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Gene: IFIT1 |
Gene summary for IFIT1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | IFIT1 | Gene ID | 3434 |
| Gene name | interferon induced protein with tetratricopeptide repeats 1 | |
| Gene Alias | C56 | |
| Cytomap | 10q23.31 | |
| Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | P09914 |
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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 |
| 3434 | IFIT1 | GSM4909308 | Human | Breast | IDC | 2.62e-04 | 1.88e-01 | 0.158 |
| 3434 | IFIT1 | NCCBC5 | Human | Breast | DCIS | 3.77e-11 | 5.33e-01 | 0.2046 |
| 3434 | IFIT1 | P1 | Human | Breast | IDC | 5.56e-04 | 3.43e-01 | 0.1527 |
| 3434 | IFIT1 | P2 | Human | Breast | IDC | 1.19e-12 | 5.53e-01 | 0.21 |
| 3434 | IFIT1 | LZE20T | Human | Esophagus | ESCC | 1.06e-02 | 1.02e-01 | 0.0662 |
| 3434 | IFIT1 | LZE24T | Human | Esophagus | ESCC | 7.62e-31 | 1.71e+00 | 0.0596 |
| 3434 | IFIT1 | P1T-E | Human | Esophagus | ESCC | 6.19e-04 | 4.50e-01 | 0.0875 |
| 3434 | IFIT1 | P2T-E | Human | Esophagus | ESCC | 5.50e-20 | 5.77e-01 | 0.1177 |
| 3434 | IFIT1 | P4T-E | Human | Esophagus | ESCC | 6.55e-05 | 2.99e-01 | 0.1323 |
| 3434 | IFIT1 | P8T-E | Human | Esophagus | ESCC | 4.19e-13 | 5.85e-01 | 0.0889 |
| 3434 | IFIT1 | P9T-E | Human | Esophagus | ESCC | 9.99e-35 | 1.09e+00 | 0.1131 |
| 3434 | IFIT1 | P11T-E | Human | Esophagus | ESCC | 3.14e-36 | 1.73e+00 | 0.1426 |
| 3434 | IFIT1 | P15T-E | Human | Esophagus | ESCC | 3.17e-10 | 4.24e-01 | 0.1149 |
| 3434 | IFIT1 | P17T-E | Human | Esophagus | ESCC | 1.28e-09 | 7.94e-01 | 0.1278 |
| 3434 | IFIT1 | P20T-E | Human | Esophagus | ESCC | 4.22e-06 | 7.02e-01 | 0.1124 |
| 3434 | IFIT1 | P21T-E | Human | Esophagus | ESCC | 6.45e-13 | 5.27e-01 | 0.1617 |
| 3434 | IFIT1 | P23T-E | Human | Esophagus | ESCC | 2.32e-09 | 4.39e-01 | 0.108 |
| 3434 | IFIT1 | P24T-E | Human | Esophagus | ESCC | 3.30e-16 | 7.04e-01 | 0.1287 |
| 3434 | IFIT1 | P27T-E | Human | Esophagus | ESCC | 7.51e-13 | 4.76e-01 | 0.1055 |
| 3434 | IFIT1 | P28T-E | Human | Esophagus | ESCC | 6.65e-37 | 1.18e+00 | 0.1149 |
| Page: 1 2 3 4 |
| 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 | ||
| 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 | ||
| Oral Cavity |  | EOLP: Erosive Oral lichen planus |
| LP: leukoplakia | ||
| NEOLP: Non-erosive oral lichen planus | ||
| OSCC: Oral squamous cell carcinoma | ||
| 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:005109823 | Breast | DCIS | regulation of binding | 55/1390 | 363/18723 | 3.14e-07 | 1.48e-05 | 55 |
| GO:190390022 | Breast | DCIS | regulation of viral life cycle | 28/1390 | 148/18723 | 3.79e-06 | 1.16e-04 | 28 |
| GO:005170124 | Breast | DCIS | biological process involved in interaction with host | 34/1390 | 203/18723 | 6.30e-06 | 1.78e-04 | 34 |
| GO:004852421 | Breast | DCIS | positive regulation of viral process | 16/1390 | 65/18723 | 1.56e-05 | 3.79e-04 | 16 |
| GO:004506923 | Breast | DCIS | regulation of viral genome replication | 18/1390 | 85/18723 | 4.23e-05 | 8.98e-04 | 18 |
| GO:005110022 | Breast | DCIS | negative regulation of binding | 25/1390 | 162/18723 | 3.77e-04 | 5.27e-03 | 25 |
| GO:000961512 | Breast | DCIS | response to virus | 45/1390 | 367/18723 | 6.16e-04 | 7.82e-03 | 45 |
| GO:004507012 | Breast | DCIS | positive regulation of viral genome replication | 8/1390 | 30/18723 | 1.21e-03 | 1.28e-02 | 8 |
| GO:004852521 | Breast | DCIS | negative regulation of viral process | 15/1390 | 92/18723 | 3.07e-03 | 2.61e-02 | 15 |
| GO:00028314 | Breast | DCIS | regulation of response to biotic stimulus | 37/1390 | 327/18723 | 6.86e-03 | 4.75e-02 | 37 |
| GO:0016032111 | Esophagus | ESCC | viral process | 301/8552 | 415/18723 | 3.34e-29 | 1.32e-26 | 301 |
| GO:0019058111 | Esophagus | ESCC | viral life cycle | 226/8552 | 317/18723 | 1.17e-20 | 1.76e-18 | 226 |
| GO:0051098111 | Esophagus | ESCC | regulation of binding | 251/8552 | 363/18723 | 6.73e-20 | 8.46e-18 | 251 |
| GO:0019079111 | Esophagus | ESCC | viral genome replication | 102/8552 | 131/18723 | 4.31e-14 | 2.19e-12 | 102 |
| GO:000961518 | Esophagus | ESCC | response to virus | 238/8552 | 367/18723 | 6.65e-14 | 3.32e-12 | 238 |
| GO:0050792111 | Esophagus | ESCC | regulation of viral process | 119/8552 | 164/18723 | 2.19e-12 | 9.03e-11 | 119 |
| GO:004339320 | Esophagus | ESCC | regulation of protein binding | 135/8552 | 196/18723 | 3.69e-11 | 1.22e-09 | 135 |
| GO:1903900111 | Esophagus | ESCC | regulation of viral life cycle | 106/8552 | 148/18723 | 1.26e-10 | 3.72e-09 | 106 |
| GO:0044403111 | Esophagus | ESCC | biological process involved in symbiotic interaction | 186/8552 | 290/18723 | 1.43e-10 | 4.16e-09 | 186 |
| GO:0045069110 | Esophagus | ESCC | regulation of viral genome replication | 67/8552 | 85/18723 | 3.81e-10 | 1.04e-08 | 67 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 |
| Enriched KEGG pathways. |
| Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
| hsa051609 | Esophagus | ESCC | Hepatitis C | 107/4205 | 157/8465 | 1.75e-06 | 1.08e-05 | 5.55e-06 | 107 |
| hsa0516016 | Esophagus | ESCC | Hepatitis C | 107/4205 | 157/8465 | 1.75e-06 | 1.08e-05 | 5.55e-06 | 107 |
| hsa051605 | Liver | Cirrhotic | Hepatitis C | 63/2530 | 157/8465 | 3.67e-03 | 1.49e-02 | 9.20e-03 | 63 |
| hsa0516012 | Liver | Cirrhotic | Hepatitis C | 63/2530 | 157/8465 | 3.67e-03 | 1.49e-02 | 9.20e-03 | 63 |
| hsa0516021 | Liver | HCC | Hepatitis C | 94/4020 | 157/8465 | 1.11e-03 | 4.10e-03 | 2.28e-03 | 94 |
| hsa0516031 | Liver | HCC | Hepatitis C | 94/4020 | 157/8465 | 1.11e-03 | 4.10e-03 | 2.28e-03 | 94 |
| hsa051608 | Oral cavity | OSCC | Hepatitis C | 103/3704 | 157/8465 | 2.17e-08 | 1.96e-07 | 9.99e-08 | 103 |
| hsa0516015 | Oral cavity | OSCC | Hepatitis C | 103/3704 | 157/8465 | 2.17e-08 | 1.96e-07 | 9.99e-08 | 103 |
| hsa0516024 | Oral cavity | LP | Hepatitis C | 73/2418 | 157/8465 | 1.14e-06 | 1.36e-05 | 8.74e-06 | 73 |
| hsa0516034 | Oral cavity | LP | Hepatitis C | 73/2418 | 157/8465 | 1.14e-06 | 1.36e-05 | 8.74e-06 | 73 |
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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 |
| IFIT1 | SNV | Missense_Mutation | rs747305726 | c.970N>C | p.Ser324Pro | p.S324P | P09914 | protein_coding | tolerated(0.07) | benign(0.035) | TCGA-A8-A096-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| IFIT1 | SNV | Missense_Mutation | c.1413G>C | p.Glu471Asp | p.E471D | P09914 | protein_coding | tolerated(0.07) | benign(0.006) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| IFIT1 | SNV | Missense_Mutation | novel | c.897N>T | p.Met299Ile | p.M299I | P09914 | protein_coding | tolerated(0.21) | benign(0) | TCGA-AN-A046-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| IFIT1 | SNV | Missense_Mutation | c.497N>T | p.Lys166Met | p.K166M | P09914 | protein_coding | deleterious(0.03) | probably_damaging(0.989) | TCGA-B6-A0WV-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| IFIT1 | SNV | Missense_Mutation | novel | c.1232N>T | p.Ala411Val | p.A411V | P09914 | protein_coding | tolerated(0.28) | benign(0) | TCGA-PE-A5DD-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | CR | |
| IFIT1 | insertion | In_Frame_Ins | novel | c.152_153insAATTTTGTCAAATGCTTTTCCTGCATCAAT | p.Ser51delinsArgIleLeuSerAsnAlaPheProAlaSerIle | p.S51delinsRILSNAFPASI | P09914 | protein_coding | TCGA-A8-A09E-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Hormone Therapy | anastrozole | SD | ||
| IFIT1 | insertion | Frame_Shift_Ins | novel | c.792_793insCATGACAACCAAGCAAATGTGAGGAGTCTGGTGACCTG | p.Gly265HisfsTer23 | p.G265Hfs*23 | P09914 | protein_coding | TCGA-AO-A0JB-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphamide | SD | ||
| IFIT1 | deletion | In_Frame_Del | c.462_464delNNN | p.Lys155del | p.K155del | P09914 | protein_coding | TCGA-C8-A1HJ-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |||
| IFIT1 | deletion | Frame_Shift_Del | c.822delN | p.Lys276ArgfsTer16 | p.K276Rfs*16 | P09914 | protein_coding | TCGA-D8-A1XQ-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
| IFIT1 | SNV | Missense_Mutation | c.404N>T | p.Arg135Ile | p.R135I | P09914 | protein_coding | deleterious(0) | benign(0.325) | TCGA-A6-6141-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Chemotherapy | 5-fu | SD |
| Page: 1 2 3 4 5 |
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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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