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Gene: TMEM55A |
Gene summary for TMEM55A |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | TMEM55A | Gene ID | 55529 |
| Gene name | phosphatidylinositol-4,5-bisphosphate 4-phosphatase 2 | |
| Gene Alias | TMEM55A | |
| Cytomap | 8q21.3 | |
| Gene Type | protein-coding | GO ID | GO:0006629 | UniProtAcc | Q8N4L2 |
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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 |
| 55529 | TMEM55A | P2T-E | Human | Esophagus | ESCC | 1.24e-20 | 3.70e-01 | 0.1177 |
| 55529 | TMEM55A | P4T-E | Human | Esophagus | ESCC | 9.64e-16 | 2.68e-01 | 0.1323 |
| 55529 | TMEM55A | P5T-E | Human | Esophagus | ESCC | 6.12e-04 | 9.34e-02 | 0.1327 |
| 55529 | TMEM55A | P8T-E | Human | Esophagus | ESCC | 8.80e-14 | 2.12e-01 | 0.0889 |
| 55529 | TMEM55A | P9T-E | Human | Esophagus | ESCC | 1.45e-06 | 1.91e-01 | 0.1131 |
| 55529 | TMEM55A | P10T-E | Human | Esophagus | ESCC | 3.22e-13 | 2.80e-01 | 0.116 |
| 55529 | TMEM55A | P11T-E | Human | Esophagus | ESCC | 1.04e-11 | 3.59e-01 | 0.1426 |
| 55529 | TMEM55A | P16T-E | Human | Esophagus | ESCC | 3.42e-29 | 4.78e-01 | 0.1153 |
| 55529 | TMEM55A | P19T-E | Human | Esophagus | ESCC | 1.94e-07 | 4.61e-01 | 0.1662 |
| 55529 | TMEM55A | P21T-E | Human | Esophagus | ESCC | 7.81e-09 | 1.48e-01 | 0.1617 |
| 55529 | TMEM55A | P22T-E | Human | Esophagus | ESCC | 1.94e-19 | 3.45e-01 | 0.1236 |
| 55529 | TMEM55A | P23T-E | Human | Esophagus | ESCC | 6.12e-04 | 1.91e-01 | 0.108 |
| 55529 | TMEM55A | P24T-E | Human | Esophagus | ESCC | 1.10e-02 | 8.94e-02 | 0.1287 |
| 55529 | TMEM55A | P26T-E | Human | Esophagus | ESCC | 3.63e-21 | 4.16e-01 | 0.1276 |
| 55529 | TMEM55A | P27T-E | Human | Esophagus | ESCC | 1.73e-03 | 2.55e-02 | 0.1055 |
| 55529 | TMEM55A | P28T-E | Human | Esophagus | ESCC | 8.34e-04 | 7.81e-02 | 0.1149 |
| 55529 | TMEM55A | P30T-E | Human | Esophagus | ESCC | 1.53e-11 | 5.60e-01 | 0.137 |
| 55529 | TMEM55A | P32T-E | Human | Esophagus | ESCC | 1.80e-22 | 3.65e-01 | 0.1666 |
| 55529 | TMEM55A | P36T-E | Human | Esophagus | ESCC | 5.09e-10 | 2.99e-01 | 0.1187 |
| 55529 | TMEM55A | P37T-E | Human | Esophagus | ESCC | 3.90e-10 | 1.83e-01 | 0.1371 |
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| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma |
| ∗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). |
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| Enriched GO biological processes. |
| GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
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| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
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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. |
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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 |
| TMEM55A | SNV | Missense_Mutation | novel | c.493N>A | p.Glu165Lys | p.E165K | Q8N4L2 | protein_coding | deleterious(0.04) | probably_damaging(0.973) | TCGA-AN-A0FV-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| TMEM55A | SNV | Missense_Mutation | c.677N>A | p.Ser226Tyr | p.S226Y | Q8N4L2 | protein_coding | deleterious(0.02) | possibly_damaging(0.486) | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
| TMEM55A | insertion | Frame_Shift_Ins | novel | c.538dupA | p.Ile180AsnfsTer6 | p.I180Nfs*6 | Q8N4L2 | protein_coding | TCGA-C5-A1MN-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | SD | ||
| TMEM55A | deletion | Frame_Shift_Del | novel | c.312delT | p.Leu105SerfsTer10 | p.L105Sfs*10 | Q8N4L2 | protein_coding | TCGA-C5-A7CH-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unspecific | SD | |||
| TMEM55A | SNV | Missense_Mutation | c.323N>T | p.Lys108Met | p.K108M | Q8N4L2 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-A6-2685-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | PD | |
| TMEM55A | SNV | Missense_Mutation | c.182N>A | p.Cys61Tyr | p.C61Y | Q8N4L2 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-AA-3715-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| TMEM55A | SNV | Missense_Mutation | rs746791765 | c.566N>A | p.Arg189Gln | p.R189Q | Q8N4L2 | protein_coding | deleterious(0.02) | probably_damaging(0.968) | TCGA-AA-3977-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| TMEM55A | SNV | Missense_Mutation | c.514N>A | p.Ala172Thr | p.A172T | Q8N4L2 | protein_coding | deleterious(0) | probably_damaging(0.989) | TCGA-AA-A01R-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | 5-fluorouracil | PD | |
| TMEM55A | SNV | Missense_Mutation | rs746791765 | c.566N>A | p.Arg189Gln | p.R189Q | Q8N4L2 | protein_coding | deleterious(0.02) | probably_damaging(0.968) | TCGA-AG-3892-01 | Colorectum | rectum adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| TMEM55A | SNV | Missense_Mutation | rs758488670 | c.457G>A | p.Val153Met | p.V153M | Q8N4L2 | protein_coding | tolerated(0.08) | possibly_damaging(0.582) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | 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 |
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