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Gene: CMSS1 |
Gene summary for CMSS1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | CMSS1 | Gene ID | 84319 |
| Gene name | cms1 ribosomal small subunit homolog | |
| Gene Alias | C3orf26 | |
| Cytomap | 3q12.1 | |
| Gene Type | protein-coding | GO ID | GO:0003674 | UniProtAcc | Q9BQ75 |
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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 |
| 84319 | CMSS1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 2.76e-16 | -5.67e-01 | 0.0155 |
| 84319 | CMSS1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 4.16e-10 | -5.89e-01 | -0.1808 |
| 84319 | CMSS1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 5.15e-05 | -5.12e-01 | -0.0811 |
| 84319 | CMSS1 | HTA11_78_2000001011 | Human | Colorectum | AD | 4.17e-05 | -4.55e-01 | -0.1088 |
| 84319 | CMSS1 | HTA11_347_2000001011 | Human | Colorectum | AD | 3.30e-16 | -5.59e-01 | -0.1954 |
| 84319 | CMSS1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 3.54e-07 | -5.76e-01 | -0.1207 |
| 84319 | CMSS1 | HTA11_83_2000001011 | Human | Colorectum | SER | 2.79e-04 | -5.47e-01 | -0.1526 |
| 84319 | CMSS1 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.15e-24 | -5.91e-01 | -0.1464 |
| 84319 | CMSS1 | HTA11_866_2000001011 | Human | Colorectum | AD | 2.02e-21 | -5.89e-01 | -0.1001 |
| 84319 | CMSS1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.60e-07 | -4.76e-01 | -0.059 |
| 84319 | CMSS1 | HTA11_5212_2000001011 | Human | Colorectum | AD | 3.40e-03 | -6.13e-01 | -0.2061 |
| 84319 | CMSS1 | HTA11_546_2000001011 | Human | Colorectum | AD | 1.17e-02 | -5.19e-01 | -0.0842 |
| 84319 | CMSS1 | HTA11_7862_2000001011 | Human | Colorectum | AD | 6.80e-04 | -5.96e-01 | -0.0179 |
| 84319 | CMSS1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.26e-10 | -5.14e-01 | 0.096 |
| 84319 | CMSS1 | HTA11_10623_2000001011 | Human | Colorectum | AD | 2.01e-02 | -5.52e-01 | -0.0177 |
| 84319 | CMSS1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.83e-07 | -5.44e-01 | 0.0338 |
| 84319 | CMSS1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 9.47e-09 | -4.61e-01 | 0.0674 |
| 84319 | CMSS1 | HTA11_6818_2000001011 | Human | Colorectum | AD | 8.84e-04 | -5.96e-01 | 0.0112 |
| 84319 | CMSS1 | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.34e-03 | -4.93e-01 | 0.0588 |
| 84319 | CMSS1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.06e-12 | -3.79e-01 | 0.294 |
| Page: 1 2 3 4 5 6 7 8 9 10 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| 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 | ||
| 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 |
| Page: 1 |
| 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 |
| CMSS1 | SNV | Missense_Mutation | rs746747839 | c.464N>T | p.Ser155Leu | p.S155L | Q9BQ75 | protein_coding | deleterious(0.01) | probably_damaging(0.995) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| CMSS1 | insertion | Frame_Shift_Ins | novel | c.648_649insCTATGTTGCCCAGGCTGGTCTC | p.Lys217LeufsTer12 | p.K217Lfs*12 | Q9BQ75 | protein_coding | TCGA-BH-A0AY-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | SD | |||
| CMSS1 | SNV | Missense_Mutation | rs767387483 | c.587C>T | p.Ala196Val | p.A196V | Q9BQ75 | protein_coding | deleterious(0) | benign(0.007) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| CMSS1 | SNV | Missense_Mutation | c.4N>T | p.Ala2Ser | p.A2S | Q9BQ75 | protein_coding | deleterious(0.02) | probably_damaging(0.978) | TCGA-C5-A1MI-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD | |
| CMSS1 | SNV | Missense_Mutation | rs752532070 | c.193N>A | p.Glu65Lys | p.E65K | Q9BQ75 | protein_coding | deleterious(0.04) | benign(0.258) | TCGA-DS-A5RQ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | CR |
| CMSS1 | SNV | Missense_Mutation | novel | c.91N>A | p.Asp31Asn | p.D31N | Q9BQ75 | protein_coding | tolerated(0.09) | benign(0) | TCGA-JW-A5VL-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| CMSS1 | SNV | Missense_Mutation | c.691N>C | p.Lys231Gln | p.K231Q | Q9BQ75 | protein_coding | deleterious(0.01) | probably_damaging(0.978) | TCGA-AA-3667-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| CMSS1 | SNV | Missense_Mutation | rs756587102 | c.741G>A | p.Met247Ile | p.M247I | Q9BQ75 | protein_coding | deleterious(0.02) | benign(0.018) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| CMSS1 | SNV | Missense_Mutation | rs776581370 | c.611N>A | p.Arg204His | p.R204H | Q9BQ75 | protein_coding | tolerated(0.23) | benign(0.031) | TCGA-CM-4746-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| CMSS1 | SNV | Missense_Mutation | c.695T>G | p.Phe232Cys | p.F232C | Q9BQ75 | protein_coding | tolerated(0.14) | benign(0.009) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 |
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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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