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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Hoxd10

Z-value: 0.23

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Transcription factors associated with Hoxd10

Gene Symbol Gene ID Gene Info
Hoxd10
ENSRNOG00000001581 homeo box D10

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Hoxd10rn6_v1_chr3_+_61613774_61613774-0.181.1e-03Click!

Activity profile of Hoxd10 motif

Sorted Z-values of Hoxd10 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chrX_-_31138675 6.12 ENSRNOT00000004456
Fancb
Fanconi anemia, complementation group B
chr15_-_77736892 4.00 ENSRNOT00000057924
Pcdh9
protocadherin 9
chr6_-_95061174 3.31 ENSRNOT00000072262
Rtn1
reticulon 1
chr18_+_48853418 3.24 ENSRNOT00000022792
Csnk1g3
casein kinase 1, gamma 3
chr4_-_164453171 2.97 ENSRNOT00000077539
ENSRNOT00000083610
ENSRNOT00000079975
Ly49s6
Ly49 stimulatory receptor 6
chr14_-_45859908 2.70 ENSRNOT00000086994
Pgm2
phosphoglucomutase 2
chr19_+_25043680 2.60 ENSRNOT00000043971
Adgrl1
adhesion G protein-coupled receptor L1
chr11_-_11214141 2.54 ENSRNOT00000065748
Robo2
roundabout guidance receptor 2
chrX_-_76708878 2.41 ENSRNOT00000045534
Atrx
ATRX, chromatin remodeler
chr13_-_99531959 2.35 ENSRNOT00000005059
Wdr26
WD repeat domain 26
chr11_-_11213821 2.25 ENSRNOT00000093706
Robo2
roundabout guidance receptor 2
chrX_-_138435391 2.25 ENSRNOT00000043258
Mbnl3
muscleblind-like splicing regulator 3
chr9_+_73334618 2.03 ENSRNOT00000092717
Map2
microtubule-associated protein 2
chr9_+_119542328 1.99 ENSRNOT00000082005
Lpin2
lipin 2
chr16_-_48692476 1.82 ENSRNOT00000013118
Irf2
interferon regulatory factor 2
chr8_-_78397123 1.70 ENSRNOT00000087270
ENSRNOT00000084925
Tcf12
transcription factor 12
chr13_+_82496022 1.68 ENSRNOT00000080759
F5
coagulation factor V
chr1_+_252409268 1.16 ENSRNOT00000026219
Lipm
lipase, family member M
chr7_+_38858062 1.10 ENSRNOT00000006234
Kera
keratocan
chr1_+_57692836 0.99 ENSRNOT00000083968
ENSRNOT00000019358
Chd1
chromodomain helicase DNA binding protein 1
chr12_+_7081895 0.90 ENSRNOT00000047163
Hmgb1
high mobility group box 1
chr19_+_32308236 0.87 ENSRNOT00000015508
Mmaa
methylmalonic aciduria (cobalamin deficiency) cblA type
chr4_+_24222500 0.79 ENSRNOT00000045346
Zfp804b
zinc finger protein 804B
chr10_-_65502936 0.76 ENSRNOT00000089615
Supt6h
SPT6 homolog, histone chaperone
chr2_+_243425007 0.74 ENSRNOT00000082894
Trmt10a
tRNA methyltransferase 10A
chr7_+_97778260 0.54 ENSRNOT00000064264
Tbc1d31
TBC1 domain family, member 31
chr14_-_11546314 0.39 ENSRNOT00000090334
AABR07014355.1

chr8_+_18785118 0.38 ENSRNOT00000090997
LOC686748
similar to olfactory receptor 829
chr1_+_244630377 0.23 ENSRNOT00000016740
Smarca2
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 2
chr3_+_75437833 0.07 ENSRNOT00000042246
Olr561
olfactory receptor 561
chr11_+_80319177 0.07 ENSRNOT00000036777
Rtp2
receptor (chemosensory) transporter protein 2
chr1_-_169845487 0.07 ENSRNOT00000039989
Olr179
olfactory receptor 179

Network of associatons between targets according to the STRING database.

First level regulatory network of Hoxd10

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
1.5 6.1 GO:1905168 positive regulation of double-strand break repair via homologous recombination(GO:1905168)
1.0 4.8 GO:0050925 negative regulation of negative chemotaxis(GO:0050925)
0.8 2.4 GO:0097393 post-embryonic appendage morphogenesis(GO:0035120) post-embryonic limb morphogenesis(GO:0035127) post-embryonic forelimb morphogenesis(GO:0035128) telomeric repeat-containing RNA transcription(GO:0097393) telomeric repeat-containing RNA transcription from RNA pol II promoter(GO:0097394) regulation of telomeric RNA transcription from RNA pol II promoter(GO:1901580) negative regulation of telomeric RNA transcription from RNA pol II promoter(GO:1901581) positive regulation of telomeric RNA transcription from RNA pol II promoter(GO:1901582)
0.3 0.9 GO:0034165 T cell mediated immune response to tumor cell(GO:0002424) regulation of T cell mediated immune response to tumor cell(GO:0002840) negative regulation of RNA polymerase II transcriptional preinitiation complex assembly(GO:0017055) regulation of mismatch repair(GO:0032423) positive regulation of toll-like receptor 9 signaling pathway(GO:0034165) T-helper 1 cell activation(GO:0035711) positive regulation of glycogen catabolic process(GO:0045819) negative regulation of apoptotic cell clearance(GO:2000426)
0.2 1.7 GO:0032571 response to vitamin K(GO:0032571)
0.1 2.6 GO:0090129 positive regulation of synapse maturation(GO:0090129)
0.1 0.8 GO:0070827 chromatin maintenance(GO:0070827)
0.1 1.1 GO:0061303 cornea development in camera-type eye(GO:0061303)
0.1 0.2 GO:0035887 aortic smooth muscle cell differentiation(GO:0035887)
0.1 2.3 GO:0045662 negative regulation of myoblast differentiation(GO:0045662)
0.1 1.0 GO:0043923 positive regulation by host of viral transcription(GO:0043923)
0.1 2.0 GO:0019432 triglyceride biosynthetic process(GO:0019432)
0.1 2.0 GO:0007026 negative regulation of microtubule depolymerization(GO:0007026)
0.0 0.7 GO:0010960 magnesium ion homeostasis(GO:0010960)
0.0 3.2 GO:0008360 regulation of cell shape(GO:0008360)
0.0 2.7 GO:0006006 glucose metabolic process(GO:0006006)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.8 2.4 GO:1990421 subtelomeric heterochromatin(GO:1990421) nuclear subtelomeric heterochromatin(GO:1990707)
0.4 6.1 GO:0043240 Fanconi anaemia nuclear complex(GO:0043240)
0.2 2.0 GO:0097442 CA3 pyramidal cell dendrite(GO:0097442)
0.1 4.8 GO:0030673 axolemma(GO:0030673)
0.1 3.3 GO:0005790 smooth endoplasmic reticulum(GO:0005790)
0.1 1.7 GO:0031091 platelet alpha granule(GO:0031091)
0.0 4.0 GO:0044291 cell-cell contact zone(GO:0044291)
0.0 0.8 GO:0035327 transcriptionally active chromatin(GO:0035327)
0.0 2.6 GO:0042734 presynaptic membrane(GO:0042734)
0.0 0.2 GO:0071564 npBAF complex(GO:0071564)
0.0 1.7 GO:0090575 RNA polymerase II transcription factor complex(GO:0090575)
0.0 0.9 GO:0005793 endoplasmic reticulum-Golgi intermediate compartment(GO:0005793)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.5 2.7 GO:0004614 phosphoglucomutase activity(GO:0004614)
0.5 2.4 GO:0015616 DNA translocase activity(GO:0015616)
0.4 4.8 GO:0008046 axon guidance receptor activity(GO:0008046)
0.3 0.8 GO:0000991 transcription factor activity, core RNA polymerase II binding(GO:0000991)
0.2 0.9 GO:0010858 calcium-dependent protein kinase regulator activity(GO:0010858)
0.1 0.7 GO:0009019 tRNA (guanine-N1-)-methyltransferase activity(GO:0009019)
0.1 2.6 GO:0015643 toxic substance binding(GO:0015643)
0.1 2.0 GO:0008195 phosphatidate phosphatase activity(GO:0008195)
0.1 1.7 GO:0035497 cAMP response element binding(GO:0035497)
0.1 2.0 GO:0002162 dystroglycan binding(GO:0002162)
0.0 3.2 GO:0001948 glycoprotein binding(GO:0001948)
0.0 1.7 GO:0005507 copper ion binding(GO:0005507)
0.0 1.0 GO:0035064 methylated histone binding(GO:0035064)
0.0 0.1 GO:0031849 olfactory receptor binding(GO:0031849)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 6.1 PID FANCONI PATHWAY Fanconi anemia pathway
0.1 3.2 PID HEDGEHOG GLI PATHWAY Hedgehog signaling events mediated by Gli proteins
0.0 0.9 PID TOLL ENDOGENOUS PATHWAY Endogenous TLR signaling
0.0 2.0 PID LKB1 PATHWAY LKB1 signaling events
0.0 1.1 NABA PROTEOGLYCANS Genes encoding proteoglycans

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 6.1 REACTOME FANCONI ANEMIA PATHWAY Genes involved in Fanconi Anemia pathway
0.1 2.0 REACTOME SYNTHESIS OF PE Genes involved in Synthesis of PE
0.1 2.7 REACTOME GLYCOGEN BREAKDOWN GLYCOGENOLYSIS Genes involved in Glycogen breakdown (glycogenolysis)
0.1 4.8 REACTOME SIGNALING BY ROBO RECEPTOR Genes involved in Signaling by Robo receptor
0.1 1.8 REACTOME TRAF6 MEDIATED IRF7 ACTIVATION Genes involved in TRAF6 mediated IRF7 activation
0.1 0.9 REACTOME APOPTOSIS INDUCED DNA FRAGMENTATION Genes involved in Apoptosis induced DNA fragmentation
0.1 1.1 REACTOME KERATAN SULFATE DEGRADATION Genes involved in Keratan sulfate degradation
0.1 1.7 REACTOME MYOGENESIS Genes involved in Myogenesis
0.0 0.3 REACTOME COMMON PATHWAY Genes involved in Common Pathway