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MCL coexpression mm9:2021: Difference between revisions

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{{MCL_coexpression_mm9
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regulation of glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0035226;glutamate-cysteine ligase catalytic subunit binding;0.00350608083794198;14630!GO:0035227;regulation of glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0051351;positive regulation of ligase activity;0.00350608083794198;14630!GO:0051340;regulation of ligase activity;0.00350608083794198;14630!GO:0051900;regulation of mitochondrial depolarization;0.00350608083794198;14630!GO:0017109;glutamate-cysteine ligase complex;0.00350608083794198;14630!GO:0051882;mitochondrial depolarization;0.00350608083794198;14630!GO:0004357;glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0019725;cellular homeostasis;0.00380120485661121;73046,14630!GO:0051881;regulation of mitochondrial membrane potential;0.00430268163725471;14630!GO:0006534;cysteine metabolic process;0.00657282106793939;14630!GO:0042592;homeostatic process;0.00676024552442009;73046,14630!GO:0006750;glutathione biosynthetic process;0.00676024552442009;14630!GO:0015035;protein disulfide oxidoreductase activity;0.00736075289404753;73046!GO:0015036;disulfide oxidoreductase activity;0.0128113835947072;73046!GO:0000096;sulfur amino acid metabolic process;0.0141049899874779;14630!GO:0009069;serine family amino acid metabolic process;0.0141049899874779;14630!GO:0051899;membrane depolarization;0.0141049899874779;14630!GO:0006749;glutathione metabolic process;0.0149527722450228;14630!GO:0065008;regulation of biological quality;0.0149527722450228;73046,14630!GO:0044444;cytoplasmic part;0.0198637834279382;66154,73046,14630!GO:0044272;sulfur compound biosynthetic process;0.0198637834279382;14630!GO:0016491;oxidoreductase activity;0.0200451266851218;73046,14630!GO:0045454;cell redox homeostasis;0.0252967847412073;73046!GO:0042391;regulation of membrane potential;0.0252967847412073;14630!GO:0005739;mitochondrion;0.0252967847412073;66154,73046!GO:0006979;response to oxidative 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|gostat_on_MCL_coexpression=GO:0035229;positive regulation of glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0035226;glutamate-cysteine ligase catalytic subunit binding;0.00350608083794198;14630!GO:0035227;regulation of glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0051351;positive regulation of ligase activity;0.00350608083794198;14630!GO:0051340;regulation of ligase activity;0.00350608083794198;14630!GO:0051900;regulation of mitochondrial depolarization;0.00350608083794198;14630!GO:0017109;glutamate-cysteine ligase complex;0.00350608083794198;14630!GO:0051882;mitochondrial depolarization;0.00350608083794198;14630!GO:0004357;glutamate-cysteine ligase activity;0.00350608083794198;14630!GO:0019725;cellular homeostasis;0.00380120485661121;73046,14630!GO:0051881;regulation of mitochondrial membrane potential;0.00430268163725471;14630!GO:0006534;cysteine metabolic process;0.00657282106793939;14630!GO:0042592;homeostatic process;0.00676024552442009;73046,14630!GO:0006750;glutathione biosynthetic process;0.00676024552442009;14630!GO:0015035;protein disulfide oxidoreductase activity;0.00736075289404753;73046!GO:0015036;disulfide oxidoreductase activity;0.0128113835947072;73046!GO:0000096;sulfur amino acid metabolic process;0.0141049899874779;14630!GO:0009069;serine family amino acid metabolic process;0.0141049899874779;14630!GO:0051899;membrane depolarization;0.0141049899874779;14630!GO:0006749;glutathione metabolic process;0.0149527722450228;14630!GO:0065008;regulation of biological quality;0.0149527722450228;73046,14630!GO:0044444;cytoplasmic part;0.0198637834279382;66154,73046,14630!GO:0044272;sulfur compound biosynthetic process;0.0198637834279382;14630!GO:0016491;oxidoreductase activity;0.0200451266851218;73046,14630!GO:0045454;cell redox homeostasis;0.0252967847412073;73046!GO:0042391;regulation of membrane potential;0.0252967847412073;14630!GO:0005739;mitochondrion;0.0252967847412073;66154,73046!GO:0006979;response to oxidative stress;0.0252967847412073;14630!GO:0046982;protein heterodimerization activity;0.0314545575747391;14630!GO:0006790;sulfur metabolic process;0.0314545575747391;14630!GO:0009108;coenzyme biosynthetic process;0.0420554223847001;14630!GO:0051188;cofactor biosynthetic process;0.0470887349534143;14630!
|ontology_enrichment_celltype=
|ontology_enrichment_disease=
|ontology_enrichment_uberon=UBERON:0009854!2.00e-12!23;UBERON:0009856!2.00e-12!23;UBERON:0002107!2.75e-12!22;UBERON:0007499!2.75e-12!22;UBERON:0006925!2.75e-12!22;UBERON:0009497!2.75e-12!22;UBERON:0000015!2.75e-12!22;UBERON:0002423!2.75e-12!22;UBERON:0006235!2.75e-12!22;UBERON:0008835!2.75e-12!22;UBERON:0003894!2.75e-12!22;UBERON:0004161!2.75e-12!22;UBERON:0008836!2.75e-12!22;UBERON:0005172!3.66e-12!49;UBERON:0005173!3.66e-12!49;UBERON:0002417!3.66e-12!49;UBERON:0000916!3.66e-12!49;UBERON:0002365!3.57e-10!25;UBERON:0002330!3.57e-10!25;UBERON:0003914!2.31e-09!47;UBERON:0004923!3.84e-09!24;UBERON:0003104!1.91e-08!61;UBERON:0009142!1.91e-08!61;UBERON:0005256!5.96e-08!45;UBERON:0009569!2.32e-07!66;UBERON:0005409!4.93e-07!47
|tfbs_overrepresentation_for_novel_motifs=0.641384,0.801438,0.612053,0.688265,0.483253,0.704257,0.803568,0.370124,0.381467,0.949265,0.755749,0.790506,0.37041,0.81685,0.502646,0,1.02248,0.473993,0.352304,0.24402,0.570433,1.08884,0.815872,0.481455,0.620553,0.846564,0.342316,0.727368,0.535752,0.290745,0.711848,1.12823,3.06215,0.318879,0.503207,0.089443,1.16474,0.786577,0.434783,0.40068,0.478558,0.717547,0.185353,0.504971,2.22741,0.675898,0.938241,0.744678,0.162985,0.539131,1.0041,0.875451,0.771943,1.2746,1.29252,0.82458,0.549352,0.776619,0.882473,0.822375,1.10737,0.885556,0.39557,0.992216,0.8366,1.03484,1.43193,1.78579,1.1025,1.63712,0.590754,0.377213,1.12016,1.32691,0.323563,0.310084,0.318792,0.926147,1.08947,0.575233,0.37865,1.04072,0.884013,0.362446,1.20828,1.24129,0.129654,0.290918,0.943446,1.94914,1.50286,1.21342,1.14153,0.490141,1.09896,0.409166,0.367176,1.14445,0.938512,0.731844,0.460566,1.12793,1.25667,1.00472,1.00361,0.717061,1.06633,0.740267,0.580757,2.39857,0.633483,1.25851,0.576517,0.7614,1.51002,0.476467,1.40021,2.7839,1.02384,0.456123,1.33244,0.970073,0.848526,0.925183,1.56496,1.09333,0.812403,1.13449,1.43038,0.493609,1.23918,0.680176,1.40022,0.839311,1.53196,0.195549,0.650785,0.719099,1.482,2.31884,1.91709,1.43673,0.861473,1.1391,0.996781,0.718046,0.941555,2.27909,0.653418,1.21803,0.79777,0.542121,1.27621,0.416214,0.838313,1.35996,0.87653,1.28473,0.63863,3.85444,1.49167,1.20739,1.09379,0.630949,0.993294,0.830321,0.459159,0.788782,1.47798
|tfbs_overrepresentation_jaspar=MA0003.1;3.50387,MA0004.1;0.6888,MA0006.1;0.497533,MA0007.1;0.672186,MA0009.1;1.15569,MA0014.1;0.276754,MA0017.1;0.528196,MA0019.1;0.964875,MA0024.1;1.11019,MA0025.1;1.39562,MA0027.1;2.81824,MA0028.1;0.509589,MA0029.1;1.08753,MA0030.1;1.09438,MA0031.1;1.05719,MA0038.1;0.846479,MA0040.1;1.16866,MA0041.1;0.604221,MA0042.1;0.589368,MA0043.1;1.25564,MA0046.1;1.1929,MA0048.1;0.266382,MA0050.1;0.731539,MA0051.1;0.856094,MA0052.1;1.17701,MA0055.1;0.125758,MA0056.1;0,MA0057.1;0.251896,MA0058.1;0.581673,MA0059.1;0.59559,MA0060.1;2.74711,MA0061.1;0.438628,MA0063.1;0,MA0066.1;0.834648,MA0067.1;1.50873,MA0068.1;0.256913,MA0069.1;1.17737,MA0070.1;1.16732,MA0071.1;0.73062,MA0072.1;1.15853,MA0073.1;0.363073,MA0074.1;0.795862,MA0076.1;0.550092,MA0077.1;1.13603,MA0078.1;0.891476,MA0081.1;0.621611,MA0083.1;1.25482,MA0084.1;1.84013,MA0087.1;1.21037,MA0088.1;1.1032,MA0089.1;0,MA0090.1;0.650768,MA0091.1;0.703314,MA0092.1;0.651119,MA0093.1;0.519148,MA0095.1;0,MA0098.1;0,MA0100.1;0.783305,MA0101.1;0.605676,MA0103.1;0.540576,MA0105.1;0.313353,MA0106.1;0.899777,MA0107.1;0.533522,MA0108.2;0.989014,MA0109.1;0,MA0111.1;0.666525,MA0113.1;0.869608,MA0114.1;0.43587,MA0115.1;1.25852,MA0116.1;0.497293,MA0117.1;1.22527,MA0119.1;0.606338,MA0122.1;1.24573,MA0124.1;1.45461,MA0125.1;1.37907,MA0130.1;0,MA0131.1;3.62115,MA0132.1;0,MA0133.1;0,MA0135.1;1.29308,MA0136.1;0.817395,MA0139.1;0.957842,MA0140.1;0.78318,MA0141.1;1.38335,MA0142.1;1.04199,MA0143.1;0.887119,MA0144.1;1.11951,MA0145.1;0.21199,MA0146.1;2.17792,MA0147.1;0.453952,MA0148.1;0.706718,MA0149.1;2.52612,MA0062.2;0.319836,MA0035.2;0.788288,MA0039.2;1.47117,MA0138.2;0.951653,MA0002.2;0.368961,MA0137.2;0.559766,MA0104.2;0.386166,MA0047.2;0.845655,MA0112.2;0.211985,MA0065.2;0.212467,MA0150.1;0.67206,MA0151.1;0,MA0152.1;0.84577,MA0153.1;1.31015,MA0154.1;0.263609,MA0155.1;0.650923,MA0156.1;0.549102,MA0157.1;1.0083,MA0158.1;0,MA0159.1;0.465802,MA0160.1;0.71003,MA0161.1;0,MA0162.1;0.346529,MA0163.1;0.0996272,MA0164.1;0.817786,MA0080.2;0.534538,MA0018.2;0.828253,MA0099.2;0.944966,MA0079.2;0.109419,MA0102.2;1.8929,MA0258.1;0.419871,MA0259.1;0.441366,MA0442.1;0
}}

Latest revision as of 17:52, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:106270848..106270915,+p1@Glrx5
Mm9::chr13:41111644..41111678,+p1@Tmem14c
Mm9::chr13:41111692..41111704,+p2@Tmem14c
Mm9::chr3:121948543..121948640,+p1@Gclm


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:0035229positive regulation of glutamate-cysteine ligase activity0.00350608083794198
GO:0035226glutamate-cysteine ligase catalytic subunit binding0.00350608083794198
GO:0035227regulation of glutamate-cysteine ligase activity0.00350608083794198
GO:0051351positive regulation of ligase activity0.00350608083794198
GO:0051340regulation of ligase activity0.00350608083794198
GO:0051900regulation of mitochondrial depolarization0.00350608083794198
GO:0017109glutamate-cysteine ligase complex0.00350608083794198
GO:0051882mitochondrial depolarization0.00350608083794198
GO:0004357glutamate-cysteine ligase activity0.00350608083794198
GO:0019725cellular homeostasis0.00380120485661121
GO:0051881regulation of mitochondrial membrane potential0.00430268163725471
GO:0006534cysteine metabolic process0.00657282106793939
GO:0042592homeostatic process0.00676024552442009
GO:0006750glutathione biosynthetic process0.00676024552442009
GO:0015035protein disulfide oxidoreductase activity0.00736075289404753
GO:0015036disulfide oxidoreductase activity0.0128113835947072
GO:0000096sulfur amino acid metabolic process0.0141049899874779
GO:0009069serine family amino acid metabolic process0.0141049899874779
GO:0051899membrane depolarization0.0141049899874779
GO:0006749glutathione metabolic process0.0149527722450228
GO:0065008regulation of biological quality0.0149527722450228
GO:0044444cytoplasmic part0.0198637834279382
GO:0044272sulfur compound biosynthetic process0.0198637834279382
GO:0016491oxidoreductase activity0.0200451266851218
GO:0045454cell redox homeostasis0.0252967847412073
GO:0042391regulation of membrane potential0.0252967847412073
GO:0005739mitochondrion0.0252967847412073
GO:0006979response to oxidative stress0.0252967847412073
GO:0046982protein heterodimerization activity0.0314545575747391
GO:0006790sulfur metabolic process0.0314545575747391
GO:0009108coenzyme biosynthetic process0.0420554223847001
GO:0051188cofactor biosynthetic process0.0470887349534143



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>


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)
MA0003.13.50387
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.276754
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
MA0048.10.266382
MA0050.10.731539
MA0051.10.856094
MA0052.11.17701
MA0055.10.125758
MA0056.10
MA0057.10.251896
MA0058.10.581673
MA0059.10.59559
MA0060.12.74711
MA0061.10.438628
MA0063.10
MA0066.10.834648
MA0067.11.50873
MA0068.10.256913
MA0069.11.17737
MA0070.11.16732
MA0071.10.73062
MA0072.11.15853
MA0073.10.363073
MA0074.10.795862
MA0076.10.550092
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.11.1032
MA0089.10
MA0090.10.650768
MA0091.10.703314
MA0092.10.651119
MA0093.10.519148
MA0095.10
MA0098.10
MA0100.10.783305
MA0101.10.605676
MA0103.10.540576
MA0105.10.313353
MA0106.10.899777
MA0107.10.533522
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
MA0131.13.62115
MA0132.10
MA0133.10
MA0135.11.29308
MA0136.10.817395
MA0139.10.957842
MA0140.10.78318
MA0141.11.38335
MA0142.11.04199
MA0143.10.887119
MA0144.11.11951
MA0145.10.21199
MA0146.12.17792
MA0147.10.453952
MA0148.10.706718
MA0149.12.52612
MA0062.20.319836
MA0035.20.788288
MA0039.21.47117
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.211985
MA0065.20.212467
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.263609
MA0155.10.650923
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.10.465802
MA0160.10.71003
MA0161.10
MA0162.10.346529
MA0163.10.0996272
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.20.109419
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
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