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Gene: TOMM5 |
Gene summary for TOMM5 |
Gene summary. |
Gene information | Species | Human | Gene symbol | TOMM5 | Gene ID | 401505 |
Gene name | translocase of outer mitochondrial membrane 5 | |
Gene Alias | C9orf105 | |
Cytomap | 9p13.2 | |
Gene Type | protein-coding | GO ID | GO:0006605 | UniProtAcc | Q8N4H5 |
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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 |
401505 | TOMM5 | GSM4909281 | Human | Breast | IDC | 1.37e-07 | 3.31e-01 | 0.21 |
401505 | TOMM5 | GSM4909287 | Human | Breast | IDC | 2.46e-07 | 4.40e-01 | 0.2057 |
401505 | TOMM5 | GSM4909290 | Human | Breast | IDC | 3.15e-32 | 8.68e-01 | 0.2096 |
401505 | TOMM5 | GSM4909292 | Human | Breast | IDC | 7.31e-07 | 7.85e-01 | 0.1236 |
401505 | TOMM5 | GSM4909297 | Human | Breast | IDC | 3.18e-03 | -6.31e-02 | 0.1517 |
401505 | TOMM5 | GSM4909304 | Human | Breast | IDC | 5.79e-21 | 5.54e-01 | 0.1636 |
401505 | TOMM5 | GSM4909311 | Human | Breast | IDC | 9.50e-14 | 1.61e-01 | 0.1534 |
401505 | TOMM5 | GSM4909312 | Human | Breast | IDC | 4.72e-02 | 1.25e-01 | 0.1552 |
401505 | TOMM5 | GSM4909319 | Human | Breast | IDC | 4.92e-16 | 1.04e-02 | 0.1563 |
401505 | TOMM5 | brca2 | Human | Breast | Precancer | 1.66e-02 | 1.81e-01 | -0.024 |
401505 | TOMM5 | P1 | Human | Breast | IDC | 2.71e-04 | -1.49e-01 | 0.1527 |
401505 | TOMM5 | DCIS2 | Human | Breast | DCIS | 1.52e-11 | -1.41e-01 | 0.0085 |
401505 | TOMM5 | CCII_1 | Human | Cervix | CC | 4.14e-02 | -1.99e-01 | 0.3249 |
401505 | TOMM5 | sample1 | Human | Cervix | CC | 1.42e-03 | 4.00e-01 | 0.0959 |
401505 | TOMM5 | sample3 | Human | Cervix | CC | 9.43e-27 | 5.62e-01 | 0.1387 |
401505 | TOMM5 | L1 | Human | Cervix | CC | 9.18e-04 | 3.64e-01 | 0.0802 |
401505 | TOMM5 | T1 | Human | Cervix | CC | 8.71e-08 | 3.84e-01 | 0.0918 |
401505 | TOMM5 | T3 | Human | Cervix | CC | 1.31e-28 | 5.98e-01 | 0.1389 |
401505 | TOMM5 | LZE2D | Human | Esophagus | HGIN | 1.85e-11 | 8.77e-01 | 0.0642 |
401505 | TOMM5 | LZE2T | Human | Esophagus | ESCC | 2.75e-12 | 1.50e+00 | 0.082 |
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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:007259432 | Oral cavity | NEOLP | establishment of protein localization to organelle | 84/2005 | 422/18723 | 1.30e-08 | 6.10e-07 | 84 |
GO:007058532 | Oral cavity | NEOLP | protein localization to mitochondrion | 23/2005 | 125/18723 | 6.70e-03 | 3.42e-02 | 23 |
GO:000660532 | Oral cavity | NEOLP | protein targeting | 48/2005 | 314/18723 | 7.23e-03 | 3.66e-02 | 48 |
GO:007265532 | Oral cavity | NEOLP | establishment of protein localization to mitochondrion | 22/2005 | 120/18723 | 8.23e-03 | 4.04e-02 | 22 |
GO:007259416 | Prostate | BPH | establishment of protein localization to organelle | 142/3107 | 422/18723 | 4.01e-18 | 1.31e-15 | 142 |
GO:000660518 | Prostate | BPH | protein targeting | 102/3107 | 314/18723 | 2.51e-12 | 2.05e-10 | 102 |
GO:000683916 | Prostate | BPH | mitochondrial transport | 79/3107 | 254/18723 | 6.77e-09 | 2.38e-07 | 79 |
GO:007265516 | Prostate | BPH | establishment of protein localization to mitochondrion | 42/3107 | 120/18723 | 7.32e-07 | 1.39e-05 | 42 |
GO:007058516 | Prostate | BPH | protein localization to mitochondrion | 43/3107 | 125/18723 | 9.29e-07 | 1.70e-05 | 43 |
GO:000662616 | Prostate | BPH | protein targeting to mitochondrion | 34/3107 | 100/18723 | 1.64e-05 | 2.05e-04 | 34 |
GO:007259417 | Prostate | Tumor | establishment of protein localization to organelle | 151/3246 | 422/18723 | 3.19e-20 | 2.83e-17 | 151 |
GO:000660519 | Prostate | Tumor | protein targeting | 109/3246 | 314/18723 | 6.11e-14 | 7.30e-12 | 109 |
GO:000683917 | Prostate | Tumor | mitochondrial transport | 84/3246 | 254/18723 | 7.17e-10 | 3.57e-08 | 84 |
GO:007058517 | Prostate | Tumor | protein localization to mitochondrion | 47/3246 | 125/18723 | 5.20e-08 | 1.58e-06 | 47 |
GO:007265517 | Prostate | Tumor | establishment of protein localization to mitochondrion | 45/3246 | 120/18723 | 1.09e-07 | 2.89e-06 | 45 |
GO:000662617 | Prostate | Tumor | protein targeting to mitochondrion | 37/3246 | 100/18723 | 2.07e-06 | 3.56e-05 | 37 |
GO:007259426 | Skin | AK | establishment of protein localization to organelle | 81/1910 | 422/18723 | 1.48e-08 | 9.11e-07 | 81 |
GO:000660526 | Skin | AK | protein targeting | 53/1910 | 314/18723 | 1.67e-04 | 1.94e-03 | 53 |
GO:007058524 | Skin | AK | protein localization to mitochondrion | 26/1910 | 125/18723 | 3.17e-04 | 3.24e-03 | 26 |
GO:000683926 | Skin | AK | mitochondrial transport | 43/1910 | 254/18723 | 6.18e-04 | 5.42e-03 | 43 |
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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 |
TOMM5 | deletion | Frame_Shift_Del | novel | c.2delN | p.Met1? | p.M1? | Q8N4H5 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
TOMM5 | SNV | Missense_Mutation | c.246C>G | p.Cys82Trp | p.C82W | Q8N4H5 | protein_coding | tolerated_low_confidence(0.21) | benign(0.279) | TCGA-A6-3810-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
TOMM5 | SNV | Missense_Mutation | novel | c.202N>A | p.Gly68Ser | p.G68S | Q8N4H5 | protein_coding | tolerated_low_confidence(0.16) | benign(0.082) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
TOMM5 | SNV | Missense_Mutation | novel | c.263N>A | p.Gly88Asp | p.G88D | Q8N4H5 | protein_coding | deleterious_low_confidence(0) | possibly_damaging(0.876) | TCGA-FI-A2D5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatinum | PD |
TOMM5 | SNV | Missense_Mutation | novel | c.196N>A | p.His66Asn | p.H66N | Q8N4H5 | protein_coding | tolerated_low_confidence(0.11) | benign(0.001) | TCGA-BR-8680-01 | Stomach | stomach adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | CR |
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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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