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Gene: SYNM |
Gene summary for SYNM |
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Gene information | Species | Human | Gene symbol | SYNM | Gene ID | 23336 |
Gene name | synemin | |
Gene Alias | DMN | |
Cytomap | 15q26.3 | |
Gene Type | protein-coding | GO ID | GO:0003008 | UniProtAcc | A0A075B7B1 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
23336 | SYNM | GSM4909281 | Human | Breast | IDC | 4.87e-28 | 6.41e-01 | 0.21 |
23336 | SYNM | GSM4909297 | Human | Breast | IDC | 1.57e-03 | -1.57e-01 | 0.1517 |
23336 | SYNM | GSM4909299 | Human | Breast | IDC | 1.59e-44 | 9.29e-01 | 0.035 |
23336 | SYNM | GSM4909301 | Human | Breast | IDC | 3.51e-04 | -1.58e-01 | 0.1577 |
23336 | SYNM | GSM4909304 | Human | Breast | IDC | 3.66e-05 | -1.61e-01 | 0.1636 |
23336 | SYNM | GSM4909309 | Human | Breast | IDC | 1.31e-05 | 4.18e-01 | 0.0483 |
23336 | SYNM | GSM4909311 | Human | Breast | IDC | 4.94e-03 | -1.37e-01 | 0.1534 |
23336 | SYNM | GSM4909312 | Human | Breast | IDC | 1.65e-04 | -1.61e-01 | 0.1552 |
23336 | SYNM | GSM4909313 | Human | Breast | IDC | 4.16e-17 | 6.54e-01 | 0.0391 |
23336 | SYNM | GSM4909319 | Human | Breast | IDC | 7.43e-04 | -1.61e-01 | 0.1563 |
23336 | SYNM | brca10 | Human | Breast | Precancer | 1.36e-04 | -1.61e-01 | -0.0029 |
23336 | SYNM | M1 | Human | Breast | IDC | 3.22e-02 | -1.61e-01 | 0.1577 |
23336 | SYNM | NCCBC14 | Human | Breast | DCIS | 1.58e-04 | -1.16e-01 | 0.2021 |
23336 | SYNM | NCCBC3 | Human | Breast | DCIS | 1.94e-12 | 5.45e-01 | 0.1198 |
23336 | SYNM | P1 | Human | Breast | IDC | 8.63e-03 | -1.27e-01 | 0.1527 |
23336 | SYNM | P2 | Human | Breast | IDC | 4.28e-02 | -1.61e-01 | 0.21 |
23336 | SYNM | DCIS2 | Human | Breast | DCIS | 5.62e-122 | 1.55e+00 | 0.0085 |
23336 | SYNM | P2T-E | Human | Esophagus | ESCC | 3.07e-07 | 1.74e-01 | 0.1177 |
23336 | SYNM | P4T-E | Human | Esophagus | ESCC | 2.90e-03 | 1.05e-01 | 0.1323 |
23336 | SYNM | P5T-E | Human | Esophagus | ESCC | 1.44e-03 | 7.01e-02 | 0.1327 |
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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:0045104 | Breast | Precancer | intermediate filament cytoskeleton organization | 11/1080 | 51/18723 | 1.26e-04 | 2.22e-03 | 11 |
GO:0045103 | Breast | Precancer | intermediate filament-based process | 11/1080 | 52/18723 | 1.52e-04 | 2.60e-03 | 11 |
GO:00451041 | Breast | IDC | intermediate filament cytoskeleton organization | 11/1434 | 51/18723 | 1.40e-03 | 1.44e-02 | 11 |
GO:00451031 | Breast | IDC | intermediate filament-based process | 11/1434 | 52/18723 | 1.66e-03 | 1.63e-02 | 11 |
GO:00030125 | Breast | IDC | muscle system process | 50/1434 | 452/18723 | 5.52e-03 | 4.05e-02 | 50 |
GO:00451042 | Breast | DCIS | intermediate filament cytoskeleton organization | 11/1390 | 51/18723 | 1.09e-03 | 1.18e-02 | 11 |
GO:00451032 | Breast | DCIS | intermediate filament-based process | 11/1390 | 52/18723 | 1.29e-03 | 1.35e-02 | 11 |
GO:000301212 | Breast | DCIS | muscle system process | 50/1390 | 452/18723 | 3.02e-03 | 2.57e-02 | 50 |
GO:00451035 | Esophagus | ESCC | intermediate filament-based process | 32/8552 | 52/18723 | 1.55e-02 | 4.97e-02 | 32 |
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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 |
SYNM | SNV | Missense_Mutation | novel | c.1408N>A | p.Glu470Lys | p.E470K | O15061 | protein_coding | tolerated(0.34) | benign(0.012) | TCGA-EO-A3AY-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
SYNM | SNV | Missense_Mutation | novel | c.1069C>A | p.Leu357Ile | p.L357I | O15061 | protein_coding | tolerated(0.18) | benign(0.248) | TCGA-EO-A3B0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
SYNM | SNV | Missense_Mutation | rs782338116 | c.1550G>A | p.Arg517Gln | p.R517Q | O15061 | protein_coding | tolerated(0.79) | benign(0.014) | TCGA-EO-A3B0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
SYNM | SNV | Missense_Mutation | rs375383176 | c.2011N>A | p.Val671Met | p.V671M | O15061 | protein_coding | tolerated(0.53) | benign(0.084) | TCGA-EY-A215-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SYNM | SNV | Missense_Mutation | novel | c.4253N>T | p.Ala1418Val | p.A1418V | O15061 | protein_coding | tolerated(1) | benign(0) | TCGA-FI-A2D0-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
SYNM | SNV | Missense_Mutation | novel | c.1571N>C | p.Met524Thr | p.M524T | O15061 | protein_coding | tolerated(0.24) | possibly_damaging(0.457) | TCGA-FI-A2D5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatinum | PD |
SYNM | SNV | Missense_Mutation | novel | c.3205N>A | p.Ala1069Thr | p.A1069T | O15061 | protein_coding | deleterious(0.04) | probably_damaging(1) | TCGA-FI-A2D5-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatinum | PD |
SYNM | SNV | Missense_Mutation | rs112214271 | c.3461C>T | p.Ala1154Val | p.A1154V | O15061 | protein_coding | tolerated(0.12) | benign(0.031) | TCGA-PG-A917-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
SYNM | SNV | Missense_Mutation | novel | c.232A>C | p.Thr78Pro | p.T78P | O15061 | protein_coding | deleterious(0.01) | probably_damaging(0.972) | TCGA-DD-AACE-01 | Liver | liver hepatocellular carcinoma | Male | <65 | I/II | Unknown | Unknown | PD |
SYNM | SNV | Missense_Mutation | novel | c.3452N>T | p.Glu1151Val | p.E1151V | O15061 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-DD-AADF-01 | Liver | liver hepatocellular carcinoma | 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 |
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