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{{Coexpression_clusters
{
|full_id=C109_Reticulocytes_non_acute_Hodgkin_Burkitt_retinoblastoma_lymphoma
|gostat_on_coexpression_clusters=

Latest revision as of 10:33, 17 September 2013


Full id: C109_Reticulocytes_non_acute_Hodgkin_Burkitt_retinoblastoma_lymphoma



Phase1 CAGE Peaks

Hg19::chr10:129924611..129924662,-p1@MKI67
Hg19::chr10:129924668..129924722,-p2@MKI67
Hg19::chr10:13203543..13203587,+p1@MCM10
Hg19::chr10:14920843..14920886,+p1@SUV39H2
Hg19::chr10:27444268..27444301,+p1@MASTL
Hg19::chr10:5454505..5454540,+p3@NET1
Hg19::chr10:58120996..58121039,-p1@ZWINT
Hg19::chr10:62538228..62538244,+p1@CDK1
Hg19::chr10:62538248..62538260,+p2@CDK1
Hg19::chr10:70231639..70231735,-p1@DNA2
Hg19::chr10:91461337..91461380,+p1@KIF20B
Hg19::chr10:91461386..91461403,+p2@KIF20B
Hg19::chr10:94352819..94352838,+p3@KIF11
Hg19::chr10:94352840..94352868,+p2@KIF11
Hg19::chr10:94352870..94352930,+p1@KIF11
Hg19::chr11:125495862..125495882,+p1@CHEK1
Hg19::chr11:134093827..134093884,-p1@NCAPD3
Hg19::chr11:28129656..28129735,-p1@KIF18A
Hg19::chr11:58912240..58912355,+p1@FAM111A
Hg19::chr11:82612763..82612808,+p1@C11orf82
Hg19::chr12:102513950..102513996,+p1@C12orf48
Hg19::chr12:102513998..102514017,+p2@C12orf48
Hg19::chr12:102514019..102514035,+p3@C12orf48
Hg19::chr12:118454500..118454585,+p1@RFC5
Hg19::chr12:120315104..120315145,-p1@CIT
Hg19::chr12:123011776..123011814,+p1@KNTC1
Hg19::chr12:123011821..123011835,+p2@KNTC1
Hg19::chr12:4647995..4648087,+p1@RAD51AP1
Hg19::chr12:50419177..50419285,-p1@RACGAP1
Hg19::chr12:510795..510835,+p1@CCDC77
Hg19::chr12:57146095..57146149,-p1@PRIM1
Hg19::chr12:98909351..98909454,+p1@TMPO
Hg19::chr13:21750622..21750646,-p2@SKA3
Hg19::chr13:21750659..21750735,-p1@SKA3
Hg19::chr13:34392259..34392321,+p1@RFC3
Hg19::chr13:34392324..34392339,+p4@RFC3
Hg19::chr13:53029568..53029650,+p1@CKAP2
Hg19::chr13:73302047..73302073,+p1@BORA
Hg19::chr14:50154924..50154935,-p1@POLE2
Hg19::chr14:55493763..55493824,-p1@WDHD1
Hg19::chr14:55658252..55658321,-p1@DLGAP5
Hg19::chr14:55658323..55658334,-p2@DLGAP5
Hg19::chr14:97263676..97263764,+p1@VRK1
Hg19::chr15:30918317..30918350,+p1@ARHGAP11B
Hg19::chr15:32907702..32907729,+p1@ARHGAP11A
Hg19::chr15:40453204..40453304,+p1@BUB1B
Hg19::chr15:40453314..40453331,+p2@BUB1B
Hg19::chr15:40675132..40675210,+p1@C15orf23
Hg19::chr15:40886439..40886493,+p1@CASC5
Hg19::chr15:40987349..40987397,+p1@RAD51
Hg19::chr15:40987401..40987416,+p2@RAD51
Hg19::chr15:41624754..41624796,-p1@OIP5
Hg19::chr15:41625060..41625088,+p1@NUSAP1
Hg19::chr15:44119159..44119226,+p1@WDR76
Hg19::chr15:49103196..49103232,-p2@CEP152
Hg19::chr15:49103235..49103301,-p1@CEP152
Hg19::chr15:59397298..59397353,+p1@CCNB2
Hg19::chr15:59397366..59397381,+p2@CCNB2
Hg19::chr15:64673665..64673676,-p2@KIAA0101
Hg19::chr15:66649010..66649067,-p1@TIPIN
Hg19::chr15:89787185..89787263,+p1@FANCI
Hg19::chr15:90118685..90118717,+p2@C15orf42
Hg19::chr15:90118723..90118753,+p1@C15orf42
Hg19::chr15:91260552..91260644,+p1@BLM
Hg19::chr16:46723552..46723612,+p1@ORC6
Hg19::chr16:74700747..74700804,-p1@RFWD3
Hg19::chr16:81040794..81040865,+p1@CENPN
Hg19::chr17:26926005..26926070,-p1@SPAG5
Hg19::chr17:29158962..29159046,+p1@ATAD5
Hg19::chr17:38444115..38444194,+p1@CDC6
Hg19::chr17:38574125..38574168,-p1@TOP2A
Hg19::chr17:38574169..38574180,-p2@TOP2A
Hg19::chr17:41277372..41277418,-p1@BRCA1
Hg19::chr17:48450575..48450618,+p1@EME1
Hg19::chr17:56084578..56084645,-p1@SRSF1
Hg19::chr18:20513782..20513859,+p1@RBBP8
Hg19::chr18:2571528..2571568,+p1@NDC80
Hg19::chr18:2571572..2571606,+p2@NDC80
Hg19::chr1:100598448..100598532,-p1@SASS6
Hg19::chr1:10490477..10490553,+p2@APITD1-CORT
p2@APITD1
Hg19::chr1:163291719..163291730,+p3@NUF2
Hg19::chr1:163291732..163291812,+p1@NUF2
Hg19::chr1:163291814..163291855,+p2@NUF2
Hg19::chr1:169764163..169764240,+p1@C1orf112
Hg19::chr1:173793515..173793551,-p2@CENPL
Hg19::chr1:197115750..197115807,-p1@ASPM
Hg19::chr1:197115818..197115829,-p3@ASPM
Hg19::chr1:200589831..200589855,-p2@KIF14
Hg19::chr1:200589859..200589887,-p1@KIF14
Hg19::chr1:211848955..211848981,-p1@NEK2
Hg19::chr1:212209055..212209147,+p1@DTL
Hg19::chr1:214776516..214776565,+p1@CENPF
Hg19::chr1:214776570..214776593,+p2@CENPF
Hg19::chr1:214776602..214776615,+p3@CENPF
Hg19::chr1:226496833..226496884,-p1@LIN9
Hg19::chr1:242011485..242011542,+p1@EXO1
Hg19::chr1:36235532..36235543,-p3@CLSPN
Hg19::chr1:36235546..36235557,-p2@CLSPN
Hg19::chr1:36235559..36235600,-p1@CLSPN
Hg19::chr1:45205478..45205492,+p4@KIF2C
Hg19::chr1:45205498..45205554,+p1@KIF2C
Hg19::chr1:46713405..46713452,+p1@RAD54L
Hg19::chr1:47779762..47779827,-p1@STIL
p1@TAL1
Hg19::chr1:52870063..52870102,-p1@ORC1
Hg19::chr1:52870104..52870134,-p2@ORC1
Hg19::chr1:63988846..63988908,-p1@ITGB3BP
Hg19::chr1:68962719..68962736,-p2@DEPDC1
Hg19::chr1:91966384..91966454,+p1@CDC7
Hg19::chr20:30327063..30327138,+p1@TPX2
Hg19::chr20:37555048..37555067,+p1@FAM83D
Hg19::chr20:54967243..54967278,-p1@AURKA
Hg19::chr2:109403193..109403270,+p1@CCDC138
Hg19::chr2:111435630..111435648,-p1@BUB1
Hg19::chr2:113522177..113522228,-p1@CKAP2L
Hg19::chr2:113522248..113522259,-p2@CKAP2L
Hg19::chr2:136633940..136634022,-p1@MCM6
Hg19::chr2:136634026..136634039,-p2@MCM6
Hg19::chr2:169746878..169746970,-p1@SPC25
Hg19::chr2:174219559..174219621,+p1@CDCA7
Hg19::chr2:17935383..17935439,+p1@GEN1
Hg19::chr2:201390843..201390936,+p1@SGOL2
Hg19::chr2:97001482..97001488,+p2@NCAPH
Hg19::chr2:97001491..97001550,+p1@NCAPH
Hg19::chr3:108308241..108308316,-p1@KIAA1524
Hg19::chr3:160117418..160117463,+p1@SMC4
Hg19::chr3:172468505..172468582,+p1@ECT2
Hg19::chr3:20227671..20227711,-p1@SGOL1
Hg19::chr3:20227720..20227744,-p2@SGOL1
Hg19::chr3:44803254..44803305,+p1@KIF15
Hg19::chr4:104119488..104119512,-p1@CENPE
Hg19::chr4:104119528..104119570,-p2@CENPE
Hg19::chr4:113558014..113558073,-p1@C4orf21
Hg19::chr4:120987899..120987928,-p2@MAD2L1
Hg19::chr4:120987933..120988022,-p1@MAD2L1
Hg19::chr4:122744998..122745093,-p1@CCNA2
Hg19::chr4:128802038..128802095,+p1@PLK4
Hg19::chr4:154265784..154265819,+p2@MND1
Hg19::chr4:154265825..154265875,+p1@MND1
Hg19::chr4:159592996..159593059,-p1@C4orf46
Hg19::chr4:174255536..174255547,-p2@HMGB2
Hg19::chr4:17812568..17812648,+p1@NCAPG
Hg19::chr4:178230985..178230997,+p3@NEIL3
Hg19::chr4:185655212..185655260,-p1@MLF1IP
Hg19::chr4:185655278..185655291,-p2@MLF1IP
Hg19::chr5:137514782..137514827,+p1@KIF20A
Hg19::chr5:137667459..137667524,-p1@CDC25C
Hg19::chr5:162887629..162887681,+p1@HMMR
Hg19::chr5:59995921..59996000,-p1@DEPDC1B
Hg19::chr5:64858944..64859002,-p1@CENPK
Hg19::chr5:68462944..68463008,+p1@CCNB1
Hg19::chr5:68463044..68463055,+p2@CCNB1
Hg19::chr5:892954..893050,+p1@TRIP13
Hg19::chr6:136571400..136571457,-p1@FAM54A
Hg19::chr6:153304148..153304160,-p3@FBXO5
Hg19::chr6:153304166..153304194,-p1@FBXO5
Hg19::chr6:49431073..49431135,+p1@CENPQ
Hg19::chr6:52149475..52149587,-p1@MCM3
Hg19::chr6:80714332..80714411,+p1@TTK
Hg19::chr6:97731019..97731118,-p1@MMS22L
Hg19::chr7:152373182..152373198,-p2@XRCC2
Hg19::chr7:152373216..152373260,-p1@XRCC2
Hg19::chr7:158497431..158497529,-p1@NCAPG2
Hg19::chr8:25316707..25316729,+p2@CDCA2
Hg19::chr8:25316737..25316787,+p1@CDCA2
Hg19::chr8:27632034..27632045,+p3@ESCO2
Hg19::chr8:27632047..27632080,+p1@ESCO2
Hg19::chr8:27632083..27632099,+p2@ESCO2
Hg19::chr8:95487272..95487330,-p1@RAD54B
Hg19::chr8:95487331..95487359,-p3@RAD54B
Hg19::chr9:106856558..106856634,+p1@SMC2
Hg19::chr9:36572851..36572932,+p1@MELK
Hg19::chrX:100353153..100353207,+p1@CENPI
Hg19::chrX:14891150..14891201,-p1@FANCB
Hg19::chrX:69509927..69509970,+p1@KIF4A
Hg19::chrX:71458802..71458891,-p1@ERCC6L


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.valueFDRnGenesnPathwayName
2.31343570961464e-101.62711644909563e-08736DNA replication (KEGG):03030
0.001314375381383140.0297142720148403348Nucleotide excision repair (KEGG):03420
0.0001460458339844940.00401943534400802323Mismatch repair (KEGG):03430
2.50936800427164e-091.22186918977227e-07628Homologous recombination (KEGG):03440
6.217767888903e-196.55974512279266e-1716128Cell cycle (KEGG):04110
2.40370996796524e-091.22186918977227e-079114Oocyte meiosis (KEGG):04114
0.0002661098667783110.00647875175656426469p53 signaling pathway (KEGG):04115
1.34017792648792e-075.30207892166785e-06787Progesterone-mediated oocyte maturation (KEGG):04914
5.22281401175305e-082.20402751295979e-06776miRNA regulation of DNA Damage Response (Wikipathways):WP1530
8.82301560789768e-201.11699377595985e-171590Cell cycle (Wikipathways):WP179
0.001752465984853420.0382521023590419214Homologous recombination (Wikipathways):WP186
2.80885767520302e-050.000889003454201755439Integrated Cancer pathway (Wikipathways):WP1971
7.0545386535583e-050.002029783167137466154Integrated Breast Cancer Pathway (Wikipathways):WP1984
8.70873611360441e-105.51262995991159e-08869G1 to S cell cycle control (Wikipathways):WP45
3.6142208280362e-172.85975223018364e-151142DNA Replication (Wikipathways):WP1806
3.9360777656576e-081.7796694469009e-06773DNA damage response (Wikipathways):WP707
3.27626103736562e-215.1846830916311e-1917117Cell Cycle Checkpoints (Reactome):REACT_1538
5.55321508771031e-071.95288063917812e-057107DNA Repair (Reactome):REACT_216
9.67074292974412e-522.04052675817601e-4938200DNA Replication (Reactome):REACT_383
0.001232840406752090.02890325842496588466Hemostasis (Reactome):REACT_604
2.08689143505558e-576.60501139195093e-5546315Cell Cycle, Mitotic (Reactome):REACT_152
1.82162659627157e-050.0006068892818104746121Signaling by Rho GTPases (Reactome):REACT_11044
2.28599762443868e-172.06719499467098e-151377Chromosome Maintenance (Reactome):REACT_22172
0.0001762625193243610.004648923947180016182B Cell Receptor down reg. targets (Netpath):NetPath_12
0.0002380702524517060.0060279387920772327{BRCA1,28} (Static Module):NA
1.03207338782276e-696.53302454491809e-6754346{CDC2,351} (Static Module):NA
4.20069059276908e-071.5641394971899e-05534{PCNA,34} (Static Module):NA
2.98112966926262e-050.0008985976574491616132{RAC1,133} (Static Module):NA
2.09519054893877e-091.20568692498022e-07513{RAD51,13} (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 IDGO nameFDR corrected p-value
GO:0043228non-membrane-bound organelle2.15518128958986e-59
GO:0043232intracellular non-membrane-bound organelle2.15518128958986e-59
GO:0007049cell cycle8.29423306508336e-56
GO:0005634nucleus1.86808589481256e-52
GO:0000279M phase1.53273446325409e-49
GO:0022402cell cycle process3.94233316758286e-48
GO:0022403cell cycle phase3.94233316758286e-48
GO:0007067mitosis1.24072904823095e-44
GO:0000087M phase of mitotic cell cycle2.69401264475003e-44
GO:0000278mitotic cell cycle2.17076237247296e-43
GO:0051301cell division1.52606393838568e-42
GO:0005694chromosome1.42312296784697e-35
GO:0044446intracellular organelle part2.56266026444042e-34
GO:0044422organelle part3.16335014919152e-34
GO:0044427chromosomal part9.3662476807613e-32
GO:0043231intracellular membrane-bound organelle8.73105267505752e-31
GO:0043227membrane-bound organelle8.73105267505752e-31
GO:0043229intracellular organelle4.01532329582802e-30
GO:0043226organelle4.02546046526679e-30
GO:0000775chromosome, pericentric region1.30546540232514e-29
GO:0044424intracellular part1.35992297167859e-26
GO:0015630microtubule cytoskeleton8.74964046884234e-25
GO:0005622intracellular2.62522268128061e-24
GO:0007059chromosome segregation1.95014568800382e-23
GO:0006974response to DNA damage stimulus2.3449883656529e-22
GO:0009719response to endogenous stimulus1.30874503929204e-20
GO:0005524ATP binding6.64452256386793e-20
GO:0006259DNA metabolic process8.40253301098569e-20
GO:0032559adenyl ribonucleotide binding1.09903823723239e-19
GO:0006281DNA repair1.09903823723239e-19
GO:0005819spindle1.28482154870443e-19
GO:0030554adenyl nucleotide binding1.82423453905961e-18
GO:0000074regulation of progression through cell cycle5.92427682728953e-18
GO:0000075cell cycle checkpoint7.77717761579947e-18
GO:0051726regulation of cell cycle7.77717761579947e-18
GO:0044430cytoskeletal part3.36174037169177e-17
GO:0000070mitotic sister chromatid segregation3.69933808036147e-15
GO:0000819sister chromatid segregation5.20876431957014e-15
GO:0007088regulation of mitosis5.27727488475924e-15
GO:0032555purine ribonucleotide binding8.93129554296225e-14
GO:0032553ribonucleotide binding8.93129554296225e-14
GO:0007017microtubule-based process1.22738846048736e-13
GO:0005856cytoskeleton1.48532172045741e-13
GO:0007093mitotic cell cycle checkpoint3.29762076379665e-13
GO:0017076purine nucleotide binding6.06207757108282e-13
GO:0006260DNA replication7.1339209223488e-13
GO:0006996organelle organization and biogenesis8.44552503940277e-13
GO:0006950response to stress2.15899416025771e-12
GO:0007051spindle organization and biogenesis2.23721019119342e-12
GO:0030261chromosome condensation5.03246751797012e-12
GO:0007076mitotic chromosome condensation6.96427347628013e-11
GO:0000793condensed chromosome8.84118522817317e-11
GO:0008094DNA-dependent ATPase activity1.05903513286545e-10
GO:0000166nucleotide binding1.71364476196475e-10
GO:0005874microtubule2.43281648944147e-10
GO:0000226microtubule cytoskeleton organization and biogenesis6.63421668675064e-10
GO:0007010cytoskeleton organization and biogenesis1.19245827631345e-09
GO:0044464cell part1.53599888073301e-09
GO:0016043cellular component organization and biogenesis2.13974566956899e-09
GO:0000724double-strand break repair via homologous recombination2.96922346837678e-09
GO:0000725recombinational repair2.96922346837678e-09
GO:0008283cell proliferation3.87278249233788e-09
GO:0000776kinetochore7.94909266643582e-09
GO:0005657replication fork9.60513227346902e-09
GO:0006310DNA recombination1.11732587265106e-08
GO:0005515protein binding1.52399442452446e-08
GO:0043283biopolymer metabolic process2.48585407926928e-08
GO:0051276chromosome organization and biogenesis2.57860114189502e-08
GO:0051327M phase of meiotic cell cycle2.89119153344663e-08
GO:0007126meiosis2.89119153344663e-08
GO:0051321meiotic cell cycle3.49551220825024e-08
GO:0006139nucleobase, nucleoside, nucleotide and nucleic acid metabolic process3.59868454642563e-08
GO:0006261DNA-dependent DNA replication3.69792828985864e-08
GO:0051325interphase1.79166663750537e-07
GO:0003777microtubule motor activity2.00138784586914e-07
GO:0005815microtubule organizing center2.73565707741404e-07
GO:0000940outer kinetochore of condensed chromosome2.98135119039631e-07
GO:0000228nuclear chromosome3.30848161326164e-07
GO:0000922spindle pole4.62284572448948e-07
GO:0006302double-strand break repair9.87756007666849e-07
GO:0005875microtubule associated complex1.20207765213801e-06
GO:0007018microtubule-based movement1.20207765213801e-06
GO:0048015phosphoinositide-mediated signaling1.90511534744426e-06
GO:0030705cytoskeleton-dependent intracellular transport2.25175816313266e-06
GO:0005876spindle microtubule2.51025380852151e-06
GO:0051329interphase of mitotic cell cycle2.92980899284801e-06
GO:0051052regulation of DNA metabolic process4.45032284934026e-06
GO:0044428nuclear part5.00588919928186e-06
GO:0007094mitotic cell cycle spindle assembly checkpoint5.0744186592941e-06
GO:0031577spindle checkpoint8.57632997968865e-06
GO:0000777condensed chromosome kinetochore1.34042286242483e-05
GO:0000779condensed chromosome, pericentric region1.34042286242483e-05
GO:0031570DNA integrity checkpoint1.46901434709264e-05
GO:0006266DNA ligation1.96490756808257e-05
GO:0004674protein serine/threonine kinase activity2.23465936961939e-05
GO:0005737cytoplasm2.88681573191223e-05
GO:0005813centrosome2.95529306893487e-05
GO:0006270DNA replication initiation4.40528405003002e-05
GO:0003677DNA binding7.57397595067423e-05
GO:0007098centrosome cycle7.87661247352791e-05
GO:0042770DNA damage response, signal transduction7.87661247352791e-05
GO:0006268DNA unwinding during replication0.000119102868645461
GO:0000079regulation of cyclin-dependent protein kinase activity0.000130714567065669
GO:0032508DNA duplex unwinding0.000164944339934614
GO:0032392DNA geometric change0.000164944339934614
GO:0051297centrosome organization and biogenesis0.000164944339934614
GO:0031023microtubule organizing center organization and biogenesis0.000164944339934614
GO:0019932second-messenger-mediated signaling0.000181627029065354
GO:0051053negative regulation of DNA metabolic process0.000188655812443518
GO:0000796condensin complex0.000188655812443518
GO:0051382kinetochore assembly0.000188655812443518
GO:0003697single-stranded DNA binding0.000288152877261799
GO:0050794regulation of cellular process0.000320079258175086
GO:0051656establishment of organelle localization0.000332762769084155
GO:0042623ATPase activity, coupled0.000353537639402919
GO:0051383kinetochore organization and biogenesis0.000354901971386742
GO:0033205cytokinesis during cell cycle0.000354901971386742
GO:0051310metaphase plate congression0.000354901971386742
GO:0000077DNA damage checkpoint0.000412622661425027
GO:0008022protein C-terminus binding0.000575271098363951
GO:0007089traversing start control point of mitotic cell cycle0.000576072872022911
GO:0017111nucleoside-triphosphatase activity0.000592430028873947
GO:0016462pyrophosphatase activity0.000798390944113317
GO:0043234protein complex0.000798390944113317
GO:0007346regulation of progression through mitotic cell cycle0.000798390944113317
GO:0003689DNA clamp loader activity0.000798390944113317
GO:0000076DNA replication checkpoint0.000798390944113317
GO:0033170DNA-protein loading ATPase activity0.000798390944113317
GO:0051303establishment of chromosome localization0.000798390944113317
GO:0050000chromosome localization0.000798390944113317
GO:0032297negative regulation of DNA replication initiation0.000798390944113317
GO:0042127regulation of cell proliferation0.00079921524351734
GO:0016818hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides0.00084904051791595
GO:0051640organelle localization0.00085597300070837
GO:0016817hydrolase activity, acting on acid anhydrides0.000889593284379261
GO:0051298centrosome duplication0.00106037618612802
GO:0005663DNA replication factor C complex0.00106037618612802
GO:0005658alpha DNA polymerase:primase complex0.00106037618612802
GO:0016887ATPase activity0.00109449833016032
GO:0043170macromolecule metabolic process0.00118687498708238
GO:0030174regulation of DNA replication initiation0.001372161798568
GO:0006312mitotic recombination0.001372161798568
GO:0050789regulation of biological process0.00168140527586666
GO:0046982protein heterodimerization activity0.00185275933154499
GO:0004672protein kinase activity0.00189632994111611
GO:0006468protein amino acid phosphorylation0.00201806838536671
GO:0051054positive regulation of DNA metabolic process0.00212314018624588
GO:0007052mitotic spindle organization and biogenesis0.00257237350712999
GO:0003682chromatin binding0.00278507133020501
GO:0000785chromatin0.00302786147480926
GO:0051649establishment of cellular localization0.00421071359286775
GO:0043601nuclear replisome0.00468421402231235
GO:0030894replisome0.00468421402231235
GO:0033261regulation of progression through S phase0.00468421402231235
GO:0048522positive regulation of cellular process0.00499397381338526
GO:0051641cellular localization0.00499397381338526
GO:0065007biological regulation0.00542214046497148
GO:0043596nuclear replication fork0.00576384696943171
GO:0008156negative regulation of DNA replication0.00576384696943171
GO:0000086G2/M transition of mitotic cell cycle0.00576384696943171
GO:0000080G1 phase of mitotic cell cycle0.00576384696943171
GO:0044454nuclear chromosome part0.00576384696943171
GO:0043687post-translational protein modification0.00684593311705418
GO:0051318G1 phase0.00711352113024182
GO:0043566structure-specific DNA binding0.00760471132835482
GO:0016310phosphorylation0.00818907869390538
GO:0016773phosphotransferase activity, alcohol group as acceptor0.00838544504449168
GO:0000152nuclear ubiquitin ligase complex0.00844732132254237
GO:0051320S phase0.00844732132254237
GO:0007131meiotic recombination0.00921898087522519
GO:0006793phosphorus metabolic process0.00935115302739534
GO:0006796phosphate metabolic process0.00935115302739534
GO:0048518positive regulation of biological process0.00984907154872842
GO:0044450microtubule organizing center part0.00984907154872842
GO:0001669acrosome0.0106616800943349
GO:0044237cellular metabolic process0.0108123996402835
GO:0045145single-stranded DNA specific 5'-3' exodeoxyribonuclease activity0.0108123996402835
GO:0033260DNA replication during S phase0.0108123996402835
GO:0046606negative regulation of centrosome cycle0.0108123996402835
GO:0046599regulation of centriole replication0.0108123996402835
GO:0043140ATP-dependent 3'-5' DNA helicase activity0.0108123996402835
GO:0015616DNA translocase activity0.0108123996402835
GO:0051352negative regulation of ligase activity0.0108123996402835
GO:0051436negative regulation of ubiquitin-protein ligase activity during mitotic cell cycle0.0108123996402835
GO:0045870positive regulation of retroviral genome replication0.0108123996402835
GO:0019035viral integration complex0.0108123996402835
GO:0045922negative regulation of fatty acid metabolic process0.0108123996402835
GO:0045717negative regulation of fatty acid biosynthetic process0.0108123996402835
GO:0051105regulation of DNA ligation0.0108123996402835
GO:0046605regulation of centrosome cycle0.0108123996402835
GO:0009330DNA topoisomerase complex (ATP-hydrolyzing)0.0108123996402835
GO:0051439regulation of ubiquitin-protein ligase activity during mitotic cell cycle0.0108123996402835
GO:0000915cytokinesis, contractile ring formation0.0108123996402835
GO:0045910negative regulation of DNA recombination0.0108123996402835
GO:0051444negative regulation of ubiquitin-protein ligase activity0.0108123996402835
GO:0001675acrosome formation0.0108123996402835
GO:0045950negative regulation of mitotic recombination0.0108123996402835
GO:0033262regulation of DNA replication during S phase0.0108123996402835
GO:0007108initiation of separation involved in cytokinesis0.0108123996402835
GO:0051106positive regulation of DNA ligation0.0108123996402835
GO:0000912formation of actomyosin apparatus involved in cytokinesis0.0108123996402835
GO:0046600negative regulation of centriole replication0.0108123996402835
GO:0051908double-stranded DNA specific 5'-3' exodeoxyribonuclease activity0.0108123996402835
GO:0044238primary metabolic process0.0120065140422622
GO:0006275regulation of DNA replication0.0122243885150848
GO:0005871kinesin complex0.0122243885150848
GO:0016772transferase activity, transferring phosphorus-containing groups0.0123390518538693
GO:0007242intracellular signaling cascade0.0126011498066057
GO:0045934negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process0.0128454469568148
GO:0000794condensed nuclear chromosome0.0146655735302603
GO:0004520endodeoxyribonuclease activity0.0155381200506125
GO:0007127meiosis I0.0164297468384493
GO:0003690double-stranded DNA binding0.0169024261144819
GO:0000910cytokinesis0.0172611914159997
GO:0006284base-excision repair0.0181670168370224
GO:0045786negative regulation of progression through cell cycle0.0181670168370224
GO:0030951establishment and/or maintenance of microtubule cytoskeleton polarity0.0181670168370224
GO:0007099centriole replication0.0181670168370224
GO:0007095mitotic cell cycle G2/M transition DNA damage checkpoint0.0181670168370224
GO:0001940male pronucleus0.0181670168370224
GO:00353125'-3' exodeoxyribonuclease activity0.0181670168370224
GO:0048478replication fork protection0.0181670168370224
GO:0000920cell separation during cytokinesis0.0181670168370224
GO:0051300spindle pole body organization and biogenesis0.0181670168370224
GO:0043142single-stranded DNA-dependent ATPase activity0.0181670168370224
GO:00431383'-5' DNA helicase activity0.0181670168370224
GO:0042772DNA damage response, signal transduction resulting in transcription0.0181670168370224
GO:0048256flap endonuclease activity0.0181670168370224
GO:0046974histone lysine N-methyltransferase activity (H3-K9 specific)0.0181670168370224
GO:0008297single-stranded DNA specific exodeoxyribonuclease activity0.0181670168370224
GO:0006978DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator0.0181670168370224
GO:0007079mitotic chromosome movement towards spindle pole0.0181670168370224
GO:0042304regulation of fatty acid biosynthetic process0.0181670168370224
GO:0045132meiotic chromosome segregation0.0181670168370224
GO:0031436BRCA1-BARD1 complex0.0181670168370224
GO:0008309double-stranded DNA specific exodeoxyribonuclease activity0.0181670168370224
GO:0030952establishment and/or maintenance of cytoskeleton polarity0.0181670168370224
GO:0007100mitotic centrosome separation0.0181670168370224
GO:0000281cytokinesis after mitosis0.0181670168370224
GO:0051305chromosome movement towards spindle pole0.0181670168370224
GO:0042802identical protein binding0.0193571393351404
GO:0046983protein dimerization activity0.019716800523881
GO:0008284positive regulation of cell proliferation0.0200515202508408
GO:0045859regulation of protein kinase activity0.0211774524868829
GO:0030695GTPase regulator activity0.0224380973414996
GO:0043549regulation of kinase activity0.0225707756025468
GO:0031324negative regulation of cellular metabolic process0.022764649862004
GO:0004518nuclease activity0.0236853406264091
GO:0051338regulation of transferase activity0.0237332677434247
GO:0016301kinase activity0.0237332677434247
GO:0051293establishment of spindle localization0.0237332677434247
GO:0030263apoptotic chromosome condensation0.0237332677434247
GO:0046640regulation of alpha-beta T cell proliferation0.0237332677434247
GO:0051323metaphase0.0237332677434247
GO:0019237centromeric DNA binding0.0237332677434247
GO:0000150recombinase activity0.0237332677434247
GO:0051438regulation of ubiquitin-protein ligase activity0.0237332677434247
GO:0032506cytokinetic process0.0237332677434247
GO:0005816spindle pole body0.0237332677434247
GO:0010369chromocenter0.0237332677434247
GO:0001939female pronucleus0.0237332677434247
GO:0040001establishment of mitotic spindle localization0.0237332677434247
GO:0022616DNA strand elongation0.0237332677434247
GO:0006271DNA strand elongation during DNA replication0.0237332677434247
GO:0000019regulation of mitotic recombination0.0237332677434247
GO:0043515kinetochore binding0.0237332677434247
GO:0043014alpha-tubulin binding0.0237332677434247
GO:0007080mitotic metaphase plate congression0.0237332677434247
GO:0051653spindle localization0.0237332677434247
GO:0000089mitotic metaphase0.0237332677434247
GO:0051233spindle midzone0.0237332677434247
GO:0051299centrosome separation0.0237332677434247
GO:0046641positive regulation of alpha-beta T cell proliferation0.0237332677434247
GO:0006288base-excision repair, DNA ligation0.0237332677434247
GO:0046635positive regulation of alpha-beta T cell activation0.0237332677434247
GO:0046907intracellular transport0.0244474705892318
GO:0016363nuclear matrix0.0250646754310557
GO:0007276gamete generation0.0268282127913895
GO:0003684damaged DNA binding0.0268683644124776
GO:0003678DNA helicase activity0.0268683644124776
GO:0004536deoxyribonuclease activity0.027831735925585
GO:0048523negative regulation of cellular process0.029234859954128
GO:0045502dynein binding0.0293068289189407
GO:0045739positive regulation of DNA repair0.0293068289189407
GO:0031398positive regulation of protein ubiquitination0.0293068289189407
GO:0045091regulation of retroviral genome replication0.0293068289189407
GO:00084095'-3' exonuclease activity0.0293068289189407
GO:0000085G2 phase of mitotic cell cycle0.0293068289189407
GO:0046633alpha-beta T cell proliferation0.0293068289189407
GO:0051055negative regulation of lipid biosynthetic process0.0293068289189407
GO:0031576G2/M transition checkpoint0.0293068289189407
GO:0031572G2/M transition DNA damage checkpoint0.0293068289189407
GO:0046634regulation of alpha-beta T cell activation0.0293068289189407
GO:0051319G2 phase0.0293068289189407
GO:0008274gamma-tubulin ring complex0.0293068289189407
GO:0000931gamma-tubulin large complex0.0293068289189407
GO:0005828kinetochore microtubule0.0293068289189407
GO:0004386helicase activity0.0294580693352675
GO:0004519endonuclease activity0.0301321271431009
GO:0009892negative regulation of metabolic process0.0321214784596249
GO:0048519negative regulation of biological process0.0345334435713028
GO:0019992diacylglycerol binding0.0349641280249896
GO:0003893epsilon DNA polymerase activity0.0349641280249896
GO:0015030Cajal body0.0349641280249896
GO:0031573intra-S DNA damage checkpoint0.0349641280249896
GO:0051103DNA ligation during DNA repair0.0349641280249896
GO:0031401positive regulation of protein modification process0.0349641280249896
GO:0045120pronucleus0.0349641280249896
GO:0008089anterograde axon cargo transport0.0349641280249896
GO:0045070positive regulation of viral genome replication0.0349641280249896
GO:0019899enzyme binding0.0387242282387635
GO:0042493response to drug0.0388527672600919
GO:0006464protein modification process0.0404236550676691
GO:0000702oxidized base lesion DNA N-glycosylase activity0.0404236550676691
GO:0008534oxidized purine base lesion DNA N-glycosylase activity0.0404236550676691
GO:0045833negative regulation of lipid metabolic process0.0404236550676691
GO:0005521lamin binding0.0404236550676691
GO:0045090retroviral genome replication0.0404236550676691
GO:0051340regulation of ligase activity0.0404236550676691
GO:0006269DNA replication, synthesis of RNA primer0.0404236550676691
GO:0003896DNA primase activity0.0404236550676691
GO:0032991macromolecular complex0.0405047996155778
GO:0019953sexual reproduction0.0413333742262983
GO:0015631tubulin binding0.041913351511577
GO:0048468cell development0.0424276413523074
GO:0043623cellular protein complex assembly0.0440211717910729
GO:0000731DNA synthesis during DNA repair0.0456346615066092
GO:0006301postreplication repair0.0456346615066092
GO:0005814centriole0.0456346615066092
GO:0006359regulation of transcription from RNA polymerase III promoter0.0456346615066092
GO:0048524positive regulation of viral reproduction0.0456346615066092
GO:0065009regulation of a molecular function0.0462681939185262



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>

Cell Type
Ontology termp-valuen
epithelial cell1.18e-13253
animal cell7.43e-12679
eukaryotic cell7.43e-12679
neural cell1.00e-0725
native cell1.05e-07722
neurectodermal cell9.93e-0759
Disease
Ontology termp-valuen
cancer3.38e-59235
disease of cellular proliferation1.76e-57239
organ system cancer8.61e-30137
cell type cancer1.42e-28143
hematologic cancer3.48e-2451
immune system cancer3.48e-2451
carcinoma1.66e-22106
leukemia1.75e-1939
myeloid leukemia7.75e-1531


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)
MA0003.10.76181
MA0004.10.802347
MA0006.12.40353
MA0007.11.09353
MA0009.10.273169
MA0014.12.6233
MA0017.10.0366173
MA0019.10.222373
MA0024.129.0847
MA0025.11.75367
MA0027.11.20541
MA0028.15.87759
MA0029.10.0136451
MA0030.10.0123122
MA0031.10.101722
MA0038.14.75252
MA0040.10.0143637
MA0041.10.000561934
MA0042.10.0147382
MA0043.10.813398
MA0046.10.0248981
MA0048.12.64543
MA0050.10.193281
MA0051.10.141729
MA0052.10.0148533
MA0055.10.0584166
MA0056.10
MA0057.10.0293794
MA0058.11.08514
MA0059.10.428505
MA0060.162.7407
MA0061.10.120351
MA0063.10
MA0066.10.748007
MA0067.10.84147
MA0068.10.00473136
MA0069.10.476567
MA0070.10.239466
MA0071.10.0978115
MA0072.10.0214926
MA0073.12.74833e-15
MA0074.10.140664
MA0076.17.38575
MA0077.10.224388
MA0078.10.0398266
MA0081.10.883782
MA0083.10.0284173
MA0084.10.245982
MA0087.10.0210899
MA0088.11.08199
MA0089.10
MA0090.10.233181
MA0091.10.228654
MA0092.10.327581
MA0093.11.26036
MA0095.10
MA0098.10
MA0100.12.71833
MA0101.10.922782
MA0103.10.156683
MA0105.10.254487
MA0106.10.9573
MA0107.10.276822
MA0108.20.0993683
MA0109.10
MA0111.10.516699
MA0113.10.139251
MA0114.10.188222
MA0115.12.26263
MA0116.10.293994
MA0117.11.33416
MA0119.10.0224808
MA0122.10.364896
MA0124.10.0847587
MA0125.10.449187
MA0130.10
MA0131.11.72165
MA0132.10
MA0133.10
MA0135.10.0332248
MA0136.10.574935
MA0139.10.154936
MA0140.10.0195128
MA0141.10.0560148
MA0142.10.00453508
MA0143.10.0071024
MA0144.10.0982785
MA0145.10.507574
MA0146.12.38789
MA0147.11.23208
MA0148.10.00321358
MA0149.10.0168138
MA0062.211.123
MA0035.20.00135832
MA0039.25.50886
MA0138.21.2717
MA0002.20.0101519
MA0137.21.27757
MA0104.21.41671
MA0047.20.0182277
MA0112.20.0269099
MA0065.20.034674
MA0150.10.00137709
MA0151.10
MA0152.10.0512967
MA0153.10.0505982
MA0154.10.00174198
MA0155.10.0793754
MA0156.11.303
MA0157.10.0194996
MA0158.10
MA0159.10.055076
MA0160.10.0351643
MA0161.10
MA0162.12.5265
MA0163.10.0181591
MA0164.10.850532
MA0080.20.267589
MA0018.24.95545
MA0099.20.00157361
MA0079.20.000546348
MA0102.20.745166
MA0258.10.0323653
MA0259.13.91017
MA0442.10



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#promotersEnrichmentp-valueq-value
ATF3#467253.209024932286962.99036018049575e-071.50947427206764e-05
BCL3#602132.56635620827770.001882485280057930.0110913280020292
BCLAF1#9774425.196635426429248.8765288503037e-192.0739503279572e-16
BRCA1#672697.958353796471082.08531332636188e-431.30411999096951e-40
CCNT2#9051033.729307213869442.08502963204116e-381.13415838406639e-35
CEBPB#1051582.641866070273371.29244564773917e-121.79496982718393e-10
CHD2#11061277.506805142473382.23159292065808e-883.06664911895538e-85
CTCF#10664601.837802185054296.84688254025659e-073.09693185630948e-05
CTCFL#140690303.385109890109894.97262058296064e-094.00412892107808e-07
E2F1#18691624.5428403017747.18484573172608e-951.087504497646e-91
E2F4#187417312.52328248310988.58749244045613e-1883.09265214823724e-184
E2F6#18761464.185741353301827.93067246808312e-739.10188463619927e-70
EGR1#19581093.106922979053174.98344976916624e-342.34444374072952e-31
ELF1#19971523.698462227078551.401575159797e-701.50906297024782e-67
ELK4#2005656.030396044573841.61182012092964e-337.44853458450311e-31
EP300#2033391.509621298986880.005048229201272890.0235140491281661
ETS1#21131126.22640699020955.55822721625236e-665.6358805071668e-63
FOS#2353995.090271860460262.66269186441772e-481.85392583751948e-45
FOSL2#2355212.03162407254740.001647233675423350.0103052256995052
FOXA1#3169472.976152732692096.5599742044369e-128.41667255451087e-10
GABPB1#25531074.321383831265671.48721583193014e-469.83059077664253e-44
GATA1#2623604.649248506445868.6134245134183e-252.70143376203271e-22
GATA3#2625182.801470253884058.86092084179814e-050.00129811433833154
GTF2B#2959519.309344723717351.59091594665046e-347.656851177522e-32
GTF2F1#2962815.896643034384972.33394101551043e-421.41717712627264e-39
HDAC2#3066423.21974885679031.01353963542501e-111.26618499981044e-09
HEY1#234621744.017024694287963.1669055009569e-1045.60590582397352e-101
HMGN3#9324924.299579374561454.96750252920554e-382.66051793152665e-35
HNF4A#3172222.908059359914187.84466453758008e-060.000222270461106979
HNF4G#3174162.628884345275140.000443419493531590.00412968507980611
IRF1#36591456.327935681524385.35057396385227e-978.59705529555027e-94
IRF3#36615915.83962960273083.15371845060316e-532.49523637320109e-50
IRF4#3662202.50451573562790.0001604252894680720.00199697935718189
JUN#3725292.073554551872880.000143499903156810.00186753724433572
JUNB#3726183.148522216438751.98785029278891e-050.000444749564542805
JUND#3727712.837835084987671.82185029473507e-173.83613352685153e-15
MAFF#23764113.539822407939410.0003280208017719820.0033425860587632
MAX#41491224.498352983422115.21955440039163e-584.74021775671741e-55
MXI1#46011156.546175641756111.00771093762089e-701.09629502723113e-67
MYC#46091013.0140026801861.8584620883681e-297.29683917470211e-27
NANOG#79923294.846277576853532.37708926970677e-123.22416657453124e-10
NFKB1#47901193.731883128451813.61329131684236e-472.43463568928838e-44
NFYA#480011211.79237164789159.53009508608791e-961.46369647161167e-92
NFYB#480111310.82203792942641.00395280161665e-921.45627537011169e-89
NR2C2#7182224.100122513801712.65575752648744e-081.8295821920107e-06
NR3C1#2908282.395683732987691.56205385861904e-050.000365865312716559
NRF1#4899805.581842033239275.01013411436673e-402.89090274458755e-37
PAX5#5079833.163279651930063.41061327980397e-241.04765011861602e-21
PBX3#5090263.255870456316271.275059606794e-077.29276836111493e-06
POLR2A#54301752.147453176558077.45180401329323e-597.1399904527003e-56
POLR3A#1112859.68948885976410.0001871579793741150.00226364704202121
POU2F2#5452894.631114520794775.24579633641302e-392.92976322769326e-36
RDBP#793676.1455361596010.0001666740821821850.00204310733204522
REST#5978613.363724295336053.52846814894721e-187.87413856854483e-16
RFX5#5993986.746830063229251.02937066149038e-589.68526509147688e-56
RXRA#6256313.556075036075048.26773034892817e-107.7720386130667e-08
SETDB1#9869419.446406133133888.16302694049053e-282.96020267582601e-25
SIN3A#259421735.347068901365821.05891772484641e-1232.30400642219239e-120
SIX5#147912504.881918672988292.65798444302232e-217.15456797022701e-19
SMARCB1#6598343.54624192319631.16953039463378e-101.25922252458925e-08
SMARCC1#6599122.994058924774730.0007762842958067650.00608529276962867
SP1#66671484.819202536942022.50216627875889e-833.18687492667439e-80
SP2#6668649.564719723463181.06359170007262e-446.81475175238556e-42
SPI1#6688542.531619825487015.43673498928498e-116.09235156165165e-09
SREBF1#6720256.715121348641198.55049267509536e-141.35099077835746e-11
SRF#6722594.651620099816582.36652336745363e-247.31234715897897e-22
STAT1#6772323.786347428059288.87395170813282e-119.68429093464664e-09
STAT2#6773197.08578087167074.01443221402395e-114.58211241530543e-09
STAT3#6774392.344337913651523.99638107446564e-071.93320075514644e-05
TAF1#68721753.343046285745291.55290626467304e-922.22169832022175e-89
TAF7#68791056.859841642954359.11257895869824e-659.0638917511189e-62
TAL1#6886213.584234001292825.08385600166115e-072.37775565139941e-05
TBP#69081753.706770687096392.13192217071704e-1003.71093032645861e-97
TCF12#6938382.309198093046198.47043702266688e-073.68141478239828e-05
TCF7L2#6934563.446456500203954.94469186355296e-171.01258563438747e-14
TFAP2A#7020383.586903463861195.35713562656047e-126.96754530139912e-10
TFAP2C#7022583.582487196410821.82590427657175e-184.13656435446589e-16
THAP1#55145305.377567646203086.86188160132018e-141.09411916421417e-11
TRIM28#10155414.355494439175791.07666014070838e-152.02239763373097e-13
USF1#7391883.198925350824572.18067284018526e-267.3943925570165e-24
USF2#7392372.746921732843291.62547353457485e-081.1821924127957e-06
WRNIP1#5689785.020341227400050.0002260104084406650.00249490551179946
YY1#75281464.097319597020931.5434855608852e-711.71489455843924e-68
ZBTB33#10009447.961416578966696.83557709403704e-272.35610837004665e-24
ZBTB7A#51341692.898752812819642.20434489150265e-174.60439152247289e-15
ZEB1#6935383.667202380952382.77963020458267e-123.71705248318066e-10
ZNF143#7702644.937463424814784.65397501926886e-281.69357664472969e-25
ZNF263#10127592.771935180477899.55797559135582e-141.50109084629415e-11
ZZZ3#2600945.472301998519620.006496226299370890.0278239574507872



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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