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GSE53960: rat RNA-Seq transcriptomic Bodymap

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Results for Foxn1

Z-value: 0.27

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Transcription factors associated with Foxn1

Gene Symbol Gene ID Gene Info
Foxn1
ENSRNOG00000010870 forkhead box N1

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
Foxn1rn6_v1_chr10_-_65634666_656346660.099.3e-02Click!

Activity profile of Foxn1 motif

Sorted Z-values of Foxn1 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr8_-_36760742 9.28 ENSRNOT00000017307
Ddx25
DEAD-box helicase 25
chr7_-_70552897 8.56 ENSRNOT00000080594
Kif5a
kinesin family member 5A
chr1_-_143647124 5.18 ENSRNOT00000026595
Btbd1
BTB domain containing 1
chr9_-_114619711 5.00 ENSRNOT00000050012
Mtcl1
microtubule crosslinking factor 1
chr2_+_4195917 4.35 ENSRNOT00000093303
RGD1560883
similar to KIAA0825 protein
chr6_+_109939345 3.77 ENSRNOT00000013560
Ift43
intraflagellar transport 43
chr2_-_4195810 3.76 ENSRNOT00000018457
Slf1
SMC5-SMC6 complex localization factor 1
chr13_+_96303703 3.75 ENSRNOT00000084718
ENSRNOT00000029723
Efcab2
EF-hand calcium binding domain 2
chr18_+_55797198 3.66 ENSRNOT00000026334
ENSRNOT00000026394
Dctn4
dynactin subunit 4
chr20_-_6500523 3.52 ENSRNOT00000000629
Cpne5
copine 5
chr1_-_255557055 2.84 ENSRNOT00000033780
Fgfbp3
fibroblast growth factor binding protein 3
chr1_-_165382216 2.81 ENSRNOT00000023648
Ppme1
protein phosphatase methylesterase 1
chr1_-_220165678 2.56 ENSRNOT00000026915
Bbs1
Bardet-Biedl syndrome 1
chr5_-_156811650 2.31 ENSRNOT00000068065
Fam43b
family with sequence similarity 43, member B
chr5_+_140538260 2.31 ENSRNOT00000017998
Ppt1
palmitoyl-protein thioesterase 1
chr7_+_123102493 2.18 ENSRNOT00000038612
Aco2
aconitase 2
chr10_+_85301875 2.14 ENSRNOT00000080935
Socs7
suppressor of cytokine signaling 7
chr8_-_50277797 2.13 ENSRNOT00000082508
Pafah1b2
platelet-activating factor acetylhydrolase 1b, catalytic subunit 2
chr8_-_70215719 2.01 ENSRNOT00000015598
Rab11a
RAB11a, member RAS oncogene family
chr13_-_79801112 1.93 ENSRNOT00000087323
ENSRNOT00000036483
Suco
SUN domain containing ossification factor
chr1_+_265904566 1.73 ENSRNOT00000086041
ENSRNOT00000036156
Gbf1
golgi brefeldin A resistant guanine nucleotide exchange factor 1
chr13_-_79801368 1.69 ENSRNOT00000075998
ENSRNOT00000084058
Suco
SUN domain containing ossification factor
chr16_-_20486707 1.61 ENSRNOT00000026470
Jund
JunD proto-oncogene, AP-1 transcription factor subunit
chr4_-_58195143 1.59 ENSRNOT00000033706
Copg2
coatomer protein complex, subunit gamma 2
chr8_-_114892910 1.39 ENSRNOT00000074934
Ppm1m
protein phosphatase, Mg2+/Mn2+ dependent, 1M
chr10_-_56850085 1.38 ENSRNOT00000025767
Rnasek
ribonuclease K
chr13_-_79801561 1.34 ENSRNOT00000075936
Suco
SUN domain containing ossification factor
chr6_+_10533151 1.18 ENSRNOT00000020822
Rhoq
ras homolog family member Q
chr10_-_88645364 0.74 ENSRNOT00000030344
Rab5c
RAB5C, member RAS oncogene family
chr12_+_47074200 0.73 ENSRNOT00000014910
Dynll1
dynein light chain LC8-type 1
chr9_+_102862890 0.64 ENSRNOT00000050494
ENSRNOT00000080129
Fam174a
family with sequence similarity 174, member A
chr19_-_24831500 0.52 ENSRNOT00000005770
Pkn1
protein kinase N1
chr3_+_11424099 0.48 ENSRNOT00000019184
Ptges2
prostaglandin E synthase 2
chr19_-_26094756 0.42 ENSRNOT00000067780
Junb
JunB proto-oncogene, AP-1 transcription factor subunit
chr14_+_82093837 0.35 ENSRNOT00000021593
Nelfa
negative elongation factor complex member A
chr3_+_101156212 0.19 ENSRNOT00000065333
Ccdc34
coiled-coil domain containing 34
chr5_+_156810991 0.13 ENSRNOT00000055904
AABR07050222.1

chr13_-_26768708 0.10 ENSRNOT00000092763
Bcl2
BCL2, apoptosis regulator
chr6_-_2729394 0.07 ENSRNOT00000009175
Hnrnpll
heterogeneous nuclear ribonucleoprotein L-like

Network of associatons between targets according to the STRING database.

First level regulatory network of Foxn1

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
2.9 8.6 GO:0098971 anterograde dendritic transport of neurotransmitter receptor complex(GO:0098971)
1.3 3.8 GO:1990166 protein localization to site of double-strand break(GO:1990166)
1.0 5.0 GO:2000574 regulation of microtubule motor activity(GO:2000574)
0.9 2.6 GO:0008594 photoreceptor cell morphogenesis(GO:0008594)
0.7 2.0 GO:0036258 regulation of multivesicular body size(GO:0010796) multivesicular body assembly(GO:0036258)
0.6 1.7 GO:0035964 COPI-coated vesicle budding(GO:0035964)
0.6 2.3 GO:0002084 protein depalmitoylation(GO:0002084)
0.4 4.5 GO:0035721 intraciliary retrograde transport(GO:0035721)
0.4 2.8 GO:0045743 positive regulation of fibroblast growth factor receptor signaling pathway(GO:0045743)
0.4 2.2 GO:0006102 isocitrate metabolic process(GO:0006102)
0.3 3.7 GO:0007097 nuclear migration(GO:0007097)
0.2 2.1 GO:0021942 radial glia guided migration of Purkinje cell(GO:0021942)
0.2 9.3 GO:0010501 RNA secondary structure unwinding(GO:0010501)
0.2 5.0 GO:0032967 positive regulation of collagen biosynthetic process(GO:0032967)
0.1 3.5 GO:1903861 positive regulation of dendrite extension(GO:1903861)
0.1 0.7 GO:0048227 plasma membrane to endosome transport(GO:0048227)
0.1 2.8 GO:0008214 protein demethylation(GO:0006482) protein dealkylation(GO:0008214)
0.1 0.5 GO:0002634 regulation of germinal center formation(GO:0002634) histone-threonine phosphorylation(GO:0035405)
0.1 1.6 GO:0002076 osteoblast development(GO:0002076)
0.1 1.2 GO:0090005 negative regulation of establishment of protein localization to plasma membrane(GO:0090005)
0.0 0.4 GO:0060136 embryonic process involved in female pregnancy(GO:0060136)
0.0 1.6 GO:0006891 intra-Golgi vesicle-mediated transport(GO:0006891)
0.0 1.4 GO:0009303 rRNA transcription(GO:0009303)
0.0 0.4 GO:0034244 negative regulation of transcription elongation from RNA polymerase II promoter(GO:0034244)
0.0 0.1 GO:0006808 regulation of nitrogen utilization(GO:0006808) nitrogen utilization(GO:0019740) negative regulation of retinal cell programmed cell death(GO:0046671)
0.0 5.2 GO:0042787 protein ubiquitination involved in ubiquitin-dependent protein catabolic process(GO:0042787)
0.0 1.4 GO:0016239 positive regulation of macroautophagy(GO:0016239)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
1.3 5.0 GO:0097427 microtubule bundle(GO:0097427)
0.6 8.6 GO:0035253 ciliary rootlet(GO:0035253)
0.5 3.8 GO:0030991 intraciliary transport particle A(GO:0030991)
0.5 9.3 GO:0033391 chromatoid body(GO:0033391)
0.5 3.7 GO:0005869 dynactin complex(GO:0005869)
0.4 2.0 GO:0035976 AP1 complex(GO:0035976)
0.3 3.8 GO:0042405 nuclear inclusion body(GO:0042405)
0.3 2.6 GO:0034464 BBSome(GO:0034464)
0.2 2.0 GO:0005828 kinetochore microtubule(GO:0005828)
0.2 5.0 GO:0030867 rough endoplasmic reticulum membrane(GO:0030867)
0.1 1.6 GO:0030126 COPI vesicle coat(GO:0030126)
0.1 0.4 GO:0032021 NELF complex(GO:0032021)
0.1 5.2 GO:0019005 SCF ubiquitin ligase complex(GO:0019005)
0.0 1.7 GO:0005801 cis-Golgi network(GO:0005801)
0.0 0.7 GO:0005868 cytoplasmic dynein complex(GO:0005868)
0.0 2.1 GO:0001650 fibrillar center(GO:0001650)
0.0 0.5 GO:0097610 cleavage furrow(GO:0032154) cell surface furrow(GO:0097610)
0.0 0.7 GO:0005811 lipid particle(GO:0005811)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.9 2.6 GO:0005119 smoothened binding(GO:0005119)
0.7 2.2 GO:0051538 3 iron, 4 sulfur cluster binding(GO:0051538)
0.5 8.6 GO:0008574 ATP-dependent microtubule motor activity, plus-end-directed(GO:0008574)
0.5 2.1 GO:0047179 platelet-activating factor acetyltransferase activity(GO:0047179)
0.4 1.2 GO:0032427 GBD domain binding(GO:0032427)
0.3 2.3 GO:0008474 palmitoyl-(protein) hydrolase activity(GO:0008474) palmitoyl hydrolase activity(GO:0098599)
0.2 1.4 GO:0008420 CTD phosphatase activity(GO:0008420)
0.2 0.5 GO:0050220 prostaglandin-E synthase activity(GO:0050220)
0.1 9.3 GO:0004004 RNA helicase activity(GO:0003724) ATP-dependent RNA helicase activity(GO:0004004)
0.1 2.8 GO:0017134 fibroblast growth factor binding(GO:0017134)
0.1 0.7 GO:0045505 dynein intermediate chain binding(GO:0045505)
0.1 2.0 GO:0031489 myosin V binding(GO:0031489)
0.1 1.7 GO:0080025 phosphatidylinositol-3,5-bisphosphate binding(GO:0080025)
0.1 1.6 GO:0016922 ligand-dependent nuclear receptor binding(GO:0016922)
0.1 0.5 GO:0035184 histone threonine kinase activity(GO:0035184)
0.1 2.9 GO:0051721 protein phosphatase 2A binding(GO:0051721)
0.0 1.4 GO:0004521 endoribonuclease activity(GO:0004521)
0.0 3.7 GO:0047485 protein N-terminus binding(GO:0047485)
0.0 5.0 GO:0008017 microtubule binding(GO:0008017)
0.0 0.7 GO:0019003 GDP binding(GO:0019003)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 2.0 PID ARF6 DOWNSTREAM PATHWAY Arf6 downstream pathway
0.1 1.7 PID ARF 3PATHWAY Arf1 pathway
0.1 2.1 PID LIS1 PATHWAY Lissencephaly gene (LIS1) in neuronal migration and development
0.0 2.0 PID FRA PATHWAY Validated transcriptional targets of AP1 family members Fra1 and Fra2
0.0 0.5 PID P38 GAMMA DELTA PATHWAY Signaling mediated by p38-gamma and p38-delta
0.0 1.2 PID INSULIN GLUCOSE PATHWAY Insulin-mediated glucose transport
0.0 0.5 PID IFNG PATHWAY IFN-gamma pathway

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 8.6 REACTOME KINESINS Genes involved in Kinesins
0.1 1.7 REACTOME COPI MEDIATED TRANSPORT Genes involved in COPI Mediated Transport
0.1 2.2 REACTOME CITRIC ACID CYCLE TCA CYCLE Genes involved in Citric acid cycle (TCA cycle)
0.1 4.4 REACTOME MHC CLASS II ANTIGEN PRESENTATION Genes involved in MHC class II antigen presentation
0.0 2.0 REACTOME REGULATION OF WATER BALANCE BY RENAL AQUAPORINS Genes involved in Regulation of Water Balance by Renal Aquaporins
0.0 0.7 REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS Genes involved in Golgi Associated Vesicle Biogenesis
0.0 0.4 REACTOME SMAD2 SMAD3 SMAD4 HETEROTRIMER REGULATES TRANSCRIPTION Genes involved in SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription