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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for rxrbb

Z-value: 0.46

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Transcription factors associated with rxrbb

Gene Symbol Gene ID Gene Info
ENSDARG00000002006 retinoid x receptor, beta b
ENSDARG00000117079 retinoid x receptor, beta b

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
rxrbbdr11_v1_chr16_+_18535618_185356180.719.8e-04Click!

Activity profile of rxrbb motif

Sorted Z-values of rxrbb motif

Promoter Log-likelihood Transcript Gene Gene Info
chr8_+_1009831 0.99 ENSDART00000172414
fatty acid binding protein 1b, liver, tandem duplicate 2
chr13_-_4018888 0.58 ENSDART00000058238
tight junction associated protein 1 (peripheral)
chr25_+_20119466 0.52 ENSDART00000104304
2,3-bisphosphoglycerate mutase
chr2_-_57076687 0.50 ENSDART00000161523
solute carrier family 25, member 42
chr4_-_858434 0.48 ENSDART00000006961
sine oculis binding protein homolog (Drosophila) b
chr5_-_32890807 0.47 ENSDART00000007512
polymerase (DNA directed), epsilon 3 (p17 subunit)
chr18_+_27515640 0.42 ENSDART00000181593
tumor protein p53 inducible protein 11b
chr9_+_22782027 0.42 ENSDART00000090816
replication timing regulatory factor 1
chr23_-_45504991 0.40 ENSDART00000148761
collagen type XXIV alpha 1
chr2_-_22659450 0.40 ENSDART00000115025
THAP domain containing 4
chr23_-_42810664 0.39 ENSDART00000102328
6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2a
chr19_+_3056450 0.39 ENSDART00000141324
ENSDART00000082353
heat shock transcription factor 1
chr22_-_20950448 0.37 ENSDART00000002029
FK506 binding protein 8
chr21_+_1119046 0.36 ENSDART00000184678

chr24_+_39034090 0.36 ENSDART00000185763
calpain 15
chr18_-_158541 0.36 ENSDART00000188914
ENSDART00000191052
transient receptor potential cation channel, subfamily M, member 7
chr9_+_34380299 0.35 ENSDART00000131705
lysosomal-associated membrane protein 1
chr7_+_7495034 0.35 ENSDART00000102629
ENSDART00000180475
nitrilase 1
chr25_+_418932 0.34 ENSDART00000059193
protogenin homolog b (Gallus gallus)
chr22_-_3595439 0.31 ENSDART00000083308
protein tyrosine phosphatase, receptor type, s, a
chr12_-_33568174 0.31 ENSDART00000142329
tudor and KH domain containing
chr5_-_27994679 0.31 ENSDART00000132740
protein phosphatase 3, catalytic subunit, gamma isozyme, a
chr22_-_38274188 0.31 ENSDART00000139420
ENSDART00000015117
ELAV like neuron-specific RNA binding protein 2
chr9_-_29579908 0.31 ENSDART00000140876
centromere protein J
chr6_+_60055168 0.30 ENSDART00000008752
phosphoenolpyruvate carboxykinase 1 (soluble)
chr5_-_33255759 0.28 ENSDART00000085531
protein kinase, AMP-activated, alpha 1 catalytic subunit
chr20_-_53078607 0.27 ENSDART00000163494
ENSDART00000191730

chr6_-_11523987 0.27 ENSDART00000189363
GULP, engulfment adaptor PTB domain containing 1b
chr8_-_8698607 0.27 ENSDART00000046712
zgc:86609
chr24_-_7587401 0.27 ENSDART00000093163
UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 11 (GalNAc-T11)
chr2_-_22660232 0.26 ENSDART00000174742
THAP domain containing 4
chr2_-_57110477 0.25 ENSDART00000181132
solute carrier family 25, member 42
chr25_+_18587338 0.25 ENSDART00000180287
MET proto-oncogene, receptor tyrosine kinase
chr17_+_45737992 0.25 ENSDART00000135073
ENSDART00000143525
ENSDART00000158165
ENSDART00000184167
ENSDART00000109525
asparaginase homolog (S. cerevisiae)
chr3_-_34561624 0.24 ENSDART00000129313
septin 9a
chr7_+_25000060 0.23 ENSDART00000039265
ENSDART00000141814
N(alpha)-acetyltransferase 40, NatD catalytic subunit, homolog (S. cerevisiae)
chr14_+_30413312 0.22 ENSDART00000186864
CCR4-NOT transcription complex, subunit 7
chr16_-_29146624 0.20 ENSDART00000159814
ENSDART00000009826
myocyte enhancer factor 2d
chr10_+_589501 0.20 ENSDART00000188415

chr22_-_10752471 0.20 ENSDART00000081191
SAS-6 centriolar assembly protein
chr2_-_8102169 0.19 ENSDART00000131955
plastin 1 (I isoform)
chr23_+_30730121 0.18 ENSDART00000134141
additional sex combs like transcriptional regulator 1
chr13_-_37127970 0.18 ENSDART00000135510
spectrin repeat containing, nuclear envelope 2b
chr3_+_301479 0.18 ENSDART00000165169

chr4_-_75172216 0.18 ENSDART00000127522
N(alpha)-acetyltransferase 40, NatD catalytic subunit, homolog (S. cerevisiae)
chr22_+_10752511 0.17 ENSDART00000081188
LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated
chr22_+_10752787 0.17 ENSDART00000186542
LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated
chr5_+_38276582 0.16 ENSDART00000158532
guanine nucleotide binding protein (G protein), beta polypeptide 2
chr16_+_28601974 0.16 ENSDART00000018235
carnitine O-octanoyltransferase
chr1_-_58868306 0.15 ENSDART00000166615
dynamin 2b
chr19_+_2631565 0.15 ENSDART00000171487
family with sequence similarity 126, member A
chr24_-_1021318 0.15 ENSDART00000181403
v-ral simian leukemia viral oncogene homolog Aa (ras related)
chr3_+_27770110 0.14 ENSDART00000017962
enoyl-CoA delta isomerase 1
chr11_-_11910225 0.14 ENSDART00000159922
si:ch211-69b7.6
chr1_+_12195700 0.14 ENSDART00000040307
tudor domain containing 7 a
chr12_+_17439580 0.13 ENSDART00000189257
ATPase family, AAA domain containing 1b
chr24_+_39137001 0.13 ENSDART00000181086
ENSDART00000183724
ENSDART00000193466
TBC1 domain family, member 24
chr15_+_47386939 0.13 ENSDART00000128224

chr2_-_7696503 0.13 ENSDART00000169709

chr24_-_29586082 0.13 ENSDART00000136763
vav 3 guanine nucleotide exchange factor a
chr3_-_18792492 0.12 ENSDART00000134208
ENSDART00000034373
hydroxyacylglutathione hydrolase
chr12_+_19958845 0.12 ENSDART00000193248
excision repair cross-complementation group 4
chr15_+_47618221 0.12 ENSDART00000168722
PAF1 homolog, Paf1/RNA polymerase II complex component
chr5_-_3885727 0.12 ENSDART00000143250
MLX interacting protein like
chr8_+_999421 0.12 ENSDART00000149528
fatty acid binding protein 1b, tandem duplicate 1
chr18_-_48550426 0.11 ENSDART00000145189
potassium inwardly-rectifying channel, subfamily J, member 1a, tandem duplicate 1
chr5_-_56416188 0.11 ENSDART00000146773
acetyl-CoA carboxylase alpha
chr11_-_19775182 0.11 ENSDART00000037894
nicotinamide phosphoribosyltransferase b
chr24_-_25186895 0.11 ENSDART00000081029
phosphatidylinositol-specific phospholipase C, X domain containing 2
chr24_+_81527 0.11 ENSDART00000192139
reversion-inducing-cysteine-rich protein with kazal motifs
chr16_-_24612871 0.11 ENSDART00000155614
ENSDART00000154787
ENSDART00000155983
ENSDART00000156519
FXYD domain containing ion transport regulator 6 like
chr11_-_42230491 0.10 ENSDART00000164423

chr23_+_28377360 0.10 ENSDART00000014983
ENSDART00000128831
ENSDART00000135178
ENSDART00000138621
zgc:153867
chr13_-_41546779 0.10 ENSDART00000163331
protocadherin-related 15a
chr21_-_37435162 0.10 ENSDART00000133585
family with sequence similarity 114, member A2
chr16_+_23913943 0.10 ENSDART00000175404
ENSDART00000129525
apolipoprotein A-IV b, tandem duplicate 1
chr16_+_28602423 0.09 ENSDART00000182350
carnitine O-octanoyltransferase
chr25_-_31118923 0.09 ENSDART00000009126
ENSDART00000188286
v-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog
chr18_+_30441740 0.08 ENSDART00000189074
Gse1 coiled-coil protein
chr25_+_31238606 0.08 ENSDART00000149439
troponin I type 2a (skeletal, fast), tandem duplicate 2
chr6_+_39930825 0.08 ENSDART00000182352
ENSDART00000186643
ENSDART00000190513
ENSDART00000065092
ENSDART00000188645
inositol 1,4,5-trisphosphate receptor, type 1a
chr12_+_1286642 0.08 ENSDART00000157467
phosphatidylethanolamine N-methyltransferase
chr18_+_25546227 0.08 ENSDART00000085824
peroxisomal biogenesis factor 11 alpha
chr18_-_16801033 0.07 ENSDART00000100100
adrenomedullin b
chr20_-_26937453 0.07 ENSDART00000139756
finTRIM family, member 97
chr7_-_24046999 0.07 ENSDART00000144616
ENSDART00000124653
ENSDART00000127813
dehydrogenase/reductase (SDR family) member 4
chr8_-_979735 0.07 ENSDART00000149612
zinc finger protein 366
chr1_-_8691969 0.07 ENSDART00000152153
ATP-binding cassette, sub-family G (WHITE), member 2b
chr19_+_177455 0.06 ENSDART00000111580
transmembrane protein 65
chr3_-_41292275 0.06 ENSDART00000144088
sidekick cell adhesion molecule 1a
chr4_+_47656992 0.06 ENSDART00000161148
zinc finger protein 1040
chr6_+_1787160 0.06 ENSDART00000113505
myosin, light chain 9b, regulatory
chr4_+_2655358 0.06 ENSDART00000007638
B cell receptor associated protein 29
chr20_+_27519429 0.05 ENSDART00000136251
kinesin family member 26Aa
chr7_-_38633867 0.05 ENSDART00000137424
C1q and TNF related 4
chr11_-_23332592 0.05 ENSDART00000125024
golgi transport 1A
chr14_-_13048355 0.05 ENSDART00000166434
si:dkey-35h6.1
chr11_+_11201096 0.05 ENSDART00000171916
ENSDART00000171521
ENSDART00000087105
ENSDART00000159603
myomesin 2a
chr16_-_23797570 0.05 ENSDART00000077834
ribosomal protein S27, isoform 2
chr5_-_3839285 0.04 ENSDART00000122292
MLX interacting protein like
chr8_-_4097722 0.04 ENSDART00000135006
cut-like homeobox 2b
chr18_+_27926839 0.04 ENSDART00000191835
homeodomain interacting protein kinase 3b
chr1_+_58353661 0.04 ENSDART00000140074
si:dkey-222h21.2
chr16_+_54875530 0.03 ENSDART00000149795
nuclear receptor subfamily 0, group B, member 2a
chr2_-_32555625 0.03 ENSDART00000056641
ENSDART00000137531
SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3a
chr11_-_3571605 0.03 ENSDART00000167863
si:dkey-33m11.7
chr23_+_21405201 0.03 ENSDART00000144409
intermediate filament family orphan 2a
chr23_-_45319592 0.03 ENSDART00000189861
coiled-coil domain containing 171
chr17_-_20711735 0.03 ENSDART00000150056
ankyrin 3b
chr22_-_28668442 0.03 ENSDART00000182377
collagen, type VIII, alpha 1b
chr20_-_26936887 0.03 ENSDART00000160827
finTRIM family, member 79
chr7_-_8156169 0.03 ENSDART00000182960
ENSDART00000190184
ENSDART00000190885
ENSDART00000189867
ENSDART00000160836
si:cabz01030277.1
si:ch211-163c2.3
chr4_-_38421217 0.03 ENSDART00000164517
szinc finger protein 1092
chr8_+_36803415 0.03 ENSDART00000111680
IQ motif and Sec7 domain 2b
chr1_+_58303892 0.03 ENSDART00000147678

chr10_-_29892486 0.02 ENSDART00000099983
brain-specific homeobox
chr1_+_58182400 0.02 ENSDART00000144784
si:ch211-15j1.1
chr2_+_36112273 0.02 ENSDART00000191315
T-cell receptor alpha joining 35
chr1_+_58442694 0.02 ENSDART00000160897
zgc:194906
chr25_+_21829777 0.02 ENSDART00000027393
creatine kinase, mitochondrial 1
chr7_+_31871830 0.02 ENSDART00000139899
myosin binding protein C, cardiac
chr20_+_43379029 0.02 ENSDART00000142486
ENSDART00000186486
unc-93 homolog A
chr4_-_56157199 0.02 ENSDART00000169806
si:ch211-207e19.15
chr19_-_9867001 0.02 ENSDART00000091695
calcium channel, voltage-dependent, gamma subunit 7a
chr13_-_22843562 0.02 ENSDART00000142738
phenazine biosynthesis like protein domain containing
chr4_-_37587110 0.02 ENSDART00000169302
zinc finger protein 1100
chr17_-_25395395 0.02 ENSDART00000170233
family with sequence similarity 167, member B
chr1_+_58312680 0.02 ENSDART00000138007
si:dkey-222h21.10
chr13_+_28819768 0.02 ENSDART00000191401
ENSDART00000188895
ENSDART00000101653

chr23_-_44903048 0.02 ENSDART00000149103
FH2 domain containing 5
chr20_+_46286082 0.01 ENSDART00000073519
trace amine associated receptor 14f
chr4_+_37503994 0.01 ENSDART00000158217
zinc finger protein 1102
chr18_-_48492951 0.01 ENSDART00000146346
potassium inwardly-rectifying channel, subfamily J, member 1a, tandem duplicate 6
chr16_+_25809235 0.01 ENSDART00000181196
immunity-related GTPase family, q1
chr13_-_9318891 0.01 ENSDART00000137364
si:dkey-33c12.3
chr6_+_13206516 0.01 ENSDART00000036927
NADH dehydrogenase (ubiquinone) Fe-S protein 1
chr1_+_58119117 0.01 ENSDART00000146788
si:ch211-15j1.5
chr23_-_46040618 0.01 ENSDART00000161415

chr21_-_40015530 0.01 ENSDART00000084237
solute carrier family 47 (multidrug and toxin extrusion), member 2.1
chr19_+_19032141 0.01 ENSDART00000192432
copine IVb
chr1_+_58150000 0.01 ENSDART00000137836
si:ch211-15j1.3
chr4_+_45274792 0.01 ENSDART00000150295
zinc finger protein 1138
chr21_-_43992027 0.01 ENSDART00000188612
caudal type homeobox 1 b
chr13_-_37254777 0.01 ENSDART00000139734
spectrin repeat containing, nuclear envelope 2b
chr4_-_31064105 0.01 ENSDART00000157670
si:dkey-11n14.1
chr20_+_25581627 0.01 ENSDART00000030229
cytochrome P450, family 2, subfamily P, polypeptide 9
chr1_+_58139102 0.01 ENSDART00000134826
si:ch211-15j1.4
chr3_+_32553714 0.01 ENSDART00000165638
paired box 10
chr3_+_12710350 0.01 ENSDART00000157959
cytochrome P450, family 2, subfamily K, polypeptide 18
chr10_+_40629616 0.00 ENSDART00000147476

chr10_-_17745345 0.00 ENSDART00000132690
ENSDART00000135376
si:dkey-200l5.4
chr12_+_3848109 0.00 ENSDART00000144067
ENSDART00000192042
calcium binding protein 5a
chr6_+_60036767 0.00 ENSDART00000155009
transglutaminase 8
chr9_-_46382637 0.00 ENSDART00000085738
lactase
chr6_+_40775800 0.00 ENSDART00000085090
si:ch211-157b11.8
chr2_+_57801960 0.00 ENSDART00000147966
si:dkeyp-68b7.10
chr7_-_8014186 0.00 ENSDART00000190012
si:cabz01030277.1
chr16_-_47483142 0.00 ENSDART00000147072
collagen triple helix repeat containing 1b
chr9_-_44583167 0.00 ENSDART00000140689
ENSDART00000191842
phosphodiesterase 1A, calmodulin-dependent
chr7_+_34296789 0.00 ENSDART00000052471
ENSDART00000173798
ENSDART00000173778
butyrobetaine (gamma), 2-oxoglutarate dioxygenase (gamma-butyrobetaine hydroxylase) 1
chr9_+_35077546 0.00 ENSDART00000142688
si:dkey-192g7.3
chr22_+_21965148 0.00 ENSDART00000136020
si:ch211-207c7.2

Network of associatons between targets according to the STRING database.

First level regulatory network of rxrbb

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
0.1 0.4 GO:0010961 cellular magnesium ion homeostasis(GO:0010961)
0.1 0.5 GO:0006272 leading strand elongation(GO:0006272)
0.1 0.3 GO:0006114 glycerol biosynthetic process(GO:0006114) alditol biosynthetic process(GO:0019401) short-chain fatty acid catabolic process(GO:0019626) response to dexamethasone(GO:0071548)
0.1 0.4 GO:0038063 collagen-activated tyrosine kinase receptor signaling pathway(GO:0038063) collagen-activated signaling pathway(GO:0038065)
0.0 0.3 GO:0061511 centriole elongation(GO:0061511)
0.0 0.1 GO:0006089 lactate metabolic process(GO:0006089)
0.0 0.1 GO:1901255 nucleotide-excision repair involved in interstrand cross-link repair(GO:1901255)
0.0 0.1 GO:1905048 regulation of metallopeptidase activity(GO:1905048)
0.0 0.4 GO:0006474 N-terminal protein amino acid acetylation(GO:0006474)
0.0 0.2 GO:0040016 embryonic cleavage(GO:0040016)
0.0 0.1 GO:2001295 malonyl-CoA biosynthetic process(GO:2001295)
0.0 0.4 GO:0006003 fructose 2,6-bisphosphate metabolic process(GO:0006003)
0.0 0.3 GO:0099560 synaptic membrane adhesion(GO:0099560)
0.0 0.2 GO:0021683 cerebellar granular layer development(GO:0021681) cerebellar granular layer morphogenesis(GO:0021683) cerebellar granular layer formation(GO:0021684) cerebellar granule cell differentiation(GO:0021707)
0.0 0.1 GO:1903779 regulation of cardiac conduction(GO:1903779)
0.0 0.2 GO:0043928 exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay(GO:0043928)
0.0 0.4 GO:0009408 response to heat(GO:0009408)
0.0 0.8 GO:0007006 mitochondrial membrane organization(GO:0007006)
0.0 0.2 GO:0030241 skeletal muscle myosin thick filament assembly(GO:0030241)
0.0 0.1 GO:0016559 peroxisome fission(GO:0016559)
0.0 0.1 GO:0030719 P granule organization(GO:0030719)
0.0 0.1 GO:0070973 protein localization to endoplasmic reticulum exit site(GO:0070973)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.4 GO:0005592 collagen type XI trimer(GO:0005592)
0.1 0.5 GO:0008622 epsilon DNA polymerase complex(GO:0008622)
0.1 0.2 GO:0098536 deuterosome(GO:0098536)
0.1 0.3 GO:0005955 calcineurin complex(GO:0005955)
0.0 0.3 GO:1990726 Lsm1-7-Pat1 complex(GO:1990726)
0.0 0.1 GO:0000110 nucleotide-excision repair factor 1 complex(GO:0000110)
0.0 0.1 GO:0035327 transcriptionally active chromatin(GO:0035327)
0.0 0.1 GO:0043034 costamere(GO:0043034)
0.0 0.1 GO:1990909 Wnt signalosome(GO:1990909)
0.0 0.2 GO:0035517 PR-DUB complex(GO:0035517)
0.0 0.3 GO:0072546 ER membrane protein complex(GO:0072546)
0.0 0.2 GO:0030015 CCR4-NOT core complex(GO:0030015)
0.0 0.2 GO:0009925 basal plasma membrane(GO:0009925)
0.0 0.4 GO:0000781 chromosome, telomeric region(GO:0000781)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 0.8 GO:0080122 coenzyme A transmembrane transporter activity(GO:0015228) adenosine 3',5'-bisphosphate transmembrane transporter activity(GO:0071077) AMP transmembrane transporter activity(GO:0080122)
0.1 0.5 GO:0004619 bisphosphoglycerate mutase activity(GO:0004082) phosphoglycerate mutase activity(GO:0004619)
0.1 0.4 GO:0043998 H2A histone acetyltransferase activity(GO:0043998)
0.1 1.1 GO:0005504 fatty acid binding(GO:0005504)
0.1 0.3 GO:0004679 AMP-activated protein kinase activity(GO:0004679)
0.1 0.3 GO:0004723 calcium-dependent protein serine/threonine phosphatase activity(GO:0004723) calmodulin-dependent protein phosphatase activity(GO:0033192)
0.0 0.2 GO:0016415 octanoyltransferase activity(GO:0016415)
0.0 0.2 GO:0042975 peroxisome proliferator activated receptor binding(GO:0042975)
0.0 0.2 GO:0004067 asparaginase activity(GO:0004067)
0.0 0.4 GO:0003873 6-phosphofructo-2-kinase activity(GO:0003873)
0.0 0.1 GO:0003989 acetyl-CoA carboxylase activity(GO:0003989)
0.0 0.4 GO:0047631 ADP-ribose diphosphatase activity(GO:0047631)
0.0 0.1 GO:0000014 single-stranded DNA endodeoxyribonuclease activity(GO:0000014)
0.0 0.1 GO:0004300 enoyl-CoA hydratase activity(GO:0004300)
0.0 0.2 GO:0004535 poly(A)-specific ribonuclease activity(GO:0004535)
0.0 0.4 GO:0004198 calcium-dependent cysteine-type endopeptidase activity(GO:0004198)
0.0 0.2 GO:0031682 G-protein gamma-subunit binding(GO:0031682)
0.0 0.3 GO:0005112 Notch binding(GO:0005112)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.0 0.6 PID NFAT 3PATHWAY Role of Calcineurin-dependent NFAT signaling in lymphocytes
0.0 0.1 PID TCR RAS PATHWAY Ras signaling in the CD4+ TCR pathway
0.0 0.4 PID ATF2 PATHWAY ATF-2 transcription factor network
0.0 0.2 PID ARF6 PATHWAY Arf6 signaling events

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 0.3 REACTOME ABACAVIR TRANSPORT AND METABOLISM Genes involved in Abacavir transport and metabolism
0.0 0.3 REACTOME REGULATION OF RHEB GTPASE ACTIVITY BY AMPK Genes involved in Regulation of Rheb GTPase activity by AMPK
0.0 0.1 REACTOME RAF MAP KINASE CASCADE Genes involved in RAF/MAP kinase cascade
0.0 0.2 REACTOME DEADENYLATION OF MRNA Genes involved in Deadenylation of mRNA
0.0 0.2 REACTOME PEROXISOMAL LIPID METABOLISM Genes involved in Peroxisomal lipid metabolism
0.0 0.2 REACTOME SEMA4D IN SEMAPHORIN SIGNALING Genes involved in Sema4D in semaphorin signaling
0.0 0.1 REACTOME MITOCHONDRIAL FATTY ACID BETA OXIDATION Genes involved in Mitochondrial Fatty Acid Beta-Oxidation