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Gene: HDC |
Gene summary for HDC |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | HDC | Gene ID | 3067 |
| Gene name | histidine decarboxylase | |
| Gene Alias | HDC | |
| Cytomap | 15q21.2 | |
| Gene Type | protein-coding | GO ID | GO:0001692 | UniProtAcc | P19113 |
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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 |
| 3067 | HDC | CA_HPV_1 | Human | Cervix | CC | 1.90e-14 | -4.60e-01 | 0.0264 |
| 3067 | HDC | HSIL_HPV_2 | Human | Cervix | HSIL_HPV | 1.66e-04 | 3.33e-02 | 0.0208 |
| 3067 | HDC | N_HPV_2 | Human | Cervix | N_HPV | 1.76e-02 | -3.56e-01 | -0.0131 |
| 3067 | HDC | CCI_1 | Human | Cervix | CC | 2.11e-03 | -5.60e-01 | 0.528 |
| 3067 | HDC | CCI_2 | Human | Cervix | CC | 5.80e-03 | -5.60e-01 | 0.5249 |
| 3067 | HDC | CCI_3 | Human | Cervix | CC | 3.56e-05 | -5.60e-01 | 0.516 |
| 3067 | HDC | CCII_1 | Human | Cervix | CC | 6.78e-08 | -5.60e-01 | 0.3249 |
| 3067 | HDC | Tumor | Human | Cervix | CC | 2.52e-20 | -5.60e-01 | 0.1241 |
| 3067 | HDC | sample1 | Human | Cervix | CC | 2.70e-06 | -5.60e-01 | 0.0959 |
| 3067 | HDC | sample3 | Human | Cervix | CC | 4.65e-21 | -5.60e-01 | 0.1387 |
| 3067 | HDC | H2 | Human | Cervix | HSIL_HPV | 1.62e-17 | -5.49e-01 | 0.0632 |
| 3067 | HDC | L1 | Human | Cervix | CC | 7.67e-09 | -5.60e-01 | 0.0802 |
| 3067 | HDC | T1 | Human | Cervix | CC | 8.70e-16 | -5.60e-01 | 0.0918 |
| 3067 | HDC | T2 | Human | Cervix | CC | 1.07e-02 | -5.60e-01 | 0.0709 |
| 3067 | HDC | T3 | Human | Cervix | CC | 3.12e-19 | -5.60e-01 | 0.1389 |
| Page: 1 |
| 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 |
| ∗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:00325063 | Liver | Cirrhotic | cytokinetic process | 21/4634 | 39/18723 | 9.13e-05 | 9.74e-04 | 21 |
| GO:00002812 | Liver | Cirrhotic | mitotic cytokinesis | 32/4634 | 71/18723 | 1.48e-04 | 1.42e-03 | 32 |
| GO:19000782 | Liver | Cirrhotic | positive regulation of cellular response to insulin stimulus | 15/4634 | 25/18723 | 1.88e-04 | 1.75e-03 | 15 |
| GO:00002454 | Liver | Cirrhotic | spliceosomal complex assembly | 34/4634 | 79/18723 | 2.78e-04 | 2.46e-03 | 34 |
| GO:01400142 | Liver | Cirrhotic | mitotic nuclear division | 97/4634 | 287/18723 | 3.32e-04 | 2.87e-03 | 97 |
| GO:003025811 | Liver | Cirrhotic | lipid modification | 75/4634 | 212/18723 | 3.33e-04 | 2.87e-03 | 75 |
| GO:00009105 | Liver | Cirrhotic | cytokinesis | 62/4634 | 173/18723 | 7.13e-04 | 5.33e-03 | 62 |
| GO:0071166 | Liver | Cirrhotic | ribonucleoprotein complex localization | 32/4634 | 77/18723 | 8.65e-04 | 6.23e-03 | 32 |
| GO:00064052 | Liver | Cirrhotic | RNA export from nucleus | 34/4634 | 84/18723 | 1.06e-03 | 7.40e-03 | 34 |
| GO:0031503 | Liver | Cirrhotic | protein-containing complex localization | 75/4634 | 220/18723 | 1.13e-03 | 7.73e-03 | 75 |
| GO:0071426 | Liver | Cirrhotic | ribonucleoprotein complex export from nucleus | 31/4634 | 76/18723 | 1.49e-03 | 9.87e-03 | 31 |
| GO:00616402 | Liver | Cirrhotic | cytoskeleton-dependent cytokinesis | 38/4634 | 100/18723 | 2.22e-03 | 1.35e-02 | 38 |
| GO:0031440 | Liver | Cirrhotic | regulation of mRNA 3'-end processing | 14/4634 | 28/18723 | 3.40e-03 | 1.89e-02 | 14 |
| GO:19000761 | Liver | Cirrhotic | regulation of cellular response to insulin stimulus | 26/4634 | 64/18723 | 3.69e-03 | 2.03e-02 | 26 |
| GO:0031123 | Liver | Cirrhotic | RNA 3'-end processing | 42/4634 | 116/18723 | 3.85e-03 | 2.10e-02 | 42 |
| GO:0031124 | Liver | Cirrhotic | mRNA 3'-end processing | 25/4634 | 62/18723 | 4.90e-03 | 2.56e-02 | 25 |
| GO:00063762 | Liver | Cirrhotic | mRNA splice site selection | 20/4634 | 49/18723 | 9.60e-03 | 4.35e-02 | 20 |
| GO:00064062 | Liver | Cirrhotic | mRNA export from nucleus | 23/4634 | 59/18723 | 1.08e-02 | 4.77e-02 | 23 |
| GO:00714272 | Liver | Cirrhotic | mRNA-containing ribonucleoprotein complex export from nucleus | 23/4634 | 59/18723 | 1.08e-02 | 4.77e-02 | 23 |
| GO:002261322 | Liver | HCC | ribonucleoprotein complex biogenesis | 355/7958 | 463/18723 | 7.76e-52 | 4.92e-48 | 355 |
| 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 |
| 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 |
| HDC | SNV | Missense_Mutation | rs370153946 | c.1073N>T | p.Arg358Leu | p.R358L | P19113 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-C8-A1HI-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
| HDC | SNV | Missense_Mutation | c.611C>G | p.Ser204Cys | p.S204C | P19113 | protein_coding | tolerated(0.11) | probably_damaging(0.99) | TCGA-C5-A1BF-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD | |
| HDC | SNV | Missense_Mutation | rs749851294 | c.1234N>T | p.Arg412Cys | p.R412C | P19113 | protein_coding | tolerated(0.07) | probably_damaging(0.942) | TCGA-EA-A411-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Unknown | Unknown | SD |
| HDC | SNV | Missense_Mutation | novel | c.1902N>G | p.Ile634Met | p.I634M | P19113 | protein_coding | tolerated_low_confidence(0.08) | benign(0.317) | TCGA-VS-A9V1-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | PD |
| HDC | SNV | Missense_Mutation | novel | c.1825T>G | p.Ser609Ala | p.S609A | P19113 | protein_coding | tolerated_low_confidence(0.3) | benign(0) | TCGA-A6-6780-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| HDC | SNV | Missense_Mutation | c.1292N>A | p.Gly431Asp | p.G431D | P19113 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
| HDC | SNV | Missense_Mutation | novel | c.688N>A | p.Glu230Lys | p.E230K | P19113 | protein_coding | tolerated(0.14) | benign(0.194) | TCGA-AA-3818-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | PD |
| HDC | SNV | Missense_Mutation | rs777905414 | c.1748G>A | p.Arg583His | p.R583H | P19113 | protein_coding | deleterious_low_confidence(0) | probably_damaging(0.996) | TCGA-AA-3864-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
| HDC | SNV | Missense_Mutation | c.469G>T | p.Ala157Ser | p.A157S | P19113 | protein_coding | tolerated(0.29) | benign(0.292) | TCGA-CK-6746-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
| HDC | SNV | Missense_Mutation | c.487A>C | p.Lys163Gln | p.K163Q | P19113 | protein_coding | tolerated(0.08) | probably_damaging(0.94) | TCGA-CM-6680-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
| Page: 1 2 3 4 5 6 7 8 9 10 |
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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 |
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | BF-DERM1 | |||
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | inhibitor | 178101877 | ||
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | Lixivaptan | LIXIVAPTAN | ||
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | inhibitor | 178101826 | ||
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | OMEPRAZOLE | OMEPRAZOLE | 8187977 | |
| 3067 | HDC | DRUGGABLE GENOME, ENZYME | ALPHA-FMH |
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