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Gene: TRAF7 |
Gene summary for TRAF7 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TRAF7 | Gene ID | 84231 |
| Gene name | TNF receptor associated factor 7 | |
| Gene Alias | CAFDADD | |
| Cytomap | 16p13.3 | |
| Gene Type | protein-coding | GO ID | GO:0000027 | UniProtAcc | B3KQY7 |
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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 |
| 84231 | TRAF7 | LZE4T | Human | Esophagus | ESCC | 8.85e-16 | 4.51e-01 | 0.0811 |
| 84231 | TRAF7 | LZE7T | Human | Esophagus | ESCC | 1.52e-13 | 6.48e-01 | 0.0667 |
| 84231 | TRAF7 | LZE8T | Human | Esophagus | ESCC | 1.18e-17 | 6.92e-01 | 0.067 |
| 84231 | TRAF7 | LZE20T | Human | Esophagus | ESCC | 7.51e-04 | 2.16e-01 | 0.0662 |
| 84231 | TRAF7 | LZE22D1 | Human | Esophagus | HGIN | 2.03e-02 | 9.31e-02 | 0.0595 |
| 84231 | TRAF7 | LZE22T | Human | Esophagus | ESCC | 1.70e-06 | 5.04e-01 | 0.068 |
| 84231 | TRAF7 | LZE24T | Human | Esophagus | ESCC | 3.38e-24 | 7.55e-01 | 0.0596 |
| 84231 | TRAF7 | LZE21T | Human | Esophagus | ESCC | 3.74e-04 | 3.83e-01 | 0.0655 |
| 84231 | TRAF7 | LZE6T | Human | Esophagus | ESCC | 3.35e-03 | 4.58e-02 | 0.0845 |
| 84231 | TRAF7 | P1T-E | Human | Esophagus | ESCC | 1.64e-12 | 6.75e-01 | 0.0875 |
| 84231 | TRAF7 | P2T-E | Human | Esophagus | ESCC | 1.36e-56 | 1.06e+00 | 0.1177 |
| 84231 | TRAF7 | P4T-E | Human | Esophagus | ESCC | 9.82e-45 | 9.86e-01 | 0.1323 |
| 84231 | TRAF7 | P5T-E | Human | Esophagus | ESCC | 1.28e-19 | 5.30e-01 | 0.1327 |
| 84231 | TRAF7 | P8T-E | Human | Esophagus | ESCC | 1.99e-27 | 5.90e-01 | 0.0889 |
| 84231 | TRAF7 | P9T-E | Human | Esophagus | ESCC | 1.52e-17 | 3.90e-01 | 0.1131 |
| 84231 | TRAF7 | P10T-E | Human | Esophagus | ESCC | 3.62e-14 | 1.99e-01 | 0.116 |
| 84231 | TRAF7 | P11T-E | Human | Esophagus | ESCC | 2.83e-16 | 8.82e-01 | 0.1426 |
| 84231 | TRAF7 | P12T-E | Human | Esophagus | ESCC | 1.49e-40 | 8.20e-01 | 0.1122 |
| 84231 | TRAF7 | P15T-E | Human | Esophagus | ESCC | 1.31e-52 | 1.33e+00 | 0.1149 |
| 84231 | TRAF7 | P16T-E | Human | Esophagus | ESCC | 4.44e-22 | 5.22e-01 | 0.1153 |
| Page: 1 2 3 4 5 6 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ |
| ∗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). |
| Page: 1 2 3 4 5 6 7 8 9 |
| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
| GO:002261327 | Esophagus | HGIN | ribonucleoprotein complex biogenesis | 158/2587 | 463/18723 | 2.61e-29 | 5.23e-26 | 158 |
| GO:004225426 | Esophagus | HGIN | ribosome biogenesis | 101/2587 | 299/18723 | 8.74e-19 | 4.03e-16 | 101 |
| GO:007182627 | Esophagus | HGIN | ribonucleoprotein complex subunit organization | 84/2587 | 227/18723 | 1.34e-18 | 5.37e-16 | 84 |
| GO:002261827 | Esophagus | HGIN | ribonucleoprotein complex assembly | 82/2587 | 220/18723 | 2.07e-18 | 7.36e-16 | 82 |
| GO:004227326 | Esophagus | HGIN | ribosomal large subunit biogenesis | 34/2587 | 72/18723 | 8.82e-12 | 1.06e-09 | 34 |
| GO:200123327 | Esophagus | HGIN | regulation of apoptotic signaling pathway | 97/2587 | 356/18723 | 1.36e-11 | 1.57e-09 | 97 |
| GO:004225527 | Esophagus | HGIN | ribosome assembly | 28/2587 | 61/18723 | 1.36e-09 | 1.07e-07 | 28 |
| GO:200123519 | Esophagus | HGIN | positive regulation of apoptotic signaling pathway | 41/2587 | 126/18723 | 6.06e-08 | 3.22e-06 | 41 |
| GO:000002726 | Esophagus | HGIN | ribosomal large subunit assembly | 13/2587 | 27/18723 | 1.95e-05 | 5.24e-04 | 13 |
| GO:0022613111 | Esophagus | ESCC | ribonucleoprotein complex biogenesis | 365/8552 | 463/18723 | 1.74e-49 | 1.11e-45 | 365 |
| GO:0042254111 | Esophagus | ESCC | ribosome biogenesis | 252/8552 | 299/18723 | 3.27e-44 | 1.04e-40 | 252 |
| GO:2001233111 | Esophagus | ESCC | regulation of apoptotic signaling pathway | 256/8552 | 356/18723 | 4.11e-24 | 1.04e-21 | 256 |
| GO:0071826111 | Esophagus | ESCC | ribonucleoprotein complex subunit organization | 166/8552 | 227/18723 | 2.94e-17 | 2.42e-15 | 166 |
| GO:0022618111 | Esophagus | ESCC | ribonucleoprotein complex assembly | 159/8552 | 220/18723 | 8.19e-16 | 5.71e-14 | 159 |
| GO:0042273111 | Esophagus | ESCC | ribosomal large subunit biogenesis | 65/8552 | 72/18723 | 1.53e-15 | 9.82e-14 | 65 |
| GO:2001235110 | Esophagus | ESCC | positive regulation of apoptotic signaling pathway | 92/8552 | 126/18723 | 3.91e-10 | 1.05e-08 | 92 |
| GO:0042255111 | Esophagus | ESCC | ribosome assembly | 50/8552 | 61/18723 | 5.66e-09 | 1.17e-07 | 50 |
| GO:00072197 | Esophagus | ESCC | Notch signaling pathway | 106/8552 | 172/18723 | 1.74e-05 | 1.55e-04 | 106 |
| GO:0000027111 | Esophagus | ESCC | ribosomal large subunit assembly | 22/8552 | 27/18723 | 1.49e-04 | 9.92e-04 | 22 |
| GO:002261322 | Liver | HCC | ribonucleoprotein complex biogenesis | 355/7958 | 463/18723 | 7.76e-52 | 4.92e-48 | 355 |
| Page: 1 2 3 4 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
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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 |
| Page: 1 |
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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. |
| Page: 1 |
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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 |
| TRAF7 | SNV | Missense_Mutation | rs771191963 | c.623N>A | p.Arg208Gln | p.R208Q | Q6Q0C0 | protein_coding | tolerated(0.6) | benign(0.015) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
| TRAF7 | SNV | Missense_Mutation | novel | c.1429N>T | p.Ala477Ser | p.A477S | Q6Q0C0 | protein_coding | deleterious(0.02) | probably_damaging(0.979) | TCGA-A7-A6VX-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Chemotherapy | docetaxel | CR |
| TRAF7 | SNV | Missense_Mutation | novel | c.746C>A | p.Ala249Asp | p.A249D | Q6Q0C0 | protein_coding | tolerated(0.65) | benign(0.003) | TCGA-BH-A0AV-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | CR |
| TRAF7 | SNV | Missense_Mutation | rs201037324 | c.347N>T | p.Pro116Leu | p.P116L | Q6Q0C0 | protein_coding | tolerated(0.14) | benign(0.012) | TCGA-BH-A0HA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| TRAF7 | SNV | Missense_Mutation | rs757410464 | c.946C>T | p.Arg316Cys | p.R316C | Q6Q0C0 | protein_coding | deleterious(0.01) | benign(0.093) | TCGA-D8-A1XQ-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| TRAF7 | deletion | Frame_Shift_Del | c.1897_1898delAT | p.Met633AspfsTer30 | p.M633Dfs*30 | Q6Q0C0 | protein_coding | TCGA-A7-A0DA-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |||
| TRAF7 | SNV | Missense_Mutation | rs768623972 | c.652G>A | p.Ala218Thr | p.A218T | Q6Q0C0 | protein_coding | tolerated(0.6) | benign(0) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| TRAF7 | SNV | Missense_Mutation | rs765441523 | c.853N>A | p.Glu285Lys | p.E285K | Q6Q0C0 | protein_coding | deleterious(0.01) | possibly_damaging(0.739) | TCGA-C5-A7CJ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD |
| TRAF7 | SNV | Missense_Mutation | c.1539N>C | p.Lys513Asn | p.K513N | Q6Q0C0 | protein_coding | tolerated(0.3) | probably_damaging(0.958) | TCGA-JX-A3Q0-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Unknown | Unknown | SD | |
| TRAF7 | SNV | Missense_Mutation | c.1921C>T | p.Arg641Cys | p.R641C | Q6Q0C0 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-5M-AAT6-01 | Colorectum | colon adenocarcinoma | Female | <65 | III/IV | Unknown | Unknown | PD |
| Page: 1 2 3 4 5 6 7 |
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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 |
| Page: 1 |
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