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Gene: XRCC5 |
Gene summary for XRCC5 |
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Gene information | Species | Human | Gene symbol | XRCC5 | Gene ID | 7520 |
Gene name | X-ray repair cross complementing 5 | |
Gene Alias | KARP-1 | |
Cytomap | 2q35 | |
Gene Type | protein-coding | GO ID | GO:0000028 | UniProtAcc | P13010 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
7520 | XRCC5 | GSM4909285 | Human | Breast | IDC | 2.26e-16 | 4.08e-01 | 0.21 |
7520 | XRCC5 | GSM4909288 | Human | Breast | IDC | 7.84e-03 | 2.92e-01 | 0.0988 |
7520 | XRCC5 | GSM4909293 | Human | Breast | IDC | 1.23e-14 | 4.25e-01 | 0.1581 |
7520 | XRCC5 | GSM4909294 | Human | Breast | IDC | 1.21e-07 | 1.88e-01 | 0.2022 |
7520 | XRCC5 | GSM4909296 | Human | Breast | IDC | 2.96e-07 | -1.52e-01 | 0.1524 |
7520 | XRCC5 | GSM4909297 | Human | Breast | IDC | 4.53e-11 | -1.73e-01 | 0.1517 |
7520 | XRCC5 | GSM4909302 | Human | Breast | IDC | 8.13e-03 | -1.70e-01 | 0.1545 |
7520 | XRCC5 | GSM4909311 | Human | Breast | IDC | 1.47e-25 | -1.79e-01 | 0.1534 |
7520 | XRCC5 | GSM4909312 | Human | Breast | IDC | 6.10e-10 | -4.77e-02 | 0.1552 |
7520 | XRCC5 | GSM4909316 | Human | Breast | IDC | 3.81e-02 | -1.18e-01 | 0.21 |
7520 | XRCC5 | GSM4909317 | Human | Breast | IDC | 3.41e-11 | 4.79e-01 | 0.1355 |
7520 | XRCC5 | GSM4909319 | Human | Breast | IDC | 2.85e-33 | -2.97e-01 | 0.1563 |
7520 | XRCC5 | GSM4909320 | Human | Breast | IDC | 2.60e-04 | -3.34e-01 | 0.1575 |
7520 | XRCC5 | GSM4909321 | Human | Breast | IDC | 2.80e-14 | -2.47e-01 | 0.1559 |
7520 | XRCC5 | brca1 | Human | Breast | Precancer | 1.63e-03 | 2.65e-01 | -0.0338 |
7520 | XRCC5 | brca2 | Human | Breast | Precancer | 2.87e-14 | 3.81e-01 | -0.024 |
7520 | XRCC5 | brca3 | Human | Breast | Precancer | 1.01e-18 | 4.54e-01 | -0.0263 |
7520 | XRCC5 | M2 | Human | Breast | IDC | 9.35e-04 | 3.36e-01 | 0.21 |
7520 | XRCC5 | NCCBC11 | Human | Breast | DCIS | 4.40e-07 | 4.84e-01 | 0.1232 |
7520 | XRCC5 | NCCBC14 | Human | Breast | DCIS | 3.82e-16 | 3.32e-01 | 0.2021 |
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∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
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Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | ![]() |
Colorectum | SER | ![]() |
Colorectum | MSS | ![]() |
Colorectum | MSI-H | ![]() |
Colorectum | FAP | ![]() |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0032212 | Colorectum | AD | positive regulation of telomere maintenance via telomerase | 15/3918 | 34/18723 | 1.96e-03 | 1.58e-02 | 15 |
GO:0032392 | Colorectum | AD | DNA geometric change | 31/3918 | 90/18723 | 2.02e-03 | 1.63e-02 | 31 |
GO:0050767 | Colorectum | AD | regulation of neurogenesis | 99/3918 | 364/18723 | 2.35e-03 | 1.82e-02 | 99 |
GO:0007004 | Colorectum | AD | telomere maintenance via telomerase | 25/3918 | 69/18723 | 2.43e-03 | 1.88e-02 | 25 |
GO:0071481 | Colorectum | AD | cellular response to X-ray | 8/3918 | 14/18723 | 3.23e-03 | 2.38e-02 | 8 |
GO:0070198 | Colorectum | AD | protein localization to chromosome, telomeric region | 13/3918 | 29/18723 | 3.26e-03 | 2.39e-02 | 13 |
GO:0071472 | Colorectum | AD | cellular response to salt stress | 7/3918 | 12/18723 | 5.09e-03 | 3.38e-02 | 7 |
GO:0042274 | Colorectum | AD | ribosomal small subunit biogenesis | 25/3918 | 73/18723 | 5.69e-03 | 3.64e-02 | 25 |
GO:0006278 | Colorectum | AD | RNA-dependent DNA biosynthetic process | 25/3918 | 75/18723 | 8.36e-03 | 4.89e-02 | 25 |
GO:00226181 | Colorectum | SER | ribonucleoprotein complex assembly | 69/2897 | 220/18723 | 2.25e-09 | 2.15e-07 | 69 |
GO:00718261 | Colorectum | SER | ribonucleoprotein complex subunit organization | 70/2897 | 227/18723 | 3.83e-09 | 3.51e-07 | 70 |
GO:00226131 | Colorectum | SER | ribonucleoprotein complex biogenesis | 112/2897 | 463/18723 | 5.01e-07 | 2.48e-05 | 112 |
GO:00621971 | Colorectum | SER | cellular response to chemical stress | 87/2897 | 337/18723 | 5.33e-07 | 2.59e-05 | 87 |
GO:00422551 | Colorectum | SER | ribosome assembly | 25/2897 | 61/18723 | 1.44e-06 | 6.55e-05 | 25 |
GO:20002781 | Colorectum | SER | regulation of DNA biosynthetic process | 33/2897 | 106/18723 | 3.83e-05 | 9.82e-04 | 33 |
GO:00510541 | Colorectum | SER | positive regulation of DNA metabolic process | 53/2897 | 201/18723 | 4.51e-05 | 1.13e-03 | 53 |
GO:00322061 | Colorectum | SER | positive regulation of telomere maintenance | 20/2897 | 52/18723 | 4.80e-05 | 1.18e-03 | 20 |
GO:20012521 | Colorectum | SER | positive regulation of chromosome organization | 27/2897 | 82/18723 | 6.44e-05 | 1.49e-03 | 27 |
GO:00510521 | Colorectum | SER | regulation of DNA metabolic process | 83/2897 | 359/18723 | 8.03e-05 | 1.77e-03 | 83 |
GO:00701981 | Colorectum | SER | protein localization to chromosome, telomeric region | 13/2897 | 29/18723 | 1.66e-04 | 3.15e-03 | 13 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
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Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
XRCC5 | SNV | Missense_Mutation | rs764110781 | c.550N>T | p.Arg184Cys | p.R184C | P13010 | protein_coding | tolerated(0.2) | possibly_damaging(0.74) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
XRCC5 | SNV | Missense_Mutation | c.2030N>A | p.Ile677Asn | p.I677N | P13010 | protein_coding | deleterious(0.04) | probably_damaging(0.917) | TCGA-AO-A03T-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cyclophosphamide | SD | |
XRCC5 | deletion | Frame_Shift_Del | c.852delN | p.Glu287LysfsTer11 | p.E287Kfs*11 | P13010 | protein_coding | TCGA-A8-A09Z-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
XRCC5 | insertion | In_Frame_Ins | novel | c.916_917insATTTCA | p.Leu306delinsTyrPheIle | p.L306delinsYFI | P13010 | protein_coding | TCGA-AC-A3QQ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | ||
XRCC5 | deletion | Frame_Shift_Del | novel | c.123delT | p.Phe41LeufsTer16 | p.F41Lfs*16 | P13010 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
XRCC5 | SNV | Missense_Mutation | rs781529290 | c.1231C>T | p.His411Tyr | p.H411Y | P13010 | protein_coding | tolerated(1) | benign(0.015) | TCGA-Q1-A5R2-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PR |
XRCC5 | SNV | Missense_Mutation | novel | c.674N>T | p.Tyr225Phe | p.Y225F | P13010 | protein_coding | tolerated(0.11) | benign(0.143) | TCGA-ZJ-AAX4-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Unknown | Unknown | SD |
XRCC5 | SNV | Missense_Mutation | c.632N>C | p.Val211Ala | p.V211A | P13010 | protein_coding | deleterious(0.04) | benign(0.059) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
XRCC5 | SNV | Missense_Mutation | novel | c.131G>A | p.Arg44Gln | p.R44Q | P13010 | protein_coding | deleterious(0.01) | probably_damaging(0.936) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
XRCC5 | SNV | Missense_Mutation | rs762387474 | c.1861G>A | p.Glu621Lys | p.E621K | P13010 | protein_coding | tolerated(0.24) | benign(0.052) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
7520 | XRCC5 | KINASE | CAMPTOTHECIN | CAMPTOTHECIN | 16230379 | |
7520 | XRCC5 | KINASE | CISPLATIN | CISPLATIN | 15944802 | |
7520 | XRCC5 | KINASE | TRIBUTYRIN | TRIBUTYRIN | 16000590 | |
7520 | XRCC5 | KINASE | thalidomide | THALIDOMIDE | 21435719 | |
7520 | XRCC5 | KINASE | PHENYLBUTYRATE | PHENYLBUTANOIC ACID | 16000590 | |
7520 | XRCC5 | KINASE | HYDROGEN PEROXIDE | 11121725 |
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