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Gene: DDX1 |
Gene summary for DDX1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | DDX1 | Gene ID | 1653 |
| Gene name | DEAD-box helicase 1 | |
| Gene Alias | DBP-RB | |
| Cytomap | 2p24.3 | |
| Gene Type | protein-coding | GO ID | GO:0000245 | UniProtAcc | A3RJH1 |
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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 |
| 1653 | DDX1 | LZE2T | Human | Esophagus | ESCC | 1.99e-02 | 4.31e-01 | 0.082 |
| 1653 | DDX1 | LZE4T | Human | Esophagus | ESCC | 1.19e-10 | 4.16e-01 | 0.0811 |
| 1653 | DDX1 | LZE7T | Human | Esophagus | ESCC | 3.17e-05 | 3.15e-01 | 0.0667 |
| 1653 | DDX1 | LZE8T | Human | Esophagus | ESCC | 8.09e-03 | 7.79e-02 | 0.067 |
| 1653 | DDX1 | LZE20T | Human | Esophagus | ESCC | 1.02e-04 | 4.22e-02 | 0.0662 |
| 1653 | DDX1 | LZE22T | Human | Esophagus | ESCC | 7.06e-03 | 3.14e-01 | 0.068 |
| 1653 | DDX1 | LZE24T | Human | Esophagus | ESCC | 1.96e-08 | 2.56e-01 | 0.0596 |
| 1653 | DDX1 | P1T-E | Human | Esophagus | ESCC | 7.30e-06 | 3.18e-01 | 0.0875 |
| 1653 | DDX1 | P2T-E | Human | Esophagus | ESCC | 3.19e-30 | 6.22e-01 | 0.1177 |
| 1653 | DDX1 | P4T-E | Human | Esophagus | ESCC | 1.57e-22 | 6.00e-01 | 0.1323 |
| 1653 | DDX1 | P5T-E | Human | Esophagus | ESCC | 5.32e-13 | 2.61e-01 | 0.1327 |
| 1653 | DDX1 | P8T-E | Human | Esophagus | ESCC | 2.45e-21 | 3.62e-01 | 0.0889 |
| 1653 | DDX1 | P9T-E | Human | Esophagus | ESCC | 3.80e-15 | 3.76e-01 | 0.1131 |
| 1653 | DDX1 | P10T-E | Human | Esophagus | ESCC | 2.64e-36 | 5.99e-01 | 0.116 |
| 1653 | DDX1 | P11T-E | Human | Esophagus | ESCC | 1.50e-13 | 5.19e-01 | 0.1426 |
| 1653 | DDX1 | P12T-E | Human | Esophagus | ESCC | 1.70e-33 | 6.09e-01 | 0.1122 |
| 1653 | DDX1 | P15T-E | Human | Esophagus | ESCC | 1.73e-13 | 1.94e-01 | 0.1149 |
| 1653 | DDX1 | P16T-E | Human | Esophagus | ESCC | 1.53e-13 | 2.62e-01 | 0.1153 |
| 1653 | DDX1 | P17T-E | Human | Esophagus | ESCC | 3.51e-06 | 2.66e-01 | 0.1278 |
| 1653 | DDX1 | P19T-E | Human | Esophagus | ESCC | 7.37e-04 | 4.47e-01 | 0.1662 |
| Page: 1 2 3 4 5 6 7 |
| 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 | ||
| 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 | ||
| 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. |
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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:00008194 | Esophagus | ESCC | sister chromatid segregation | 157/8552 | 202/18723 | 8.41e-21 | 1.33e-18 | 157 |
| GO:005123617 | Esophagus | ESCC | establishment of RNA localization | 134/8552 | 166/18723 | 1.23e-20 | 1.81e-18 | 134 |
| GO:0051168110 | Esophagus | ESCC | nuclear export | 126/8552 | 154/18723 | 1.88e-20 | 2.65e-18 | 126 |
| GO:005102815 | Esophagus | ESCC | mRNA transport | 110/8552 | 130/18723 | 2.76e-20 | 3.80e-18 | 110 |
| GO:0051098111 | Esophagus | ESCC | regulation of binding | 251/8552 | 363/18723 | 6.73e-20 | 8.46e-18 | 251 |
| GO:005065717 | Esophagus | ESCC | nucleic acid transport | 131/8552 | 163/18723 | 6.94e-20 | 8.46e-18 | 131 |
| GO:005065817 | Esophagus | ESCC | RNA transport | 131/8552 | 163/18723 | 6.94e-20 | 8.46e-18 | 131 |
| GO:003304416 | Esophagus | ESCC | regulation of chromosome organization | 145/8552 | 187/18723 | 3.80e-19 | 4.31e-17 | 145 |
| GO:0006413110 | Esophagus | ESCC | translational initiation | 100/8552 | 118/18723 | 1.16e-18 | 1.25e-16 | 100 |
| GO:000705911 | Esophagus | ESCC | chromosome segregation | 238/8552 | 346/18723 | 1.72e-18 | 1.82e-16 | 238 |
| GO:0006417111 | Esophagus | ESCC | regulation of translation | 304/8552 | 468/18723 | 1.53e-17 | 1.33e-15 | 304 |
| GO:0071826111 | Esophagus | ESCC | ribonucleoprotein complex subunit organization | 166/8552 | 227/18723 | 2.94e-17 | 2.42e-15 | 166 |
| GO:001593117 | Esophagus | ESCC | nucleobase-containing compound transport | 162/8552 | 222/18723 | 9.87e-17 | 7.93e-15 | 162 |
| GO:0043484111 | Esophagus | ESCC | regulation of RNA splicing | 116/8552 | 148/18723 | 3.18e-16 | 2.38e-14 | 116 |
| GO:0050684110 | Esophagus | ESCC | regulation of mRNA processing | 109/8552 | 137/18723 | 3.51e-16 | 2.59e-14 | 109 |
| GO:0022618111 | Esophagus | ESCC | ribonucleoprotein complex assembly | 159/8552 | 220/18723 | 8.19e-16 | 5.71e-14 | 159 |
| GO:0042273111 | Esophagus | ESCC | ribosomal large subunit biogenesis | 65/8552 | 72/18723 | 1.53e-15 | 9.82e-14 | 65 |
| GO:00062604 | Esophagus | ESCC | DNA replication | 181/8552 | 260/18723 | 3.55e-15 | 2.05e-13 | 181 |
| GO:000961518 | Esophagus | ESCC | response to virus | 238/8552 | 367/18723 | 6.65e-14 | 3.32e-12 | 238 |
| GO:005105215 | Esophagus | ESCC | regulation of DNA metabolic process | 232/8552 | 359/18723 | 2.40e-13 | 1.13e-11 | 232 |
| Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 |
| 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 |
| DDX1 | SNV | Missense_Mutation | c.2095N>A | p.Gly699Arg | p.G699R | Q92499 | protein_coding | tolerated(0.22) | benign(0.303) | TCGA-BH-A2L8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | cytoxan | CR | |
| DDX1 | SNV | Missense_Mutation | novel | c.1433G>C | p.Gly478Ala | p.G478A | Q92499 | protein_coding | tolerated(0.09) | benign(0.255) | TCGA-E2-A574-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | SD |
| DDX1 | SNV | Missense_Mutation | novel | c.449C>T | p.Ser150Phe | p.S150F | Q92499 | protein_coding | deleterious(0) | probably_damaging(0.974) | TCGA-EW-A423-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | anastrozole | SD |
| DDX1 | SNV | Missense_Mutation | novel | c.351G>T | p.Lys117Asn | p.K117N | Q92499 | protein_coding | tolerated(0.06) | possibly_damaging(0.787) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| DDX1 | SNV | Missense_Mutation | c.1925N>A | p.Arg642Lys | p.R642K | Q92499 | protein_coding | tolerated(0.82) | benign(0.003) | TCGA-IR-A3LK-01 | Cervix | cervical & endocervical cancer | Female | >=65 | I/II | Chemotherapy | cisplatin | PD | |
| DDX1 | SNV | Missense_Mutation | c.238N>G | p.Thr80Ala | p.T80A | Q92499 | protein_coding | tolerated(0.59) | benign(0) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
| DDX1 | SNV | Missense_Mutation | c.387G>A | p.Met129Ile | p.M129I | Q92499 | protein_coding | tolerated(0.4) | benign(0.003) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
| DDX1 | SNV | Missense_Mutation | c.1757N>G | p.Tyr586Cys | p.Y586C | Q92499 | protein_coding | deleterious(0) | probably_damaging(0.962) | TCGA-AD-6889-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Chemotherapy | xeloda | PD | |
| DDX1 | SNV | Missense_Mutation | novel | c.1274N>C | p.Phe425Ser | p.F425S | Q92499 | protein_coding | tolerated(0.05) | probably_damaging(0.999) | TCGA-AZ-4315-01 | Colorectum | colon adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD |
| DDX1 | SNV | Missense_Mutation | c.1859N>T | p.Ala620Val | p.A620V | Q92499 | protein_coding | deleterious(0.01) | possibly_damaging(0.776) | TCGA-CK-5913-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 7 8 |
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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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