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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Hmx3

Z-value: 0.34

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Transcription factors associated with Hmx3

Gene Symbol Gene ID Gene Info
Hmx3
ENSRNOG00000020637 H6 family homeobox 3

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Hmx3rn6_v1_chr1_+_203509731_203509731-0.164.0e-03Click!

Activity profile of Hmx3 motif

Sorted Z-values of Hmx3 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr7_-_118108864 11.61 ENSRNOT00000006184
Mb
myoglobin
chr2_-_138833933 10.96 ENSRNOT00000013343
Pcdh18
protocadherin 18
chrX_-_23139694 7.29 ENSRNOT00000033656
Pfkfb1
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1
chr7_+_143122269 5.92 ENSRNOT00000082542
ENSRNOT00000045495
ENSRNOT00000081386
ENSRNOT00000067422
Krt86
keratin 86
chr6_+_73553210 5.39 ENSRNOT00000006562
Akap6
A-kinase anchoring protein 6
chrX_+_105500173 4.55 ENSRNOT00000040476
Armcx4
armadillo repeat containing, X-linked 4
chr6_-_106971250 4.45 ENSRNOT00000010926
Dpf3
double PHD fingers 3
chr12_+_12738812 4.02 ENSRNOT00000092233
ENSRNOT00000001379
Aimp2
aminoacyl tRNA synthetase complex-interacting multifunctional protein 2
chr3_+_61620192 3.87 ENSRNOT00000065426
Hoxd9
homeo box D9
chr2_+_188745503 3.86 ENSRNOT00000056652
Shc1
SHC adaptor protein 1
chr3_+_44025300 3.82 ENSRNOT00000006319
Galnt5
polypeptide N-acetylgalactosaminyltransferase 5
chr17_-_78735324 3.61 ENSRNOT00000036299
Cdnf
cerebral dopamine neurotrophic factor
chrX_+_78042859 3.61 ENSRNOT00000003286
Lpar4
lysophosphatidic acid receptor 4
chr2_+_58724855 3.60 ENSRNOT00000089609
Capsl
calcyphosine-like
chr10_+_56445647 3.32 ENSRNOT00000056870
Tmem256
transmembrane protein 256
chrX_+_6273733 3.28 ENSRNOT00000074275
Ndp
NDP, norrin cystine knot growth factor
chr11_-_59110562 2.80 ENSRNOT00000047907
ENSRNOT00000042024
Lsamp
limbic system-associated membrane protein
chr2_-_188745144 2.54 ENSRNOT00000055533
Cks1b
CDC28 protein kinase regulatory subunit 1B
chrX_+_110789269 2.44 ENSRNOT00000086014
Rnf128
ring finger protein 128, E3 ubiquitin protein ligase
chr7_-_143167772 2.10 ENSRNOT00000011374
Krt85
keratin 85
chrM_+_9451 2.01 ENSRNOT00000041241
Mt-nd3
mitochondrially encoded NADH dehydrogenase 3
chr8_+_22967054 1.74 ENSRNOT00000090202
Swsap1
SWIM-type zinc finger 7 associated protein 1
chr11_-_29710849 1.67 ENSRNOT00000029345
Krtap11-1
keratin associated protein 11-1
chr9_-_100306194 1.28 ENSRNOT00000087584
RGD1563692
similar to hypothetical protein FLJ22671
chr1_-_64147251 1.15 ENSRNOT00000088502
Cnot3
CCR4-NOT transcription complex, subunit 3
chr2_+_51672722 1.03 ENSRNOT00000016485
Fgf10
fibroblast growth factor 10
chr8_+_20213109 0.75 ENSRNOT00000047442
Olr1164
olfactory receptor 1164
chr2_+_189609800 0.73 ENSRNOT00000089016
Slc39a1
solute carrier family 39 member 1
chr20_+_46519431 0.55 ENSRNOT00000077765
AABR07045405.1

chr4_-_66955732 0.51 ENSRNOT00000084282
Kdm7a
lysine (K)-specific demethylase 7A
chr6_-_128149220 0.50 ENSRNOT00000014204
Gsc
goosecoid homeobox
chr9_+_40817654 0.39 ENSRNOT00000037392
AABR07067339.1

chr1_+_261180007 0.28 ENSRNOT00000072181
Zdhhc16
zinc finger, DHHC-type containing 16
chr12_-_12738620 0.24 ENSRNOT00000078603
ENSRNOT00000067021
Pms2
PMS1 homolog 2, mismatch repair system component
chr4_-_1686845 0.10 ENSRNOT00000073139
LOC100912507
olfactory receptor 8B3-like
chr4_+_1658278 0.10 ENSRNOT00000073845
Olr1250
olfactory receptor 1250
chr6_+_8219385 0.09 ENSRNOT00000040509
Ppm1b
protein phosphatase, Mg2+/Mn2+ dependent, 1B
chr13_-_111972603 0.04 ENSRNOT00000007870
Hsd11b1
hydroxysteroid 11-beta dehydrogenase 1

Network of associatons between targets according to the STRING database.

First level regulatory network of Hmx3

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
3.9 11.6 GO:0031444 slow-twitch skeletal muscle fiber contraction(GO:0031444)
1.3 5.4 GO:1902261 positive regulation of delayed rectifier potassium channel activity(GO:1902261)
1.3 4.0 GO:1903630 regulation of aminoacyl-tRNA ligase activity(GO:1903630)
0.9 7.3 GO:0033133 positive regulation of glucokinase activity(GO:0033133)
0.5 3.3 GO:0035426 extracellular matrix-cell signaling(GO:0035426)
0.3 1.0 GO:0071338 mammary gland bud morphogenesis(GO:0060648) submandibular salivary gland formation(GO:0060661) positive regulation of hair follicle cell proliferation(GO:0071338)
0.3 3.9 GO:0048935 peripheral nervous system neuron differentiation(GO:0048934) peripheral nervous system neuron development(GO:0048935)
0.1 2.8 GO:0035641 locomotory exploration behavior(GO:0035641)
0.1 3.6 GO:0035025 positive regulation of Rho protein signal transduction(GO:0035025)
0.1 0.5 GO:0071557 histone H3-K27 demethylation(GO:0071557)
0.1 2.0 GO:0009642 response to light intensity(GO:0009642)
0.1 2.4 GO:0042036 negative regulation of cytokine biosynthetic process(GO:0042036)
0.1 3.6 GO:0071542 dopaminergic neuron differentiation(GO:0071542)
0.1 3.9 GO:0045907 positive regulation of vasoconstriction(GO:0045907)
0.1 2.5 GO:0045737 positive regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0045737)
0.1 9.0 GO:0007156 homophilic cell adhesion via plasma membrane adhesion molecules(GO:0007156)
0.1 0.5 GO:0014029 neural crest formation(GO:0014029)
0.0 1.1 GO:0001829 trophectodermal cell differentiation(GO:0001829)
0.0 0.7 GO:0071577 zinc II ion transmembrane transport(GO:0071577)
0.0 0.2 GO:0016446 somatic hypermutation of immunoglobulin genes(GO:0016446)
0.0 0.1 GO:0006499 N-terminal protein myristoylation(GO:0006499)
0.0 3.8 GO:0043413 protein glycosylation(GO:0006486) macromolecule glycosylation(GO:0043413)
0.0 1.7 GO:0000724 double-strand break repair via homologous recombination(GO:0000724)
0.0 0.0 GO:0006713 glucocorticoid catabolic process(GO:0006713)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
1.8 5.4 GO:0014701 junctional sarcoplasmic reticulum membrane(GO:0014701)
0.4 1.7 GO:0097196 Shu complex(GO:0097196)
0.3 4.0 GO:0017101 aminoacyl-tRNA synthetase multienzyme complex(GO:0017101)
0.3 4.4 GO:0071565 nBAF complex(GO:0071565)
0.2 1.1 GO:0030015 CCR4-NOT core complex(GO:0030015)
0.1 9.7 GO:0045095 keratin filament(GO:0045095)
0.1 2.5 GO:0000307 cyclin-dependent protein kinase holoenzyme complex(GO:0000307)
0.0 0.2 GO:0032389 MutLalpha complex(GO:0032389)
0.0 2.0 GO:0030964 mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.0 7.3 GO:0061695 transferase complex, transferring phosphorus-containing groups(GO:0061695)
0.0 2.8 GO:0031225 anchored component of membrane(GO:0031225)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
1.0 7.3 GO:0070095 fructose-6-phosphate binding(GO:0070095)
1.0 3.9 GO:0048408 epidermal growth factor binding(GO:0048408)
0.9 3.6 GO:0070915 lysophosphatidic acid binding(GO:0035727) lysophosphatidic acid receptor activity(GO:0070915)
0.8 11.6 GO:0005344 oxygen transporter activity(GO:0005344)
0.6 2.5 GO:0061575 cyclin-dependent protein serine/threonine kinase activator activity(GO:0061575)
0.6 5.4 GO:0043495 protein anchor(GO:0043495)
0.3 3.8 GO:0004653 polypeptide N-acetylgalactosaminyltransferase activity(GO:0004653)
0.2 1.0 GO:0005111 type 2 fibroblast growth factor receptor binding(GO:0005111)
0.1 0.5 GO:0071558 histone demethylase activity (H3-K27 specific)(GO:0071558)
0.1 3.3 GO:0005109 frizzled binding(GO:0005109)
0.1 2.0 GO:0050136 NADH dehydrogenase (ubiquinone) activity(GO:0008137) NADH dehydrogenase (quinone) activity(GO:0050136)
0.1 0.2 GO:0032138 single base insertion or deletion binding(GO:0032138)
0.1 4.0 GO:0032947 protein complex scaffold(GO:0032947)
0.0 3.6 GO:0008083 growth factor activity(GO:0008083)
0.0 4.4 GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001227)
0.0 12.6 GO:0005509 calcium ion binding(GO:0005509)
0.0 0.0 GO:0003845 11-beta-hydroxysteroid dehydrogenase [NAD(P)] activity(GO:0003845)
0.0 2.4 GO:0061630 ubiquitin protein ligase activity(GO:0061630)
0.0 7.0 GO:0005198 structural molecule activity(GO:0005198)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.2 3.9 SA PTEN PATHWAY PTEN is a tumor suppressor that dephosphorylates the lipid messenger phosphatidylinositol triphosphate.
0.2 3.6 PID LPA4 PATHWAY LPA4-mediated signaling events
0.0 2.4 PID NFAT TFPATHWAY Calcineurin-regulated NFAT-dependent transcription in lymphocytes

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 3.6 REACTOME P2Y RECEPTORS Genes involved in P2Y receptors
0.3 3.9 REACTOME SIGNAL ATTENUATION Genes involved in Signal attenuation
0.2 7.3 REACTOME GLYCOLYSIS Genes involved in Glycolysis
0.1 4.0 REACTOME CYTOSOLIC TRNA AMINOACYLATION Genes involved in Cytosolic tRNA aminoacylation
0.1 3.8 REACTOME O LINKED GLYCOSYLATION OF MUCINS Genes involved in O-linked glycosylation of mucins
0.1 1.0 REACTOME FGFR1 LIGAND BINDING AND ACTIVATION Genes involved in FGFR1 ligand binding and activation
0.1 2.5 REACTOME G1 PHASE Genes involved in G1 Phase
0.0 1.1 REACTOME DEADENYLATION OF MRNA Genes involved in Deadenylation of mRNA
0.0 0.7 REACTOME ZINC TRANSPORTERS Genes involved in Zinc transporters