XPC | OmnibusX

Name	Number of supported studies	Average coverage
endothelial cell	8 studies	26% ± 9%	Explore
regulatory T cell	5 studies	16% ± 1%	Explore
natural killer cell	4 studies	16% ± 1%	Explore
CD4-positive, alpha-beta T cell	4 studies	17% ± 1%	Explore
epithelial cell	4 studies	34% ± 9%	Explore
fibroblast	4 studies	24% ± 7%	Explore
basal cell	4 studies	32% ± 22%	Explore
astrocyte	4 studies	21% ± 6%	Explore
CD8-positive, alpha-beta memory T cell	4 studies	18% ± 1%	Explore
naive thymus-derived CD8-positive, alpha-beta T cell	3 studies	19% ± 3%	Explore
ciliated cell	3 studies	24% ± 9%	Explore
lymphocyte	3 studies	21% ± 4%	Explore
GABAergic neuron	3 studies	35% ± 10%	Explore
glutamatergic neuron	3 studies	40% ± 14%	Explore
effector memory CD4-positive, alpha-beta T cell	3 studies	19% ± 5%	Explore
oligodendrocyte	3 studies	23% ± 5%	Explore

II. Expression across tissues

Name	Number of supported studies	Average coverage
brain	4 studies	32% ± 8%	Explore
liver	3 studies	22% ± 5%	Explore

Tissue	GTEx Coverage	GTEx Average TPM	GTEx Number of samples	TCGA Coverage	TCGA Average TPM	TCGA Number of samples
stomach	100%	1449.88	358 / 359	100%	13.39	286 / 286
intestine	100%	1987.64	966 / 966	99%	13.31	524 / 527
esophagus	100%	1815.71	1443 / 1445	99%	10.97	181 / 183
lung	100%	1965.59	578 / 578	98%	12.09	1130 / 1155
breast	100%	2553.58	459 / 459	98%	19.95	1091 / 1118
thymus	100%	2795.78	653 / 653	98%	29.24	590 / 605
skin	100%	3662.20	1809 / 1809	97%	21.89	459 / 472
pancreas	99%	1268.33	325 / 328	98%	13.45	174 / 178
bladder	100%	2303.86	21 / 21	97%	13.30	487 / 504
kidney	100%	1692.52	89 / 89	96%	18.69	866 / 901
brain	97%	1019.80	2563 / 2642	99%	19.56	697 / 705
prostate	100%	2174.67	245 / 245	96%	16.41	480 / 502
ovary	100%	2982.82	180 / 180	93%	9.75	402 / 430
uterus	100%	2818.99	170 / 170	91%	11.95	418 / 459
liver	99%	944.43	224 / 226	87%	10.23	352 / 406
adrenal gland	99%	1688.21	255 / 258	85%	12.34	195 / 230
adipose	100%	2128.94	1204 / 1204	0%	0	0 / 0
blood vessel	100%	2492.04	1335 / 1335	0%	0	0 / 0
spleen	100%	2104.92	241 / 241	0%	0	0 / 0
ureter	0%	0	0 / 0	100%	5.19	1 / 1
muscle	99%	1375.88	796 / 803	0%	0	0 / 0
tonsil	0%	0	0 / 0	98%	14.27	44 / 45
lymph node	0%	0	0 / 0	93%	16.64	27 / 29
heart	91%	795.92	785 / 861	0%	0	0 / 0
eye	0%	0	0 / 0	90%	11.46	72 / 80
peripheral blood	88%	1530.29	813 / 929	0%	0	0 / 0
abdomen	0%	0	0 / 0	0%	0	0 / 0
bone marrow	0%	0	0 / 0	0%	0	0 / 0
diaphragm	0%	0	0 / 0	0%	0	0 / 0
gingiva	0%	0	0 / 0	0%	0	0 / 0
nasal cavity	0%	0	0 / 0	0%	0	0 / 0
nasopharynx	0%	0	0 / 0	0%	0	0 / 0
nose	0%	0	0 / 0	0%	0	0 / 0
placenta	0%	0	0 / 0	0%	0	0 / 0
spinal column	0%	0	0 / 0	0%	0	0 / 0

III. Associated gene sets

GO_0010996	Biological process	response to auditory stimulus
GO_0006281	Biological process	DNA repair
GO_0006289	Biological process	nucleotide-excision repair
GO_0070914	Biological process	UV-damage excision repair
GO_0000720	Biological process	pyrimidine dimer repair by nucleotide-excision repair
GO_0010224	Biological process	response to UV-B
GO_0045893	Biological process	positive regulation of DNA-templated transcription
GO_0031573	Biological process	mitotic intra-S DNA damage checkpoint signaling
GO_0009410	Biological process	response to xenobiotic stimulus
GO_1901990	Biological process	regulation of mitotic cell cycle phase transition
GO_0006298	Biological process	mismatch repair
GO_0005730	Cellular component	nucleolus
GO_0005886	Cellular component	plasma membrane
GO_0005739	Cellular component	mitochondrion
GO_0005654	Cellular component	nucleoplasm
GO_0090734	Cellular component	site of DNA damage
GO_0005829	Cellular component	cytosol
GO_0000109	Cellular component	nucleotide-excision repair complex
GO_0005737	Cellular component	cytoplasm
GO_0071942	Cellular component	XPC complex
GO_0043231	Cellular component	intracellular membrane-bounded organelle
GO_0000111	Cellular component	nucleotide-excision repair factor 2 complex
GO_0000785	Cellular component	chromatin
GO_0005634	Cellular component	nucleus
GO_0000404	Molecular function	heteroduplex DNA loop binding
GO_0003697	Molecular function	single-stranded DNA binding
GO_0044877	Molecular function	protein-containing complex binding
GO_0000405	Molecular function	bubble DNA binding
GO_0061629	Molecular function	RNA polymerase II-specific DNA-binding transcription factor binding
GO_0003713	Molecular function	transcription coactivator activity
GO_0140612	Molecular function	DNA damage sensor activity
GO_0005515	Molecular function	protein binding
GO_0003684	Molecular function	damaged DNA binding

IV. Literature review

[source]

Gene name	XPC
Protein name	XPC complex subunit, DNA damage recognition and repair factor Mutant xeroderma pigmentosum group C DNA repair protein complementing XP-C cells (Xeroderma pigmentosum group C-complementing protein) (p125) Xeroderma pigmentosum, complementation group C isoform A Xeroderma pigmentosum complementation group C
Synonyms	XPCC
Description	FUNCTION: Involved in global genome nucleotide excision repair (GG-NER) by acting as damage sensing and DNA-binding factor component of the XPC complex . Has only a low DNA repair activity by itself which is stimulated by RAD23B and RAD23A. Has a preference to bind DNA containing a short single-stranded segment but not to damaged oligonucleotides . This feature is proposed to be related to a dynamic sensor function: XPC can rapidly screen duplex DNA for non-hydrogen-bonded bases by forming a transient nucleoprotein intermediate complex which matures into a stable recognition complex through an intrinsic single-stranded DNA-binding activity . The XPC complex is proposed to represent the first factor bound at the sites of DNA damage and together with other core recognition factors, XPA, RPA and the TFIIH complex, is part of the pre-incision (or initial recognition) complex . The XPC complex recognizes a wide spectrum of damaged DNA characterized by distortions of the DNA helix such as single-stranded loops, mismatched bubbles or single-stranded overhangs . The orientation of XPC complex binding appears to be crucial for inducing a productive NER . XPC complex is proposed to recognize and to interact with unpaired bases on the undamaged DNA strand which is followed by recruitment of the TFIIH complex and subsequent scanning for lesions in the opposite strand in a 5'-to-3' direction by the NER machinery . Cyclobutane pyrimidine dimers (CPDs) which are formed upon UV-induced DNA damage esacpe detection by the XPC complex due to a low degree of structural perurbation. Instead they are detected by the UV-DDB complex which in turn recruits and cooperates with the XPC complex in the respective DNA repair . In vitro, the XPC:RAD23B dimer is sufficient to initiate NER; it preferentially binds to cisplatin and UV-damaged double-stranded DNA and also binds to a variety of chemically and structurally diverse DNA adducts . XPC:RAD23B contacts DNA both 5' and 3' of a cisplatin lesion with a preference for the 5' side. XPC:RAD23B induces a bend in DNA upon binding. XPC:RAD23B stimulates the activity of DNA glycosylases TDG and SMUG1 . .; FUNCTION: In absence of DNA repair, the XPC complex also acts as a transcription coactivator: XPC interacts with the DNA-binding transcription factor E2F1 at a subset of promoters to recruit KAT2A and histone acetyltransferase complexes (HAT) . KAT2A recruitment specifically promotes acetylation of histone variant H2A.Z.1/H2A.Z, but not H2A.Z.2/H2A.V, thereby promoting expression of target genes . .
Accessions	D2CPJ5 D2CPJ2 E7EUB5 ENST00000476581.6 [Q01831-3] Q01831 D2CPK4 X5DRB1 D9I4E1 D2CPJ3 D2CPK0 D2CPJ4 ENST00000285021.12 [Q01831-1] D2CPK6 ENST00000511155.1 D2CPK7 D2CPK5

XPC report

I. Expression across cell types

II. Expression across tissues

III. Associated gene sets

IV. Literature review