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Gene: CNN3 |
Gene summary for CNN3 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CNN3 | Gene ID | 1266 |
| Gene name | calponin 3 | |
| Gene Alias | CNN3 | |
| Cytomap | 1p21.3 | |
| Gene Type | protein-coding | GO ID | GO:0006996 | UniProtAcc | Q15417 |
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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 |
| 1266 | CNN3 | GSM4909282 | Human | Breast | IDC | 4.50e-04 | 2.32e-01 | -0.0288 |
| 1266 | CNN3 | GSM4909285 | Human | Breast | IDC | 2.31e-03 | -2.70e-02 | 0.21 |
| 1266 | CNN3 | GSM4909286 | Human | Breast | IDC | 2.93e-26 | -7.18e-01 | 0.1081 |
| 1266 | CNN3 | GSM4909288 | Human | Breast | IDC | 6.47e-10 | -5.64e-01 | 0.0988 |
| 1266 | CNN3 | GSM4909291 | Human | Breast | IDC | 8.96e-30 | -8.12e-01 | 0.1753 |
| 1266 | CNN3 | GSM4909293 | Human | Breast | IDC | 7.05e-20 | -6.67e-01 | 0.1581 |
| 1266 | CNN3 | GSM4909296 | Human | Breast | IDC | 2.22e-15 | -5.43e-01 | 0.1524 |
| 1266 | CNN3 | GSM4909297 | Human | Breast | IDC | 8.27e-20 | -4.33e-01 | 0.1517 |
| 1266 | CNN3 | GSM4909298 | Human | Breast | IDC | 1.89e-08 | -4.81e-01 | 0.1551 |
| 1266 | CNN3 | GSM4909301 | Human | Breast | IDC | 3.04e-31 | -7.93e-01 | 0.1577 |
| 1266 | CNN3 | GSM4909302 | Human | Breast | IDC | 2.23e-04 | -3.00e-01 | 0.1545 |
| 1266 | CNN3 | GSM4909306 | Human | Breast | IDC | 2.40e-05 | -3.90e-01 | 0.1564 |
| 1266 | CNN3 | GSM4909307 | Human | Breast | IDC | 4.95e-12 | -5.71e-01 | 0.1569 |
| 1266 | CNN3 | GSM4909308 | Human | Breast | IDC | 5.02e-25 | -6.25e-01 | 0.158 |
| 1266 | CNN3 | GSM4909309 | Human | Breast | IDC | 1.13e-13 | -4.97e-01 | 0.0483 |
| 1266 | CNN3 | GSM4909311 | Human | Breast | IDC | 1.94e-36 | -7.22e-01 | 0.1534 |
| 1266 | CNN3 | GSM4909312 | Human | Breast | IDC | 4.91e-08 | -2.33e-01 | 0.1552 |
| 1266 | CNN3 | GSM4909313 | Human | Breast | IDC | 6.53e-04 | -2.63e-01 | 0.0391 |
| 1266 | CNN3 | GSM4909317 | Human | Breast | IDC | 3.76e-24 | -6.51e-01 | 0.1355 |
| 1266 | CNN3 | GSM4909319 | Human | Breast | IDC | 2.75e-39 | -6.86e-01 | 0.1563 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| Breast |  | IDC: Invasive ductal carcinoma |
| DCIS: Ductal carcinoma in situ | ||
| Precancer(BRCA1-mut): Precancerous lesion from BRCA1 mutation carriers | ||
| Colorectum (GSE201348) |  | FAP: Familial adenomatous polyposis |
| CRC: Colorectal cancer | ||
| Colorectum (HTA11) |  | AD: Adenomas |
| SER: Sessile serrated lesions | ||
| MSI-H: Microsatellite-high colorectal cancer | ||
| MSS: Microsatellite stable colorectal cancer | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| 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 | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| Skin |  | AK: Actinic keratosis |
| cSCC: Cutaneous squamous cell carcinoma | ||
| SCCIS:squamous cell carcinoma in situ | ||
| Thyroid |  | ATC: Anaplastic thyroid cancer |
| HT: Hashimoto's thyroiditis | ||
| PTC: Papillary thyroid cancer |
| ∗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:00513468 | Breast | Precancer | negative regulation of hydrolase activity | 50/1080 | 379/18723 | 3.85e-08 | 2.34e-06 | 50 |
| GO:00434624 | Breast | Precancer | regulation of ATPase activity | 10/1080 | 46/18723 | 2.38e-04 | 3.57e-03 | 10 |
| GO:005134613 | Breast | IDC | negative regulation of hydrolase activity | 71/1434 | 379/18723 | 1.33e-12 | 2.90e-10 | 71 |
| GO:004346212 | Breast | IDC | regulation of ATPase activity | 12/1434 | 46/18723 | 1.31e-04 | 2.37e-03 | 12 |
| GO:005134623 | Breast | DCIS | negative regulation of hydrolase activity | 64/1390 | 379/18723 | 4.32e-10 | 4.80e-08 | 64 |
| GO:004346221 | Breast | DCIS | regulation of ATPase activity | 12/1390 | 46/18723 | 9.70e-05 | 1.78e-03 | 12 |
| GO:00310328 | Breast | DCIS | actomyosin structure organization | 25/1390 | 196/18723 | 5.59e-03 | 4.06e-02 | 25 |
| GO:0031032 | Colorectum | AD | actomyosin structure organization | 65/3918 | 196/18723 | 4.17e-05 | 7.37e-04 | 65 |
| GO:0051346 | Colorectum | SER | negative regulation of hydrolase activity | 82/2897 | 379/18723 | 8.19e-04 | 1.01e-02 | 82 |
| GO:00310321 | Colorectum | SER | actomyosin structure organization | 45/2897 | 196/18723 | 3.60e-03 | 3.03e-02 | 45 |
| GO:00310322 | Colorectum | MSS | actomyosin structure organization | 53/3467 | 196/18723 | 2.04e-03 | 1.75e-02 | 53 |
| GO:00513461 | Colorectum | MSS | negative regulation of hydrolase activity | 92/3467 | 379/18723 | 2.85e-03 | 2.22e-02 | 92 |
| GO:00310323 | Colorectum | FAP | actomyosin structure organization | 51/2622 | 196/18723 | 5.89e-06 | 1.88e-04 | 51 |
| GO:003103210 | Endometrium | AEH | actomyosin structure organization | 46/2100 | 196/18723 | 8.00e-07 | 2.91e-05 | 46 |
| GO:005134610 | Endometrium | AEH | negative regulation of hydrolase activity | 65/2100 | 379/18723 | 3.18e-04 | 3.57e-03 | 65 |
| GO:003103214 | Endometrium | EEC | actomyosin structure organization | 46/2168 | 196/18723 | 1.94e-06 | 5.80e-05 | 46 |
| GO:005134615 | Endometrium | EEC | negative regulation of hydrolase activity | 72/2168 | 379/18723 | 1.46e-05 | 2.87e-04 | 72 |
| GO:0051346110 | Esophagus | ESCC | negative regulation of hydrolase activity | 208/8552 | 379/18723 | 1.76e-04 | 1.14e-03 | 208 |
| GO:003103219 | Esophagus | ESCC | actomyosin structure organization | 108/8552 | 196/18723 | 4.86e-03 | 1.88e-02 | 108 |
| GO:00434627 | Esophagus | ESCC | regulation of ATPase activity | 30/8552 | 46/18723 | 5.91e-03 | 2.18e-02 | 30 |
| Page: 1 2 3 |
| 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 |
| CNN3 | SNV | Missense_Mutation | c.185N>G | p.Ile62Arg | p.I62R | Q15417 | protein_coding | deleterious(0.02) | benign(0.009) | TCGA-B6-A0I2-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CNN3 | SNV | Missense_Mutation | c.836C>A | p.Pro279His | p.P279H | Q15417 | protein_coding | deleterious(0) | benign(0.012) | TCGA-BH-A18G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| CNN3 | SNV | Missense_Mutation | c.313G>A | p.Glu105Lys | p.E105K | Q15417 | protein_coding | tolerated(0.12) | probably_damaging(0.983) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
| CNN3 | insertion | Frame_Shift_Ins | novel | c.279_280insT | p.Gln94SerfsTer9 | p.Q94Sfs*9 | Q15417 | protein_coding | TCGA-D5-6928-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
| CNN3 | SNV | Missense_Mutation | novel | c.848N>G | p.Asn283Ser | p.N283S | Q15417 | protein_coding | deleterious(0.05) | benign(0.039) | TCGA-A5-A0G1-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CNN3 | SNV | Missense_Mutation | c.774G>A | p.Met258Ile | p.M258I | Q15417 | protein_coding | deleterious(0.01) | benign(0) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CNN3 | SNV | Missense_Mutation | novel | c.572C>T | p.Pro191Leu | p.P191L | Q15417 | protein_coding | deleterious(0.03) | probably_damaging(0.996) | TCGA-B5-A11E-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| CNN3 | SNV | Missense_Mutation | c.51N>T | p.Lys17Asn | p.K17N | Q15417 | protein_coding | tolerated(0.12) | benign(0) | TCGA-B5-A11N-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| CNN3 | SNV | Missense_Mutation | novel | c.262N>G | p.Asn88Asp | p.N88D | Q15417 | protein_coding | deleterious(0.02) | probably_damaging(0.987) | TCGA-BG-A222-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| CNN3 | SNV | Missense_Mutation | rs749615050 | c.98N>A | p.Arg33His | p.R33H | Q15417 | protein_coding | tolerated(0.07) | probably_damaging(0.992) | TCGA-BS-A0UV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| Page: 1 2 3 |
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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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