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Gene: SMAD9 |
Gene summary for SMAD9 |
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Gene information | Species | Human | Gene symbol | SMAD9 | Gene ID | 4093 |
Gene name | SMAD family member 9 | |
Gene Alias | MADH6 | |
Cytomap | 13q13.3 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | O15198 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
4093 | SMAD9 | HTA11_696_2000001011 | Human | Colorectum | AD | 8.96e-12 | 6.00e-01 | -0.1464 |
4093 | SMAD9 | HTA11_866_2000001011 | Human | Colorectum | AD | 1.23e-06 | 4.36e-01 | -0.1001 |
4093 | SMAD9 | HTA11_2992_2000001011 | Human | Colorectum | SER | 1.13e-02 | -2.59e-02 | -0.1706 |
4093 | SMAD9 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.40e-02 | 2.11e-01 | 0.096 |
4093 | SMAD9 | A002-C-010 | Human | Colorectum | FAP | 5.13e-03 | 3.22e-01 | 0.242 |
4093 | SMAD9 | A002-C-021 | Human | Colorectum | FAP | 6.05e-08 | 4.50e-01 | 0.1171 |
4093 | SMAD9 | F072B | Human | Colorectum | FAP | 6.27e-07 | 5.33e-01 | 0.257 |
4093 | SMAD9 | AEH-subject2 | Human | Endometrium | AEH | 1.76e-07 | -2.45e-01 | -0.2525 |
4093 | SMAD9 | EEC-subject2 | Human | Endometrium | EEC | 4.43e-13 | -2.76e-01 | -0.2607 |
4093 | SMAD9 | EEC-subject3 | Human | Endometrium | EEC | 1.00e-05 | -2.20e-01 | -0.2525 |
4093 | SMAD9 | EEC-subject5 | Human | Endometrium | EEC | 1.75e-02 | -1.90e-01 | -0.249 |
4093 | SMAD9 | GSM5276934 | Human | Endometrium | EEC | 2.90e-13 | -2.95e-01 | -0.0913 |
4093 | SMAD9 | GSM5276937 | Human | Endometrium | EEC | 5.33e-07 | -2.57e-01 | -0.0897 |
4093 | SMAD9 | GSM6177620_NYU_UCEC1_lib1_lib1 | Human | Endometrium | EEC | 7.84e-10 | -2.05e-01 | -0.1869 |
4093 | SMAD9 | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 3.65e-11 | -3.00e-01 | -0.1875 |
4093 | SMAD9 | GSM6177620_NYU_UCEC1_lib3_lib3 | Human | Endometrium | EEC | 5.19e-09 | -2.48e-01 | -0.1883 |
4093 | SMAD9 | GSM6177621_NYU_UCEC2_lib1_lib1 | Human | Endometrium | EEC | 2.81e-13 | -2.33e-01 | -0.1934 |
4093 | SMAD9 | GSM6177622_NYU_UCEC3_lib1_lib1 | Human | Endometrium | EEC | 1.96e-15 | -2.90e-01 | -0.1917 |
4093 | SMAD9 | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 7.93e-16 | -2.89e-01 | -0.1916 |
4093 | SMAD9 | GSM6177623_NYU_UCEC3_Vis | Human | Endometrium | EEC | 2.76e-07 | -2.42e-01 | -0.1269 |
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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:0007178 | Colorectum | AD | transmembrane receptor protein serine/threonine kinase signaling pathway | 99/3918 | 355/18723 | 9.92e-04 | 9.28e-03 | 99 |
GO:0071559 | Colorectum | AD | response to transforming growth factor beta | 74/3918 | 256/18723 | 1.45e-03 | 1.23e-02 | 74 |
GO:0071560 | Colorectum | AD | cellular response to transforming growth factor beta stimulus | 72/3918 | 250/18723 | 1.85e-03 | 1.52e-02 | 72 |
GO:0007179 | Colorectum | AD | transforming growth factor beta receptor signaling pathway | 59/3918 | 198/18723 | 1.94e-03 | 1.58e-02 | 59 |
GO:0060395 | Colorectum | AD | SMAD protein signal transduction | 28/3918 | 82/18723 | 3.73e-03 | 2.63e-02 | 28 |
GO:00715591 | Colorectum | FAP | response to transforming growth factor beta | 63/2622 | 256/18723 | 3.82e-06 | 1.32e-04 | 63 |
GO:00071782 | Colorectum | FAP | transmembrane receptor protein serine/threonine kinase signaling pathway | 81/2622 | 355/18723 | 4.28e-06 | 1.46e-04 | 81 |
GO:00715601 | Colorectum | FAP | cellular response to transforming growth factor beta stimulus | 61/2622 | 250/18723 | 7.22e-06 | 2.19e-04 | 61 |
GO:00071791 | Colorectum | FAP | transforming growth factor beta receptor signaling pathway | 50/2622 | 198/18723 | 1.75e-05 | 4.44e-04 | 50 |
GO:00603951 | Colorectum | FAP | SMAD protein signal transduction | 24/2622 | 82/18723 | 2.55e-04 | 3.51e-03 | 24 |
GO:1901522 | Colorectum | FAP | positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus | 9/2622 | 22/18723 | 1.81e-03 | 1.55e-02 | 9 |
GO:0071772 | Colorectum | FAP | response to BMP | 37/2622 | 165/18723 | 2.20e-03 | 1.80e-02 | 37 |
GO:0071773 | Colorectum | FAP | cellular response to BMP stimulus | 37/2622 | 165/18723 | 2.20e-03 | 1.80e-02 | 37 |
GO:0030509 | Colorectum | FAP | BMP signaling pathway | 34/2622 | 152/18723 | 3.38e-03 | 2.47e-02 | 34 |
GO:00715596 | Endometrium | AEH | response to transforming growth factor beta | 53/2100 | 256/18723 | 7.01e-06 | 1.69e-04 | 53 |
GO:00071787 | Endometrium | AEH | transmembrane receptor protein serine/threonine kinase signaling pathway | 67/2100 | 355/18723 | 1.28e-05 | 2.80e-04 | 67 |
GO:00715606 | Endometrium | AEH | cellular response to transforming growth factor beta stimulus | 51/2100 | 250/18723 | 1.59e-05 | 3.32e-04 | 51 |
GO:00305092 | Endometrium | AEH | BMP signaling pathway | 32/2100 | 152/18723 | 3.15e-04 | 3.54e-03 | 32 |
GO:00071796 | Endometrium | AEH | transforming growth factor beta receptor signaling pathway | 38/2100 | 198/18723 | 6.41e-04 | 6.23e-03 | 38 |
GO:00717722 | Endometrium | AEH | response to BMP | 32/2100 | 165/18723 | 1.38e-03 | 1.16e-02 | 32 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa04350 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043501 | Colorectum | SER | TGF-beta signaling pathway | 31/1580 | 108/8465 | 7.00e-03 | 3.77e-02 | 2.74e-02 | 31 |
hsa043504 | Endometrium | AEH | TGF-beta signaling pathway | 26/1197 | 108/8465 | 3.82e-03 | 2.18e-02 | 1.59e-02 | 26 |
hsa0435011 | Endometrium | AEH | TGF-beta signaling pathway | 26/1197 | 108/8465 | 3.82e-03 | 2.18e-02 | 1.59e-02 | 26 |
hsa043502 | Endometrium | EEC | TGF-beta signaling pathway | 26/1237 | 108/8465 | 5.95e-03 | 3.12e-02 | 2.33e-02 | 26 |
hsa043503 | Endometrium | EEC | TGF-beta signaling pathway | 26/1237 | 108/8465 | 5.95e-03 | 3.12e-02 | 2.33e-02 | 26 |
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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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∗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 |
SMAD9 | insertion | Frame_Shift_Ins | novel | c.1038_1039insTCAAA | p.Ala347SerfsTer6 | p.A347Sfs*6 | O15198 | protein_coding | TCGA-ET-A40S-01 | Thyroid | thyroid carcinoma | Male | <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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