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Gene: COMMD3 |
Gene summary for COMMD3 |
Gene summary. |
Gene information | Species | Human | Gene symbol | COMMD3 | Gene ID | 23412 |
Gene name | COMM domain containing 3 | |
Gene Alias | BUP | |
Cytomap | 10p12.2 | |
Gene Type | protein-coding | GO ID | GO:0006810 | UniProtAcc | Q9UBI1 |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
23412 | COMMD3 | P83T-E | Human | Esophagus | ESCC | 1.56e-28 | 8.77e-01 | 0.1738 |
23412 | COMMD3 | P89T-E | Human | Esophagus | ESCC | 1.52e-02 | 2.80e-01 | 0.1752 |
23412 | COMMD3 | P91T-E | Human | Esophagus | ESCC | 1.35e-12 | 1.08e+00 | 0.1828 |
23412 | COMMD3 | P107T-E | Human | Esophagus | ESCC | 6.00e-16 | 3.47e-01 | 0.171 |
23412 | COMMD3 | P126T-E | Human | Esophagus | ESCC | 2.92e-04 | 4.73e-01 | 0.1125 |
23412 | COMMD3 | P127T-E | Human | Esophagus | ESCC | 2.35e-24 | 2.08e-01 | 0.0826 |
23412 | COMMD3 | P128T-E | Human | Esophagus | ESCC | 3.89e-25 | 6.73e-01 | 0.1241 |
23412 | COMMD3 | P130T-E | Human | Esophagus | ESCC | 4.90e-39 | 7.06e-01 | 0.1676 |
23412 | COMMD3 | S43 | Human | Liver | Cirrhotic | 2.96e-05 | -2.31e-01 | -0.0187 |
23412 | COMMD3 | HCC1_Meng | Human | Liver | HCC | 3.36e-90 | 2.04e-01 | 0.0246 |
23412 | COMMD3 | HCC2_Meng | Human | Liver | HCC | 1.22e-17 | 4.16e-03 | 0.0107 |
23412 | COMMD3 | cirrhotic1 | Human | Liver | Cirrhotic | 6.97e-15 | 2.01e-01 | 0.0202 |
23412 | COMMD3 | cirrhotic2 | Human | Liver | Cirrhotic | 3.13e-12 | 1.99e-01 | 0.0201 |
23412 | COMMD3 | cirrhotic3 | Human | Liver | Cirrhotic | 2.42e-13 | 1.64e-01 | 0.0215 |
23412 | COMMD3 | HCC1 | Human | Liver | HCC | 1.43e-05 | 3.67e+00 | 0.5336 |
23412 | COMMD3 | HCC2 | Human | Liver | HCC | 1.28e-11 | 3.91e+00 | 0.5341 |
23412 | COMMD3 | Pt13.b | Human | Liver | HCC | 1.01e-28 | 2.85e-01 | 0.0251 |
23412 | COMMD3 | Pt14.a | Human | Liver | HCC | 2.36e-02 | 1.49e-01 | 0.0169 |
23412 | COMMD3 | Pt14.b | Human | Liver | HCC | 2.26e-02 | 2.06e-01 | 0.018 |
23412 | COMMD3 | S029 | Human | Liver | HCC | 3.73e-04 | 4.04e-01 | 0.2581 |
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Transcriptomic changes along malignancy continuum. |
∗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 |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
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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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
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 |
Annotation of somatic variants for genes involved in malignant transformation |
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 |
COMMD3 | SNV | Missense_Mutation | novel | c.557N>T | p.Ser186Leu | p.S186L | Q9UBI1 | protein_coding | deleterious(0.01) | benign(0.14) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
COMMD3 | SNV | Missense_Mutation | rs143840494 | c.391C>T | p.Arg131Cys | p.R131C | Q9UBI1 | protein_coding | deleterious(0.05) | benign(0.007) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
COMMD3 | deletion | Frame_Shift_Del | c.298delN | p.Cys101AlafsTer11 | p.C101Afs*11 | Q9UBI1 | protein_coding | TCGA-NH-A5IV-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
COMMD3 | SNV | Missense_Mutation | novel | c.479N>T | p.Ser160Phe | p.S160F | Q9UBI1 | protein_coding | deleterious(0.01) | possibly_damaging(0.58) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
COMMD3 | SNV | Missense_Mutation | novel | c.131N>T | p.Ala44Val | p.A44V | Q9UBI1 | protein_coding | tolerated(0.05) | benign(0.305) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
COMMD3 | SNV | Missense_Mutation | rs143840494 | c.391C>T | p.Arg131Cys | p.R131C | Q9UBI1 | protein_coding | deleterious(0.05) | benign(0.007) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
COMMD3 | SNV | Missense_Mutation | c.498N>G | p.Ile166Met | p.I166M | Q9UBI1 | protein_coding | deleterious(0) | benign(0.347) | TCGA-AX-A0J0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
COMMD3 | SNV | Missense_Mutation | novel | c.379G>A | p.Asp127Asn | p.D127N | Q9UBI1 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-B5-A1MX-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Hormone Therapy | megace | SD |
COMMD3 | SNV | Missense_Mutation | novel | c.326N>G | p.Asn109Ser | p.N109S | Q9UBI1 | protein_coding | tolerated(0.78) | benign(0.138) | TCGA-EO-A22U-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
COMMD3 | SNV | Missense_Mutation | c.182N>G | p.His61Arg | p.H61R | Q9UBI1 | protein_coding | tolerated(0.12) | benign(0.417) | TCGA-DD-A39V-01 | Liver | liver hepatocellular carcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
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