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Gene: FAM135A |
Gene summary for FAM135A |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | FAM135A | Gene ID | 57579 |
| Gene name | family with sequence similarity 135 member A | |
| Gene Alias | KIAA1411 | |
| Cytomap | 6q13 | |
| Gene Type | protein-coding | GO ID | GO:0006629 | UniProtAcc | Q9P2D6 |
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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 |
| 57579 | FAM135A | CCI_1 | Human | Cervix | CC | 2.39e-10 | 1.14e+00 | 0.528 |
| 57579 | FAM135A | CCI_2 | Human | Cervix | CC | 1.56e-06 | 1.04e+00 | 0.5249 |
| 57579 | FAM135A | CCI_3 | Human | Cervix | CC | 2.58e-07 | 6.73e-01 | 0.516 |
| 57579 | FAM135A | T3 | Human | Cervix | CC | 4.58e-03 | 1.14e-01 | 0.1389 |
| 57579 | FAM135A | HTA11_3410_2000001011 | Human | Colorectum | AD | 3.70e-36 | -8.57e-01 | 0.0155 |
| 57579 | FAM135A | HTA11_2487_2000001011 | Human | Colorectum | SER | 2.14e-03 | -4.68e-01 | -0.1808 |
| 57579 | FAM135A | HTA11_2951_2000001011 | Human | Colorectum | AD | 2.28e-05 | -9.02e-01 | 0.0216 |
| 57579 | FAM135A | HTA11_347_2000001011 | Human | Colorectum | AD | 2.72e-02 | 3.92e-01 | -0.1954 |
| 57579 | FAM135A | HTA11_3361_2000001011 | Human | Colorectum | AD | 2.61e-15 | -7.55e-01 | -0.1207 |
| 57579 | FAM135A | HTA11_696_2000001011 | Human | Colorectum | AD | 3.22e-09 | -4.22e-01 | -0.1464 |
| 57579 | FAM135A | HTA11_866_2000001011 | Human | Colorectum | AD | 5.28e-03 | -3.11e-01 | -0.1001 |
| 57579 | FAM135A | HTA11_5216_2000001011 | Human | Colorectum | SER | 1.01e-03 | -5.92e-01 | -0.1462 |
| 57579 | FAM135A | HTA11_9341_2000001011 | Human | Colorectum | SER | 9.78e-05 | -8.98e-01 | -0.00410000000000005 |
| 57579 | FAM135A | HTA11_7862_2000001011 | Human | Colorectum | AD | 3.04e-05 | -5.83e-01 | -0.0179 |
| 57579 | FAM135A | HTA11_866_3004761011 | Human | Colorectum | AD | 1.54e-31 | -8.45e-01 | 0.096 |
| 57579 | FAM135A | HTA11_4255_2000001011 | Human | Colorectum | SER | 4.26e-02 | -7.13e-01 | 0.0446 |
| 57579 | FAM135A | HTA11_9408_2000001011 | Human | Colorectum | AD | 1.45e-05 | -8.15e-01 | 0.0451 |
| 57579 | FAM135A | HTA11_8622_2000001021 | Human | Colorectum | SER | 4.88e-07 | -7.69e-01 | 0.0528 |
| 57579 | FAM135A | HTA11_7663_2000001011 | Human | Colorectum | SER | 4.00e-06 | -7.95e-01 | 0.0131 |
| 57579 | FAM135A | HTA11_6801_2000001011 | Human | Colorectum | SER | 1.40e-02 | -6.32e-01 | 0.0171 |
| Page: 1 2 3 4 5 6 7 8 |
| Transcriptomic changes along malignancy continuum. |
| Tissue | Expression Dynamics | Abbreviation |
| 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 | ||
| Esophagus |  | ESCC: Esophageal squamous cell carcinoma |
| HGIN: High-grade intraepithelial neoplasias | ||
| LGIN: Low-grade intraepithelial neoplasias | ||
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| Lung |  | AAH: Atypical adenomatous hyperplasia |
| AIS: Adenocarcinoma in situ | ||
| IAC: Invasive lung adenocarcinoma | ||
| MIA: Minimally invasive adenocarcinoma | ||
| Prostate |  | BPH: Benign Prostatic Hyperplasia |
| ∗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 |
| FAM135A | SNV | Missense_Mutation | c.2260N>G | p.Lys754Glu | p.K754E | Q9P2D6 | protein_coding | tolerated(0.06) | benign(0.164) | TCGA-AN-A0AK-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| FAM135A | SNV | Missense_Mutation | c.3889G>C | p.Asp1297His | p.D1297H | Q9P2D6 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-BH-A0H5-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | CR | |
| FAM135A | SNV | Missense_Mutation | rs757683614 | c.1525N>A | p.Leu509Ile | p.L509I | Q9P2D6 | protein_coding | tolerated(0.28) | benign(0.003) | TCGA-BH-A18G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| FAM135A | SNV | Missense_Mutation | c.868N>C | p.Val290Leu | p.V290L | Q9P2D6 | protein_coding | tolerated(0.58) | benign(0.051) | TCGA-D8-A13Z-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicine | SD | |
| FAM135A | SNV | Missense_Mutation | rs762402721 | c.3130G>T | p.Gly1044Cys | p.G1044C | Q9P2D6 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-D8-A147-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicine | SD |
| FAM135A | SNV | Missense_Mutation | c.4022G>C | p.Arg1341Thr | p.R1341T | Q9P2D6 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-GI-A2C9-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | SD | ||
| FAM135A | SNV | Missense_Mutation | novel | c.1148N>T | p.Ser383Phe | p.S383F | Q9P2D6 | protein_coding | deleterious(0) | probably_damaging(0.994) | TCGA-XX-A899-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cytoxan | CR |
| FAM135A | insertion | Frame_Shift_Ins | novel | c.749_750insAGCCTTCAAGGGATTGCTATGTTGCTCAGGCTGGTATCAAACTCTTGGCCTCAAGCAATCCTCCAGGCTA | p.His256LeufsTer53 | p.H256Lfs*53 | Q9P2D6 | protein_coding | TCGA-AO-A128-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | doxorubicin | SD | ||
| FAM135A | deletion | Frame_Shift_Del | novel | c.3503_3506delATTC | p.Tyr1168PhefsTer45 | p.Y1168Ffs*45 | Q9P2D6 | protein_coding | TCGA-B6-A3ZX-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphamide | PD | ||
| FAM135A | SNV | Missense_Mutation | rs868795794 | c.2339C>T | p.Ala780Val | p.A780V | Q9P2D6 | protein_coding | deleterious(0) | possibly_damaging(0.836) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 |
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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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