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Gene: STOM |
Gene summary for STOM |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | STOM | Gene ID | 2040 |
| Gene name | stomatin | |
| Gene Alias | BND7 | |
| Cytomap | 9q33.2 | |
| Gene Type | protein-coding | GO ID | GO:0002028 | UniProtAcc | F8VSL7 |
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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 |
| 2040 | STOM | LZE4T | Human | Esophagus | ESCC | 1.97e-14 | 7.94e-01 | 0.0811 |
| 2040 | STOM | LZE5T | Human | Esophagus | ESCC | 2.18e-04 | 1.82e-01 | 0.0514 |
| 2040 | STOM | LZE7T | Human | Esophagus | ESCC | 1.44e-07 | -1.96e-01 | 0.0667 |
| 2040 | STOM | LZE20T | Human | Esophagus | ESCC | 1.04e-09 | 8.52e-01 | 0.0662 |
| 2040 | STOM | LZE21D1 | Human | Esophagus | HGIN | 6.35e-04 | -2.51e-01 | 0.0632 |
| 2040 | STOM | LZE24D1 | Human | Esophagus | HGIN | 7.12e-08 | 3.34e-01 | 0.054 |
| 2040 | STOM | LZE24T | Human | Esophagus | ESCC | 2.51e-14 | 9.76e-01 | 0.0596 |
| 2040 | STOM | P2T-E | Human | Esophagus | ESCC | 1.46e-07 | 3.13e-01 | 0.1177 |
| 2040 | STOM | P4T-E | Human | Esophagus | ESCC | 9.71e-14 | 3.77e-01 | 0.1323 |
| 2040 | STOM | P5T-E | Human | Esophagus | ESCC | 1.40e-20 | 6.42e-01 | 0.1327 |
| 2040 | STOM | P9T-E | Human | Esophagus | ESCC | 9.62e-12 | 6.69e-01 | 0.1131 |
| 2040 | STOM | P10T-E | Human | Esophagus | ESCC | 2.46e-07 | -4.44e-01 | 0.116 |
| 2040 | STOM | P11T-E | Human | Esophagus | ESCC | 4.60e-06 | 6.64e-01 | 0.1426 |
| 2040 | STOM | P12T-E | Human | Esophagus | ESCC | 1.18e-47 | 1.55e+00 | 0.1122 |
| 2040 | STOM | P15T-E | Human | Esophagus | ESCC | 3.20e-37 | 1.26e+00 | 0.1149 |
| 2040 | STOM | P16T-E | Human | Esophagus | ESCC | 7.80e-16 | -2.68e-01 | 0.1153 |
| 2040 | STOM | P17T-E | Human | Esophagus | ESCC | 5.67e-03 | 6.19e-01 | 0.1278 |
| 2040 | STOM | P19T-E | Human | Esophagus | ESCC | 4.81e-03 | 1.23e+00 | 0.1662 |
| 2040 | STOM | P20T-E | Human | Esophagus | ESCC | 1.68e-16 | 7.22e-01 | 0.1124 |
| 2040 | STOM | P21T-E | Human | Esophagus | ESCC | 1.46e-28 | 1.06e+00 | 0.1617 |
| Page: 1 2 3 4 5 6 7 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| 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 | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| 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:000616312 | Liver | Cirrhotic | purine nucleotide metabolic process | 146/4634 | 396/18723 | 4.12e-08 | 1.34e-06 | 146 |
| GO:19054755 | Liver | Cirrhotic | regulation of protein localization to membrane | 76/4634 | 175/18723 | 4.55e-08 | 1.45e-06 | 76 |
| GO:00518511 | Liver | Cirrhotic | modulation by host of symbiont process | 33/4634 | 60/18723 | 5.09e-07 | 1.14e-05 | 33 |
| GO:00358213 | Liver | Cirrhotic | modulation of process of other organism | 49/4634 | 106/18723 | 1.20e-06 | 2.43e-05 | 49 |
| GO:001921611 | Liver | Cirrhotic | regulation of lipid metabolic process | 119/4634 | 331/18723 | 3.05e-06 | 5.39e-05 | 119 |
| GO:00164853 | Liver | Cirrhotic | protein processing | 85/4634 | 225/18723 | 9.01e-06 | 1.32e-04 | 85 |
| GO:19035333 | Liver | Cirrhotic | regulation of protein targeting | 38/4634 | 81/18723 | 1.20e-05 | 1.69e-04 | 38 |
| GO:00447882 | Liver | Cirrhotic | modulation by host of viral process | 18/4634 | 30/18723 | 4.27e-05 | 5.03e-04 | 18 |
| GO:00066122 | Liver | Cirrhotic | protein targeting to membrane | 53/4634 | 131/18723 | 5.17e-05 | 5.95e-04 | 53 |
| GO:001087611 | Liver | Cirrhotic | lipid localization | 147/4634 | 448/18723 | 6.24e-05 | 7.12e-04 | 147 |
| GO:00463905 | Liver | Cirrhotic | ribose phosphate biosynthetic process | 71/4634 | 190/18723 | 7.09e-05 | 7.98e-04 | 71 |
| GO:00092605 | Liver | Cirrhotic | ribonucleotide biosynthetic process | 68/4634 | 182/18723 | 1.00e-04 | 1.05e-03 | 68 |
| GO:19054775 | Liver | Cirrhotic | positive regulation of protein localization to membrane | 44/4634 | 106/18723 | 1.07e-04 | 1.10e-03 | 44 |
| GO:00447941 | Liver | Cirrhotic | positive regulation by host of viral process | 10/4634 | 13/18723 | 1.14e-04 | 1.14e-03 | 10 |
| GO:00091654 | Liver | Cirrhotic | nucleotide biosynthetic process | 89/4634 | 254/18723 | 1.45e-04 | 1.40e-03 | 89 |
| GO:19012934 | Liver | Cirrhotic | nucleoside phosphate biosynthetic process | 89/4634 | 256/18723 | 1.97e-04 | 1.82e-03 | 89 |
| GO:00091526 | Liver | Cirrhotic | purine ribonucleotide biosynthetic process | 62/4634 | 169/18723 | 3.52e-04 | 3.00e-03 | 62 |
| GO:19905425 | Liver | Cirrhotic | mitochondrial transmembrane transport | 41/4634 | 102/18723 | 4.08e-04 | 3.37e-03 | 41 |
| GO:00482842 | Liver | Cirrhotic | organelle fusion | 52/4634 | 141/18723 | 8.77e-04 | 6.31e-03 | 52 |
| GO:00091416 | Liver | Cirrhotic | nucleoside triphosphate metabolic process | 43/4634 | 112/18723 | 9.31e-04 | 6.62e-03 | 43 |
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| 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 |
| STOM | SNV | Missense_Mutation | c.863N>C | p.Gly288Ala | p.G288A | P27105 | protein_coding | tolerated(0.18) | benign(0) | TCGA-AN-A0FX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| STOM | SNV | Missense_Mutation | novel | c.545N>T | p.Thr182Ile | p.T182I | P27105 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| STOM | SNV | Missense_Mutation | rs747153047 | c.295N>G | p.Ile99Val | p.I99V | P27105 | protein_coding | tolerated(1) | benign(0.001) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| STOM | SNV | Missense_Mutation | novel | c.428N>A | p.Thr143Asn | p.T143N | P27105 | protein_coding | deleterious(0) | probably_damaging(0.993) | TCGA-IR-A3L7-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| STOM | SNV | Missense_Mutation | c.431N>A | p.Arg144His | p.R144H | P27105 | protein_coding | tolerated(0.09) | benign(0.168) | TCGA-G4-6302-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| STOM | SNV | Missense_Mutation | rs763192503 | c.572N>A | p.Arg191His | p.R191H | P27105 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-NH-A50T-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| STOM | SNV | Missense_Mutation | rs201671242 | c.673N>A | p.Glu225Lys | p.E225K | P27105 | protein_coding | deleterious(0.02) | possibly_damaging(0.617) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| STOM | SNV | Missense_Mutation | rs867557202 | c.299N>T | p.Ser100Leu | p.S100L | P27105 | protein_coding | deleterious(0) | possibly_damaging(0.672) | TCGA-EI-6917-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5fluorouracil+oxaciplatina+l-folinian | SD |
| STOM | SNV | Missense_Mutation | novel | c.857N>G | p.His286Arg | p.H286R | P27105 | protein_coding | tolerated(0.17) | benign(0.003) | TCGA-F5-6814-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| STOM | SNV | Missense_Mutation | novel | c.752N>A | p.Arg251Gln | p.R251Q | P27105 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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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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