Cluster composition

Functions

Category	Name	IntersectionWithQuery	PValue	GenesInTerm	GenesInQuery	GenesInTermInQuery	ID
GeneOntologyMolecularFunction	cis-regulatory region sequence-specific DNA binding	FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 FOXL2 ZIC5 SKOR2 POU3F3 IRF7 PAX1 DLX3 CHD7 FOXD4L6 IRX3 IRX1 KLF4 PBX3 NOTCH4 FOXD4L5 HOXA2	1.34e-08	1271	86	22	GO:0000987
GeneOntologyMolecularFunction	RNA polymerase II cis-regulatory region sequence-specific DNA binding	FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 FOXL2 ZIC5 SKOR2 POU3F3 IRF7 PAX1 DLX3 CHD7 FOXD4L6 IRX3 IRX1 KLF4 PBX3 FOXD4L5 HOXA2	4.76e-08	1244	86	21	GO:0000978
GeneOntologyMolecularFunction	DNA-binding transcription factor activity, RNA polymerase II-specific	FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 FOXL2 ZIC5 SKOR2 POU3F3 IRF7 PAX1 DLX3 FOXD4L6 IRX3 IRX1 ZNF579 KLF4 PBX3 NOTCH4 FOXD4L5 HOXA2	8.75e-08	1412	86	22	GO:0000981
GeneOntologyMolecularFunction	RNA polymerase II transcription regulatory region sequence-specific DNA binding	FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 FOXL2 ZIC5 SKOR2 POU3F3 IRF7 PAX1 DLX3 CHD7 FOXD4L6 IRX3 IRX1 BCOR KLF4 PBX3 FOXD4L5 HOXA2	1.55e-07	1459	86	22	GO:0000977
GeneOntologyMolecularFunction	DNA-binding transcription activator activity, RNA polymerase II-specific	FOXJ2 SOX10 JUNB FOXL2 PAX1 DLX3 IRX3 KLF4 PBX3 NOTCH4	1.45e-04	560	86	10	GO:0001228
GeneOntologyMolecularFunction	DNA-binding transcription activator activity	FOXJ2 SOX10 JUNB FOXL2 PAX1 DLX3 IRX3 KLF4 PBX3 NOTCH4	1.58e-04	566	86	10	GO:0001216
GeneOntologyMolecularFunction	histone deacetylase binding	SFPQ SKOR2 BCOR KLF4 HR	4.36e-04	147	86	5	GO:0042826
GeneOntologyMolecularFunction	transcription corepressor activity	TRERF1 ATN1 RERE BCOR SF1 HR	4.66e-04	229	86	6	GO:0003714
GeneOntologyMolecularFunction	transcription coregulator activity	TRERF1 ARID3A ATN1 ZMIZ2 RERE BCOR KMT2E SF1 HR	6.97e-04	562	86	9	GO:0003712
GeneOntologyMolecularFunction	chromatin binding	SOX10 SFPQ ARID3A SKOR2 DLX3 CHD7 RERE KLF4 BAHCC1 HR	1.27e-03	739	86	10	GO:0003682
GeneOntologyMolecularFunction	JUN kinase binding	MAPK8IP1 ATN1	2.39e-03	17	86	2	GO:0008432
GeneOntologyBiologicalProcess	negative regulation of DNA-templated transcription	TRERF1 SOX10 CUX2 TCF7 SFPQ FOXL2 ATN1 RBM10 SKOR2 POU3F3 IRF7 IRX3 RERE IRX1 BCOR KLF4 SF1 NOTCH4 HR HOXA2	6.04e-07	1399	84	20	GO:0045892
GeneOntologyBiologicalProcess	negative regulation of RNA biosynthetic process	TRERF1 SOX10 CUX2 TCF7 SFPQ FOXL2 ATN1 RBM10 SKOR2 POU3F3 IRF7 IRX3 RERE IRX1 BCOR KLF4 SF1 NOTCH4 HR HOXA2	7.06e-07	1413	84	20	GO:1902679
GeneOntologyBiologicalProcess	segment specification	COBL IRX3 IRX1 HOXA2	1.77e-06	22	84	4	GO:0007379
GeneOntologyBiologicalProcess	embryo development	SOX10 GJA5 JUNB SEC24D TCF7 FOXL2 ZIC5 CECR2 COBL PAX1 DLX3 CHD7 IRX3 IRX1 BCOR KLF4 PBX3 PTH1R HOXA2	3.89e-06	1437	84	19	GO:0009790
GeneOntologyBiologicalProcess	negative regulation of transcription by RNA polymerase II	SOX10 CUX2 TCF7 SFPQ FOXL2 ATN1 RBM10 SKOR2 POU3F3 IRF7 IRX3 IRX1 BCOR KLF4 NOTCH4 HOXA2	4.58e-06	1053	84	16	GO:0000122
GeneOntologyBiologicalProcess	loop of Henle development	POU3F3 IRX3 IRX1	7.66e-06	10	84	3	GO:0072070
GeneOntologyBiologicalProcess	positive regulation of transcription by RNA polymerase II	TRERF1 FOXJ2 SOX10 JUNB SFPQ ARID3A FOXL2 ZMIZ2 POU3F3 IRF7 PAX1 DLX3 CHD7 IRX3 KLF4 PBX3 NOTCH4 HOXA2	9.80e-06	1390	84	18	GO:0045944
GeneOntologyBiologicalProcess	chordate embryonic development	SOX10 JUNB SEC24D TCF7 ZIC5 CECR2 COBL PAX1 CHD7 BCOR KLF4 PTH1R HOXA2	7.22e-05	906	84	13	GO:0043009
GeneOntologyBiologicalProcess	mRNA metabolic process	TRAF3IP2 ATXN2L SFPQ TRMT2A TENT4A RBM27 WDR33 RBM10 CSTF3 TNKS1BP1 PATL1 SF3A2 SF1	8.16e-05	917	84	13	GO:0016071
GeneOntologyBiologicalProcess	embryo development ending in birth or egg hatching	SOX10 JUNB SEC24D TCF7 ZIC5 CECR2 COBL PAX1 CHD7 BCOR KLF4 PTH1R HOXA2	9.30e-05	929	84	13	GO:0009792
GeneOntologyBiologicalProcess	specification of loop of Henle identity	IRX3 IRX1	9.78e-05	4	84	2	GO:0072086
GeneOntologyBiologicalProcess	embryonic morphogenesis	GJA5 TCF7 FOXL2 ZIC5 CECR2 COBL CHD7 IRX3 IRX1 KLF4 HOXA2	1.46e-04	713	84	11	GO:0048598
GeneOntologyBiologicalProcess	segmentation	COBL PAX1 IRX3 IRX1 HOXA2	1.47e-04	123	84	5	GO:0035282
GeneOntologyBiologicalProcess	specification of nephron tubule identity	IRX3 IRX1	1.63e-04	5	84	2	GO:0072081
GeneOntologyBiologicalProcess	proximal/distal pattern formation involved in nephron development	IRX3 IRX1	1.63e-04	5	84	2	GO:0072047
GeneOntologyBiologicalProcess	epithelium development	FOXJ2 SOX10 GJA5 TCF7 FOXL2 ZIC5 CECR2 COBL POU3F3 PAX1 DLX3 CHD7 IRX3 IRX1 KLF4 NOTCH4	2.53e-04	1469	84	16	GO:0060429
GeneOntologyBiologicalProcess	cellular response to progesterone stimulus	TRERF1 SOX10	3.40e-04	7	84	2	GO:0071393
GeneOntologyBiologicalProcess	mRNA 3'-splice site recognition	SF3A2 SF1	3.40e-04	7	84	2	GO:0000389
GeneOntologyBiologicalProcess	mRNA processing	SFPQ TRMT2A TENT4A RBM27 WDR33 RBM10 CSTF3 SF3A2 SF1	4.03e-04	551	84	9	GO:0006397
GeneOntologyBiologicalProcess	pattern specification involved in kidney development	IRX3 IRX1	4.52e-04	8	84	2	GO:0061004
GeneOntologyBiologicalProcess	renal system pattern specification	IRX3 IRX1	4.52e-04	8	84	2	GO:0072048
GeneOntologyBiologicalProcess	embryonic epithelial tube formation	ZIC5 CECR2 COBL IRX3 IRX1	4.83e-04	159	84	5	GO:0001838
GeneOntologyCellularComponent	chromatin	FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 SFPQ FOXL2 CECR2 ZMIZ2 POU3F3 TNKS1BP1 IRF7 PAX1 DLX3 CHD7 FOXD4L6 IRX3 IRX1 KMT2E KLF4 PBX3 SLX4 FOXD4L5 HR HOXA2	1.16e-10	1480	86	26	GO:0000785
GeneOntologyCellularComponent	dendrite terminus	MAPK8IP1 COBL GPR179	7.29e-05	20	86	3	GO:0044292
GeneOntologyCellularComponent	euchromatin	TCF7 CECR2 KMT2E KLF4	2.22e-04	72	86	4	GO:0000791
GeneOntologyCellularComponent	nuclear body	ATXN2L TCF7 SFPQ RBM27 RBM10 LAGE3 PATL1 RERE KMT2E SF3A2 SF1 HR	3.16e-04	903	86	12	GO:0016604
GeneOntologyCellularComponent	histone deacetylase complex	TRERF1 RERE KMT2E HR	4.19e-04	85	86	4	GO:0000118
GeneOntologyCellularComponent	nuclear protein-containing complex	TRERF1 JUNB TCF7 SFPQ TENT4A WDR33 CECR2 CSTF3 RERE BCOR KMT2E SF3A2 SF1 SLX4 HR	4.58e-04	1377	86	15	GO:0140513
GeneOntologyCellularComponent	dendritic growth cone	MAPK8IP1 COBL	1.07e-03	12	86	2	GO:0044294
HumanPheno	Abnormal eyelid morphology	TRAF3IP2 SOX10 GJA5 SEC24D FOXL2 ATN1 RBM10 IQSEC2 CNTNAP1 FGD1 POU3F3 LTBP1 CHD7 RERE BCOR KMT2E ANKLE2 PTH1R SLX4 HR	9.12e-06	1408	30	20	HP:0000492
HumanPheno	Cupped ear	FOXL2 POU3F3 PAX1 CHD7 BCOR	4.32e-05	69	30	5	HP:0000378
HumanPheno	Clinodactyly	GJA5 RBM10 IQSEC2 FGD1 PAX1 DLX3 LTBP1 CHD7 RERE BCOR PTH1R SLX4	4.75e-05	574	30	12	HP:0030084
HumanPheno	Broad palm	IQSEC2 FGD1 BCOR PTH1R	6.28e-05	38	30	4	HP:0001169
HumanPheno	Abnormal periauricular region morphology	GJA5 FGD1 PAX1 CHD7 RERE BCOR	9.22e-05	131	30	6	HP:0000383
HumanPheno	Abnormal palate morphology	SOX10 GJA5 SEC24D FOXL2 ATN1 RBM10 IQSEC2 CNTNAP1 FGD1 LAGE3 PAX1 LTBP1 CHD7 RERE BCOR SLX4 HOXA2	9.56e-05	1202	30	17	HP:0000174
HumanPheno	Deviation of finger	GJA5 ATN1 IQSEC2 FGD1 DLX3 LTBP1 CHD7 RERE BCOR PTH1R SLX4	1.35e-04	537	30	11	HP:0004097
HumanPheno	Renal hypoplasia/aplasia	SOX10 ATN1 IQSEC2 PAX1 CHD7 RERE BCOR ANKLE2 SLX4	1.47e-04	359	30	9	HP:0008678
HumanPheno	Abnormal cheek morphology	GJA5 FGD1 PAX1 LTBP1 CHD7 RERE BCOR KMT2E	1.60e-04	282	30	8	HP:0004426
HumanPheno	Finger clinodactyly	GJA5 IQSEC2 FGD1 DLX3 LTBP1 CHD7 RERE BCOR PTH1R SLX4	1.61e-04	452	30	10	HP:0040019
HumanPheno	Lacrimal gland hypoplasia	SOX10 FOXL2	2.00e-04	4	30	2	HP:0007732
HumanPheno	Hypoplasia of the semicircular canal	SOX10 CHD7	2.00e-04	4	30	2	HP:0011382
HumanPheno	Deviation of the hand or of fingers of the hand	GJA5 ATN1 IQSEC2 FGD1 DLX3 LTBP1 CHD7 RERE BCOR PTH1R SLX4	2.11e-04	564	30	11	HP:0009484
HumanPheno	High palate	GJA5 SEC24D FOXL2 ATN1 RBM10 CNTNAP1 FGD1 LAGE3 PAX1 LTBP1 RERE BCOR SLX4	2.62e-04	794	30	13	HP:0000218
HumanPheno	Abnormal dermatoglyphics	GJA5 RBM10 FGD1 PAX1 LTBP1 CHD7 RERE BCOR	3.37e-04	314	30	8	HP:0007477
MousePheno	abnormal head morphology	TRAF3IP2 SOX10 SFPQ ZIC5 CECR2 SKOR2 LTBP1 CHD7 IRX3 RERE IRX1 BCOR KLF4 PBX3 PTH1R SLX4 HR HOXA2	6.78e-06	1120	70	18	MP:0000432
MousePheno	abnormal facial morphology	TRAF3IP2 SFPQ ZIC5 CECR2 SKOR2 LTBP1 CHD7 IRX3 RERE IRX1 KLF4 PBX3 PTH1R SLX4 HR HOXA2	8.08e-06	910	70	16	MP:0003743
MousePheno	abnormal craniofacial morphology	TRAF3IP2 SFPQ ZIC5 CECR2 SKOR2 FGD1 POU3F3 PAX1 LTBP1 CHD7 IRX3 RERE IRX1 KLF4 PBX3 PTH1R SLX4 HR HOXA2	2.97e-05	1372	70	19	MP:0000428
MousePheno	craniofacial phenotype	TRAF3IP2 SFPQ ZIC5 CECR2 SKOR2 FGD1 POU3F3 PAX1 LTBP1 CHD7 IRX3 RERE IRX1 KLF4 PBX3 PTH1R SLX4 HR HOXA2	2.97e-05	1372	70	19	MP:0005382
MousePheno	abnormal mouth morphology	TRAF3IP2 ZIC5 SKOR2 LTBP1 CHD7 RERE IRX1 KLF4 PBX3 PTH1R SLX4 HOXA2	1.10e-04	670	70	12	MP:0000452
MousePheno	blepharitis	TRAF3IP2 CHD7 KMT2E	1.10e-04	19	70	3	MP:0005251
MousePheno	perinatal lethality	SOX10 GJA5 ZIC5 CECR2 SKOR2 POU3F3 LTBP1 RERE IRX1 KMT2E KLF4 PBX3 PTH1R SLX4 BAHCC1 HOXA2	1.14e-04	1130	70	16	MP:0002081
Domain	TF_fork_head_CS_2	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.17e-06	46	86	5	IPR030456
Domain	TF_fork_head_CS_1	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.42e-06	47	86	5	IPR018122
Domain	Homeodomain-like	TRERF1 CUX2 POU3F3 PAX1 DLX3 IRX3 RERE IRX1 PBX3 HOXA2	2.95e-06	332	86	10	IPR009057
Domain	FH	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	SM00339
Domain	FORK_HEAD_1	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	PS00657
Domain	FORK_HEAD_2	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	PS00658
Domain	Fork_head_dom	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	IPR001766
Domain	FORK_HEAD_3	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	PS50039
Domain	Forkhead	FOXJ2 FOXD4L4 FOXL2 FOXD4L6 FOXD4L5	2.99e-06	49	86	5	PF00250
Domain	Atrophin-like	ATN1 RERE	2.10e-05	2	86	2	IPR002951
Domain	Atrophin-1	ATN1 RERE	2.10e-05	2	86	2	PF03154
Domain	Homeobox_CS	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	2.40e-05	186	86	7	IPR017970
Domain	-	FOXJ2 FOXD4L4 FOXL2 IRF7 PAX1 FOXD4L6 FOXD4L5	6.59e-05	218	86	7	1.10.10.10
Domain	Homeobox	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	1.03e-04	234	86	7	PF00046
Domain	HOMEOBOX_1	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	1.08e-04	236	86	7	PS00027
Domain	HOX	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	1.11e-04	237	86	7	SM00389
Domain	HOMEOBOX_2	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	1.17e-04	239	86	7	PS50071
Domain	Homeobox_dom	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	1.17e-04	239	86	7	IPR001356
Domain	WHTH_DNA-bd_dom	FOXJ2 FOXD4L4 FOXL2 IRF7 PAX1 FOXD4L6 FOXD4L5	1.27e-04	242	86	7	IPR011991
Domain	IRO	IRX3 IRX1	3.11e-04	6	86	2	SM00548
Domain	Iroquois_homeo	IRX3 IRX1	3.11e-04	6	86	2	IPR003893
Domain	-	CUX2 POU3F3 DLX3 IRX3 IRX1 PBX3 HOXA2	3.30e-04	283	86	7	1.10.10.60
Domain	BAH	RERE BAHCC1	1.12e-03	11	86	2	SM00439
Domain	BAH	RERE BAHCC1	1.12e-03	11	86	2	PF01426
Domain	BAH	RERE BAHCC1	1.12e-03	11	86	2	PS51038
Domain	BAH_dom	RERE BAHCC1	1.12e-03	11	86	2	IPR001025
Domain	SANT	TRERF1 CHD7 RERE	1.58e-03	50	86	3	SM00717
Domain	ELM2	TRERF1 RERE	1.58e-03	13	86	2	PF01448
Domain	ELM2	TRERF1 RERE	1.58e-03	13	86	2	PS51156
Domain	ELM2_dom	TRERF1 RERE	1.58e-03	13	86	2	IPR000949
Domain	ELM2	TRERF1 RERE	1.58e-03	13	86	2	SM01189
Domain	SANT/Myb	TRERF1 CHD7 RERE	1.77e-03	52	86	3	IPR001005
Domain	Homeobox_KN	IRX3 IRX1	2.72e-03	17	86	2	PF05920
Domain	Homeobox_KN_domain	IRX3 IRX1	2.72e-03	17	86	2	IPR008422
Pubmed	A census of human transcription factors: function, expression and evolution.	TRERF1 FOXJ2 SOX10 JUNB FOXD4L4 CUX2 TCF7 FOXL2 SKOR2 POU3F3 IRF7 PAX1 DLX3 IRX3 RERE IRX1 KLF4 PBX3 HOXA2	2.13e-12	908	91	19	19274049
Pubmed	Impact of cytosine methylation on DNA binding specificities of human transcription factors.	FOXJ2 SOX10 JUNB CUX2 TCF7 FOXL2 ZIC5 SKOR2 IRF7 PAX1 DLX3 IRX3 IRX1 KLF4 HOXA2	1.25e-11	544	91	15	28473536
Pubmed	A genome-wide screen to identify transcription factors expressed in pelvic Ganglia of the lower urinary tract.	FOXJ2 SOX10 FOXD4L4 CUX2 TCF7 ARID3A ZMIZ2 POU3F3 PAX1 FOXD4L6 IRX3 KLF4 PBX3 SF1 FOXD4L5	4.93e-10	709	91	15	22988430
Pubmed	Large-scale characterization of HeLa cell nuclear phosphoproteins.	TRERF1 ATXN2L JUNB ATN1 RBM10 MYO18A TNKS1BP1 CHD7 PATL1 RERE ZNF579 BCOR PRRC2A SF1	1.43e-08	774	91	14	15302935
Pubmed	Human transcription factor protein interaction networks.	TRERF1 SOX10 JUNB TCF7 ARID3A ATN1 RBM27 WDR33 RBM10 ZMIZ2 MYO18A CHD7 PATL1 RERE BCOR KLF4 PRRC2A SLX4	2.74e-08	1429	91	18	35140242
Pubmed	Interaction network of human early embryonic transcription factors.	TRERF1 TOMM70 ARID3A ATN1 ZMIZ2 CHD7 RERE BCOR SLX4 BAHCC1	3.01e-08	351	91	10	38297188
Pubmed	Proximity-dependent Mapping of the Androgen Receptor Identifies Kruppel-like Factor 4 as a Functional Partner.	TRERF1 ATN1 RBM27 WDR33 RBM10 CHD7 RERE BCOR KLF4	3.78e-08	268	91	9	33640491
Pubmed	Strain-specific modifier genes of Cecr2-associated exencephaly in mice: genetic analysis and identification of differentially expressed candidate genes.	FOXD4L4 CECR2 FOXD4L6 FOXD4L5	5.86e-08	15	91	4	22045912
Pubmed	The Eyes Absent family members EYA4 and EYA1 promote PLK1 activation and successful mitosis through tyrosine dephosphorylation.	ATXN2L SFPQ ATN1 WDR33 ZMIZ2 BCOR SF1	1.58e-07	152	91	7	38360978
Pubmed	FOXD4a and FOXD4b, two new winged helix transcription factors, are expressed in human leukemia cell lines.	FOXD4L4 FOXD4L6 FOXD4L5	1.73e-07	5	91	3	12234674
Pubmed	Sequential roles for Otx2 in visceral endoderm and neuroectoderm for forebrain and midbrain induction and specification.	FOXD4L4 FOXD4L6 FOXD4L5 HOXA2	2.54e-07	21	91	4	9449667
Pubmed	Neural transcription factors bias cleavage stage blastomeres to give rise to neural ectoderm.	FOXD4L4 FOXD4L6 FOXD4L5	3.45e-07	6	91	3	27092474
Pubmed	The prepattern transcription factor Irx3 directs nephron segment identity.	POU3F3 IRX3 IRX1	6.02e-07	7	91	3	17875669
Pubmed	Genome-scale study of transcription factor expression in the branching mouse lung.	FOXD4L4 FOXD4L6 IRX3 FOXD4L5 HOXA2	9.32e-07	67	91	5	22711520
Pubmed	The mouse fkh-2 gene. Implications for notochord, foregut, and midbrain regionalization.	FOXD4L4 FOXD4L6 FOXD4L5	9.61e-07	8	91	3	8530406
Pubmed	PRISMA and BioID disclose a motifs-based interactome of the intrinsically disordered transcription factor C/EBPα.	TRERF1 ATXN2L JUNB SFPQ ARID3A RBM27 RBM10 ZMIZ2 CSTF3 CHD7 BCOR PRRC2A SF3A2 SF1	1.06e-06	1103	91	14	34189442
Pubmed	Spatiotemporal-resolved protein networks profiling with photoactivation dependent proximity labeling.	ATXN2L SFPQ WDR33 RBM10 TNKS1BP1 BCOR PRRC2A SF3A2 SF1	1.08e-06	399	91	9	35987950
Pubmed	A dual-activity topoisomerase complex regulates mRNA translation and turnover.	JUNB ARID3A MORN1 IER5L SGSM2 ZMIZ2 EMID1 COBL TNKS1BP1 ZNF579 KLF4 RASSF7 BAHCC1 HR	1.08e-06	1105	91	14	35748872
Pubmed	Resolution of cell fate decisions revealed by single-cell gene expression analysis from zygote to blastocyst.	TRERF1 FOXJ2 JUNB CUX2 TCF7 ARID3A ZIC5 RBM10 ZMIZ2 KLF4 PBX3 SF1	1.34e-06	808	91	12	20412781
Pubmed	An amphioxus winged helix/forkhead gene, AmphiFoxD: insights into vertebrate neural crest evolution.	FOXD4L4 FOXD4L6 FOXD4L5	1.44e-06	9	91	3	12412011
Pubmed	Characterizing WW domain interactions of tumor suppressor WWOX reveals its association with multiprotein networks.	SFPQ ATN1 WDR33 CSTF3 PATL1 PRRC2A SF3A2	1.90e-06	220	91	7	24550385
Pubmed	Patterning the embryonic heart: identification of five mouse Iroquois homeobox genes in the developing heart.	GJA5 IRX3 IRX1	2.82e-06	11	91	3	10926765
Pubmed	The STUbL RNF4 regulates protein group SUMOylation by targeting the SUMO conjugation machinery.	FOXJ2 ATXN2L SFPQ ATN1 RBM27 WDR33 IQSEC2 CNTNAP1 POU3F3 RERE KMT2E SF3A2 SF1 SLX4	2.90e-06	1203	91	14	29180619
Pubmed	Differential expression of Sonic hedgehog along the anterior-posterior axis regulates patterning of pharyngeal pouch endoderm and pharyngeal endoderm-derived organs.	PAX1 DLX3 HOXA2	3.75e-06	12	91	3	15680353
Pubmed	A genetic study of the suppressors of the Engrailed-1 cerebellar phenotype.	FOXD4L4 FOXD4L6 FOXD4L5	4.86e-06	13	91	3	16884697
Pubmed	Cloning and characterization of seven human forkhead proteins: binding site specificity and DNA bending.	FOXD4L4 FOXD4L6 FOXD4L5	4.86e-06	13	91	3	7957066
Pubmed	A Compendium of RNA-Binding Proteins that Regulate MicroRNA Biogenesis.	ATXN2L SFPQ WDR33 RBM10 CSTF3 PATL1 SF1	4.90e-06	254	91	7	28431233
Pubmed	Screening large numbers of expression patterns of transcription factors in late stages of the mouse thymus.	FOXJ2 SOX10 FOXD4L4 FOXD4L6 PBX3 FOXD4L5 HOXA2	6.15e-06	263	91	7	20932939
Pubmed	Hairless plays a role in formation of inner root sheath via regulation of Dlx3 gene.	DLX3 HR	6.77e-06	2	91	2	22442153
Pubmed	Protein binding of a DRPLA family through arginine-glutamic acid dipeptide repeats is enhanced by extended polyglutamine.	ATN1 RERE	6.77e-06	2	91	2	10814707
Pubmed	Rescue of neural crest-derived phenotypes in a zebrafish CHARGE model by Sox10 downregulation.	SOX10 CHD7	6.77e-06	2	91	2	27418670
Pubmed	Six members of the mouse forkhead gene family are developmentally regulated.	FOXD4L4 FOXD4L6 FOXD4L5	7.71e-06	15	91	3	7689224
Pubmed	Synergy between Hoxa1 and Hoxb1: the relationship between arch patterning and the generation of cranial neural crest.	SOX10 PAX1 HOXA2	7.71e-06	15	91	3	11532923
Pubmed	mTORC1 activity regulates post-translational modifications of glycine decarboxylase to modulate glycine metabolism and tumorigenesis.	ATXN2L SFPQ RBM27 RBM10 MYO18A COBL PRRC2A	8.03e-06	274	91	7	34244482
Pubmed	An inducible CRISPR/Cas9 screen identifies DTX2 as a transcriptional regulator of human telomerase.	SFPQ RBM27 WDR33 RBM10 BCOR SF1	8.18e-06	180	91	6	35198878
Pubmed	The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts.	ATXN2L SFPQ RBM27 WDR33 MYO18A CSTF3 PATL1 ZNF579 PRRC2A SF3A2 SF1	8.60e-06	807	91	11	22681889
Pubmed	Expression of the winged helix genes fkh-4 and fkh-5 defines domains in the central nervous system.	FOXD4L4 FOXD4L6 FOXD4L5	9.47e-06	16	91	3	8861101
Pubmed	Developmental competence of the gut endoderm: genetic potentiation by GATA and HNF3/fork head proteins.	FOXD4L4 FOXD4L6 FOXD4L5	9.47e-06	16	91	3	10208738
Pubmed	The AERO system: a 3D-like approach for recording gene expression patterns in the whole mouse embryo.	TCF7 ARID3A PAX1 DLX3 IRX3 IRX1	1.15e-05	191	91	6	24146773
Pubmed	Identification of FUBP1 as a Long Tail Cancer Driver and Widespread Regulator of Tumor Suppressor and Oncogene Alternative Splicing.	ATXN2L SFPQ RBM27 RBM10 SF3A2	1.29e-05	114	91	5	31553912
Pubmed	Functional equivalency between Otx2 and Otx1 in development of the rostral head.	FOXD4L4 FOXD4L6 FOXD4L5	1.63e-05	19	91	3	9895322
Pubmed	Forkhead transcription factor Foxf2 (LUN)-deficient mice exhibit abnormal development of secondary palate.	FOXD4L4 FOXD4L6 FOXD4L5	1.91e-05	20	91	3	12812790
Pubmed	p56(dok-2) as a cytokine-inducible inhibitor of cell proliferation and signal transduction.	JUNB HR	2.03e-05	3	91	2	11013214
Pubmed	Identification of the vertebrate Iroquois homeobox gene family with overlapping expression during early development of the nervous system.	IRX3 IRX1	2.03e-05	3	91	2	9486539
Pubmed	Atrophin proteins interact with the Fat1 cadherin and regulate migration and orientation in vascular smooth muscle cells.	ATN1 RERE	2.03e-05	3	91	2	19131340
Pubmed	The Hematopoietic TALE-Code Shows Normal Activity of IRX1 in Myeloid Progenitors and Reveals Ectopic Expression of IRX3 and IRX5 in Acute Myeloid Leukemia.	IRX3 IRX1	2.03e-05	3	91	2	35328612
Pubmed	Peroxisome-proliferator-activated receptor-binding protein (PBP) is essential for the growth of active Notch4-immortalized mammary epithelial cells by activating SOX10 expression.	SOX10 NOTCH4	2.03e-05	3	91	2	19852756
Pubmed	A Sall1-NuRD interaction regulates multipotent nephron progenitors and is required for loop of Henle formation.	POU3F3 IRX3 IRX1	2.23e-05	21	91	3	28760814
Pubmed	Testicular differentiation occurs in absence of R-spondin1 and Sox9 in mouse sex reversals.	SOX10 FOXL2 SF1	2.23e-05	21	91	3	23300469
Pubmed	Crucial roles of Foxa2 in mouse anterior-posterior axis polarization via regulation of anterior visceral endoderm-specific genes.	FOXD4L4 FOXD4L6 FOXD4L5	2.57e-05	22	91	3	17389379
Pubmed	TNIP2 is a Hub Protein in the NF-κB Network with Both Protein and RNA Mediated Interactions.	ATXN2L JUNB SFPQ ZIC5 WDR33 CSTF3 IRX3 BCOR PBX3 ANKLE2 PRRC2A	2.94e-05	922	91	11	27609421
Pubmed	Otx2 is required to respond to signals from anterior neural ridge for forebrain specification.	FOXD4L4 FOXD4L6 FOXD4L5	3.37e-05	24	91	3	11820816
Pubmed	A Requirement for Zic2 in the Regulation of Nodal Expression Underlies the Establishment of Left-Sided Identity.	FOXD4L4 FOXD4L6 FOXD4L5	3.37e-05	24	91	3	29992973
Pubmed	WNT10A mutation causes ectodermal dysplasia by impairing progenitor cell proliferation and KLF4-mediated differentiation.	TCF7 DLX3 KLF4	3.37e-05	24	91	3	28589954
Pubmed	The Nse5/6-like SIMC1-SLF2 complex localizes SMC5/6 to viral replication centers.	ATXN2L SFPQ RBM27 WDR33 RBM10 CSTF3 CHD7 BCOR PRRC2A SF1 SLX4	4.00e-05	954	91	11	36373674
Pubmed	Human splicing factor SF3a, but not SF1, is essential for pre-mRNA splicing in vivo.	SF3A2 SF1	4.05e-05	4	91	2	15647371
Pubmed	Functional architecture of atrophins.	ATN1 RERE	4.05e-05	4	91	2	17150957
Pubmed	Sox2 acts as a rheostat of epithelial to mesenchymal transition during neural crest development.	SOX10 HOXA2	4.05e-05	4	91	2	25309446
Pubmed	Ssdp1 regulates head morphogenesis of mouse embryos by activating the Lim1-Ldb1 complex.	FOXD4L4 FOXD4L6 FOXD4L5	4.31e-05	26	91	3	15857913
Pubmed	HIV-1 Vpr induces cell cycle arrest and enhances viral gene expression by depleting CCDC137.	JUNB SFPQ RBM27 RBM10 SF1	4.52e-05	148	91	5	32538781
Pubmed	Retinoic Acid Antagonizes Testis Development in Mice.	FOXL2 IRX3 SF1	4.84e-05	27	91	3	30067986
Pubmed	Transcription and Signaling Regulators in Developing Neuronal Subtypes of Mouse and Human Enteric Nervous System.	FOXJ2 SOX10 CUX2 DLX3 PBX3 HOXA2	5.31e-05	251	91	6	29031500
Pubmed	Molecular profiling of synovial joints: use of microarray analysis to identify factors that direct the development of the knee and elbow.	FOXD4L4 FOXD4L6 FOXD4L5	6.03e-05	29	91	3	22972626
Pubmed	SND1 binds SARS-CoV-2 negative-sense RNA and promotes viral RNA synthesis through NSP9.	ATXN2L SFPQ RBM10 PATL1 PRRC2A SF1	6.19e-05	258	91	6	37794589
Pubmed	Iroquois genes influence proximo-distal morphogenesis during rat lung development.	IRX3 IRX1	6.74e-05	5	91	2	16299054
Pubmed	IPO7 Promotes Odontoblastic Differentiation and Inhibits Osteoblastic Differentiation Through Regulation of RUNX2 Expression and Translocation.	DLX3 KLF4	6.74e-05	5	91	2	35922041
Pubmed	Expression of two novel mouse Iroquois homeobox genes during neurogenesis.	IRX3 IRX1	6.74e-05	5	91	2	10704856
Pubmed	HPV status-independent association of alcohol and tobacco exposure or prior radiation therapy with promoter methylation of FUSSEL18, EBF3, IRX1, and SEPT9, but not SLC5A8, in head and neck squamous cell carcinomas.	SKOR2 IRX1	6.74e-05	5	91	2	20029986
Pubmed	Tangential Intrahypothalamic Migration of the Mouse Ventral Premamillary Nucleus and Fgf8 Signaling.	IRX3 IRX1 PBX3	7.39e-05	31	91	3	34095148
Pubmed	Sox11 gene disruption causes congenital anomalies of the kidney and urinary tract (CAKUT).	POU3F3 IRX3 IRX1	7.39e-05	31	91	3	29459093
Pubmed	The variant Polycomb Repressor Complex 1 component PCGF1 interacts with a pluripotency sub-network that includes DPPA4, a regulator of embryogenesis.	TRERF1 ARID3A RBM27 ZIC5 CECR2 CHD7 BCOR	8.38e-05	396	91	7	26687479
Pubmed	Genome-wide association study of antibody response to smallpox vaccine.	SNX18 IRX1 ANKLE2	9.78e-05	34	91	3	22542470
Pubmed	Iroquois homeobox gene 3 establishes fast conduction in the cardiac His-Purkinje network.	GJA5 IRX3	1.01e-04	6	91	2	21825130
Pubmed	A genome-wide scan maps a novel high myopia locus to 5p15.	TENT4A IRX1	1.01e-04	6	91	2	18421076
Pubmed	Comparison of Iroquois gene expression in limbs/fins of vertebrate embryos.	IRX3 IRX1	1.01e-04	6	91	2	20408909
Pubmed	Dynamic expression patterns of Irx3 and Irx5 during germline nest breakdown and primordial follicle formation promote follicle survival in mouse ovaries.	FOXL2 IRX3	1.01e-04	6	91	2	30071018
Pubmed	Iroquois homeobox 3 regulates odontoblast proliferation and differentiation mediated by Wnt5a expression.	IRX3 IRX1	1.01e-04	6	91	2	36773339
Pubmed	Organization of mouse Iroquois homeobox genes in two clusters suggests a conserved regulation and function in vertebrate development.	IRX3 IRX1	1.01e-04	6	91	2	11042145
Pubmed	Sex reversal following deletion of a single distal enhancer of Sox9.	FOXL2 SF1	1.01e-04	6	91	2	29903884
Pubmed	The class III POU domain protein Brn-1 can fully replace the related Oct-6 during schwann cell development and myelination.	SOX10 POU3F3	1.01e-04	6	91	2	15713637
Pubmed	Regulated expression patterns of IRX-2, an Iroquois-class homeobox gene, in the human breast.	IRX3 IRX1	1.01e-04	6	91	2	10370142
Pubmed	Wnt1-Cre-mediated deletion of AP-2alpha causes multiple neural crest-related defects.	SOX10 HOXA2	1.01e-04	6	91	2	14975722
Pubmed	A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities.	SFPQ POU3F3 KMT2E PBX3 SF3A2	1.14e-04	180	91	5	24104479
Pubmed	MECP2 directly interacts with RNA polymerase II to modulate transcription in human neurons.	SFPQ RBM27 WDR33 RBM10 CECR2 MYO18A CSTF3 TNKS1BP1 CHD7 SF3A2 SF1	1.23e-04	1082	91	11	38697112
Pubmed	Quantitative trait loci for body size components in mice.	TRMT2A PAX1 PTH1R NOTCH4	1.31e-04	98	91	4	16783635
Pubmed	Chr21 protein-protein interactions: enrichment in proteins involved in intellectual disability, autism, and late-onset Alzheimer's disease.	MAPK8IP1 SOX10 SGSM2 IQSEC2 CNTNAP1 NECAB3 PBX3 PRRC2A SF3A2 SF1 SLX4 B4GALT3	1.31e-04	1285	91	12	35914814
Pubmed	H4K20me0 recognition by BRCA1-BARD1 directs homologous recombination to sister chromatids.	JUNB SFPQ FOXL2 RBM27 ZIC5 WDR33 RBM10 CHD7 BCOR KLF4 SF3A2 SF1	1.40e-04	1294	91	12	30804502
Pubmed	Histone deacetylase-associating Atrophin proteins are nuclear receptor corepressors.	ATN1 RERE	1.41e-04	7	91	2	16481466
Pubmed	Functional interactions between Fat family cadherins in tissue morphogenesis and planar polarity.	ATN1 RERE	1.41e-04	7	91	2	22510986
Pubmed	The hairy ears (Eh) mutation is closely associated with a chromosomal rearrangement in mouse chromosome 15.	SOX10 PAX1	1.41e-04	7	91	2	2272507
Pubmed	Irx3 is required for postnatal maturation of the mouse ventricular conduction system.	GJA5 IRX3	1.41e-04	7	91	2	26786475
Pubmed	CHD7, the gene mutated in CHARGE syndrome, regulates genes involved in neural crest cell guidance.	SOX10 CHD7	1.41e-04	7	91	2	24728844
Pubmed	Deregulated FGF and homeotic gene expression underlies cerebellar vermis hypoplasia in CHARGE syndrome.	CHD7 HOXA2	1.41e-04	7	91	2	24368733
Pubmed	Quantitative trait loci affecting the 3D skull shape and size in mouse and prioritization of candidate genes in-silico.	FOXL2 PAX1 CHD7	1.48e-04	39	91	3	25859222
Pubmed	HNF1B controls proximal-intermediate nephron segment identity in vertebrates by regulating Notch signalling components and Irx1/2.	POU3F3 IRX3 IRX1	1.60e-04	40	91	3	23362348
Pubmed	SOX4 regulates gonad morphogenesis and promotes male germ cell differentiation in mice.	SOX10 FOXL2 SF1	1.72e-04	41	91	3	28118982
Pubmed	Retinoic acid receptors exhibit cell-autonomous functions in cranial neural crest cells.	SOX10 PAX1	1.88e-04	8	91	2	19777591
Pubmed	Interactions of S100A2 and S100A6 with the tetratricopeptide repeat proteins, Hsp90/Hsp70-organizing protein and kinesin light chain.	MAPK8IP1 TOMM70	1.88e-04	8	91	2	18669640
Pubmed	Sensitive nonradioactive detection of mRNA in tissue sections: novel application of the whole-mount in situ hybridization protocol.	IRX3 IRX1	1.88e-04	8	91	2	11118473
Pubmed	Identification of a novel mouse Iroquois homeobox gene, Irx5, and chromosomal localisation of all members of the mouse Iroquois gene family.	IRX3 IRX1	1.88e-04	8	91	2	10822268
Interaction	EGR2 interactions	TRERF1 SOX10 ARID3A ATN1 ZMIZ2 CHD7 RERE BCOR BAHCC1	5.94e-08	171	88	9	int:EGR2
Interaction	SP7 interactions	TRERF1 ARID3A ATN1 RBM27 WDR33 RBM10 ZMIZ2 CHD7 RERE BCOR	8.41e-07	304	88	10	int:SP7
Interaction	EYA4 interactions	FOXJ2 ATXN2L SFPQ ATN1 WDR33 ZMIZ2 BCOR SF1	1.12e-05	243	88	8	int:EYA4
Interaction	CRX interactions	TRERF1 SOX10 ARID3A ATN1 ZMIZ2 CHD7 RERE BAHCC1	1.54e-05	254	88	8	int:CRX
Interaction	PRRC2B interactions	ATN1 CECR2 PATL1 RERE BCOR PRRC2A SF1 SLX4	2.08e-05	265	88	8	int:PRRC2B
Interaction	SOX7 interactions	CECR2 ZMIZ2 CHD7 BCOR BAHCC1	2.96e-05	82	88	5	int:SOX7
Interaction	CHST8 interactions	LMF1 RBM27 CNTNAP1 EDEM2 CHST8	3.33e-05	84	88	5	int:CHST8
Interaction	CELF1 interactions	SFPQ RBM27 WDR33 RBM10 CSTF3 PATL1 PRRC2A SF1	3.77e-05	288	88	8	int:CELF1
Interaction	TLE3 interactions	TRERF1 FOXJ2 TRAF3IP2 ATN1 CECR2 ZMIZ2 TNKS1BP1 RERE BCOR	3.88e-05	376	88	9	int:TLE3
Interaction	ERG interactions	SOX10 SFPQ ARID3A CHD7 RERE BCOR SLX4	5.49e-05	223	88	7	int:ERG
Interaction	MIR21 interactions	ATXN2L SFPQ RBM10 CSTF3 PATL1	6.65e-05	97	88	5	int:MIR21
Interaction	AR interactions	TRERF1 SFPQ ATN1 RBM27 WDR33 RBM10 ZMIZ2 MYO18A CSTF3 POU3F3 CHD7 RERE BCOR KLF4	9.57e-05	992	88	14	int:AR
Cytoband	9q21.11	FOXD4L4 FOXD4L6 FOXD4L5	2.94e-05	30	91	3	9q21.11
Cytoband	12p13.31	FOXJ2 ATN1 LINC00612	5.54e-04	80	91	3	12p13.31
Cytoband	Ensembl 112 genes in cytogenetic band chr12p13	FOXJ2 PRR4 ATN1 PRB4 LINC00612	7.07e-04	353	91	5	chr12p13
GeneFamily	TALE class homeoboxes and pseudogenes	IRX3 IRX1 PBX3	5.57e-05	26	52	3	526
GeneFamily	GATA zinc finger domain containing\|Myb/SANT domain containing	TRERF1 CHD7 RERE	4.75e-04	53	52	3	532
Coexpression	LIU_CDX2_TARGETS_UP	SOX10 KLF4 NOTCH4 HOXA2	6.00e-06	35	89	4	M16637
Coexpression	BILBAN_B_CLL_LPL_DN	JUNB TCF7 SFPQ KLF4	1.14e-05	41	89	4	M14940
CoexpressionAtlas	FacebaseRNAseq_e8.5_Paraxial Mesoderm_top-relative-expression-ranked_1000_k-means-cluster#3	SOX10 ZIC5 CECR2 EMID1 LTBP1 IRX1	4.05e-07	72	84	6	Facebase_RNAseq_e8.5_Paraxial Mesoderm_1000_K3
CoexpressionAtlas	FacebaseRNAseq_e8.5_Hind Brain Neural Epithelium_top-relative-expression-ranked_100	ZIC5 ZSWIM5 CECR2 CHD7 IRX3 IRX1	2.52e-06	98	84	6	Facebase_RNAseq_e8.5_Hind Brain Neural Epithelium_100
CoexpressionAtlas	FacebaseRNAseq_e8.5_Paraxial Mesoderm_top-relative-expression-ranked_500_k-means-cluster#1	SOX10 CECR2 EMID1 IRX1	3.57e-05	47	84	4	Facebase_RNAseq_e8.5_Paraxial Mesoderm_500_K1
CoexpressionAtlas	FacebaseRNAseq_e8.5_Paraxial Mesoderm_top-relative-expression-ranked_100	SOX10 ZIC5 CECR2 IRX1 ZNF579	4.16e-05	97	84	5	Facebase_RNAseq_e8.5_Paraxial Mesoderm_100
CoexpressionAtlas	FacebaseRNAseq_e9.5_Maxillary Arch_top-relative-expression-ranked_100	CECR2 POU3F3 DLX3 CHD7 HOXA2	4.16e-05	97	84	5	Facebase_RNAseq_e9.5_Maxillary Arch_100
CoexpressionAtlas	FacebaseRNAseq_e10.5_Lateral Nasal Eminence_top-relative-expression-ranked_2500_k-means-cluster#1	ATN1 CECR2 MYO18A FGD1 ADGRA1 CHD7 IRX3 RERE ZNF579 PBX3 KIAA1614 SLX4	5.53e-05	780	84	12	Facebase_RNAseq_e10.5_Lateral Nasal Eminence_2500_K1
CoexpressionAtlas	kidney_P3_CapMes_Crym_k-means-cluster#4_top-relative-expression-ranked_200	CUX2 CECR2 LTBP1 CHD7	1.28e-04	65	84	4	gudmap_kidney_P3_CapMes_Crym_k4_200
CoexpressionAtlas	FacebaseRNAseq_e10.5_Medial Nasal Eminence_top-relative-expression-ranked_1000_k-means-cluster#2	ARID3A DLX3 LTBP1 SF3A2	1.36e-04	66	84	4	Facebase_RNAseq_e10.5_Medial Nasal Eminence_1000_K2
CoexpressionAtlas	FacebaseRNAseq_e10.5_Neural Epithelium Overlying Lateral Eminence_top-relative-expression-ranked_2500_k-means-cluster#5	TRERF1 FOXJ2 RBM27 NECAB3 POU3F3 IRF7 ADGRA1 CHD7 ZNF579 KMT2E	2.55e-04	654	84	10	Facebase_RNAseq_e10.5_Neural Epithelium Overlying Lateral Eminence_2500_K5
CoexpressionAtlas	ECTO blastocyst_vs_ECTO bone marrow-Confounder_removed-fold2.0_adjp0.05	LMF1 IER5L LTBP1 IRX3 IRX1	2.60e-04	143	84	5	PCBC_ratio_ECTO blastocyst_vs_ECTO bone marrow_cfr-2X-p05
CoexpressionAtlas	facebase_RNAseq_e14.5_palate_poster_proximal_ERK2_WT_2500_K2	TRERF1 FOXJ2 SEC24D LMF1 TCF7 ATN1 IQSEC2 FGD1 POU3F3 PBX3 PRRC2A KIAA1614 PTH1R CHST8	2.60e-04	1208	84	14	facebase_RNAseq_e14.5_palate_poster_proximal_ERK2_WT_2500_K2
CoexpressionAtlas	facebase_RNAseq_e9.5_FaceMes_2500_K0	CECR2 POU3F3 CHD7	2.73e-04	32	84	3	facebase_RNAseq_e9.5_FaceMes_2500_K0
CoexpressionAtlas	kidney_P3_CapMes_Crym_k-means-cluster#2_top-relative-expression-ranked_500	CUX2 CECR2 LAGE3 LTBP1 CHD7	3.05e-04	148	84	5	gudmap_kidney_P3_CapMes_Crym_k2_500
CoexpressionAtlas	salivary gland	SOX10 PRR4 PRB4 IRX1	3.30e-04	83	84	4	salivary gland
CoexpressionAtlas	kidney_P3_CapMes_Crym_k-means-cluster#1_top-relative-expression-ranked_100	CUX2 CECR2 CHD7	3.57e-04	35	84	3	gudmap_kidney_P3_CapMes_Crym_k1_100
CoexpressionAtlas	FacebaseRNAseq_e10.5_Mandibular Arch_top-relative-expression-ranked_2500_k-means-cluster#5	TRERF1 FOXJ2 CUX2 WDR33 CECR2 NECAB3 POU3F3 IRF7 CHD7 ZNF579	3.80e-04	688	84	10	Facebase_RNAseq_e10.5_Mandibular Arch_2500_K5
CoexpressionAtlas	FacebaseRNAseq_e9.5_Maxillary Arch_top-relative-expression-ranked_1000	CUX2 ARID3A CECR2 EMID1 POU3F3 DLX3 LTBP1 CHD7 IRX1 ZNF579 KLF4 HOXA2	4.08e-04	967	84	12	Facebase_RNAseq_e9.5_Maxillary Arch_1000
CoexpressionAtlas	FacebaseRNAseq_e10.5_Neural Epithelium Flanking Eminence_top-relative-expression-ranked_2500_k-means-cluster#5	ATN1 NECAB3 FGD1 POU3F3 ADGRA1 CHD7 IRX3 RERE ZNF579 KIAA1614 SLX4	4.23e-04	831	84	11	Facebase_RNAseq_e10.5_Neural Epithelium Flanking Eminence_2500_K5
ToppCell	facs-Mammary_Gland-Mammary_Gland-21m\|Mammary_Gland / Skin_Bladder_Kidney_Mammary_Gland - method, tissue, subtissue, age, lineage, cell ontology and free annotation	ATXN2L JUNB SFPQ ATN1 IER5L IRX3 PRRC2A RASSF7 SF3A2 HR	5.50e-12	186	91	10	bd1185592aedebccd1007dbf2dd2f549fcdf9f42
ToppCell	facs-Mammary_Gland-Mammary_Gland-21m-Epithelial\|Mammary_Gland / Skin_Bladder_Kidney_Mammary_Gland - method, tissue, subtissue, age, lineage, cell ontology and free annotation	ATXN2L JUNB SFPQ ATN1 IER5L IRX3 PRRC2A RASSF7 SF3A2 HR	6.44e-12	189	91	10	965e0e388251e7318f8b463816dc96ccb4658677
ToppCell	3'_v3-lymph-node_spleen-Myeloid_Dendritic-pDC\|lymph-node_spleen / Manually curated celltypes from each tissue	CUX2 ARID3A COBL IRF7 NOTCH4 BAHCC1	2.52e-06	189	91	6	6c2ace61a7d62bcf7e76b73e2da8b722d03e713b
ToppCell	10x5'-lymph-node_spleen-Myeloid_Dendritic-pDC\|lymph-node_spleen / Manually curated celltypes from each tissue	CUX2 COBL IRF7 NOTCH4 BAHCC1	2.45e-05	168	91	5	cfed36fece51871a5abbcde71f6bd5e7212357ff
ToppCell	IIF-Myeloid-pDC\|IIF / Disease, Lineage and Cell Type	CUX2 COBL IRF7 NOTCH4 BAHCC1	2.98e-05	175	91	5	35cfb7d0b88678ff5b83ad6e19dbc15a908a3fcc
ToppCell	normal_Lymph_Node-B_lymphocytes-GrB-secreting_B_cells\|normal_Lymph_Node / Location, Cell class and cell subclass	CUX2 MYO18A COBL IRF7 PBX3	2.98e-05	175	91	5	29fbdfe1d3bfcb063be2bced0128a33176c5b78f
ToppCell	normal_Lymph_Node-B_lymphocytes-GrB-secreting_B_cells\|B_lymphocytes / Location, Cell class and cell subclass	CUX2 MYO18A COBL IRF7 PBX3	3.07e-05	176	91	5	d6e660df92a3d7dd5732171ee623763faf108476
ToppCell	COPD-Myeloid-pDC\|COPD / Disease state, Lineage and Cell class	CUX2 ARID3A TENT4A IRF7 NOTCH4	3.15e-05	177	91	5	415aa023195a7f961c09529f65cdcc7bb90eaf5d
ToppCell	LPS-IL1RA-Epithelial_alveolar-AT_1-Differentiating_AT1\|LPS-IL1RA / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX1 RASSF7 PTH1R	3.32e-05	179	91	5	04ce3673e46606f63d9c87bcba3a64c96817d812
ToppCell	PND28-Mesenchymal-Mesenchymal_structural-Fibroblastic-Mesothelial-Mesothelial_mature\|PND28 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	SGSM2 CNTNAP1 NECAB3 COBL ZNF579	3.50e-05	181	91	5	330d4322f4c4373f706273c1f4e218b59051b7fd
ToppCell	PND28-Mesenchymal-Mesenchymal_structural-Fibroblastic-Mesothelial\|PND28 / Age_group by Lineage, Lineage_subclass, Cell_type, subtypes-by-prolif	SGSM2 CNTNAP1 NECAB3 COBL ZNF579	3.50e-05	181	91	5	3f4d5d79c1286614514b0e8134079d6128a2a23e
ToppCell	Control-Epithelial_alveolar-AT_1-AT1-AT2\|Control / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX3 IRX1 RASSF7	3.60e-05	182	91	5	a95956ce4adccb34cc0c47ebfa1878ce4617904e
ToppCell	(7)_DC_plasmacytoid\|World / Spleen cell shreds - cell class (v1) and cell subclass (v1)	CUX2 COBL IRF7 NOTCH4 BAHCC1	3.69e-05	183	91	5	2c6475c935b5a90931be6b3c53f1f707cfcd11f4
ToppCell	droplet-Heart-HEART_(LV+RV_ONLY)-30m-Neuronal-cardiac_neuron\|Heart / Tongue_Heart_Limb_Muscle_Aorta_Diaphragm - method, tissue, subtissue, age, lineage, cell ontology and free annotation	SOX10 CUX2 MORN1 NECAB3 COBL	3.69e-05	183	91	5	8330c39184ce076e1f95fd3725b68af551d89db0
ToppCell	LPS_only-Epithelial_alveolar-AT_1-Differentiating_AT1\|LPS_only / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL TNKS1BP1 RASSF7 PTH1R	3.79e-05	184	91	5	42ce855b4f8475a8298192feec785bdc69bc5bb0
ToppCell	LPS-IL1RA-Epithelial_alveolar-AT_1\|LPS-IL1RA / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX3 IRX1 RASSF7	3.79e-05	184	91	5	cdf6f1c6cce97a7effa0c55959652e2c0b6992b3
ToppCell	kidney_cells-Hypertensive_with+without-CKD-Epithelial-Intermediate_tubule_epithelial_cell-kidney_loop_of_Henle_thin_ascending_limb_epithelial_cell\|Hypertensive_with+without-CKD / Celltypes from Cells and Nuclei per compartment and clinical group	IER5L POU3F3 IRX3 IRX1 RASSF7	3.89e-05	185	91	5	6da9a06e1514d5d5f47359a14637f02539846096
ToppCell	Control-Epithelial_alveolar\|Control / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX3 IRX1 RASSF7	3.89e-05	185	91	5	3937e026add96a396122139daf8011cfbc60e75c
ToppCell	LPS-IL1RA+antiTNF-Epithelial_alveolar-AT_1\|LPS-IL1RA+antiTNF / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX1 RASSF7 PTH1R	3.89e-05	185	91	5	c82eab551f65ecebe6db908eda9f9eb3414693c7
ToppCell	kidney_cells-Hypertensive_with+without-CKD-Epithelial-Intermediate_tubule_epithelial_cell-kidney_loop_of_Henle_thin_ascending_limb_epithelial_cell-Ascending_Thin_Limb_Cell\|Hypertensive_with+without-CKD / Celltypes from Cells and Nuclei per compartment and clinical group	IER5L POU3F3 IRX3 IRX1 RASSF7	3.89e-05	185	91	5	4a188e2566a75d1b4f3c879a8c241c277c4b451c
ToppCell	LPS-IL1RA+antiTNF-Epithelial_alveolar-AT_1-Differentiating_AT1\|LPS-IL1RA+antiTNF / V2 postpublication: Rhesus Genome Updated; Treatment groups by lineage, cell_type_level1, cell_type_level2	CECR2 COBL IRX1 RASSF7 PTH1R	3.99e-05	186	91	5	3aebe163799109ffc67e4e10ee47c2dd0886a92c
ToppCell	myeloid-Dendritic_cell-Plasmacytoid_dendritic_cell\|Dendritic_cell / Lineage, cell class and subclass	CUX2 ARID3A COBL IRF7 NOTCH4	3.99e-05	186	91	5	858134580a09ed8a5eb6d6413d8ca9265904dfc1
ToppCell	COVID-19_Mild\|World / Disease condition and Cell class	JUNB SFPQ IRF7 KMT2E SF1	4.76e-05	193	91	5	7256a5a491536c525b31ae96d47ab5c6303cb73a
ToppCell	Tracheal-10x3prime_v2-Epithelial-Epi_submucosal-gland\|10x3prime_v2 / Cell types per location group and 10X technology with lineage, and cell group designations	PRR4 PRB4 DLX3 NCCRP1 HR	4.87e-05	194	91	5	e90f6717e3421f8978d1fc1b2f30dcf69f6fcce7
ToppCell	COVID-19_Mild\|World / Disease group, lineage and cell class	JUNB SFPQ IRF7 KMT2E SF1	5.24e-05	197	91	5	5c33454b10023decd2f5ccda9229b6512659711e
ToppCell	Control_saline-Epithelial_alveolar-AT_1-2_Progenitor-Progenitor_AT1-AT2\|Control_saline / Treatment groups by lineage, cell group, cell type	IER5L COBL IRX3 IRX1 PTH1R	5.37e-05	198	91	5	827aa9d919bf6d670961e5501e17d351676127e3
ToppCell	severe-pDC\|severe / Cohort 1 (10x PBMC) with disease condition, cell group and cell class	ARID3A COBL POU3F3 IRF7 NOTCH4	5.37e-05	198	91	5	22da4a29b9ff8b94d98bc69b4632a2a58d5dd9e6
ToppCell	PBMC-Mild\|PBMC / Location, Disease Group, Cell group, Cell class (2021.03.09)	JUNB SFPQ IRF7 KMT2E SF1	5.37e-05	198	91	5	44417089b62056269cac38d3134ff209c05b7007
ToppCell	PBMC-Mild\|PBMC / Location, Disease Group, Cell group, Cell class and sub_cluster (2021.03.01)	JUNB SFPQ IRF7 KMT2E SF1	5.37e-05	198	91	5	28ef3fc4c17dcb765537b75917f7db78baa522db
ToppCell	control-unassigned\|World / Cohort 1 (10x PBMC) with disease condition, cell group and cell class	ATXN2L CSTF3 PATL1 KLF4 NOTCH4	5.50e-05	199	91	5	50e2da35edff1aadef939cfbd4549f73c1a07717
ToppCell	control-unassigned\|control / Cohort 1 (10x PBMC) with disease condition, cell group and cell class	ATXN2L CSTF3 PATL1 KLF4 NOTCH4	5.50e-05	199	91	5	5db7c8089172ac8e796613b3cef618d87007a0ab
ToppCell	LPS_IL1RA_TNF-Epithelial_alveolar-AT_2-Differentiating_AT2\|LPS_IL1RA_TNF / Treatment groups by lineage, cell group, cell type	SEC24D IER5L CECR2 IRX3 IRX1	5.63e-05	200	91	5	e8db082aa4d0597500e4f16a5c0ea3e62c6c59ae
ToppCell	kidney_cells-Renal_AKI_(acute_kidney_injury)-Epithelial-Intermediate_tubule_epithelial_cell\|Renal_AKI_(acute_kidney_injury) / Celltypes from Cells and Nuclei per compartment and clinical group	POU3F3 IRX3 IRX1 RASSF7 PTH1R	5.63e-05	200	91	5	ae91dc047dc80560ba298d8d21a772154fa2775d
ToppCell	Brain_organoid-organoid_Tanaka_cellReport-10w-Neuronal-Neuron\|10w / Sample Type, Dataset, Time_group, and Cell type.	CECR2 CHD7 RERE PBX3 CHST8	5.63e-05	200	91	5	332905a686356cd1e024d40679be98e9d8b1b5e8
ToppCell	COVID-19-COVID-19_Mild\|COVID-19 / Disease, condition lineage and cell class	JUNB SFPQ IRF7 KMT2E SF1	5.63e-05	200	91	5	62c25042086f1afd1102e0720e933c2e476468fd
ToppCell	(54)_pDC\|World / shred on Cell_type and subtype	CUX2 ARID3A IRF7 NOTCH4 BAHCC1	6.04e-05	203	91	5	b8ba3e51770ff7b45cd02472f3e63aa4d5816f6f
Disease	dentatorubral-pallidoluysian atrophy (implicated_via_orthology)	ATN1 RERE	8.40e-06	2	86	2	DOID:0060162 (implicated_via_orthology)
Disease	Autistic behavior	CUX2 POU3F3	2.32e-04	8	86	2	C0856975
Disease	MENTAL RETARDATION, AUTOSOMAL DOMINANT 40	POU3F3 KMT2E	2.98e-04	9	86	2	C4225275
Disease	Generalized hypotonia	ATN1 POU3F3	8.60e-04	15	86	2	C1858120
Disease	testosterone measurement	ATXN2L CUX2 ZIC5 CECR2 SKOR2 IQSEC2 EMID1 FGD1 TNKS1BP1 CHD7 IRX1	1.18e-03	1275	86	11	EFO_0004908
Disease	glomerulonephritis (biomarker_via_orthology)	GJA5 LTBP1	1.54e-03	20	86	2	DOID:2921 (biomarker_via_orthology)
Disease	Lung diseases	IRX3 IRX1 PTH1R	1.55e-03	78	86	3	C0024115
Disease	Cleft Palate	ATN1 RBM10 HOXA2	1.73e-03	81	86	3	C0008925
Disease	cigarettes per day measurement	CUX2 SFPQ RBM27 SGSM2 ZMIZ2 MYO18A	1.79e-03	438	86	6	EFO_0006525
Disease	Kallmann Syndrome	SOX10 CHD7	2.61e-03	26	86	2	C0162809
Disease	response to methotrexate, drug-induced liver injury	SNX18 BCOR	2.61e-03	26	86	2	EFO_0004228, GO_0031427

Protein segments in the cluster

Peptide	Gene	Start	Entry
GGAPDNSHPPRALPG	BAHCC1	1276	Q9P281
SNLSHLPGAPGGPPA	B4GALT3	56	O60512
PHPGNVLVRKHPGTG	ADCK1	316	Q86TW2
PGGPHSSRNGLCHPL	ANKLE2	691	Q86XL3
LDPVPHPINFGGPHN	CNTNAP1	356	P78357
RAHSRCGPGLPPPHV	ENKD1	166	Q9H0I2
PPGAFPHPLEGGSSH	ATN1	511	P54259
SPGLGQPRGFAHPPG	ADGRA1	346	Q86SQ6
ARPPGHQLQPPGAGA	ASB16-AS1	81	Q495Z4
SGGPGILPPGHSHPD	CUX2	1241	O14529
PHPVLLPNGSLFPGH	BCOR	681	Q6W2J9
HTPPVPQVPHGGSGG	CHD7	106	Q9P2D1
TLHHASPGPPPNPGA	DLX3	271	O60479
LGPDEKPHLGPGPSH	CECR2	806	Q9BXF3
PRGPHHLDNSSPGPG	ATXN2L	381	Q8WWM7
LHPPQSHGGPPQGAV	ATXN2L	991	Q8WWM7
HAGAQPRPRGGPHDA	RASSF7	336	Q02833
HRHSPTGPPGFPRDG	RBM10	86	P98175
GPGHSMRLPVPQGHG	RBM27	356	Q9P2N5
IPVTPAGPGLPGHHS	QRICH2	1441	Q9H0J4
PGGLLARGHAPHCPG	MORN1	341	Q5T089
QHPPGPGPHLQNLRS	PATL1	331	Q86TB9
ALPPPPHGHEGADGD	PBX3	26	P40426
THLGAGPPLSNGHRP	KLF4	286	O43474
GPSGPERGHHSPAPA	GPR179	1011	Q6PRD1
PPAAPPGGRGHSHRD	MAPK8IP1	251	Q9UQF2
AALHNPHPGPLLGAP	FOXD4L4	226	Q8WXT5
SPHGPLHASGPPGTA	IQSEC2	1456	Q5JU85
PQWQPGPGLGSHQPH	KIAA1614	721	Q5VZ46
GPGLGSHQPHPLDSR	KIAA1614	726	Q5VZ46
QHHVAPRTSGRGPPG	NCCRP1	211	Q6ZVX7
LPQHHGAPGPDGSAP	EDEM2	16	Q9BV94
QEPGSPPRDGLHHGP	HR	26	O43593
PAVPGGQLHPNPGGH	LTBP1	111	Q14766
GQLHPNPGGHPAAAP	LTBP1	116	Q14766
LVQHPGPGIPRPGHR	MYO18A	176	Q92614
HLAPPGLHPVPGGVF	CSTF3	596	Q12996
HHGAAAPPPGQLSPA	FOXL2	311	P58012
ACHGLHPPPRQGRGS	RASGRP4	501	Q8TDF6
LGPGPQHQPSGTGPH	KMT2E	1771	Q8IZD2
GAPPAHAPGPGRDAA	LAGE3	36	Q14657
HTHAGLQAPGPLPAP	IRF7	161	Q92985
QTGHVPPQGGTHRPP	FOXJ2	476	Q9P0K8
APSAPGTANGHPGPR	TENT4A	136	Q5XG87
PSPGHPGHPGARQLA	PAX1	76	P15863
PSPHHKPVTGEPGRG	CEFIP	251	Q711Q0
AEPSPQIHGGAPHLP	FER1L6-AS2	71	Q96M78
PEVPNGVSPGHRLPH	GJA5	321	P36382
VRAPGHGEPSHPPGG	COBL	1041	O75128
GHEPALSPLPGLGGH	FAM25E	41	A8MYX2
PVGPPHARISQHGDP	EMID1	261	Q96A84
GTALHHRGPPHLGPP	POU3F3	161	P20264
ALQPPHGAPHRGQPL	IER5L	161	Q5T953
HGAPHRGQPLEPLQP	IER5L	166	Q5T953
HPGKPESRPPQGGHQ	PRB4	116	P10163
APPHLLGLPGAAGHP	IRX3	431	P78415
THGHPPEPGQKGRPQ	PGBD3	526	Q8N328
IPSLNPGSHPRHGAG	HOXA2	56	O43364
HPNGTGVLGPHSPPA	TRMT2A	591	Q8IZ69
PPAGHPGAHGPSAGA	IRX1	336	P78414
PGAHGPSAGAPLQHP	IRX1	341	P78414
AAGQESPGHPHPSPP	GAS8-AS1	6	O95177
AALHNPHPGPLLGAP	FOXD4L5	226	Q5VV16
AALHNPHPGPLLGAP	FOXD4L6	226	Q3SYB3
APGHRVLPCGPSPQH	FGD1	71	P98174
HHGHDPRGGLQPSGP	PRRC2A	226	P48634
GGPNHPPAPRGRTAS	PRRC2A	1071	P48634
TAPGGHPRHKPGLPQ	PRRC2A	1491	P48634
GIQRPPLHFPQGGHL	SGSM2	346	O43147
PSAPSHAQPPLHGQG	RERE	836	Q9P2R6
LHGQGPPGPHSLQAG	RERE	846	Q9P2R6
PPGPHSLQAGPLLQH	RERE	851	Q9P2R6
PGPLLAVHPHAGTAP	NOTCH4	1426	Q99466
GVHPQAPGVHPAAPA	SF3A2	371	Q15428
PPPPGPHQFGQNGAH	SEC24D	61	O94855
LLGPPQGGSPRGSHH	SLX4	1036	Q8IY92
ERPGPGPAHPGGAAH	ARID3A	196	Q99856
DQPHHQPPNRAGAPG	TRAF3IP2	351	O43734
PRQPHHDLPPGGSQD	CHST8	51	Q9H2A9
PHRCPGPQSGPRSHF	LINC00612	11	Q8N6U2
DPRGPGSPHPACHRA	SLC49A3	501	Q6UXD7
YHQQHHQGPPPGGPG	SFPQ	251	P23246
SLHPGAGTAKHPPPA	SPATA33	51	Q96N06
PSPQAHHPRGSPGAA	ZSWIM5	26	Q9P217
HPQLPGHAKPGTPAL	PTH1R	531	Q03431
RGGSVPPQHHPSGPK	SNX18	206	Q96RF0
GSGPGSPHLHPPDKS	TNKS1BP1	296	Q9C0C2
GNPEHPSGQSHGPPT	SOX10	226	P56693
SPAPGSGHPEGPGAH	TOMM70	91	O94826
GSGVPGHPAAIPHPA	TCF7	221	P36402
GSGPAGSRVPAPHHP	SKOR2	591	Q2VWA4
DDGPQQRPPKPGGHH	PRR4	66	Q16378
APAGHLDPTHNPGTP	ZMIZ2	806	Q8NF64
NLGAPPGPQLHHSNP	ZMIZ2	826	Q8NF64
GMQRHPGPHGPLGPQ	WDR33	676	Q9C0J8
PRGMQGPPHPHGIQG	WDR33	746	Q9C0J8
AQVHAGGPAPHPCPR	ZNF579	431	Q8NAF0
GGGPHSFPHPLPSLT	SF1	391	Q15637
AGNSSRPVPPAPGGH	TMEM108	176	Q6UXF1
GSPQHPAPPPHSAGM	ZIC5	226	Q96T25
TPGAPGGHPHPLNGQ	ZIC5	266	Q96T25
GHGPGAHPQLPLTPL	TRERF1	731	Q96PN7
LPHAPPFAGGHPAQL	JUNB	216	P17275
PAPGRGPAGSPAHLH	LMF1	31	Q96S06
HPQLAPDPGPAGHTL	NECAB3	26	Q96P71