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Gene: HDGF |
Gene summary for HDGF |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HDGF | Gene ID | 3068 |
| Gene name | heparin binding growth factor | |
| Gene Alias | HMG1L2 | |
| Cytomap | 1q23.1 | |
| Gene Type | protein-coding | GO ID | GO:0000122 | UniProtAcc | P51858 |
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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 |
| 3068 | HDGF | HTA11_3410_2000001011 | Human | Colorectum | AD | 4.08e-09 | 3.37e-01 | 0.0155 |
| 3068 | HDGF | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.79e-18 | 9.02e-01 | -0.1808 |
| 3068 | HDGF | HTA11_1938_2000001011 | Human | Colorectum | AD | 6.47e-24 | 1.13e+00 | -0.0811 |
| 3068 | HDGF | HTA11_78_2000001011 | Human | Colorectum | AD | 1.14e-07 | 6.15e-01 | -0.1088 |
| 3068 | HDGF | HTA11_347_2000001011 | Human | Colorectum | AD | 1.42e-37 | 1.01e+00 | -0.1954 |
| 3068 | HDGF | HTA11_411_2000001011 | Human | Colorectum | SER | 1.29e-09 | 1.14e+00 | -0.2602 |
| 3068 | HDGF | HTA11_3361_2000001011 | Human | Colorectum | AD | 6.36e-03 | 5.16e-01 | -0.1207 |
| 3068 | HDGF | HTA11_83_2000001011 | Human | Colorectum | SER | 1.03e-16 | 1.04e+00 | -0.1526 |
| 3068 | HDGF | HTA11_696_2000001011 | Human | Colorectum | AD | 7.93e-18 | 6.88e-01 | -0.1464 |
| 3068 | HDGF | HTA11_866_2000001011 | Human | Colorectum | AD | 2.37e-04 | 4.18e-01 | -0.1001 |
| 3068 | HDGF | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.82e-19 | 1.01e+00 | -0.059 |
| 3068 | HDGF | HTA11_2992_2000001011 | Human | Colorectum | SER | 7.64e-09 | 9.81e-01 | -0.1706 |
| 3068 | HDGF | HTA11_5212_2000001011 | Human | Colorectum | AD | 2.45e-08 | 6.41e-01 | -0.2061 |
| 3068 | HDGF | HTA11_5216_2000001011 | Human | Colorectum | SER | 3.11e-02 | 5.62e-01 | -0.1462 |
| 3068 | HDGF | HTA11_546_2000001011 | Human | Colorectum | AD | 2.46e-11 | 8.57e-01 | -0.0842 |
| 3068 | HDGF | HTA11_7862_2000001011 | Human | Colorectum | AD | 3.95e-05 | 5.12e-01 | -0.0179 |
| 3068 | HDGF | HTA11_866_3004761011 | Human | Colorectum | AD | 7.74e-15 | 7.25e-01 | 0.096 |
| 3068 | HDGF | HTA11_4255_2000001011 | Human | Colorectum | SER | 5.60e-08 | 8.55e-01 | 0.0446 |
| 3068 | HDGF | HTA11_8622_2000001021 | Human | Colorectum | SER | 5.65e-04 | 5.37e-01 | 0.0528 |
| 3068 | HDGF | HTA11_7663_2000001011 | Human | Colorectum | SER | 6.18e-06 | 7.41e-01 | 0.0131 |
| Page: 1 2 3 4 5 6 7 8 9 10 |
| 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 | ||
| Endometrium |  | AEH: Atypical endometrial hyperplasia |
| EEC: Endometrioid Cancer | ||
| 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:00311105 | Thyroid | PTC | regulation of microtubule polymerization or depolymerization | 44/5968 | 88/18723 | 3.00e-04 | 2.11e-03 | 44 |
| GO:005149419 | Thyroid | PTC | negative regulation of cytoskeleton organization | 73/5968 | 163/18723 | 3.59e-04 | 2.44e-03 | 73 |
| GO:00512616 | Thyroid | PTC | protein depolymerization | 54/5968 | 114/18723 | 3.86e-04 | 2.59e-03 | 54 |
| GO:00311096 | Thyroid | PTC | microtubule polymerization or depolymerization | 57/5968 | 122/18723 | 4.19e-04 | 2.81e-03 | 57 |
| GO:003030718 | Thyroid | PTC | positive regulation of cell growth | 71/5968 | 166/18723 | 1.98e-03 | 1.06e-02 | 71 |
| GO:0098760111 | Thyroid | PTC | response to interleukin-7 | 10/5968 | 15/18723 | 5.94e-03 | 2.64e-02 | 10 |
| GO:0098761111 | Thyroid | PTC | cellular response to interleukin-7 | 10/5968 | 15/18723 | 5.94e-03 | 2.64e-02 | 10 |
| GO:19018793 | Thyroid | PTC | regulation of protein depolymerization | 39/5968 | 87/18723 | 7.59e-03 | 3.24e-02 | 39 |
| GO:19018804 | Thyroid | PTC | negative regulation of protein depolymerization | 33/5968 | 72/18723 | 9.04e-03 | 3.75e-02 | 33 |
| GO:00432447 | Thyroid | PTC | regulation of protein-containing complex disassembly | 51/5968 | 121/18723 | 1.09e-02 | 4.37e-02 | 51 |
| GO:002241124 | Thyroid | ATC | cellular component disassembly | 248/6293 | 443/18723 | 1.34e-22 | 3.69e-20 | 248 |
| GO:1902903210 | Thyroid | ATC | regulation of supramolecular fiber organization | 210/6293 | 383/18723 | 6.20e-18 | 7.54e-16 | 210 |
| GO:001604927 | Thyroid | ATC | cell growth | 241/6293 | 482/18723 | 4.27e-14 | 2.35e-12 | 241 |
| GO:005125829 | Thyroid | ATC | protein polymerization | 159/6293 | 297/18723 | 9.33e-13 | 3.96e-11 | 159 |
| GO:001063926 | Thyroid | ATC | negative regulation of organelle organization | 179/6293 | 348/18723 | 3.74e-12 | 1.50e-10 | 179 |
| GO:000155826 | Thyroid | ATC | regulation of cell growth | 201/6293 | 414/18723 | 1.57e-10 | 4.76e-09 | 201 |
| GO:003298422 | Thyroid | ATC | protein-containing complex disassembly | 121/6293 | 224/18723 | 2.25e-10 | 6.59e-09 | 121 |
| GO:007050723 | Thyroid | ATC | regulation of microtubule cytoskeleton organization | 85/6293 | 148/18723 | 2.17e-09 | 5.21e-08 | 85 |
| GO:003288613 | Thyroid | ATC | regulation of microtubule-based process | 114/6293 | 240/18723 | 5.17e-06 | 5.59e-05 | 114 |
| GO:190290426 | Thyroid | ATC | negative regulation of supramolecular fiber organization | 82/6293 | 167/18723 | 2.35e-05 | 2.06e-04 | 82 |
| Page: 1 2 3 4 5 |
| 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 |
| HDGF | SNV | Missense_Mutation | novel | c.706G>A | p.Glu236Lys | p.E236K | P51858 | protein_coding | tolerated_low_confidence(0.08) | benign(0.074) | TCGA-UC-A7PG-06 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | PD |
| HDGF | SNV | Missense_Mutation | novel | c.447N>A | p.Ser149Arg | p.S149R | P51858 | protein_coding | deleterious(0) | probably_damaging(0.992) | TCGA-VS-A8EI-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| HDGF | insertion | Nonsense_Mutation | novel | c.150_159dupTGAGGCTGCC | p.Val54Ter | p.V54* | P51858 | protein_coding | TCGA-FU-A3HZ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | ||
| HDGF | SNV | Missense_Mutation | c.434N>T | p.Ala145Val | p.A145V | P51858 | protein_coding | deleterious(0) | benign(0.062) | TCGA-CK-5916-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
| HDGF | SNV | Missense_Mutation | novel | c.569A>C | p.Asn190Thr | p.N190T | P51858 | protein_coding | tolerated(0.15) | benign(0.01) | TCGA-CM-5861-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | PD |
| HDGF | SNV | Missense_Mutation | c.212C>T | p.Thr71Met | p.T71M | P51858 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-DM-A1HB-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
| HDGF | insertion | Frame_Shift_Ins | novel | c.197_198insT | p.Gly67ArgfsTer63 | p.G67Rfs*63 | P51858 | protein_coding | TCGA-CM-6171-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | ||
| HDGF | SNV | Missense_Mutation | novel | c.745N>T | p.Gly249Cys | p.G249C | P51858 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.999) | TCGA-A5-A0G2-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| HDGF | SNV | Missense_Mutation | novel | c.461N>G | p.Lys154Arg | p.K154R | P51858 | protein_coding | tolerated(0.05) | possibly_damaging(0.702) | TCGA-AJ-A8CT-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
| HDGF | SNV | Missense_Mutation | c.106N>T | p.Pro36Ser | p.P36S | P51858 | protein_coding | tolerated_low_confidence(0.96) | benign(0) | TCGA-AP-A0LM-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD |
| Page: 1 2 3 4 |
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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 |
| 3068 | HDGF | DRUGGABLE GENOME, GROWTH FACTOR | PROTEIN KINASE C INHIBITOR | 11149024 |
| Page: 1 |
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