|
|||||
|
 | |
| |
| |
| |
| |
| |
|
Gene: ITM2B |
Gene summary for ITM2B |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | ITM2B | Gene ID | 9445 |
| Gene name | integral membrane protein 2B | |
| Gene Alias | ABRI | |
| Cytomap | 13q14.2 | |
| Gene Type | protein-coding | GO ID | GO:0006807 | UniProtAcc | Q9Y287 |
Top |
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 |
| 9445 | ITM2B | GSM4909280 | Human | Breast | Precancer | 1.33e-04 | -6.71e-01 | 0.0305 |
| 9445 | ITM2B | GSM4909281 | Human | Breast | IDC | 4.65e-09 | -3.95e-01 | 0.21 |
| 9445 | ITM2B | GSM4909282 | Human | Breast | IDC | 1.33e-02 | -3.02e-01 | -0.0288 |
| 9445 | ITM2B | GSM4909285 | Human | Breast | IDC | 4.01e-02 | -9.54e-02 | 0.21 |
| 9445 | ITM2B | GSM4909286 | Human | Breast | IDC | 1.78e-26 | -5.63e-01 | 0.1081 |
| 9445 | ITM2B | GSM4909288 | Human | Breast | IDC | 1.56e-04 | -2.11e-01 | 0.0988 |
| 9445 | ITM2B | GSM4909290 | Human | Breast | IDC | 9.61e-18 | -6.36e-01 | 0.2096 |
| 9445 | ITM2B | GSM4909291 | Human | Breast | IDC | 2.21e-03 | -3.81e-01 | 0.1753 |
| 9445 | ITM2B | GSM4909293 | Human | Breast | IDC | 2.23e-07 | -2.60e-01 | 0.1581 |
| 9445 | ITM2B | GSM4909294 | Human | Breast | IDC | 7.82e-21 | -5.89e-01 | 0.2022 |
| 9445 | ITM2B | GSM4909296 | Human | Breast | IDC | 3.32e-32 | -7.12e-01 | 0.1524 |
| 9445 | ITM2B | GSM4909297 | Human | Breast | IDC | 5.27e-27 | -5.19e-01 | 0.1517 |
| 9445 | ITM2B | GSM4909299 | Human | Breast | IDC | 5.93e-10 | 3.05e-01 | 0.035 |
| 9445 | ITM2B | GSM4909301 | Human | Breast | IDC | 3.53e-24 | -6.83e-01 | 0.1577 |
| 9445 | ITM2B | GSM4909304 | Human | Breast | IDC | 5.36e-15 | -4.63e-01 | 0.1636 |
| 9445 | ITM2B | GSM4909307 | Human | Breast | IDC | 1.50e-03 | -3.57e-01 | 0.1569 |
| 9445 | ITM2B | GSM4909308 | Human | Breast | IDC | 1.05e-07 | -2.88e-01 | 0.158 |
| 9445 | ITM2B | GSM4909311 | Human | Breast | IDC | 1.01e-57 | -6.19e-01 | 0.1534 |
| 9445 | ITM2B | GSM4909312 | Human | Breast | IDC | 1.42e-17 | -4.50e-01 | 0.1552 |
| 9445 | ITM2B | GSM4909315 | Human | Breast | IDC | 1.26e-12 | -4.39e-01 | 0.21 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 |
| 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 | ||
| Cervix |  | CC: Cervix cancer |
| HSIL_HPV: HPV-infected high-grade squamous intraepithelial lesions | ||
| N_HPV: HPV-infected normal cervix | ||
| 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 | ||
| 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. |
Top |
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:0009101 | Colorectum | FAP | glycoprotein biosynthetic process | 63/2622 | 317/18723 | 2.31e-03 | 1.86e-02 | 63 |
| GO:00091002 | Esophagus | ESCC | glycoprotein metabolic process | 226/8552 | 387/18723 | 2.64e-07 | 3.94e-06 | 226 |
| GO:00091012 | Esophagus | ESCC | glycoprotein biosynthetic process | 181/8552 | 317/18723 | 2.54e-05 | 2.15e-04 | 181 |
| GO:0009100 | Liver | HCC | glycoprotein metabolic process | 193/7958 | 387/18723 | 1.89e-03 | 9.62e-03 | 193 |
| GO:00091001 | Oral cavity | OSCC | glycoprotein metabolic process | 185/7305 | 387/18723 | 2.37e-04 | 1.54e-03 | 185 |
| GO:00091011 | Oral cavity | OSCC | glycoprotein biosynthetic process | 151/7305 | 317/18723 | 1.01e-03 | 5.26e-03 | 151 |
| GO:00429823 | Oral cavity | OSCC | amyloid precursor protein metabolic process | 52/7305 | 95/18723 | 1.33e-03 | 6.62e-03 | 52 |
| GO:004298211 | Oral cavity | LP | amyloid precursor protein metabolic process | 37/4623 | 95/18723 | 1.45e-03 | 1.14e-02 | 37 |
| GO:00429822 | Oral cavity | NEOLP | amyloid precursor protein metabolic process | 20/2005 | 95/18723 | 2.28e-03 | 1.47e-02 | 20 |
| GO:0042982 | Prostate | BPH | amyloid precursor protein metabolic process | 26/3107 | 95/18723 | 5.47e-03 | 2.54e-02 | 26 |
| GO:00429821 | Prostate | Tumor | amyloid precursor protein metabolic process | 29/3246 | 95/18723 | 1.12e-03 | 7.14e-03 | 29 |
| GO:00429824 | Skin | AK | amyloid precursor protein metabolic process | 19/1910 | 95/18723 | 3.08e-03 | 1.92e-02 | 19 |
| GO:00091013 | Thyroid | PTC | glycoprotein biosynthetic process | 123/5968 | 317/18723 | 5.05e-03 | 2.33e-02 | 123 |
| GO:00091003 | Thyroid | PTC | glycoprotein metabolic process | 147/5968 | 387/18723 | 5.87e-03 | 2.64e-02 | 147 |
| GO:000910011 | Thyroid | ATC | glycoprotein metabolic process | 153/6293 | 387/18723 | 7.90e-03 | 3.06e-02 | 153 |
| Page: 1 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| Page: 1 |
Top |
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 |
Top |
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 |
Top |
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 |
| ITM2B | SNV | Missense_Mutation | c.367N>C | p.Glu123Gln | p.E123Q | Q9Y287 | protein_coding | tolerated(0.18) | benign(0.017) | TCGA-E2-A1LH-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD | |
| ITM2B | SNV | Missense_Mutation | c.373N>A | p.Glu125Lys | p.E125K | Q9Y287 | protein_coding | deleterious(0.01) | benign(0.045) | TCGA-EA-A3Y4-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD | |
| ITM2B | SNV | Missense_Mutation | c.727C>T | p.Arg243Cys | p.R243C | Q9Y287 | protein_coding | deleterious(0) | benign(0.061) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| ITM2B | SNV | Missense_Mutation | c.605N>G | p.His202Arg | p.H202R | Q9Y287 | protein_coding | deleterious(0.01) | benign(0.119) | TCGA-AA-3510-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
| ITM2B | SNV | Missense_Mutation | novel | c.709N>C | p.Ile237Leu | p.I237L | Q9Y287 | protein_coding | tolerated(0.41) | benign(0.007) | TCGA-AM-5820-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| ITM2B | SNV | Missense_Mutation | c.754C>T | p.Arg252Trp | p.R252W | Q9Y287 | protein_coding | deleterious(0) | possibly_damaging(0.802) | TCGA-AG-A002-01 | Colorectum | rectum adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
| ITM2B | SNV | Missense_Mutation | novel | c.320N>T | p.Ala107Val | p.A107V | Q9Y287 | protein_coding | tolerated(0.28) | benign(0) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| ITM2B | SNV | Missense_Mutation | novel | c.515N>T | p.Ser172Phe | p.S172F | Q9Y287 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-AP-A1DV-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| ITM2B | SNV | Missense_Mutation | novel | c.376N>A | p.Glu126Lys | p.E126K | Q9Y287 | protein_coding | tolerated(0.08) | benign(0.033) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
| ITM2B | SNV | Missense_Mutation | novel | c.598N>A | p.His200Asn | p.H200N | Q9Y287 | protein_coding | deleterious(0.01) | possibly_damaging(0.874) | TCGA-AX-A3FS-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 |
Top |
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 |
Copyright 2023-Present -The University of Texas Health Science Center at Houston |