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Gene: FAM189A1 |
Gene summary for FAM189A1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | FAM189A1 | Gene ID | 23359 |
| Gene name | family with sequence similarity 189 member A1 | |
| Gene Alias | TMEM228 | |
| Cytomap | 15q13.1 | |
| Gene Type | protein-coding | GO ID | GO:0005575 | UniProtAcc | O60320 |
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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 |
| 23359 | FAM189A1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.21e-31 | -8.05e-01 | 0.0155 |
| 23359 | FAM189A1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.81e-04 | -8.09e-01 | 0.0216 |
| 23359 | FAM189A1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 2.53e-09 | -7.14e-01 | -0.0811 |
| 23359 | FAM189A1 | HTA11_866_2000001011 | Human | Colorectum | AD | 3.60e-09 | -5.14e-01 | -0.1001 |
| 23359 | FAM189A1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 7.12e-10 | -5.91e-01 | -0.059 |
| 23359 | FAM189A1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.53e-18 | -6.82e-01 | 0.096 |
| 23359 | FAM189A1 | HTA11_9408_2000001011 | Human | Colorectum | AD | 4.27e-03 | -8.34e-01 | 0.0451 |
| 23359 | FAM189A1 | HTA11_8622_2000001021 | Human | Colorectum | SER | 3.33e-03 | -6.71e-01 | 0.0528 |
| 23359 | FAM189A1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 3.24e-12 | -6.84e-01 | 0.0338 |
| 23359 | FAM189A1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 2.31e-24 | -6.77e-01 | 0.0674 |
| 23359 | FAM189A1 | HTA11_6818_2000001011 | Human | Colorectum | AD | 3.82e-06 | -4.99e-01 | 0.0112 |
| 23359 | FAM189A1 | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.09e-10 | -6.58e-01 | 0.0588 |
| 23359 | FAM189A1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 3.51e-45 | -8.56e-01 | 0.294 |
| 23359 | FAM189A1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 3.69e-12 | -7.19e-01 | 0.281 |
| 23359 | FAM189A1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 7.39e-13 | -5.32e-01 | 0.3859 |
| 23359 | FAM189A1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 3.06e-16 | -8.76e-01 | 0.2585 |
| 23359 | FAM189A1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 3.90e-44 | -8.49e-01 | 0.3005 |
| 23359 | FAM189A1 | F007 | Human | Colorectum | FAP | 3.30e-11 | -5.95e-01 | 0.1176 |
| 23359 | FAM189A1 | A002-C-010 | Human | Colorectum | FAP | 1.29e-36 | -7.87e-01 | 0.242 |
| 23359 | FAM189A1 | A001-C-207 | Human | Colorectum | FAP | 8.99e-18 | -6.61e-01 | 0.1278 |
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| 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 |
| ∗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 |
| FAM189A1 | SNV | Missense_Mutation | c.1576N>C | p.Glu526Gln | p.E526Q | O60320 | protein_coding | deleterious(0) | benign(0.056) | TCGA-AR-A0TX-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
| FAM189A1 | SNV | Missense_Mutation | c.230N>T | p.Ser77Leu | p.S77L | O60320 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-D8-A1JA-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | PD | |
| FAM189A1 | SNV | Missense_Mutation | c.614N>G | p.Ser205Cys | p.S205C | O60320 | protein_coding | deleterious(0.02) | possibly_damaging(0.533) | TCGA-D8-A27I-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adrimycin+cyclophosphamide | SD | |
| FAM189A1 | SNV | Missense_Mutation | novel | c.443C>T | p.Ser148Phe | p.S148F | O60320 | protein_coding | deleterious(0) | probably_damaging(0.948) | TCGA-PE-A5DE-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | taxotere | CR |
| FAM189A1 | SNV | Missense_Mutation | c.1576N>A | p.Glu526Lys | p.E526K | O60320 | protein_coding | deleterious(0) | benign(0.015) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
| FAM189A1 | SNV | Missense_Mutation | rs760154362 | c.1460N>T | p.Ala487Val | p.A487V | O60320 | protein_coding | tolerated(0.26) | benign(0.001) | TCGA-EA-A3HU-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| FAM189A1 | SNV | Missense_Mutation | rs764945575 | c.1412N>T | p.Ala471Val | p.A471V | O60320 | protein_coding | tolerated(0.17) | benign(0.001) | TCGA-A6-6653-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| FAM189A1 | SNV | Missense_Mutation | novel | c.337C>A | p.Leu113Ile | p.L113I | O60320 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-AA-A010-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Chemotherapy | folinic | CR |
| FAM189A1 | SNV | Missense_Mutation | c.1465N>A | p.Ala489Thr | p.A489T | O60320 | protein_coding | tolerated(1) | benign(0) | TCGA-AM-5821-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| FAM189A1 | SNV | Missense_Mutation | c.818N>T | p.Ser273Phe | p.S273F | O60320 | protein_coding | tolerated(0.22) | probably_damaging(0.996) | TCGA-G4-6320-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | oxaliplatin | 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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