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MCL coexpression mm9:2046: Difference between revisions

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{{MCL_coexpression_mm9
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coupled proton transport, down electrochemical gradient;0.0417944584716101;73834!GO:0015986;ATP synthesis coupled proton transport;0.0417944584716101;73834!GO:0006793;phosphorus metabolic process;0.0417944584716101;73834,219135!GO:0006796;phosphate metabolic process;0.0417944584716101;73834,219135!GO:0006754;ATP biosynthetic process;0.0417944584716101;73834!GO:0006753;nucleoside phosphate metabolic process;0.0417944584716101;73834!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0417944584716101;73834!GO:0016469;proton-transporting two-sector ATPase complex;0.0417944584716101;73834!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0417944584716101;73834!GO:0046034;ATP metabolic process;0.0417944584716101;73834!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0009145;purine nucleoside triphosphate 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|gostat_on_MCL_coexpression=GO:0015985;energy coupled proton transport, down electrochemical gradient;0.0417944584716101;73834!GO:0015986;ATP synthesis coupled proton transport;0.0417944584716101;73834!GO:0006793;phosphorus metabolic process;0.0417944584716101;73834,219135!GO:0006796;phosphate metabolic process;0.0417944584716101;73834,219135!GO:0006754;ATP biosynthetic process;0.0417944584716101;73834!GO:0006753;nucleoside phosphate metabolic process;0.0417944584716101;73834!GO:0046933;hydrogen ion transporting ATP synthase activity, rotational mechanism;0.0417944584716101;73834!GO:0016469;proton-transporting two-sector ATPase complex;0.0417944584716101;73834!GO:0046961;hydrogen ion transporting ATPase activity, rotational mechanism;0.0417944584716101;73834!GO:0046034;ATP metabolic process;0.0417944584716101;73834!GO:0009206;purine ribonucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0009201;ribonucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0009145;purine nucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0019829;cation-transporting ATPase activity;0.0417944584716101;73834!GO:0009142;nucleoside triphosphate biosynthetic process;0.0417944584716101;73834!GO:0009205;purine ribonucleoside triphosphate metabolic process;0.0417944584716101;73834!GO:0009199;ribonucleoside triphosphate metabolic process;0.0417944584716101;73834!GO:0009144;purine nucleoside triphosphate metabolic process;0.0417944584716101;73834!GO:0006119;oxidative phosphorylation;0.0417944584716101;73834!GO:0015992;proton transport;0.0417944584716101;73834!GO:0006752;group transfer coenzyme metabolic process;0.0417944584716101;73834!GO:0009141;nucleoside triphosphate metabolic process;0.0417944584716101;73834!GO:0009152;purine ribonucleotide biosynthetic process;0.0417944584716101;73834!GO:0006818;hydrogen transport;0.0417944584716101;73834!GO:0009260;ribonucleotide biosynthetic process;0.0417944584716101;73834!GO:0009150;purine ribonucleotide metabolic process;0.0417944584716101;73834!GO:0006164;purine nucleotide biosynthetic process;0.0417944584716101;73834!GO:0009259;ribonucleotide metabolic process;0.0433900349803592;73834!GO:0006163;purine nucleotide metabolic process;0.0442780423032748;73834!GO:0042625;ATPase activity, coupled to transmembrane movement of ions;0.046436195549773;73834!GO:0009108;coenzyme biosynthetic process;0.046436195549773;73834!GO:0004725;protein tyrosine phosphatase activity;0.0466033581844389;219135!GO:0015078;hydrogen ion transmembrane transporter activity;0.0475371990958278;73834!GO:0015077;monovalent inorganic cation transmembrane transporter activity;0.0475371990958278;73834!GO:0051188;cofactor biosynthetic process;0.0475371990958278;73834!
}}

Latest revision as of 17:54, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr12:79962453..79962596,-p1@Atp6v1d
Mm9::chr14:60884053..60884173,+p1@Mtmr6
Mm9::chr16:32099867..32099943,+p1@1500031L02Rik
Mm9::chr1:164500728..164500787,+p1@Vamp4


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:0015985energy coupled proton transport, down electrochemical gradient0.0417944584716101
GO:0015986ATP synthesis coupled proton transport0.0417944584716101
GO:0006793phosphorus metabolic process0.0417944584716101
GO:0006796phosphate metabolic process0.0417944584716101
GO:0006754ATP biosynthetic process0.0417944584716101
GO:0006753nucleoside phosphate metabolic process0.0417944584716101
GO:0046933hydrogen ion transporting ATP synthase activity, rotational mechanism0.0417944584716101
GO:0016469proton-transporting two-sector ATPase complex0.0417944584716101
GO:0046961hydrogen ion transporting ATPase activity, rotational mechanism0.0417944584716101
GO:0046034ATP metabolic process0.0417944584716101
GO:0009206purine ribonucleoside triphosphate biosynthetic process0.0417944584716101
GO:0009201ribonucleoside triphosphate biosynthetic process0.0417944584716101
GO:0009145purine nucleoside triphosphate biosynthetic process0.0417944584716101
GO:0019829cation-transporting ATPase activity0.0417944584716101
GO:0009142nucleoside triphosphate biosynthetic process0.0417944584716101
GO:0009205purine ribonucleoside triphosphate metabolic process0.0417944584716101
GO:0009199ribonucleoside triphosphate metabolic process0.0417944584716101
GO:0009144purine nucleoside triphosphate metabolic process0.0417944584716101
GO:0006119oxidative phosphorylation0.0417944584716101
GO:0015992proton transport0.0417944584716101
GO:0006752group transfer coenzyme metabolic process0.0417944584716101
GO:0009141nucleoside triphosphate metabolic process0.0417944584716101
GO:0009152purine ribonucleotide biosynthetic process0.0417944584716101
GO:0006818hydrogen transport0.0417944584716101
GO:0009260ribonucleotide biosynthetic process0.0417944584716101
GO:0009150purine ribonucleotide metabolic process0.0417944584716101
GO:0006164purine nucleotide biosynthetic process0.0417944584716101
GO:0009259ribonucleotide metabolic process0.0433900349803592
GO:0006163purine nucleotide metabolic process0.0442780423032748
GO:0042625ATPase activity, coupled to transmembrane movement of ions0.046436195549773
GO:0009108coenzyme biosynthetic process0.046436195549773
GO:0004725protein tyrosine phosphatase activity0.0466033581844389
GO:0015078hydrogen ion transmembrane transporter activity0.0475371990958278
GO:0015077monovalent inorganic cation transmembrane transporter activity0.0475371990958278
GO:0051188cofactor biosynthetic process0.0475371990958278



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
regional part of nervous system5.07e-1254
adult organism4.49e-1151
neural tube5.45e-1152
neural rod5.45e-1152
future spinal cord5.45e-1152
neural keel5.45e-1152
ecto-epithelium7.77e-1173
ectoderm-derived structure1.66e-1095
ectoderm1.66e-1095
presumptive ectoderm1.66e-1095
neurectoderm2.83e-1064
neural plate2.83e-1064
presumptive neural plate2.83e-1064
gray matter4.57e-1034
brain1.85e-0947
future brain1.85e-0947
regional part of brain5.01e-0946
nervous system5.96e-0975
structure with developmental contribution from neural crest1.14e-0892
central nervous system1.22e-0873
brain grey matter1.39e-0829
regional part of telencephalon1.39e-0829
telencephalon1.39e-0829
anterior neural tube1.89e-0840
pre-chordal neural plate4.02e-0849
regional part of forebrain5.36e-0839
forebrain5.36e-0839
future forebrain5.36e-0839
occipital lobe8.88e-0810
visual cortex8.88e-0810
neocortex8.88e-0810
regional part of cerebral cortex1.47e-0717
cerebral cortex7.48e-0721
cerebral hemisphere7.48e-0721
pallium7.48e-0721


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)
MA0003.11.34944
MA0004.10.6888
MA0006.10.497533
MA0007.10.672186
MA0009.11.15569
MA0014.10.981995
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
MA0057.10.701847
MA0058.10.581673
MA0059.11.45189
MA0060.10.403071
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
MA0073.10.00221226
MA0074.10.795862
MA0076.11.35592
MA0077.11.13603
MA0078.10.891476
MA0081.10.621611
MA0083.11.25482
MA0084.11.84013
MA0087.11.21037
MA0088.10.582815
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
MA0105.10.841866
MA0106.10.899777
MA0107.10.533522
MA0108.20.989014
MA0109.10
MA0111.10.666525
MA0113.10.869608
MA0114.11.11164
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
MA0136.10.817395
MA0139.11.70536
MA0140.10.78318
MA0141.10.563066
MA0142.11.04199
MA0143.10.887119
MA0144.10.439506
MA0145.10.21199
MA0146.10.647546
MA0147.11.15069
MA0148.10.706718
MA0149.10.611881
MA0062.21.54479
MA0035.20.788288
MA0039.20.45096
MA0138.20.951653
MA0002.20.368961
MA0137.20.559766
MA0104.20.386166
MA0047.20.845655
MA0112.20.211985
MA0065.20.609584
MA0150.10.67206
MA0151.10
MA0152.10.84577
MA0153.11.31015
MA0154.10.728853
MA0155.11.21457
MA0156.10.549102
MA0157.11.0083
MA0158.10
MA0159.12.0472
MA0160.10.71003
MA0161.10
MA0162.11.16288
MA0163.11.64105
MA0164.10.817786
MA0080.20.534538
MA0018.20.828253
MA0099.20.944966
MA0079.21.90618
MA0102.21.8929
MA0258.10.419871
MA0259.10.441366
MA0442.10
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=MCL_coexpression_mm9:2046&oldid=3074045"