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Gene: DHX29 |
Gene summary for DHX29 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | DHX29 | Gene ID | 54505 |
| Gene name | DExH-box helicase 29 | |
| Gene Alias | DDX29 | |
| Cytomap | 5q11.2 | |
| Gene Type | protein-coding | GO ID | GO:0001731 | UniProtAcc | Q7Z478 |
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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 |
| 54505 | DHX29 | LZE2T | Human | Esophagus | ESCC | 6.26e-05 | 5.51e-01 | 0.082 |
| 54505 | DHX29 | LZE4T | Human | Esophagus | ESCC | 7.12e-11 | 3.73e-01 | 0.0811 |
| 54505 | DHX29 | LZE7T | Human | Esophagus | ESCC | 3.19e-13 | 4.05e-01 | 0.0667 |
| 54505 | DHX29 | LZE8T | Human | Esophagus | ESCC | 1.22e-04 | 3.14e-01 | 0.067 |
| 54505 | DHX29 | LZE20T | Human | Esophagus | ESCC | 8.77e-09 | 2.70e-01 | 0.0662 |
| 54505 | DHX29 | LZE24T | Human | Esophagus | ESCC | 1.42e-22 | 6.73e-01 | 0.0596 |
| 54505 | DHX29 | LZE21T | Human | Esophagus | ESCC | 2.05e-05 | 3.28e-01 | 0.0655 |
| 54505 | DHX29 | LZE6T | Human | Esophagus | ESCC | 3.22e-12 | 8.24e-01 | 0.0845 |
| 54505 | DHX29 | P1T-E | Human | Esophagus | ESCC | 1.39e-15 | 6.36e-01 | 0.0875 |
| 54505 | DHX29 | P2T-E | Human | Esophagus | ESCC | 4.01e-61 | 9.58e-01 | 0.1177 |
| 54505 | DHX29 | P4T-E | Human | Esophagus | ESCC | 9.18e-40 | 1.01e+00 | 0.1323 |
| 54505 | DHX29 | P5T-E | Human | Esophagus | ESCC | 3.28e-36 | 6.56e-01 | 0.1327 |
| 54505 | DHX29 | P8T-E | Human | Esophagus | ESCC | 3.32e-22 | 4.92e-01 | 0.0889 |
| 54505 | DHX29 | P9T-E | Human | Esophagus | ESCC | 2.78e-21 | 6.19e-01 | 0.1131 |
| 54505 | DHX29 | P10T-E | Human | Esophagus | ESCC | 4.03e-33 | 5.71e-01 | 0.116 |
| 54505 | DHX29 | P11T-E | Human | Esophagus | ESCC | 6.55e-27 | 1.05e+00 | 0.1426 |
| 54505 | DHX29 | P12T-E | Human | Esophagus | ESCC | 3.63e-44 | 8.49e-01 | 0.1122 |
| 54505 | DHX29 | P15T-E | Human | Esophagus | ESCC | 1.86e-30 | 7.50e-01 | 0.1149 |
| 54505 | DHX29 | P16T-E | Human | Esophagus | ESCC | 6.60e-38 | 6.82e-01 | 0.1153 |
| 54505 | DHX29 | P17T-E | Human | Esophagus | ESCC | 5.30e-13 | 5.08e-01 | 0.1278 |
| 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 | ||
| 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:004225529 | Skin | cSCC | ribosome assembly | 44/4864 | 61/18723 | 5.84e-14 | 3.81e-12 | 44 |
| GO:000173115 | Skin | cSCC | formation of translation preinitiation complex | 10/4864 | 11/18723 | 1.17e-05 | 1.50e-04 | 10 |
| GO:00459484 | Skin | cSCC | positive regulation of translational initiation | 18/4864 | 30/18723 | 8.53e-05 | 8.08e-04 | 18 |
| GO:0022613113 | Thyroid | PTC | ribonucleoprotein complex biogenesis | 292/5968 | 463/18723 | 3.24e-44 | 2.05e-40 | 292 |
| GO:0042254113 | Thyroid | PTC | ribosome biogenesis | 202/5968 | 299/18723 | 3.47e-37 | 5.47e-34 | 202 |
| GO:0002181113 | Thyroid | PTC | cytoplasmic translation | 121/5968 | 148/18723 | 4.32e-36 | 4.54e-33 | 121 |
| GO:0006413112 | Thyroid | PTC | translational initiation | 84/5968 | 118/18723 | 1.89e-18 | 2.09e-16 | 84 |
| GO:0071826113 | Thyroid | PTC | ribonucleoprotein complex subunit organization | 134/5968 | 227/18723 | 2.34e-17 | 2.24e-15 | 134 |
| GO:0006417113 | Thyroid | PTC | regulation of translation | 236/5968 | 468/18723 | 2.70e-17 | 2.52e-15 | 236 |
| GO:0022618113 | Thyroid | PTC | ribonucleoprotein complex assembly | 130/5968 | 220/18723 | 6.25e-17 | 5.47e-15 | 130 |
| GO:0034250113 | Thyroid | PTC | positive regulation of cellular amide metabolic process | 98/5968 | 162/18723 | 5.26e-14 | 3.04e-12 | 98 |
| GO:0045727113 | Thyroid | PTC | positive regulation of translation | 84/5968 | 136/18723 | 6.52e-13 | 3.08e-11 | 84 |
| GO:0006446110 | Thyroid | PTC | regulation of translational initiation | 55/5968 | 79/18723 | 6.21e-12 | 2.63e-10 | 55 |
| GO:0042255113 | Thyroid | PTC | ribosome assembly | 43/5968 | 61/18723 | 6.72e-10 | 2.04e-08 | 43 |
| GO:0002183112 | Thyroid | PTC | cytoplasmic translational initiation | 27/5968 | 34/18723 | 1.57e-08 | 3.69e-07 | 27 |
| GO:000173117 | Thyroid | PTC | formation of translation preinitiation complex | 9/5968 | 11/18723 | 9.49e-04 | 5.70e-03 | 9 |
| GO:00459485 | Thyroid | PTC | positive regulation of translational initiation | 17/5968 | 30/18723 | 4.31e-03 | 2.04e-02 | 17 |
| GO:002261334 | Thyroid | ATC | ribonucleoprotein complex biogenesis | 292/6293 | 463/18723 | 3.05e-39 | 9.63e-36 | 292 |
| GO:004225434 | Thyroid | ATC | ribosome biogenesis | 203/6293 | 299/18723 | 3.63e-34 | 4.59e-31 | 203 |
| GO:000218135 | Thyroid | ATC | cytoplasmic translation | 121/6293 | 148/18723 | 1.41e-33 | 1.49e-30 | 121 |
| Page: 1 2 3 4 5 6 |
| 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 |
| DHX29 | SNV | Missense_Mutation | novel | c.1207C>G | p.Pro403Ala | p.P403A | Q7Z478 | protein_coding | tolerated(0.41) | benign(0) | TCGA-5L-AAT0-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD |
| DHX29 | SNV | Missense_Mutation | rs746293690 | c.1795A>G | p.Ser599Gly | p.S599G | Q7Z478 | protein_coding | tolerated(0.06) | probably_damaging(0.964) | TCGA-AN-A0XT-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| DHX29 | SNV | Missense_Mutation | c.3761N>G | p.Ala1254Gly | p.A1254G | Q7Z478 | protein_coding | deleterious(0) | possibly_damaging(0.892) | TCGA-BH-A1EV-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | PD | |
| DHX29 | SNV | Missense_Mutation | c.1834N>C | p.Asp612His | p.D612H | Q7Z478 | protein_coding | deleterious(0) | possibly_damaging(0.78) | TCGA-D8-A1J8-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | nolvadex | SD | |
| DHX29 | SNV | Missense_Mutation | c.1539N>C | p.Lys513Asn | p.K513N | Q7Z478 | protein_coding | tolerated(0.26) | benign(0.021) | TCGA-GM-A2D9-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
| DHX29 | SNV | Missense_Mutation | novel | c.1033N>C | p.Glu345Gln | p.E345Q | Q7Z478 | protein_coding | deleterious(0.01) | probably_damaging(0.946) | TCGA-LD-A74U-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Chemotherapy | taxotere | SD |
| DHX29 | deletion | Frame_Shift_Del | novel | c.1065delN | p.Asp356IlefsTer9 | p.D356Ifs*9 | Q7Z478 | protein_coding | TCGA-D8-A27V-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | tamoxiphen | SD | ||
| DHX29 | SNV | Missense_Mutation | novel | c.2900A>G | p.Glu967Gly | p.E967G | Q7Z478 | protein_coding | deleterious(0) | probably_damaging(0.993) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| DHX29 | SNV | Missense_Mutation | rs778194125 | c.2494C>T | p.Arg832Cys | p.R832C | Q7Z478 | protein_coding | deleterious(0) | possibly_damaging(0.719) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| DHX29 | SNV | Missense_Mutation | c.532G>A | p.Glu178Lys | p.E178K | Q7Z478 | protein_coding | tolerated(0.89) | benign(0.001) | TCGA-IR-A3LA-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 |
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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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