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Gene: REG3A |
Gene summary for REG3A |
Gene summary. |
Gene information | Species | Human | Gene symbol | REG3A | Gene ID | 5068 |
Gene name | regenerating family member 3 alpha | |
Gene Alias | HIP | |
Cytomap | 2p12 | |
Gene Type | protein-coding | GO ID | GO:0002376 | UniProtAcc | Q06141 |
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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 |
5068 | REG3A | HTA12-18-3 | Human | Pancreas | PDAC | 1.95e-12 | -2.46e+00 | 0.0716 |
5068 | REG3A | HTA12-23-1 | Human | Pancreas | PDAC | 7.63e-21 | -2.46e+00 | 0.3405 |
5068 | REG3A | HTA12-25-1 | Human | Pancreas | PDAC | 1.58e-30 | -2.46e+00 | 0.313 |
5068 | REG3A | HTA12-26-1 | Human | Pancreas | PDAC | 1.68e-37 | -2.46e+00 | 0.3728 |
5068 | REG3A | HTA12-29-1 | Human | Pancreas | PDAC | 9.18e-93 | -2.43e+00 | 0.3722 |
5068 | REG3A | HTA12-3-16 | Human | Pancreas | PDAC | 9.54e-06 | -2.46e+00 | 0.1553 |
5068 | REG3A | HTA12-30-1 | Human | Pancreas | PDAC | 1.29e-06 | -2.46e+00 | 0.3671 |
5068 | REG3A | HTA12-32-1 | Human | Pancreas | PDAC | 5.43e-10 | -2.46e+00 | 0.3624 |
5068 | REG3A | HTA12-9-1 | Human | Pancreas | PDAC | 2.94e-50 | -2.41e+00 | 0.1532 |
5068 | REG3A | HTA12-9-2 | Human | Pancreas | PDAC | 1.05e-30 | -1.77e+00 | 0.0835 |
5068 | REG3A | HTA12-9-3 | Human | Pancreas | PDAC | 4.05e-25 | -2.46e+00 | 0.2045 |
5068 | REG3A | 3829-EC | Human | Pancreas | PanIN | 7.34e-12 | 2.17e-01 | 0.009 |
5068 | REG3A | 4347-EC | Human | Pancreas | PanIN | 4.31e-99 | -1.76e+00 | 0.0572 |
5068 | REG3A | 4741-EC1 | Human | Pancreas | PanIN | 9.22e-22 | -5.79e-01 | 0.0223 |
5068 | REG3A | 4741-EC2 | Human | Pancreas | PanIN | 2.14e-47 | -3.48e-01 | 0.0194 |
5068 | REG3A | 181429 | Human | Pancreas | PDAC | 1.95e-12 | -2.46e+00 | 0.1416 |
5068 | REG3A | 61354830 | Human | Pancreas | PDAC | 1.29e-06 | -2.46e+00 | 0.1458 |
5068 | REG3A | DS20191261Tumor | Human | Pancreas | PDAC | 2.39e-61 | -2.46e+00 | 0.1367 |
5068 | REG3A | DS20191261TumorKeller | Human | Pancreas | PDAC | 2.34e-16 | -2.46e+00 | 0.1407 |
5068 | REG3A | Pat01-B | Human | Stomach | GC | 2.81e-20 | 6.56e-01 | 0.5754 |
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Transcriptomic changes along malignancy continuum. |
∗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). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:0043434 | Colorectum | AD | response to peptide hormone | 126/3918 | 414/18723 | 2.70e-06 | 7.86e-05 | 126 |
GO:0042060 | Colorectum | AD | wound healing | 128/3918 | 422/18723 | 2.73e-06 | 7.89e-05 | 128 |
GO:0050673 | Colorectum | AD | epithelial cell proliferation | 119/3918 | 437/18723 | 8.75e-04 | 8.51e-03 | 119 |
GO:0043616 | Colorectum | AD | keratinocyte proliferation | 19/3918 | 46/18723 | 1.36e-03 | 1.19e-02 | 19 |
GO:0010837 | Colorectum | AD | regulation of keratinocyte proliferation | 15/3918 | 35/18723 | 2.78e-03 | 2.09e-02 | 15 |
GO:0035821 | Colorectum | AD | modulation of process of other organism | 34/3918 | 106/18723 | 4.73e-03 | 3.22e-02 | 34 |
GO:0009913 | Colorectum | AD | epidermal cell differentiation | 58/3918 | 202/18723 | 5.16e-03 | 3.42e-02 | 58 |
GO:0008544 | Colorectum | AD | epidermis development | 87/3918 | 324/18723 | 5.99e-03 | 3.76e-02 | 87 |
GO:00420602 | Colorectum | MSS | wound healing | 119/3467 | 422/18723 | 5.93e-07 | 2.24e-05 | 119 |
GO:00436161 | Colorectum | MSS | keratinocyte proliferation | 20/3467 | 46/18723 | 8.26e-05 | 1.35e-03 | 20 |
GO:00108371 | Colorectum | MSS | regulation of keratinocyte proliferation | 16/3467 | 35/18723 | 2.07e-04 | 2.89e-03 | 16 |
GO:00434342 | Colorectum | MSS | response to peptide hormone | 104/3467 | 414/18723 | 4.58e-04 | 5.43e-03 | 104 |
GO:00506731 | Colorectum | MSS | epithelial cell proliferation | 108/3467 | 437/18723 | 6.76e-04 | 7.30e-03 | 108 |
GO:00358211 | Colorectum | MSS | modulation of process of other organism | 33/3467 | 106/18723 | 1.18e-03 | 1.14e-02 | 33 |
GO:00099131 | Colorectum | MSS | epidermal cell differentiation | 52/3467 | 202/18723 | 6.59e-03 | 4.38e-02 | 52 |
GO:0050678 | Colorectum | MSS | regulation of epithelial cell proliferation | 90/3467 | 381/18723 | 6.92e-03 | 4.45e-02 | 90 |
GO:00434343 | Colorectum | FAP | response to peptide hormone | 100/2622 | 414/18723 | 1.74e-08 | 1.84e-06 | 100 |
GO:00420604 | Colorectum | FAP | wound healing | 99/2622 | 422/18723 | 9.50e-08 | 6.33e-06 | 99 |
GO:00610411 | Colorectum | FAP | regulation of wound healing | 35/2622 | 134/18723 | 1.48e-04 | 2.29e-03 | 35 |
GO:19030341 | Colorectum | FAP | regulation of response to wounding | 41/2622 | 167/18723 | 1.86e-04 | 2.74e-03 | 41 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
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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 |
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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. |
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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 |
REG3A | SNV | Missense_Mutation | c.406N>T | p.Asn136Tyr | p.N136Y | Q06141 | protein_coding | deleterious(0.03) | benign(0.009) | TCGA-A2-A0SU-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
REG3A | SNV | Missense_Mutation | c.497N>C | p.Arg166Thr | p.R166T | Q06141 | protein_coding | tolerated(0.21) | benign(0.024) | TCGA-A8-A06X-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
REG3A | SNV | Missense_Mutation | novel | c.474N>C | p.Trp158Cys | p.W158C | Q06141 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-E9-A243-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracil | PD |
REG3A | SNV | Missense_Mutation | novel | c.10N>T | p.Pro4Ser | p.P4S | Q06141 | protein_coding | tolerated(0.36) | benign(0.005) | TCGA-C5-A1MH-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Chemotherapy | cisplatin | PD |
REG3A | SNV | Missense_Mutation | c.5N>C | p.Leu2Pro | p.L2P | Q06141 | protein_coding | deleterious(0.02) | benign(0.012) | TCGA-C5-A2LZ-01 | Cervix | cervical & endocervical cancer | Female | >=65 | III/IV | Unknown | Unknown | PD | |
REG3A | SNV | Missense_Mutation | c.4C>G | p.Leu2Val | p.L2V | Q06141 | protein_coding | deleterious(0.02) | benign(0.14) | TCGA-AA-3530-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
REG3A | SNV | Missense_Mutation | c.148N>A | p.His50Asn | p.H50N | Q06141 | protein_coding | deleterious(0.04) | benign(0.011) | TCGA-AA-3679-01 | Colorectum | colon adenocarcinoma | Male | <65 | III/IV | Chemotherapy | folinic | SD | |
REG3A | SNV | Missense_Mutation | novel | c.127G>T | p.Gly43Cys | p.G43C | Q06141 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-A5-A1OF-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
REG3A | SNV | Missense_Mutation | rs372756064 | c.340N>A | p.Glu114Lys | p.E114K | Q06141 | protein_coding | tolerated(0.12) | benign(0.428) | TCGA-AJ-A3BH-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | Unknown | I/II | Unknown | Unknown | SD |
REG3A | SNV | Missense_Mutation | novel | c.478N>T | p.Asp160Tyr | p.D160Y | Q06141 | protein_coding | deleterious(0.02) | benign(0.123) | TCGA-AJ-A3EL-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
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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 |
5068 | REG3A | DRUGGABLE GENOME | ALF-5755 | 25493266 | ||
5068 | REG3A | DRUGGABLE GENOME | SALT | VOLANESORSEN SODIUM | 9024308 | |
5068 | REG3A | DRUGGABLE GENOME | HIP-2B |
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