Cluster composition

Functions

Category	Name	IntersectionWithQuery	PValue	GenesInTerm	GenesInQuery	GenesInTermInQuery	ID
GeneOntologyMolecularFunction	cysteine-type peptidase activity	USP12 USP46 MINDY4 CAPN2 USP40	2.31e-05	192	36	5	GO:0008234
GeneOntologyMolecularFunction	cysteine-type deubiquitinase activity	USP12 USP46 MINDY4 USP40	5.15e-05	114	36	4	GO:0004843
GeneOntologyMolecularFunction	deubiquitinase activity	USP12 USP46 MINDY4 USP40	7.15e-05	124	36	4	GO:0101005
GeneOntologyMolecularFunction	ubiquitin-like protein peptidase activity	USP12 USP46 MINDY4 USP40	1.05e-04	137	36	4	GO:0019783
GeneOntologyMolecularFunction	4 iron, 4 sulfur cluster binding	RTEL1 CDKAL1	3.25e-03	47	36	2	GO:0051539
MousePheno	abnormal striatum morphology	MANBA PLXNB2 SLC9A6 VPS13A	2.45e-05	75	32	4	MP:0004077
Domain	USP_CS	USP12 USP46 USP40	2.77e-04	66	36	3	IPR018200
Domain	USP_1	USP12 USP46 USP40	3.29e-04	70	36	3	PS00972
Domain	UCH	USP12 USP46 USP40	3.44e-04	71	36	3	PF00443
Domain	USP_2	USP12 USP46 USP40	3.44e-04	71	36	3	PS00973
Domain	USP_3	USP12 USP46 USP40	3.58e-04	72	36	3	PS50235
Domain	USP_dom	USP12 USP46 USP40	3.58e-04	72	36	3	IPR028889
Domain	Peptidase_C19_UCH	USP12 USP46 USP40	3.58e-04	72	36	3	IPR001394
Domain	PSI	ATRN PLXNB2	1.73e-03	32	36	2	PF01437
Domain	Plexin_repeat	ATRN PLXNB2	1.73e-03	32	36	2	IPR002165
Domain	PSI	ATRN PLXNB2	3.25e-03	44	36	2	IPR016201
Domain	PSI	ATRN PLXNB2	3.54e-03	46	36	2	SM00423
Domain	CUB	ATRN SEZ6	4.01e-03	49	36	2	PF00431
Domain	CUB	ATRN SEZ6	4.18e-03	50	36	2	SM00042
Domain	-	ATRN SEZ6	4.51e-03	52	36	2	2.60.120.290
Domain	CUB	ATRN SEZ6	4.68e-03	53	36	2	PS01180
Domain	CUB_dom	ATRN SEZ6	5.39e-03	57	36	2	IPR000859
Pubmed	The EBNA3 family of Epstein-Barr virus nuclear proteins associates with the USP46/USP12 deubiquitination complexes to regulate lymphoblastoid cell line growth.	USP12 USP46	1.04e-06	2	36	2	25855980
Pubmed	A Multipronged Unbiased Strategy Guides the Development of an Anti-EGFR/EPHA2-Bispecific Antibody for Combination Cancer Therapy.	USP12 ERBB4 USP46 ACACA PLXNB2 CDKAL1	4.35e-06	421	36	6	36976175
Pubmed	The dystrophia myotonica WD repeat-containing protein DMWD and WDR20 differentially regulate USP12 deubiquitinase.	USP12 USP46	6.24e-06	4	36	2	33844468
Pubmed	A conserved two-step binding for the UAF1 regulator to the USP12 deubiquitinating enzyme.	USP12 USP46	6.24e-06	4	36	2	27650958
Pubmed	E1-mediated recruitment of a UAF1-USP deubiquitinase complex facilitates human papillomavirus DNA replication.	USP12 USP46	6.24e-06	4	36	2	24850727
Pubmed	WDR20 prevents hepatocellular carcinoma senescence by orchestrating the simultaneous USP12/46-mediated deubiquitination of c-Myc.	USP12 USP46	6.24e-06	4	36	2	39432777
Pubmed	WDR20 regulates shuttling of the USP12 deubiquitinase complex between the plasma membrane, cytoplasm and nucleus.	USP12 USP46	6.24e-06	4	36	2	30466959
Pubmed	UAF1 is a subunit of multiple deubiquitinating enzyme complexes.	USP12 USP46	1.04e-05	5	36	2	19075014
Pubmed	WDR20 regulates activity of the USP12 x UAF1 deubiquitinating enzyme complex.	USP12 USP46	1.04e-05	5	36	2	20147737
Pubmed	Heparin-binding EGF-like growth factor shows transient left-right asymmetrical expression in mouse myotome pairs.	ERBB4 DNAH11	1.04e-05	5	36	2	15533812
Pubmed	Human transcription factor protein interaction networks.	YTHDF1 USP12 NCOA3 USP46 NUP93 DET1 MIDEAS ACTR5 TRPS1	1.12e-05	1429	36	9	35140242
Pubmed	The USP1-UAF1 complex interacts with RAD51AP1 to promote homologous recombination repair.	USP12 USP46	2.91e-05	8	36	2	27463890
Pubmed	Regulation of histone H2A and H2B deubiquitination and Xenopus development by USP12 and USP46.	USP12 USP46	3.73e-05	9	36	2	21183687
Pubmed	WD repeat protein WDR48 in complex with deubiquitinase USP12 suppresses Akt-dependent cell survival signaling by stabilizing PH domain leucine-rich repeat protein phosphatase 1 (PHLPP1).	USP12 USP46	4.66e-05	10	36	2	24145035
Pubmed	Human and mouse proteases: a comparative genomic approach.	USP12 USP46 USP40	8.22e-05	81	36	3	12838346
Pubmed	Identification of the SOX2 Interactome by BioID Reveals EP300 as a Mediator of SOX2-dependent Squamous Differentiation and Lung Squamous Cell Carcinoma Growth.	NCOA3 MIDEAS TRPS1	8.84e-05	83	36	3	28794006
Pubmed	Comparative Application of BioID and TurboID for Protein-Proximity Biotinylation.	YTHDF1 NCOA3 NUP93 MIDEAS CDKAL1	1.03e-04	457	36	5	32344865
Pubmed	MMS19 links cytoplasmic iron-sulfur cluster assembly to DNA metabolism.	RTEL1 CDKAL1	1.08e-04	15	36	2	22678361
Pubmed	Induction of OTUD4 by viral infection promotes antiviral responses through deubiquitinating and stabilizing MAVS.	USP12 USP46	1.58e-04	18	36	2	30410068
Pubmed	The DNA sequence and comparative analysis of human chromosome 20.	YTHDF1 ATRN NCOA3 RTEL1 ACTR5	1.83e-04	517	36	5	11780052
Pubmed	Usp12 stabilizes the T-cell receptor complex at the cell surface during signaling.	USP12 USP46	2.38e-04	22	36	2	26811477
Pubmed	Cloning and enzymatic analysis of 22 novel human ubiquitin-specific proteases.	USP46 USP40	2.60e-04	23	36	2	14715245
Pubmed	Large-scale concatenation cDNA sequencing.	ERBB4 USP46 KIF1A SLC16A2 VPS13A	2.83e-04	568	36	5	9110174
Pubmed	A "double adaptor" method for improved shotgun library construction.	ERBB4 USP46 KIF1A SLC16A2 VPS13A	2.97e-04	574	36	5	8619474
Pubmed	LMBR1L regulates lymphopoiesis through Wnt/β-catenin signaling.	NUP93 ASCC3 KIF1A PLXNB2 CDKAL1 CAPN2	3.78e-04	942	36	6	31073040
Pubmed	Proteomic identification of common SCF ubiquitin ligase FBXO6-interacting glycoproteins in three kinds of cells.	ATRN NUP93 MANBA ACACA PLXNB2	4.02e-04	613	36	5	22268729
Pubmed	Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability.	USP46 MINDY4 USP40	4.77e-04	147	36	3	29576527
Pubmed	Cullin 1 (CUL1) Promotes Primary Ciliogenesis through the Induction of Ubiquitin-Proteasome-Dependent Dvl2 Degradation.	ACACA RTEL1 DNAH11	5.26e-04	152	36	3	34299191
Pubmed	The E3 ubiquitin ligases, HUWE1 and NEDD4-1, are involved in the post-translational regulation of the ABCG1 and ABCG4 lipid transporters.	NUP93 ACACA	5.39e-04	33	36	2	26296893
Pubmed	Conserved molecular signatures of neurogenesis in the hippocampal subgranular zone of rodents and primates.	ERBB4 ITIH3 CAPN2 SEZ6	6.02e-04	376	36	4	24154525
Pubmed	Elevation of hsa-miR-7-5p level mediated by CtBP1-p300-AP1 complex targets ATXN1 to trigger NF-κB-dependent inflammation response.	NUP93 RTEL1 CDKAL1	7.40e-04	171	36	3	36629882
Pubmed	Paralog knockout profiling identifies DUSP4 and DUSP6 as a digenic dependence in MAPK pathway-driven cancers.	USP12 USP46 PLXNB2 CAPN2 DNAH11	8.84e-04	730	36	5	34857952
Pubmed	Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation.	NCOA3 ASCC3 ACACA TRPS1	8.94e-04	418	36	4	34709266
Pubmed	The Dual Estrogen Receptor α Inhibitory Effects of the Tissue-Selective Estrogen Complex for Endometrial and Breast Safety.	YTHDF1 NCOA3	9.16e-04	43	36	2	26487511
Interaction	SOX17 interactions	NCOA3 NUP93 MIDEAS TRPS1	2.17e-05	95	35	4	int:SOX17
Interaction	DEFB135 interactions	ATRN MANBA PLXNB2	5.26e-05	42	35	3	int:DEFB135
Interaction	IL25 interactions	MANBA ACACA IL17RB	6.05e-05	44	35	3	int:IL25
Interaction	DNASE2B interactions	YTHDF1 MANBA CAPN2	6.05e-05	44	35	3	int:DNASE2B
Interaction	PATE1 interactions	ATRN MANBA PLXNB2	8.37e-05	49	35	3	int:PATE1
Interaction	SLURP1 interactions	ATRN MANBA PLXNB2 RTEL1	1.10e-04	144	35	4	int:SLURP1
Cytoband	3p21.1	ITIH3 IL17RB	5.05e-04	42	36	2	3p21.1
Cytoband	Ensembl 112 genes in cytogenetic band chr20q13	YTHDF1 NCOA3 RTEL1	4.40e-03	422	36	3	chr20q13
GeneFamily	Ubiquitin specific peptidases	USP12 USP46 USP40	6.96e-05	56	26	3	366
GeneFamily	DNA helicases	ASCC3 RTEL1	2.67e-04	17	26	2	1167
GeneFamily	CD molecules\|I-set domain containing\|Immunoglobulin like domain containing\|Interleukin receptors\|TIR domain containing	IL17RB IL9R	1.65e-03	42	26	2	602
GeneFamily	Solute carriers	SLC13A4 SLC16A2 SLC9A6	1.85e-02	395	26	3	752
ToppCell	facs-Marrow-T-cells-3m-Myeloid-promonocyte\|Marrow / Spleen_Marrow_Thymus - method, tissue, subtissue, age, lineage, cell ontology and free annotation	USP12 PLXNB2 CAPN2 TRPS1	1.05e-05	170	36	4	a78d9789c3e7c84a36e1bd380192d7aba4a4d443
ToppCell	facs-Marrow-T-cells-3m-Myeloid-monocyte_+_promonocyte\|Marrow / Spleen_Marrow_Thymus - method, tissue, subtissue, age, lineage, cell ontology and free annotation	USP12 PLXNB2 CAPN2 TRPS1	1.05e-05	170	36	4	ff68600b945b3a5437b14e5411b3db800d0ccbe5
ToppCell	Parenchymal-NucSeq\|Parenchymal / Cell types per location group and 10X technology with lineage, and cell group designations	ERBB4 SH3RF1 ACACA CDKAL1	1.92e-05	198	36	4	1996373bdccc55aac347d349bd22f6aad6d0c668
ToppCell	Tracheal-NucSeq\|Tracheal / Cell types per location group and 10X technology with lineage, and cell group designations	ERBB4 ACACA CDKAL1 TRPS1	1.96e-05	199	36	4	94b94b17ca18b8dc27b91da1f2ccf89e03cc7035
ToppCell	Tracheal-10x5prime-Stromal-Schwann-Schwann_Myelinating\|10x5prime / Cell types per location group and 10X technology with lineage, and cell group designations	KIF1A C7orf25 ITIH3 IL17RB	1.96e-05	199	36	4	2b567b6fd8addf059bbf2b72c55a7647aefdc595
Drug	Verteporfin [129497-78-5]; Down 200; 2.8uM; MCF7; HT_HG-U133A	ATRN MANBA PLXNB2 SLC9A6 VPS13A	5.25e-06	161	36	5	3556_DN
Drug	Trimethylcolchicinic acid [3482-37-9]; Up 200; 11.6uM; HL60; HT_HG-U133A	ATRN NCOA3 RTEL1 CDKAL1 CAPN2	1.23e-05	192	36	5	2146_UP
Disease	Hepatic fibrosis	ATRN ERBB4 ACTR5	2.96e-05	49	36	3	HP_0001395
Disease	thoracic aortic calcification measurement	CDKAL1 VPS13A	5.18e-05	9	36	2	EFO_0010273
Disease	nevus count, cutaneous melanoma	PLXNB2 RTEL1 CDKAL1	1.88e-04	91	36	3	EFO_0000389, EFO_0004632
Disease	unipolar depression, schizophrenia	ACTR5 ITIH3	4.27e-04	25	36	2	EFO_0003761, MONDO_0005090
Disease	cutaneous melanoma	PLXNB2 RTEL1 CDKAL1	4.35e-04	121	36	3	EFO_0000389
Disease	Mental deterioration	ERBB4 DNAH11	5.76e-04	29	36	2	HP_0001268
Disease	nicotine withdrawal symptom count	ERBB4 KIF1A	8.40e-04	35	36	2	EFO_0009263
Disease	urate measurement, bone density	ERBB4 ACTR5 CDKAL1 DNAH11 USP40	8.80e-04	619	36	5	EFO_0003923, EFO_0004531
Disease	apolipoprotein B measurement	NUP93 MIDEAS CHST4 TRPS1 DNAH11	1.19e-03	663	36	5	EFO_0004615
Disease	phosphoglycerides measurement	NUP93 TRPS1	1.58e-03	48	36	2	EFO_0022291
Disease	reticulocyte measurement	ATRN MIDEAS PLXNB2 CDKAL1 TRPS1 VPS13A	1.58e-03	1053	36	6	EFO_0010700
Disease	non-high density lipoprotein cholesterol measurement	ASCC3 MIDEAS CDKAL1 TRPS1 DNAH11	1.65e-03	713	36	5	EFO_0005689
Disease	free cholesterol to total lipids in very large HDL percentage	NUP93 TRPS1	2.06e-03	55	36	2	EFO_0022288
Disease	free cholesterol measurement, very low density lipoprotein cholesterol measurement	ITIH3 TRPS1 DNAH11	2.28e-03	215	36	3	EFO_0008317, EFO_0008591
Disease	very low density lipoprotein cholesterol measurement, lipid measurement	ITIH3 TRPS1 DNAH11	2.43e-03	220	36	3	EFO_0004529, EFO_0008317
Disease	free cholesterol to total lipids in medium HDL percentage	NUP93 TRPS1	2.45e-03	60	36	2	EFO_0022282
Disease	very low density lipoprotein cholesterol measurement, phospholipid measurement	ITIH3 TRPS1 DNAH11	2.73e-03	229	36	3	EFO_0004639, EFO_0008317

Protein segments in the cluster

Peptide	Gene	Start	Entry
FVYNPTTFQLEHNFN	ERBB4	266	Q15303
TIYGQIFSFHFQQQA	DNAH11	2656	Q96DT5
IFSFHFQQQAFAPSI	DNAH11	2661	Q96DT5
FDVLPNFFYHSNQVV	ACACA	1131	Q13085
QPVFNLAAYHQLFVG	ACTR5	431	Q9H9F9
VFHQNVFPNFTVVNV	DET1	41	Q7L5Y6
FAFQPSLVILGHYFQ	SLC16A2	211	P36021
SHFTVNQQPFLYFQV	NUP93	451	Q8N1F7
RNHPNITFFVYVSNF	ATRN	1246	O75882
FPVELNTVYFIGAHN	IL17RB	126	Q9NRM6
AFEDGPYVFFVFNQQ	PLXNB2	221	O15031
PYVFFVFNQQDKHPA	PLXNB2	226	O15031
RQPGFHYVLQVVSQF	PGAP4	111	Q9BRR3
TGQVIYKGFLFFHNQ	OLFML1	216	Q6UWY5
YDQHIFTPGGFVNRF	AWAT2	231	Q6E213
QPVQYSNPHIIFAFY	C7orf25	156	Q9BPX7
FYVAHNQFYEQVLVP	CDKAL1	451	Q5VV42
HYFAQNFFAPLLPVG	MANBA	681	O00462
PFQLAFGHQVNRQVF	MIDEAS	216	Q6PJG2
PLNQSFQENYAGIFH	CAPN2	126	P17655
HFNNQYPAAEVVNFG	SLC13A4	296	Q9UKG4
PIVFEVFGHYQQHPF	KIF1A	1071	Q12756
GFYQFVRPHHKQQFE	RTEL1	951	Q9NZ71
LFTFQNHVFNPTFVV	SLC9A6	401	Q92581
NHVFNPTFVVGAFVA	SLC9A6	406	Q92581
NVQIVNGYFVHFFAP	ITIH3	261	Q06033
FSQQQFAHQGNPAVY	NCOA3	1376	Q9Y6Q9
FFQPLYSVHNGNFQT	IL9R	311	Q01113
VNGIHGFFPTNFVQI	SH3RF1	176	Q7Z6J0
LYNFSHFNPVQTQIF	ASCC3	1321	Q8N3C0
SFVGQLFGQHPDVFY	CHST4	56	Q8NCG5
QYPLFGLPFVHNDFQ	TRPS1	1091	Q9UHF7
QIQNQIHGAVFPFVF	VPS13A	2651	Q96RL7
TFLQQSIHQFEVGPY	MINDY4	551	Q4G0A6
QFPVNEHYFGLVNFG	USP12	31	O75317
LGYQQGFVIHFFEVP	SEZ6	691	Q53EL9
EQFPINEHYFGLVNF	USP46	26	P62068
QYHFFNGALHPVVSQ	USP40	536	Q9NVE5
LGNNIYQHRFNFFPE	YTHDF1	111	Q9BYJ9