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MCL coexpression mm9:1910: Difference between revisions

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{{MCL_coexpression_mm9
{{MCL_coexpression_mm9|coexpression_dpi_cluster_scores_mean=0.016128428196644,0,0,0,0,0,0,0.53574105475119,0.634351835757294,0.649387034353224,0.77359885582366,0.68044497591117,0.466315624800265,0.488765702930881,0.167173657684445,0.0600571143998381,0,0.283098093889915,0.363585879006785,0.515698188246859,0.0347780324396157,0.305448697700915,0.293756323396303,0.093958077318609,0.138858404994135,0,0,0,0.0188888770793492,0,0.0217438549458489,0.324339557792145,0.0520474871352197,0,0,0,0,0.481630557948987,0.27923781576174,0.404755663963531,0.563932436047846,0.506862190653442,0.324844111901441,0.0372578327549304,0.0305281840020975,0.0522459094430348,0,0,0.0215620259804927,0.0192901665376759,0.0142249196217722,0,0.471839020361154,0.617017888009025,0.555601621299012,0,0,0,0,0,0,0,0,0,0.074651400664271,0,0,0.0353011470460758,0,0,0,0,0.021667225770632,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0158508717912236,0,0.0276360215863565,0,0,0,0,0,0.0667110420875736,0.061923412851049,0.0250741948283745,0.136505762579002,0,0,0,0,0,0,0,0.045810537630101,0.391870508611402,0.0300545597055,0,0,0,0.015242664488445,0.012070501181545,0.0128524442124787,0,0.0146633743922599,0,0,0.0949094642575253,0.0429224923441682,0,0,0,0,0.194028770346249,0,0.171315102069603,0,0,0,0,0,0,0.0163240725348775,0.0210591418683525,0.128513944671234,0,0.0381396339431775,0,0,0,0,0,0.0130882203025239,0,0,0.0211948140424062,0,0,0,0,0,0,0,0.180826204817493,0.146786688254434,0.149372547192205,0,0,0,0,0,0,0,0,0,0,0.0165038643856512,0.00846333437061438,0,0,0.0273460503695069,0,0,0.0309970919167852,0,0,0,0,0.0199475267322556,0,0,0,0,0,0.0363700315716745,0.0193387133502521,0.0696209155451742,0,0,0.0188564359547338,0.0117455157566797,0,0,0,0.00735972528241155,0,0,0,0,0,0.0502599066886017,0.0554805041261268,0.0220218002973959,0.0770822881559332,0.046916887530847,0.110874224512037,0.054906696497384,0.0163141664424169,0.02634019156492,0,0.0343496812046805,0,0,0,0,0.0784826639015289,0,0.0163916589557577,0,0,0.0504444126878215,0,0.0193541184301787,0.0297537523921955,0.043440458408578,0.0321269055488328,0.0945053225286664,0.0345906816709774,0.0275883371097478,0,0.094310383023109,0.0434250504531922,0.0264572862664025,0,0.0120338674974764,0,0.0244419134150096,0,0,0,0,0,0.027063140303404,0,0,0,0,0.0144108295356794,0,0,0.0165786968781602,0,0,0,0,0,0,0,0,0.03310473969135,0,0,0,0,0.0179761230370899,0.0132079738886918,0,0,0,0,0,0,0,0,0,0,0.00635851384298378,0,0,0,0.0184685481726609,0.280274395848685,0.0782614536818343,0.186792455455776,0.128348496415168,0.16589022825696,0.239884669590333,0.182390372608575,0.265053824782156,0.195527597604782,0,0,0,0,0,0,0.027471976078474,0.0086223666146335,0,0,0,0,0,0,0.0192921017140294,0,0.0316069076247315,0.0120480117140773,0.025127854063013,0.0216534965544966,0,0,0.605528638576255,0.128620461501931,0.1726026477444,0.158483480201276,0.381118356935038,0.523454463578243,0.471205740799076,0.538781144397547,0.61381923623217,0.452889208587871,0.495451678060786,0.415682456039747,0.710928618020104,0.763914883653436,0.0221872804994349,0,0,0,0,0.0186750870991491,0.0182601010688612,0.0210876125277009,0.0441365478588292,0,0,0,0,0,0,0,0,0,0,0,0.0364563589812103,0.0171145212248115,0,0,0,0.0217897208111099,0,0,0.0244615276944339,0,0,0.0194374924235553,0.0265580639695877,0.0121269368029194,0,0,0.019151848857285,0,0,0.0320084324799553,0.0177379980883561,0,0,0,0.017637724668944,0.0182395754350438,0.0253568302075752,0,0,0,0,0,0,0,0,0,0,0,0.0432851562487011,0.0679230868739156|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.503060739080641,0.599534629246446,0.68365241605452,0.722442446448911,0.647271851422386,0.432423791187546,0.478479884988069,0.150442163711255,0.0800761525331175,0,0.275999829904427,0.335334952660016,0.49442570108986,0.0354470656487682,0.27185172917369,0.251297309647832,0.0602844726045145,0.164001280677683,0,0,0,0,0,0,0.338342898986103,0,0,0,0,0,0.473811433013977,0.2507456850819,0.360578780281239,0.590731788242362,0.472997122529885,0.353429852705638,0.0257492958628459,0.0209679878844212,0.0365927089968535,0,0,0,0,0,0,0.472910694544754,0.591225886078848,0.546134170286936,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0158508717912236,0,0,0,0,0,0,0,0.0570741246689917,0.034172782309542,0,0.116075941310988,0,0,0,0,0,0,0,0.0469568706916304,0.415613254532835,0.0300545597055,0,0,0,0,0,0,0,0,0,0,0.0794348942529555,0,0,0,0,0,0.205503975357192,0,0.178482233814886,0,0,0,0,0,0,0,0.0210591418683525,0.135950827703477,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.115506975370087,0.139890444252295,0.133877994534688,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0273460503695069,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0670132089181356,0.0389670579605192,0,0.0802151268900158,0.046916887530847,0.098514232005992,0.054906696497384,0,0,0,0,0,0,0,0,0.0368139433955263,0,0,0,0,0.0672592169170953,0,0,0,0.043440458408578,0.0321269055488328,0.0945053225286664,0.0345906816709774,0,0,0.094310383023109,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,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|ontology_enrichment_celltype=CL:0000988!3.13e-16!32;CL:0002032!3.13e-16!32;CL:0000037!3.13e-16!32;CL:0000566!3.13e-16!32;CL:0000837!3.13e-16!32;CL:0000838!1.11e-14!12;CL:0002031!5.12e-14!25;CL:0000084!1.26e-13!11;CL:0000827!1.26e-13!11;CL:0000542!3.15e-13!13;CL:0000051!3.15e-13!13;CL:0000791!7.03e-12!9;CL:0000789!7.03e-12!9;CL:0002420!7.03e-12!9;CL:0002419!7.03e-12!9;CL:0000790!7.03e-12!9;CL:0002242!7.70e-12!16;CL:0000624!9.66e-11!8;CL:0002320!1.07e-10!46;CL:0000134!1.07e-10!46;CL:0000738!1.20e-10!17;CL:0002087!1.20e-10!17;CL:0000219!1.33e-08!54;CL:0000893!1.80e-08!6;CL:0002489!1.80e-08!6;CL:0000898!1.80e-08!6;CL:0000809!1.80e-08!6;CL:0000810!1.80e-08!6;CL:0000895!1.80e-08!6;CL:0000808!1.80e-08!6;CL:0000894!1.80e-08!6;CL:0000806!1.80e-08!6;CL:0000807!1.80e-08!6;CL:0000805!1.80e-08!6;CL:0002425!1.80e-08!6;CL:0002436!1.80e-08!6;CL:0002427!1.80e-08!6;CL:0002428!1.80e-08!6;CL:0002429!1.80e-08!6;CL:0002433!1.80e-08!6;CL:0002431!1.80e-08!6;CL:0002432!1.80e-08!6
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0002193!1.96e-27!48;UBERON:0002405!1.96e-27!48;UBERON:0002390!7.08e-25!45;UBERON:0003061!7.08e-25!45;UBERON:0004177!5.78e-24!29;UBERON:0005057!5.78e-24!29;UBERON:0002370!6.00e-19!23;UBERON:0000974!6.00e-19!23;UBERON:0004807!6.00e-19!23;UBERON:0005058!6.00e-19!23;UBERON:0003351!6.00e-19!23;UBERON:0009113!6.00e-19!23;UBERON:0003295!6.00e-19!23;UBERON:0009722!6.00e-19!23;UBERON:0005562!6.00e-19!23;UBERON:0007690!6.00e-19!23;UBERON:0000077!3.10e-18!35;UBERON:0006562!7.52e-18!24;UBERON:0003408!7.52e-18!24;UBERON:0001557!7.52e-18!24;UBERON:0001042!7.52e-18!24;UBERON:0008814!7.52e-18!24;UBERON:0009145!7.52e-18!24;UBERON:0000072!4.66e-15!27;UBERON:0000065!3.10e-13!41;UBERON:0001004!1.02e-12!42;UBERON:0003081!5.80e-12!87;UBERON:0001041!6.43e-11!80;UBERON:0002384!1.07e-10!46;UBERON:0000063!4.86e-10!35;UBERON:0007811!1.41e-09!36;UBERON:0000490!1.57e-09!66;UBERON:0005911!2.46e-08!69;UBERON:0000926!2.88e-08!120;UBERON:0004120!2.88e-08!120;UBERON:0006603!2.88e-08!120;UBERON:0003929!6.14e-08!55;UBERON:0002368!2.95e-07!60;UBERON:0000153!5.34e-07!43
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.128156,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.949265,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,0.570433,1.08884,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.790816,0.711848,1.12823,0.471365,0.318879,0.503207,0.623685,0.460474,0.786577,0.434783,0.40068,0.478558,0.717547,0.544696,0.504971,0.0986756,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.282443,1.2746,1.29252,0.82458,0.549352,0.776619,0.331485,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.98374,0.205546,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.951203,1.20828,0.11855,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,1.09896,0.409166,0.367176,1.14445,0.938512,0.264911,2.02968,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,0.57247,0.633483,1.25851,0.576517,0.7614,1.51002,0.476467,0.143825,0.692434,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,0.485304,0.79777,0.184289,1.27621,1.069,0.838313,1.35996,0.87653,0.516549,0.63863,0.650472,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,0.0824127
}}

Latest revision as of 17:41, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:76992902..76992949,-p@chr10:76992902..76992949
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Mm9::chr11:87562310..87562339,-p@chr11:87562310..87562339
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Mm9::chr11:87562346..87562362,-p@chr11:87562346..87562362
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Mm9::chr11:87565186..87565207,-p@chr11:87565186..87565207
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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

no results for this coexpression

Relative expression of the co-expression cluster over median <br>Analyst:




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>

Cell Type
Ontology termp-valuen
hematopoietic cell3.13e-1632
hematopoietic oligopotent progenitor cell3.13e-1632
hematopoietic stem cell3.13e-1632
angioblastic mesenchymal cell3.13e-1632
hematopoietic multipotent progenitor cell3.13e-1632
lymphoid lineage restricted progenitor cell1.11e-1412
hematopoietic lineage restricted progenitor cell5.12e-1425
T cell1.26e-1311
pro-T cell1.26e-1311
lymphocyte3.15e-1313
common lymphoid progenitor3.15e-1313
mature alpha-beta T cell7.03e-129
alpha-beta T cell7.03e-129
immature T cell7.03e-129
mature T cell7.03e-129
immature alpha-beta T cell7.03e-129
nucleate cell7.70e-1216
CD4-positive, alpha-beta T cell9.66e-118
connective tissue cell1.07e-1046
mesenchymal cell1.07e-1046
leukocyte1.20e-1017
nongranular leukocyte1.20e-1017
motile cell1.33e-0854
thymocyte1.80e-086
double negative thymocyte1.80e-086
naive T cell1.80e-086
double-positive, alpha-beta thymocyte1.80e-086
CD4-positive, alpha-beta thymocyte1.80e-086
naive thymus-derived CD4-positive, alpha-beta T cell1.80e-086
DN4 thymocyte1.80e-086
DN1 thymic pro-T cell1.80e-086
DN2 thymocyte1.80e-086
DN3 thymocyte1.80e-086
immature single positive thymocyte1.80e-086
early T lineage precursor1.80e-086
mature CD4 single-positive thymocyte1.80e-086
resting double-positive thymocyte1.80e-086
double-positive blast1.80e-086
CD69-positive double-positive thymocyte1.80e-086
CD69-positive, CD4-positive single-positive thymocyte1.80e-086
CD4-positive, CD8-intermediate double-positive thymocyte1.80e-086
CD24-positive, CD4 single-positive thymocyte1.80e-086

Uber Anatomy
Ontology termp-valuen
hemolymphoid system1.96e-2748
immune system1.96e-2748
hematopoietic system7.08e-2545
blood island7.08e-2545
hemopoietic organ5.78e-2429
immune organ5.78e-2429
thymus6.00e-1923
neck6.00e-1923
respiratory system epithelium6.00e-1923
hemolymphoid system gland6.00e-1923
pharyngeal epithelium6.00e-1923
thymic region6.00e-1923
pharyngeal gland6.00e-1923
entire pharyngeal arch endoderm6.00e-1923
thymus primordium6.00e-1923
early pharyngeal endoderm6.00e-1923
mixed endoderm/mesoderm-derived structure3.10e-1835
pharynx7.52e-1824
gland of gut7.52e-1824
upper respiratory tract7.52e-1824
chordate pharynx7.52e-1824
pharyngeal arch system7.52e-1824
pharyngeal region of foregut7.52e-1824
segment of respiratory tract4.66e-1527
respiratory tract3.10e-1341
respiratory system1.02e-1242
lateral plate mesoderm5.80e-1287
foregut6.43e-1180
connective tissue1.07e-1046
organ segment4.86e-1035
craniocervical region1.41e-0936
unilaminar epithelium1.57e-0966
endo-epithelium2.46e-0869
mesoderm2.88e-08120
mesoderm-derived structure2.88e-08120
presumptive mesoderm2.88e-08120
gut epithelium6.14e-0855
endocrine gland2.95e-0760
anterior region of body5.34e-0743


TFBS overrepresentation<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)
MA0003.10.0356887
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.0809287
MA0017.10.528196
MA0019.10.964875
MA0024.11.11019
MA0025.11.39562
MA0027.12.81824
MA0028.10.509589
MA0029.11.08753
MA0030.11.09438
MA0031.11.05719
MA0038.10.846479
MA0040.11.16866
MA0041.10.604221
MA0042.10.589368
MA0043.11.25564
MA0046.11.1929
MA0048.10.735223
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.10.403071
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.713436
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.00221226
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.201215
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.11.29026
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.12.08153
MA0107.11.3208
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.10.43587
MA0115.11.25852
MA0116.10.497293
MA0117.11.22527
MA0119.10.606338
MA0122.11.24573
MA0124.11.45461
MA0125.11.37907
MA0130.10
MA0131.10.960068
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.11.91256
MA0139.10.957842
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.11.14526
MA0146.10.313734
MA0147.10.453952
MA0148.10.706718
MA0149.10.611881
MA0062.20.856416
MA0035.20.788288
MA0039.21.07321
MA0138.20.951653
MA0002.20.965577
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.608441
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.728853
MA0155.10.230016
MA0156.12.32242
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.10667
MA0163.10.0996272
MA0164.10.817786
MA0080.22.27475
MA0018.20.828253
MA0099.20.944966
MA0079.20.0234849
MA0102.21.8929
MA0258.11.07695
MA0259.10.441366
MA0442.10
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