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MCL coexpression mm9:276: Difference between revisions

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{{MCL_coexpression_mm9
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of protein secretion;0.00139060966135854;16534,21947!GO:0009306;protein secretion;0.003315944889462;16534,21947!GO:0051046;regulation of secretion;0.00671696324602722;16534,21947!GO:0004813;alanine-tRNA ligase activity;0.027932958937708;69684!GO:0046541;saliva secretion;0.027932958937708;16534!GO:0006419;alanyl-tRNA aminoacylation;0.027932958937708;69684!GO:0050714;positive regulation of protein secretion;0.0319190091362604;16534!GO:0032940;secretion by cell;0.0372286437124121;16534,21947!GO:0051023;regulation of immunoglobulin secretion;0.0372286437124121;21947!GO:0046903;secretion;0.0438465767756335;16534,21947!GO:0051047;positive regulation of secretion;0.0438465767756335;16534!GO:0048305;immunoglobulin secretion;0.0438465767756335;21947!GO:0007589;fluid secretion;0.0438465767756335;16534!GO:0015269;calcium-activated potassium channel activity;0.0438465767756335;16534!GO:0022600;digestive system process;0.0453289275583553;16534!GO:0022839;ion gated channel activity;0.0453289275583553;16534!GO:0005227;calcium activated cation channel 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|coexpression_dpi_cluster_scores_median=0,0,0,0,0,0,0,0.632675823424557,0.816354466701527,0.995270193595839,0.591838469243596,0.750260338150633,0.666928528343163,0.888228748383681,0,0.0400380762665588,0,0.168259719722084,0.0805258058980907,0.0768144049304335,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.389294454188438,0.602257329739392,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0570741246689917,0,0,0,0,0,0,0,0,0,0,0.0469568706916304,0.383940712925812,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0894734883806707,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.289596390303526,0,0,0,0,0.0787037500278776,0.170491067385816,0.159286971335735,0.244653858049601,0.21677724318869,0.268657092060958,0.336358567251731,0.332921538831007,0.335581738507066,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0
|gostat_on_MCL_coexpression=GO:0050708;regulation of protein secretion;0.00139060966135854;16534,21947!GO:0009306;protein secretion;0.003315944889462;16534,21947!GO:0051046;regulation of secretion;0.00671696324602722;16534,21947!GO:0004813;alanine-tRNA ligase activity;0.027932958937708;69684!GO:0046541;saliva secretion;0.027932958937708;16534!GO:0006419;alanyl-tRNA aminoacylation;0.027932958937708;69684!GO:0050714;positive regulation of protein secretion;0.0319190091362604;16534!GO:0032940;secretion by cell;0.0372286437124121;16534,21947!GO:0051023;regulation of immunoglobulin secretion;0.0372286437124121;21947!GO:0046903;secretion;0.0438465767756335;16534,21947!GO:0051047;positive regulation of secretion;0.0438465767756335;16534!GO:0048305;immunoglobulin secretion;0.0438465767756335;21947!GO:0007589;fluid secretion;0.0438465767756335;16534!GO:0015269;calcium-activated potassium channel activity;0.0438465767756335;16534!GO:0022600;digestive system process;0.0453289275583553;16534!GO:0022839;ion gated channel activity;0.0453289275583553;16534!GO:0005227;calcium activated cation channel activity;0.0459379600154311;16534!
}}

Latest revision as of 15:01, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr10:128157769..128157772,-p@chr10:128157769..128157772
-
Mm9::chr11:101286929..101286956,-p8@1700113I22Rik
p8@Aarsd1
Mm9::chr11:33971013..33971018,+p@chr11:33971013..33971018
+
Mm9::chr13:3610282..3610308,-p2@BC016423
Mm9::chr14:53047606..53047627,+p1@ENSMUST00000103567
Mm9::chr14:53186857..53186878,+p1@uc007tpo.1
Mm9::chr14:53200259..53200265,+p1@uc007tpp.1
Mm9::chr14:53242171..53242193,+p1@ENSMUST00000103570
Mm9::chr14:53242199..53242210,+p2@ENSMUST00000103570
Mm9::chr14:53242248..53242261,+p@chr14:53242248..53242261
+
Mm9::chr14:53258127..53258147,+p1@ENSMUST00000103571
Mm9::chr14:53274333..53274349,+p@chr14:53274333..53274349
+
Mm9::chr14:53287031..53287058,+p1@ENSMUST00000103573
Mm9::chr14:53414758..53414769,+p1@ENSMUST00000103582
Mm9::chr14:53662028..53662035,+p1@ENSMUST00000103605
Mm9::chr14:53698162..53698191,+p1@uc007tqu.1
p1@uc007tqv.1
p1@uc011zkr.1
Mm9::chr14:54038027..54038068,+p1@uc007tsb.1
Mm9::chr14:54210576..54210583,+p1@uc007tsr.1
Mm9::chr14:54241407..54241419,+p1@uc007tsu.1
Mm9::chr14:54285587..54285621,+p1@A430107P09Rik
Mm9::chr14:54831066..54831079,+p@chr14:54831066..54831079
+
Mm9::chr14:54831123..54831141,+p1@ENSMUST00000103733
Mm9::chr15:60018582..60018586,-p@chr15:60018582..60018586
-
Mm9::chr19:10904395..10904400,-p5@Cd6
Mm9::chr1:53833485..53833506,-p@chr1:53833485..53833506
-
Mm9::chr2:11091694..11091714,-p@chr2:11091694..11091714
-
Mm9::chr6:41507816..41507834,-p@chr6:41507816..41507834
-
Mm9::chr7:133845983..133846000,-p8@Coro1a
Mm9::chr7:25155115..25155140,+p5@Kcnn4
Mm9::chrX:54465221..54465232,+p4@Cd40lg


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:0050708regulation of protein secretion0.00139060966135854
GO:0009306protein secretion0.003315944889462
GO:0051046regulation of secretion0.00671696324602722
GO:0004813alanine-tRNA ligase activity0.027932958937708
GO:0046541saliva secretion0.027932958937708
GO:0006419alanyl-tRNA aminoacylation0.027932958937708
GO:0050714positive regulation of protein secretion0.0319190091362604
GO:0032940secretion by cell0.0372286437124121
GO:0051023regulation of immunoglobulin secretion0.0372286437124121
GO:0046903secretion0.0438465767756335
GO:0051047positive regulation of secretion0.0438465767756335
GO:0048305immunoglobulin secretion0.0438465767756335
GO:0007589fluid secretion0.0438465767756335
GO:0015269calcium-activated potassium channel activity0.0438465767756335
GO:0022600digestive system process0.0453289275583553
GO:0022839ion gated channel activity0.0453289275583553
GO:0005227calcium activated cation channel activity0.0459379600154311



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
mature alpha-beta T cell1.26e-309
alpha-beta T cell1.26e-309
immature T cell1.26e-309
mature T cell1.26e-309
immature alpha-beta T cell1.26e-309
CD4-positive, alpha-beta T cell1.94e-278
T cell9.08e-2511
pro-T cell9.08e-2511
lymphoid lineage restricted progenitor cell1.43e-2212
thymocyte3.88e-216
double negative thymocyte3.88e-216
naive T cell3.88e-216
double-positive, alpha-beta thymocyte3.88e-216
CD4-positive, alpha-beta thymocyte3.88e-216
naive thymus-derived CD4-positive, alpha-beta T cell3.88e-216
DN4 thymocyte3.88e-216
DN1 thymic pro-T cell3.88e-216
DN2 thymocyte3.88e-216
DN3 thymocyte3.88e-216
immature single positive thymocyte3.88e-216
early T lineage precursor3.88e-216
mature CD4 single-positive thymocyte3.88e-216
resting double-positive thymocyte3.88e-216
double-positive blast3.88e-216
CD69-positive double-positive thymocyte3.88e-216
CD69-positive, CD4-positive single-positive thymocyte3.88e-216
CD4-positive, CD8-intermediate double-positive thymocyte3.88e-216
CD24-positive, CD4 single-positive thymocyte3.88e-216
lymphocyte1.03e-2013
common lymphoid progenitor1.03e-2013
hematopoietic lineage restricted progenitor cell2.86e-2025
nucleate cell1.59e-1616
leukocyte1.86e-1517
nongranular leukocyte1.86e-1517
hematopoietic cell2.93e-1532
hematopoietic oligopotent progenitor cell2.93e-1532
hematopoietic stem cell2.93e-1532
angioblastic mesenchymal cell2.93e-1532
hematopoietic multipotent progenitor cell2.93e-1532
connective tissue cell8.09e-1046
mesenchymal cell8.09e-1046
megakaryocyte progenitor cell3.61e-086
megakaryocyte3.61e-086
motile cell5.55e-0854

Uber Anatomy
Ontology termp-valuen
thymus4.36e-3423
neck4.36e-3423
respiratory system epithelium4.36e-3423
hemolymphoid system gland4.36e-3423
pharyngeal epithelium4.36e-3423
thymic region4.36e-3423
pharyngeal gland4.36e-3423
entire pharyngeal arch endoderm4.36e-3423
thymus primordium4.36e-3423
early pharyngeal endoderm4.36e-3423
pharynx1.57e-3224
gland of gut1.57e-3224
upper respiratory tract1.57e-3224
chordate pharynx1.57e-3224
pharyngeal arch system1.57e-3224
pharyngeal region of foregut1.57e-3224
hemopoietic organ8.45e-3029
immune organ8.45e-3029
hemolymphoid system7.98e-2948
immune system7.98e-2948
segment of respiratory tract1.49e-2827
hematopoietic system5.90e-2845
blood island5.90e-2845
mixed endoderm/mesoderm-derived structure4.28e-2435
organ segment2.84e-2135
craniocervical region1.37e-2036
respiratory tract1.12e-1741
respiratory system3.55e-1742
anterior region of body1.06e-1643
lateral plate mesoderm1.89e-1287
gut epithelium2.46e-1255
endocrine gland4.95e-1160
gland6.25e-1065
connective tissue8.09e-1046
unilaminar epithelium9.91e-1066
endo-epithelium3.64e-0969
endocrine system1.20e-0872
foregut1.42e-0880
mesoderm7.25e-08120
mesoderm-derived structure7.25e-08120
presumptive mesoderm7.25e-08120
organ part2.92e-0799


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)
MA0003.14.6508e-08
MA0004.11.01809
MA0006.10.0253297
MA0007.10.079003
MA0009.10.377631
MA0014.17.54292e-05
MA0017.10.131062
MA0019.11.24758
MA0024.10.342622
MA0025.10.57681
MA0027.11.94532
MA0028.10.116488
MA0029.10.325591
MA0030.10.330711
MA0031.10.303242
MA0038.10.957393
MA0040.10.387805
MA0041.10.0540602
MA0042.10.184959
MA0043.10.457929
MA0046.10.407017
MA0048.10.432462
MA0050.11.68851
MA0051.10.980228
MA0052.10.394392
MA0055.10.614002
MA0056.10
MA0057.10.000922448
MA0058.10.399772
MA0059.10.424803
MA0060.11.05375
MA0061.10.0147885
MA0063.10
MA0066.10.158169
MA0067.10.677115
MA0068.10.0268339
MA0069.11.80632
MA0070.10.386747
MA0071.10.340616
MA0072.10.989542
MA0073.12.44009
MA0074.10.136938
MA0076.10.149319
MA0077.10.36238
MA0078.10.559895
MA0081.10.216864
MA0083.11.15781
MA0084.10.985399
MA0087.10.421024
MA0088.10.481629
MA0089.10
MA0090.10.247654
MA0091.10.307478
MA0092.10.530193
MA0093.11.24443
MA0095.10
MA0098.10
MA0100.10.811098
MA0101.10.0545406
MA0103.10.597414
MA0105.10.00296084
MA0106.10.196768
MA0107.10.135394
MA0108.20.255046
MA0109.10
MA0111.10.0767317
MA0113.11.6046
MA0114.10.0143817
MA0115.10.460306
MA0116.10.785638
MA0117.10.433078
MA0119.10.201463
MA0122.10.449781
MA0124.10.628716
MA0125.10.562419
MA0130.10
MA0131.10.235509
MA0132.10
MA0133.10
MA0135.10.489063
MA0136.10.454208
MA0139.12.83666
MA0140.10.130298
MA0141.10.160688
MA0142.10.292245
MA0143.10.188991
MA0144.11.64464
MA0145.10.00282391
MA0146.10.00763462
MA0147.10.388863
MA0148.10.643672
MA0149.114.8246
MA0062.20.143392
MA0035.20.132954
MA0039.20.00247932
MA0138.20.229939
MA0002.21.56266
MA0137.21.9198
MA0104.20.251331
MA0047.20.16444
MA0112.20.011779
MA0065.20.0118992
MA0150.10.271245
MA0151.10
MA0152.10.493821
MA0153.11.25676
MA0154.10.268349
MA0155.10.00426258
MA0156.11.38412
MA0157.10.26838
MA0158.10
MA0159.10.0192032
MA0160.10.095069
MA0161.10
MA0162.10.00154147
MA0163.10.00108816
MA0164.10.454747
MA0080.20.581847
MA0018.20.154575
MA0099.20.22555
MA0079.20.00173803
MA0102.21.03585
MA0258.10.157835
MA0259.10.184145
MA0442.10
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