016..129203026 -
Hg19::chr8:133969805..133969816,+	p@chr8:133969805..133969816 +
Hg19::chr8:135612764..135612786,-	p@chr8:135612764..135612786 -
Hg19::chr8:23282797..23282803,-	p37@LOXL2
Hg19::chr8:23282820..23282846,-	p11@LOXL2
Hg19::chr8:2413422..2413469,-	p@chr8:2413422..2413469 -
Hg19::chr8:2507680..2507685,+	p@chr8:2507680..2507685 +
Hg19::chr8:59938345..59938387,-	p@chr8:59938345..59938387 -
Hg19::chr9:139793773..139793811,+	p@chr9:139793773..139793811 +
Hg19::chr9:140349856..140349859,-	p36@NELF
Hg19::chr9:140349915..140349924,-	p34@NELF
Hg19::chr9:37018564..37018568,-	p@chr9:37018564..37018568 -
Hg19::chr9:37142974..37142987,+	p@chr9:37142974..37142987 +
Hg19::chr9:37384457..37384469,-	p1@ENST00000452923
Hg19::chr9:37409052..37409057,-	p@chr9:37409052..37409057 -
Hg19::chr9:37409069..37409080,-	p@chr9:37409069..37409080 -
Hg19::chr9:37422550..37422578,+	p3@GRHPR
Hg19::chrX:14942624..14942635,-	p@chrX:14942624..14942635 -
Hg19::chrX:1613261..1613278,-	p3@P2RY8
Hg19::chrX:1613288..1613304,-	p5@P2RY8
Hg19::chrX:33743841..33743886,-	p@chrX:33743841..33743886 -

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

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No results for this coexpression

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

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GO ID	GO name	FDR corrected p-value
GO:0005515	protein binding	0.00522293863227213
GO:0003779	actin binding	0.0453682444365949
GO:0007616	long-term memory	0.0453682444365949
GO:0016618	hydroxypyruvate reductase activity	0.0453682444365949
GO:0030267	glyoxylate reductase (NADP) activity	0.0453682444365949
GO:0043696	dedifferentiation	0.0453682444365949
GO:0043697	cell dedifferentiation	0.0453682444365949
GO:0008465	glycerate dehydrogenase activity	0.0453682444365949

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>disease_data<br>

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Cell Type

Ontology term	p-value	n
lymphocyte of B lineage	3.75e-12	24
pro-B cell	3.75e-12	24

Uber Anatomy

Ontology term	p-value	n
tonsil	4.66e-66	1
mucosa-associated lymphoid tissue	4.66e-66	1
lymphoid tissue	4.66e-66	1
tonsillar ring	4.66e-66	1
lymphoid system	6.56e-08	10
chordate pharynx	6.56e-08	10
pharyngeal region of foregut	6.56e-08	10
pharynx	2.63e-07	11

Disease

Ontology term	p-value	n
lymphoma	2.08e-27	10

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

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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

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(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF	#promoters	Enrichment	p-value	q-value
EBF1#1879	48	1.80384138664689	3.87299504149435e-05	0.000727895859526054
MEF2A#4205	23	1.81896333722284	0.00437929884466282	0.0207574472196487
POU2F2#5452	41	1.57532103952508	0.00229313668378661	0.0130109687682941

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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