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Gene: TRIM29 |
Gene summary for TRIM29 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TRIM29 | Gene ID | 23650 |
Gene name | tripartite motif containing 29 | |
Gene Alias | ATDC | |
Cytomap | 11q23.3 | |
Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | B7Z5V5 |
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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 |
23650 | TRIM29 | CA_HPV_1 | Human | Cervix | CC | 1.42e-12 | -3.19e-01 | 0.0264 |
23650 | TRIM29 | CA_HPV_3 | Human | Cervix | CC | 2.05e-08 | 3.39e-01 | 0.0414 |
23650 | TRIM29 | Tumor | Human | Cervix | CC | 5.02e-38 | 7.91e-01 | 0.1241 |
23650 | TRIM29 | sample3 | Human | Cervix | CC | 5.07e-47 | 8.08e-01 | 0.1387 |
23650 | TRIM29 | L1 | Human | Cervix | CC | 3.73e-03 | 3.65e-01 | 0.0802 |
23650 | TRIM29 | T3 | Human | Cervix | CC | 1.34e-46 | 8.25e-01 | 0.1389 |
23650 | TRIM29 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.05e-03 | 2.11e-01 | -0.1808 |
23650 | TRIM29 | HTA11_2951_2000001011 | Human | Colorectum | AD | 2.35e-03 | 2.95e-01 | 0.0216 |
23650 | TRIM29 | HTA11_411_2000001011 | Human | Colorectum | SER | 1.94e-04 | 5.25e-01 | -0.2602 |
23650 | TRIM29 | HTA11_8622_2000001021 | Human | Colorectum | SER | 2.29e-06 | 3.14e-01 | 0.0528 |
23650 | TRIM29 | HTA11_7696_3000711011 | Human | Colorectum | AD | 4.86e-04 | 9.76e-02 | 0.0674 |
23650 | TRIM29 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.10e-11 | 2.58e-01 | 0.294 |
23650 | TRIM29 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 2.42e-04 | 1.89e-01 | 0.281 |
23650 | TRIM29 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 2.09e-25 | 6.04e-01 | 0.3859 |
23650 | TRIM29 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.78e-18 | 4.40e-01 | 0.3005 |
23650 | TRIM29 | LZE4T | Human | Esophagus | ESCC | 7.93e-08 | 6.00e-01 | 0.0811 |
23650 | TRIM29 | LZE8T | Human | Esophagus | ESCC | 2.62e-03 | 6.90e-02 | 0.067 |
23650 | TRIM29 | LZE24T | Human | Esophagus | ESCC | 9.99e-21 | 1.27e+00 | 0.0596 |
23650 | TRIM29 | LZE22D3 | Human | Esophagus | HGIN | 1.83e-05 | 1.80e-01 | 0.0653 |
23650 | TRIM29 | LZE6T | Human | Esophagus | ESCC | 1.47e-06 | -4.32e-01 | 0.0845 |
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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 |
GO:00345048 | Cervix | CC | protein localization to nucleus | 68/2311 | 290/18723 | 9.91e-08 | 5.25e-06 | 68 |
GO:19001808 | Cervix | CC | regulation of protein localization to nucleus | 31/2311 | 136/18723 | 4.76e-04 | 4.69e-03 | 31 |
GO:19038286 | Cervix | CC | negative regulation of cellular protein localization | 24/2311 | 117/18723 | 8.10e-03 | 4.23e-02 | 24 |
GO:1900180 | Colorectum | AD | regulation of protein localization to nucleus | 55/3918 | 136/18723 | 1.70e-07 | 7.34e-06 | 55 |
GO:0034504 | Colorectum | AD | protein localization to nucleus | 94/3918 | 290/18723 | 2.83e-06 | 8.09e-05 | 94 |
GO:1903828 | Colorectum | AD | negative regulation of cellular protein localization | 39/3918 | 117/18723 | 1.18e-03 | 1.06e-02 | 39 |
GO:19001801 | Colorectum | SER | regulation of protein localization to nucleus | 46/2897 | 136/18723 | 8.50e-08 | 5.27e-06 | 46 |
GO:00345041 | Colorectum | SER | protein localization to nucleus | 74/2897 | 290/18723 | 5.74e-06 | 2.05e-04 | 74 |
GO:19038281 | Colorectum | SER | negative regulation of cellular protein localization | 30/2897 | 117/18723 | 2.96e-03 | 2.62e-02 | 30 |
GO:19001802 | Colorectum | MSS | regulation of protein localization to nucleus | 54/3467 | 136/18723 | 6.20e-09 | 3.95e-07 | 54 |
GO:00345042 | Colorectum | MSS | protein localization to nucleus | 92/3467 | 290/18723 | 3.66e-08 | 1.98e-06 | 92 |
GO:19038282 | Colorectum | MSS | negative regulation of cellular protein localization | 36/3467 | 117/18723 | 9.19e-04 | 9.34e-03 | 36 |
GO:003450417 | Esophagus | HGIN | protein localization to nucleus | 84/2587 | 290/18723 | 1.06e-11 | 1.24e-09 | 84 |
GO:190018017 | Esophagus | HGIN | regulation of protein localization to nucleus | 40/2587 | 136/18723 | 1.69e-06 | 6.31e-05 | 40 |
GO:003450418 | Esophagus | ESCC | protein localization to nucleus | 211/8552 | 290/18723 | 4.06e-21 | 6.60e-19 | 211 |
GO:190018018 | Esophagus | ESCC | regulation of protein localization to nucleus | 102/8552 | 136/18723 | 2.84e-12 | 1.13e-10 | 102 |
GO:19038289 | Esophagus | ESCC | negative regulation of cellular protein localization | 76/8552 | 117/18723 | 1.97e-05 | 1.72e-04 | 76 |
GO:003450415 | Oral cavity | OSCC | protein localization to nucleus | 193/7305 | 290/18723 | 1.22e-21 | 2.35e-19 | 193 |
GO:190018015 | Oral cavity | OSCC | regulation of protein localization to nucleus | 93/7305 | 136/18723 | 3.46e-12 | 1.35e-10 | 93 |
GO:19038288 | Oral cavity | OSCC | negative regulation of cellular protein localization | 65/7305 | 117/18723 | 2.05e-04 | 1.36e-03 | 65 |
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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 |
TRIM29 | SNV | Missense_Mutation | rs781322131 | c.616G>A | p.Ala206Thr | p.A206T | Q14134 | protein_coding | tolerated(0.11) | probably_damaging(0.994) | TCGA-33-AAS8-01 | Lung | lung squamous cell carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | novel | c.382C>T | p.Arg128Cys | p.R128C | Q14134 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-66-2768-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | novel | c.142N>T | p.Gly48Trp | p.G48W | Q14134 | protein_coding | deleterious_low_confidence(0) | probably_damaging(1) | TCGA-D6-6823-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | rs747960617 | c.1125N>T | p.Leu375Phe | p.L375F | Q14134 | protein_coding | tolerated(0.16) | probably_damaging(0.997) | TCGA-D6-8568-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | rs771869031 | c.602N>T | p.Pro201Leu | p.P201L | Q14134 | protein_coding | deleterious(0) | possibly_damaging(0.857) | TCGA-EJ-7330-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 7 | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | novel | c.383G>A | p.Arg128His | p.R128H | Q14134 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD |
TRIM29 | SNV | Missense_Mutation | c.77N>A | p.Ser26Asn | p.S26N | Q14134 | protein_coding | tolerated_low_confidence(1) | benign(0) | TCGA-B7-5816-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TRIM29 | SNV | Missense_Mutation | rs768003318 | c.1394N>T | p.Pro465Leu | p.P465L | Q14134 | protein_coding | deleterious(0) | benign(0.257) | TCGA-BR-4292-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
TRIM29 | SNV | Missense_Mutation | c.449N>A | p.Arg150Gln | p.R150Q | Q14134 | protein_coding | tolerated(0.07) | benign(0.003) | TCGA-BR-4292-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
TRIM29 | SNV | Missense_Mutation | c.1346N>A | p.Arg449His | p.R449H | Q14134 | protein_coding | deleterious(0.01) | possibly_damaging(0.828) | TCGA-BR-8078-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
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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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