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Gene: DPEP1 |
Gene summary for DPEP1 |
 Gene summary. |
| Gene information | Species | Human | Gene symbol | DPEP1 | Gene ID | 1800 |
| Gene name | dipeptidase 1 | |
| Gene Alias | MBD1 | |
| Cytomap | 16q24.3 | |
| Gene Type | protein-coding | GO ID | GO:0000096 | UniProtAcc | A0A140VJI3 |
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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 |
| 1800 | DPEP1 | HTA11_3410_2000001011 | Human | Colorectum | AD | 5.90e-11 | 2.59e-01 | 0.0155 |
| 1800 | DPEP1 | HTA11_2487_2000001011 | Human | Colorectum | SER | 1.14e-02 | 1.51e-01 | -0.1808 |
| 1800 | DPEP1 | HTA11_2951_2000001011 | Human | Colorectum | AD | 3.35e-17 | 7.76e-01 | 0.0216 |
| 1800 | DPEP1 | HTA11_1938_2000001011 | Human | Colorectum | AD | 1.23e-05 | 2.08e-01 | -0.0811 |
| 1800 | DPEP1 | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.93e-12 | 5.45e-01 | -0.1207 |
| 1800 | DPEP1 | HTA11_696_2000001011 | Human | Colorectum | AD | 1.73e-12 | 3.42e-01 | -0.1464 |
| 1800 | DPEP1 | HTA11_866_2000001011 | Human | Colorectum | AD | 8.62e-04 | 1.75e-01 | -0.1001 |
| 1800 | DPEP1 | HTA11_1391_2000001011 | Human | Colorectum | AD | 8.44e-14 | 4.24e-01 | -0.059 |
| 1800 | DPEP1 | HTA11_866_3004761011 | Human | Colorectum | AD | 3.09e-24 | 6.72e-01 | 0.096 |
| 1800 | DPEP1 | HTA11_9408_2000001011 | Human | Colorectum | AD | 6.03e-05 | 4.35e-01 | 0.0451 |
| 1800 | DPEP1 | HTA11_7663_2000001011 | Human | Colorectum | SER | 6.05e-12 | 8.15e-01 | 0.0131 |
| 1800 | DPEP1 | HTA11_10711_2000001011 | Human | Colorectum | AD | 1.31e-22 | 7.63e-01 | 0.0338 |
| 1800 | DPEP1 | HTA11_7696_3000711011 | Human | Colorectum | AD | 5.56e-16 | 3.85e-01 | 0.0674 |
| 1800 | DPEP1 | HTA11_11156_2000001011 | Human | Colorectum | AD | 2.46e-04 | 6.00e-01 | 0.0397 |
| 1800 | DPEP1 | HTA11_99999970781_79442 | Human | Colorectum | MSS | 4.40e-09 | 2.72e-01 | 0.294 |
| 1800 | DPEP1 | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 6.28e-10 | 1.07e+00 | 0.3487 |
| 1800 | DPEP1 | HTA11_99999965104_69814 | Human | Colorectum | MSS | 6.31e-46 | 1.39e+00 | 0.281 |
| 1800 | DPEP1 | HTA11_99999971662_82457 | Human | Colorectum | MSS | 1.67e-73 | 1.51e+00 | 0.3859 |
| 1800 | DPEP1 | HTA11_99999973899_84307 | Human | Colorectum | MSS | 1.98e-36 | 1.23e+00 | 0.2585 |
| 1800 | DPEP1 | HTA11_99999974143_84620 | Human | Colorectum | MSS | 2.09e-67 | 1.23e+00 | 0.3005 |
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| 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 | ||
| GC |  | CAG: Chronic atrophic gastritis |
| CAG with IM: Chronic atrophic gastritis with intestinal metaplasia | ||
| CSG: Chronic superficial gastritis | ||
| GC: Gastric cancer | ||
| SIM: Severe intestinal metaplasia | ||
| WIM: Wild intestinal metaplasia | ||
| Liver |  | HCC: Hepatocellular carcinoma |
| NAFLD: Non-alcoholic fatty liver disease |
| ∗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:0044270 | Colorectum | AD | cellular nitrogen compound catabolic process | 147/3918 | 451/18723 | 3.35e-09 | 2.23e-07 | 147 |
| GO:0046700 | Colorectum | AD | heterocycle catabolic process | 145/3918 | 445/18723 | 4.37e-09 | 2.84e-07 | 145 |
| GO:0043281 | Colorectum | AD | regulation of cysteine-type endopeptidase activity involved in apoptotic process | 72/3918 | 209/18723 | 3.70e-06 | 1.03e-04 | 72 |
| GO:2000116 | Colorectum | AD | regulation of cysteine-type endopeptidase activity | 79/3918 | 235/18723 | 3.74e-06 | 1.03e-04 | 79 |
| GO:0052547 | Colorectum | AD | regulation of peptidase activity | 137/3918 | 461/18723 | 4.12e-06 | 1.12e-04 | 137 |
| GO:0045861 | Colorectum | AD | negative regulation of proteolysis | 106/3918 | 351/18723 | 2.33e-05 | 4.57e-04 | 106 |
| GO:0006790 | Colorectum | AD | sulfur compound metabolic process | 101/3918 | 339/18723 | 6.46e-05 | 1.07e-03 | 101 |
| GO:0052548 | Colorectum | AD | regulation of endopeptidase activity | 124/3918 | 432/18723 | 6.58e-05 | 1.07e-03 | 124 |
| GO:0009410 | Colorectum | AD | response to xenobiotic stimulus | 128/3918 | 462/18723 | 2.69e-04 | 3.31e-03 | 128 |
| GO:0043154 | Colorectum | AD | negative regulation of cysteine-type endopeptidase activity involved in apoptotic process | 30/3918 | 78/18723 | 2.95e-04 | 3.59e-03 | 30 |
| GO:0010038 | Colorectum | AD | response to metal ion | 106/3918 | 373/18723 | 3.22e-04 | 3.83e-03 | 106 |
| GO:0006575 | Colorectum | AD | cellular modified amino acid metabolic process | 59/3918 | 188/18723 | 4.80e-04 | 5.27e-03 | 59 |
| GO:0071248 | Colorectum | AD | cellular response to metal ion | 61/3918 | 197/18723 | 5.74e-04 | 6.09e-03 | 61 |
| GO:0071241 | Colorectum | AD | cellular response to inorganic substance | 68/3918 | 226/18723 | 6.98e-04 | 7.10e-03 | 68 |
| GO:2000117 | Colorectum | AD | negative regulation of cysteine-type endopeptidase activity | 31/3918 | 86/18723 | 8.67e-04 | 8.45e-03 | 31 |
| GO:0006520 | Colorectum | AD | cellular amino acid metabolic process | 81/3918 | 284/18723 | 1.37e-03 | 1.19e-02 | 81 |
| GO:00525471 | Colorectum | SER | regulation of peptidase activity | 114/2897 | 461/18723 | 1.18e-07 | 7.17e-06 | 114 |
| GO:00458611 | Colorectum | SER | negative regulation of proteolysis | 88/2897 | 351/18723 | 1.74e-06 | 7.50e-05 | 88 |
| GO:00525481 | Colorectum | SER | regulation of endopeptidase activity | 103/2897 | 432/18723 | 2.86e-06 | 1.16e-04 | 103 |
| GO:00432811 | Colorectum | SER | regulation of cysteine-type endopeptidase activity involved in apoptotic process | 57/2897 | 209/18723 | 8.08e-06 | 2.74e-04 | 57 |
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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 |
| DPEP1 | SNV | Missense_Mutation | rs781058936 | c.1156G>A | p.Gly386Arg | p.G386R | P16444 | protein_coding | tolerated(0.22) | benign(0.035) | TCGA-3C-AALI-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unspecific | Poly E | Complete Response |
| DPEP1 | SNV | Missense_Mutation | rs764980557 | c.31G>T | p.Val11Leu | p.V11L | P16444 | protein_coding | tolerated(0.4) | benign(0) | TCGA-BH-A0C7-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Chemotherapy | adriamycin | CR |
| DPEP1 | SNV | Missense_Mutation | rs764980557 | c.31N>T | p.Val11Leu | p.V11L | P16444 | protein_coding | tolerated(0.4) | benign(0) | TCGA-BH-A1EU-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
| DPEP1 | SNV | Missense_Mutation | rs753087757 | c.388N>T | p.Arg130Trp | p.R130W | P16444 | protein_coding | deleterious(0) | possibly_damaging(0.894) | TCGA-E2-A15A-06 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | cyclophosphamide | SD |
| DPEP1 | SNV | Missense_Mutation | rs750576563 | c.329G>A | p.Arg110Gln | p.R110Q | P16444 | protein_coding | tolerated(0.72) | benign(0.007) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| DPEP1 | SNV | Missense_Mutation | rs753990570 | c.1055C>T | p.Ala352Val | p.A352V | P16444 | protein_coding | deleterious(0.04) | benign(0.125) | TCGA-2W-A8YY-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
| DPEP1 | SNV | Missense_Mutation | novel | c.1184N>A | p.Gly395Glu | p.G395E | P16444 | protein_coding | tolerated_low_confidence(0.09) | benign(0.154) | TCGA-5M-AAT5-01 | Colorectum | colon adenocarcinoma | Unknown | Unknown | I/II | Unknown | Unknown | Unknown |
| DPEP1 | SNV | Missense_Mutation | novel | c.989N>A | p.Arg330Lys | p.R330K | P16444 | protein_coding | tolerated(0.14) | benign(0.021) | TCGA-5M-AATE-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
| DPEP1 | insertion | Frame_Shift_Ins | novel | c.335_336insC | p.Glu114GlyfsTer34 | p.E114Gfs*34 | P16444 | protein_coding | TCGA-DY-A1DC-01 | Colorectum | rectum adenocarcinoma | Female | >=65 | I/II | Chemotherapy | capecitabine | PR | ||
| DPEP1 | SNV | Missense_Mutation | rs770100296 | c.877N>A | p.Val293Met | p.V293M | P16444 | protein_coding | deleterious(0.01) | probably_damaging(0.941) | TCGA-AP-A059-01 | 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 |
| 1800 | DPEP1 | PROTEASE, DRUGGABLE GENOME, ENZYME | CILASTATIN | CILASTATIN | ||
| 1800 | DPEP1 | PROTEASE, DRUGGABLE GENOME, ENZYME | inhibitor | CHEMBL1201057 | CILASTATIN SODIUM | |
| 1800 | DPEP1 | PROTEASE, DRUGGABLE GENOME, ENZYME | CILASTATIN | CILASTATIN | ||
| 1800 | DPEP1 | PROTEASE, DRUGGABLE GENOME, ENZYME | Cilastatin | CILASTATIN | ||
| 1800 | DPEP1 | PROTEASE, DRUGGABLE GENOME, ENZYME | DEXAMETHASONE | DEXAMETHASONE | 9806799 |
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