Personal tools

MCL coexpression mm9:132: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
No edit summary
No edit summary
Line 7: Line 7:
|ontology_enrichment_uberon=UBERON:0005153!2.98e-10!17;UBERON:0005409!6.25e-10!47;UBERON:0002048!2.94e-08!14;UBERON:0000117!2.94e-08!14;UBERON:0000171!2.94e-08!14;UBERON:0000170!2.94e-08!14;UBERON:0005597!2.94e-08!14;UBERON:0000118!2.94e-08!14;UBERON:0005157!7.32e-08!20
|ontology_enrichment_uberon=UBERON:0005153!2.98e-10!17;UBERON:0005409!6.25e-10!47;UBERON:0002048!2.94e-08!14;UBERON:0000117!2.94e-08!14;UBERON:0000171!2.94e-08!14;UBERON:0000170!2.94e-08!14;UBERON:0005597!2.94e-08!14;UBERON:0000118!2.94e-08!14;UBERON:0005157!7.32e-08!20
|tfbs_overrepresentation_for_novel_motifs=0.907724,0.80095,1.30351,0.24589,0.418088,0.447987,0.285011,0.464714,0.846673,0.18826,0.0992644,0.264121,0.46618,0.307092,0.667381,0,0.0512742,5.53152,0.79789,0.499692,0.414641,0.204417,0.0114597,0.284637,0.808559,0.359481,2.55756,0.0791119,0.313317,0.384571,0.0221788,0.294748,0.888765,0.556134,0.00479204,6.06423,0.000389554,0.257999,0.505913,4.79981,0.276578,0.483998,0.855444,0.884042,0.405273,0.0496087,0.124723,0.197448,1.35938,0.470471,0.175229,0.0853857,1.81234,0.155414,0.165072,0.320327,0.697306,0.42439,1.37027,0.15781,0.272579,0.227844,0.460154,0.16543,0.0653774,0.445453,0.249031,0.516281,1.43029,0.396343,0.0507356,0.647813,0.00443807,0.184363,0.0255954,0.499212,0.112901,0.116471,0.54135,1.07048,0.509367,0.0567168,0.225969,0.426218,0.12214,0.000377934,1.1143e-05,0.101556,0.0314746,0.657153,0.297125,0.124576,1.0674,0.202773,0.0540312,1.06711,0.162677,0.312542,0.124912,1.14586,0.229354,0.0873291,0.146031,0.175754,0.698568,0.0233977,0.499771,0.0879206,0.0451583,0.0898578,0.0316793,0.146979,0.286775,0.103616,0.302159,2.30416,0.100928,0.417073,0.748997,0.323734,0.187557,0.03747,0.903918,0.825106,0.341791,0.074275,0.777155,0.0899355,0.24802,0.81658,0.137152,0.0157224,0.228642,1.21608,0.851788,1.8948,0.954013,0.302559,0.28264,0.998156,0.628901,0.702505,1.31776,0.30663,0.16916,0.485377,0.552931,0.960471,0.32283,0.0293466,0.158913,0.000100969,0.921588,1.61094,0.0661911,0.203808,0.216991,0.164387,0.654293,0.0936815,0.28932,0.773036,0.549271,0.624779,0.0432546,0.165849,0.626445,0.126311,0.429702
|tfbs_overrepresentation_for_novel_motifs=0.907724,0.80095,1.30351,0.24589,0.418088,0.447987,0.285011,0.464714,0.846673,0.18826,0.0992644,0.264121,0.46618,0.307092,0.667381,0,0.0512742,5.53152,0.79789,0.499692,0.414641,0.204417,0.0114597,0.284637,0.808559,0.359481,2.55756,0.0791119,0.313317,0.384571,0.0221788,0.294748,0.888765,0.556134,0.00479204,6.06423,0.000389554,0.257999,0.505913,4.79981,0.276578,0.483998,0.855444,0.884042,0.405273,0.0496087,0.124723,0.197448,1.35938,0.470471,0.175229,0.0853857,1.81234,0.155414,0.165072,0.320327,0.697306,0.42439,1.37027,0.15781,0.272579,0.227844,0.460154,0.16543,0.0653774,0.445453,0.249031,0.516281,1.43029,0.396343,0.0507356,0.647813,0.00443807,0.184363,0.0255954,0.499212,0.112901,0.116471,0.54135,1.07048,0.509367,0.0567168,0.225969,0.426218,0.12214,0.000377934,1.1143e-05,0.101556,0.0314746,0.657153,0.297125,0.124576,1.0674,0.202773,0.0540312,1.06711,0.162677,0.312542,0.124912,1.14586,0.229354,0.0873291,0.146031,0.175754,0.698568,0.0233977,0.499771,0.0879206,0.0451583,0.0898578,0.0316793,0.146979,0.286775,0.103616,0.302159,2.30416,0.100928,0.417073,0.748997,0.323734,0.187557,0.03747,0.903918,0.825106,0.341791,0.074275,0.777155,0.0899355,0.24802,0.81658,0.137152,0.0157224,0.228642,1.21608,0.851788,1.8948,0.954013,0.302559,0.28264,0.998156,0.628901,0.702505,1.31776,0.30663,0.16916,0.485377,0.552931,0.960471,0.32283,0.0293466,0.158913,0.000100969,0.921588,1.61094,0.0661911,0.203808,0.216991,0.164387,0.654293,0.0936815,0.28932,0.773036,0.549271,0.624779,0.0432546,0.165849,0.626445,0.126311,0.429702
|tfbs_overrepresentation_jaspar=MA0003.1;0.00320159,MA0004.1;0.0561767,MA0006.1;0.0140344,MA0007.1;0.366649,MA0009.1;0.0986505,MA0014.1;0.00027052,MA0017.1;0.106236,MA0019.1;0.606001,MA0024.1;0.275521,MA0025.1;0.225742,MA0027.1;1.48273,MA0028.1;0.0170491,MA0029.1;0.91628,MA0030.1;0.259172,MA0031.1;0.222614,MA0038.1;0.182882,MA0040.1;1.14623,MA0041.1;0.000804133,MA0042.1;0.000623052,MA0043.1;0.446539,MA0046.1;0.368449,MA0048.1;0.0358599,MA0050.1;0.76721,MA0051.1;1.29282,MA0052.1;0.107859,MA0055.1;3.17118,MA0056.1;0,MA0057.1;1.3377,MA0058.1;0.0166181,MA0059.1;0.0199981,MA0060.1;0.00203513,MA0061.1;0.876373,MA0063.1;0,MA0066.1;0.170319,MA0067.1;0.301247,MA0068.1;0.486851,MA0069.1;0.350086,MA0070.1;0.690825,MA0071.1;1.05189,MA0072.1;0.328374,MA0073.1;1.09608,MA0074.1;0.272587,MA0076.1;0.00248208,MA0077.1;0.0905548,MA0078.1;0.446203,MA0081.1;0.403327,MA0083.1;18.1302,MA0084.1;0.562229,MA0087.1;0.389566,MA0088.1;0.0575967,MA0089.1;0,MA0090.1;2.31083,MA0091.1;0.0202813,MA0092.1;2.31404,MA0093.1;0.0063629,MA0095.1;0,MA0098.1;0,MA0100.1;0.0431649,MA0101.1;0.125373,MA0103.1;0.656447,MA0105.1;1.81964,MA0106.1;1.50006,MA0107.1;0.112719,MA0108.2;2.49733,MA0109.1;0,MA0111.1;0.766485,MA0113.1;0.0821664,MA0114.1;0.0591638,MA0115.1;0.146985,MA0116.1;0.838206,MA0117.1;0.407968,MA0119.1;0.126155,MA0122.1;0.140445,MA0124.1;0.264049,MA0125.1;0.215442,MA0130.1;0,MA0131.1;0.140425,MA0132.1;0,MA0133.1;0,MA0135.1;0.165378,MA0136.1;0.522724,MA0139.1;0.327365,MA0140.1;0.121451,MA0141.1;0.391905,MA0142.1;0.0571087,MA0143.1;0.437405,MA0144.1;0.013423,MA0145.1;0.800232,MA0146.1;0.0658725,MA0147.1;0.0174898,MA0148.1;0.941197,MA0149.1;0.000913137,MA0062.2;0.000611761,MA0035.2;0.451553,MA0039.2;0.00746749,MA0138.2;0.907754,MA0002.2;0.341642,MA0137.2;0.034838,MA0104.2;0.00130978,MA0047.2;1.64566,MA0112.2;0.114348,MA0065.2;0.455246,MA0150.1;0.218621,MA0151.1;0,MA0152.1;0.182115,MA0153.1;0.174838,MA0154.1;0.803154,MA0155.1;1.37705,MA0156.1;0.0691745,MA0157.1;0.178771,MA0158.1;0,MA0159.1;0.355971,MA0160.1;0.285249,MA0161.1;0,MA0162.1;0.000551924,MA0163.1;0.350508,MA0164.1;0.0568575,MA0080.2;0.310035,MA0018.2;0.163734,MA0099.2;0.560563,MA0079.2;1.50605,MA0102.2;0.607761,MA0258.1;0.583553,MA0259.1;0.0322471,MA0442.1;0
}}
}}

Revision as of 11:13, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:127929959..127929970,-p5@Myl6
Mm9::chr11:3429559..3429595,-p@chr11:3429559..3429595
-
Mm9::chr11:3429910..3429928,-p@chr11:3429910..3429928
-
Mm9::chr11:3430231..3430242,+p1@ENSMUST00000128806
Mm9::chr11:3430911..3430930,+p2@ENSMUST00000123459
Mm9::chr11:3430935..3430962,+p1@ENSMUST00000123459
Mm9::chr11:62389120..62389144,+p8@Trpv2
Mm9::chr12:109609195..109609235,+p6@Eml1
Mm9::chr12:53891970..53892007,+p@chr12:53891970..53892007
+
Mm9::chr13:47161761..47161770,+p8@Kdm1b
Mm9::chr15:83349375..83349379,-p@chr15:83349375..83349379
-
Mm9::chr16:14205593..14205622,+p@chr16:14205593..14205622
+
Mm9::chr16:14207739..14207746,+p@chr16:14207739..14207746
+
Mm9::chr16:14207779..14207821,+p@chr16:14207779..14207821
+
Mm9::chr16:14209676..14209712,+p@chr16:14209676..14209712
+
Mm9::chr16:14215838..14215863,+p@chr16:14215838..14215863
+
Mm9::chr16:14215953..14215973,+p@chr16:14215953..14215973
+
Mm9::chr16:14218999..14219020,+p@chr16:14218999..14219020
+
Mm9::chr16:14291448..14291464,-p1@Myh11
Mm9::chr16:24448168..24448239,+p3@Lpp
Mm9::chr16:24608381..24608412,-p@chr16:24608381..24608412
-
Mm9::chr16:31455191..31455203,+p@chr16:31455191..31455203
+
Mm9::chr16:31455206..31455220,+p@chr16:31455206..31455220
+
Mm9::chr16:31455226..31455246,+p@chr16:31455226..31455246
+
Mm9::chr16:34921604..34921680,+p2@Mylk
Mm9::chr16:34921700..34921722,+p6@Mylk
Mm9::chr16:34921924..34921933,+p9@Mylk
Mm9::chr16:34922180..34922189,+p@chr16:34922180..34922189
+
Mm9::chr16:34994933..34994955,+p3@Mylk
Mm9::chr16:34994964..34995030,+p1@Mylk
Mm9::chr16:34995031..34995045,+p4@Mylk
Mm9::chr16:34995089..34995104,+p7@Mylk
Mm9::chr16:35000600..35000626,+p@chr16:35000600..35000626
+
Mm9::chr16:35000658..35000665,+p@chr16:35000658..35000665
+
Mm9::chr16:35000672..35000681,-p@chr16:35000672..35000681
-
Mm9::chr16:35000722..35000742,+p@chr16:35000722..35000742
+
Mm9::chr16:35001003..35001026,+p@chr16:35001003..35001026
+
Mm9::chr16:35001539..35001551,+p@chr16:35001539..35001551
+
Mm9::chr17:36004948..36004959,+p@chr17:36004948..36004959
+
Mm9::chr18:32090959..32091002,+p2@Lims2
Mm9::chr18:61825055..61825070,-p2@ENSMUST00000154522
p2@uc008fcj.1
Mm9::chr19:34322534..34322538,-p@chr19:34322534..34322538
-
Mm9::chr19:34328691..34328750,-p@chr19:34328691..34328750
-
Mm9::chr1:135795729..135795750,-p@chr1:135795729..135795750
-
Mm9::chr1:135795765..135795791,-p@chr1:135795765..135795791
-
Mm9::chr1:135795792..135795827,-p@chr1:135795792..135795827
-
Mm9::chr1:136700000..136700011,-p1@uc007cso.2
Mm9::chr1:136700292..136700303,-p4@Ppp1r12b
Mm9::chr1:136700319..136700330,-p5@Ppp1r12b
Mm9::chr1:136700357..136700440,-p1@Ppp1r12b
Mm9::chr1:137221347..137221397,+p1@Lmod1
Mm9::chr1:137221399..137221433,+p2@Lmod1
Mm9::chr1:137625790..137625811,+p1@Csrp1
Mm9::chr1:172040446..172040463,-p6@Ddr2
Mm9::chr1:74073497..74073529,-p@chr1:74073497..74073529
-
Mm9::chr1:74073534..74073545,-p@chr1:74073534..74073545
-
Mm9::chr2:156601179..156601205,+p1@Myl9
Mm9::chr3:102538419..102538453,+p3@Tspan2
Mm9::chr4:122555640..122555671,-p@chr4:122555640..122555671
-
Mm9::chr4:21858830..21858875,+p4@6230409E13Rik
Mm9::chr5:93368946..93368957,+p@chr5:93368946..93368957
+
Mm9::chr6:34696016..34696046,-p@chr6:34696016..34696046
-
Mm9::chr6:34696138..34696159,-p@chr6:34696138..34696159
-
Mm9::chr6:34696219..34696246,-p@chr6:34696219..34696246
-
Mm9::chr6:34696460..34696574,-p@chr6:34696460..34696574
-
Mm9::chr6:83470749..83470762,-p@chr6:83470749..83470762
-
Mm9::chr6:83473160..83473180,+p@chr6:83473160..83473180
+
Mm9::chr6:83473185..83473234,+p@chr6:83473185..83473234
+
Mm9::chr6:83473213..83473234,-p@chr6:83473213..83473234
-
Mm9::chr6:83476873..83476892,-p3@Actg2
Mm9::chr6:83476909..83476927,-p6@Actg2
Mm9::chr6:83477339..83477352,-p5@Actg2
Mm9::chr6:83477360..83477367,-p11@Actg2
Mm9::chr6:83486209..83486224,-p1@Actg2
Mm9::chr6:83486393..83486428,-p7@Actg2
Mm9::chr7:19680063..19680088,+p@chr7:19680063..19680088
+
Mm9::chr8:46849311..46849324,+p30@Sorbs2
Mm9::chr9:21903715..21903731,+p1@Cnn1
Mm9::chr9:21904695..21904709,+p@chr9:21904695..21904709
+
Mm9::chr9:21904713..21904728,+p@chr9:21904713..21904728
+
Mm9::chr9:21905519..21905577,+p@chr9:21905519..21905577
+
Mm9::chr9:21905634..21905650,+p@chr9:21905634..21905650
+
Mm9::chr9:21905651..21905666,+p@chr9:21905651..21905666
+
Mm9::chr9:21912544..21912557,+p@chr9:21912544..21912557
+
Mm9::chr9:45738439..45738450,+p@chr9:45738439..45738450
+
Mm9::chr9:45743970..45743986,-p1@Tagln
Mm9::chr9:66895960..66895975,-p@chr9:66895960..66895975
-
Mm9::chrX:71495158..71495179,-p2@Flna


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

GO IDGO nameFDR corrected p-value
GO:0005856cytoskeleton2.67976139878378e-06
GO:0007010cytoskeleton organization and biogenesis5.24674647182257e-05
GO:0043232intracellular non-membrane-bound organelle9.91431239091097e-05
GO:0043228non-membrane-bound organelle9.91431239091097e-05
GO:0015629actin cytoskeleton9.93156895294497e-05
GO:0044430cytoskeletal part0.000786135012020431
GO:0008092cytoskeletal protein binding0.000808385380622275
GO:0030029actin filament-based process0.000808385380622275
GO:0007517muscle development0.000808385380622275
GO:0008307structural constituent of muscle0.000808385380622275
GO:0016459myosin complex0.000808385380622275
GO:0003779actin binding0.00287244351512375
GO:0006996organelle organization and biogenesis0.00287244351512375
GO:0005516calmodulin binding0.00415217178145964
GO:0030036actin cytoskeleton organization and biogenesis0.0112563239343898
GO:0030485smooth muscle contractile fiber0.0173293431216786
GO:0005912adherens junction0.0277117578107089
GO:0002066columnar/cuboidal epithelial cell development0.0277117578107089
GO:0030049muscle filament sliding0.0277117578107089
GO:0002065columnar/cuboidal epithelial cell differentiation0.0277117578107089
GO:0044446intracellular organelle part0.0301361199638258
GO:0044422organelle part0.0301361199638258
GO:0016043cellular component organization and biogenesis0.030305584673252
GO:0033275actin-myosin filament sliding0.0319575890420853
GO:0004687myosin light chain kinase activity0.0319575890420853
GO:0016461unconventional myosin complex0.0319575890420853
GO:0003012muscle system process0.0349098570917702
GO:0006936muscle contraction0.0349098570917702
GO:0045022early endosome to late endosome transport0.0381812511230087



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><br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
epithelial bud2.98e-1017
gastrointestinal system6.25e-1047
lung2.94e-0814
respiratory tube2.94e-0814
respiration organ2.94e-0814
pair of lungs2.94e-0814
lung primordium2.94e-0814
lung bud2.94e-0814
epithelial fold7.32e-0820


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)
MA0003.10.00320159
MA0004.10.0561767
MA0006.10.0140344
MA0007.10.366649
MA0009.10.0986505
MA0014.10.00027052
MA0017.10.106236
MA0019.10.606001
MA0024.10.275521
MA0025.10.225742
MA0027.11.48273
MA0028.10.0170491
MA0029.10.91628
MA0030.10.259172
MA0031.10.222614
MA0038.10.182882
MA0040.11.14623
MA0041.10.000804133
MA0042.10.000623052
MA0043.10.446539
MA0046.10.368449
MA0048.10.0358599
MA0050.10.76721
MA0051.11.29282
MA0052.10.107859
MA0055.13.17118
MA0056.10
MA0057.11.3377
MA0058.10.0166181
MA0059.10.0199981
MA0060.10.00203513
MA0061.10.876373
MA0063.10
MA0066.10.170319
MA0067.10.301247
MA0068.10.486851
MA0069.10.350086
MA0070.10.690825
MA0071.11.05189
MA0072.10.328374
MA0073.11.09608
MA0074.10.272587
MA0076.10.00248208
MA0077.10.0905548
MA0078.10.446203
MA0081.10.403327
MA0083.118.1302
MA0084.10.562229
MA0087.10.389566
MA0088.10.0575967
MA0089.10
MA0090.12.31083
MA0091.10.0202813
MA0092.12.31404
MA0093.10.0063629
MA0095.10
MA0098.10
MA0100.10.0431649
MA0101.10.125373
MA0103.10.656447
MA0105.11.81964
MA0106.11.50006
MA0107.10.112719
MA0108.22.49733
MA0109.10
MA0111.10.766485
MA0113.10.0821664
MA0114.10.0591638
MA0115.10.146985
MA0116.10.838206
MA0117.10.407968
MA0119.10.126155
MA0122.10.140445
MA0124.10.264049
MA0125.10.215442
MA0130.10
MA0131.10.140425
MA0132.10
MA0133.10
MA0135.10.165378
MA0136.10.522724
MA0139.10.327365
MA0140.10.121451
MA0141.10.391905
MA0142.10.0571087
MA0143.10.437405
MA0144.10.013423
MA0145.10.800232
MA0146.10.0658725
MA0147.10.0174898
MA0148.10.941197
MA0149.10.000913137
MA0062.20.000611761
MA0035.20.451553
MA0039.20.00746749
MA0138.20.907754
MA0002.20.341642
MA0137.20.034838
MA0104.20.00130978
MA0047.21.64566
MA0112.20.114348
MA0065.20.455246
MA0150.10.218621
MA0151.10
MA0152.10.182115
MA0153.10.174838
MA0154.10.803154
MA0155.11.37705
MA0156.10.0691745
MA0157.10.178771
MA0158.10
MA0159.10.355971
MA0160.10.285249
MA0161.10
MA0162.10.000551924
MA0163.10.350508
MA0164.10.0568575
MA0080.20.310035
MA0018.20.163734
MA0099.20.560563
MA0079.21.50605
MA0102.20.607761
MA0258.10.583553
MA0259.10.0322471
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:132&oldid=2573527"