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Gene: PREP |
Gene summary for PREP |
Gene summary. |
Gene information | Species | Human | Gene symbol | PREP | Gene ID | 5550 |
Gene name | prolyl endopeptidase | |
Gene Alias | PE | |
Cytomap | 6q21 | |
Gene Type | protein-coding | GO ID | GO:0006508 | UniProtAcc | B2RAH7 |
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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 |
5550 | PREP | HTA11_3410_2000001011 | Human | Colorectum | AD | 1.15e-06 | -4.95e-01 | 0.0155 |
5550 | PREP | HTA11_3361_2000001011 | Human | Colorectum | AD | 1.25e-11 | -7.09e-01 | -0.1207 |
5550 | PREP | HTA11_696_2000001011 | Human | Colorectum | AD | 5.51e-08 | -4.14e-01 | -0.1464 |
5550 | PREP | HTA11_99999965104_69814 | Human | Colorectum | MSS | 1.72e-03 | 4.59e-01 | 0.281 |
5550 | PREP | HTA11_99999973899_84307 | Human | Colorectum | MSS | 6.93e-03 | -5.67e-01 | 0.2585 |
5550 | PREP | HTA11_99999974143_84620 | Human | Colorectum | MSS | 4.87e-28 | -7.13e-01 | 0.3005 |
5550 | PREP | A002-C-010 | Human | Colorectum | FAP | 1.12e-02 | -1.65e-01 | 0.242 |
5550 | PREP | A001-C-207 | Human | Colorectum | FAP | 1.72e-03 | -4.01e-01 | 0.1278 |
5550 | PREP | A015-C-203 | Human | Colorectum | FAP | 3.64e-43 | -5.88e-01 | -0.1294 |
5550 | PREP | A015-C-204 | Human | Colorectum | FAP | 1.79e-06 | -3.81e-01 | -0.0228 |
5550 | PREP | A014-C-040 | Human | Colorectum | FAP | 1.28e-04 | -5.19e-01 | -0.1184 |
5550 | PREP | A002-C-201 | Human | Colorectum | FAP | 6.86e-17 | -4.76e-01 | 0.0324 |
5550 | PREP | A002-C-203 | Human | Colorectum | FAP | 8.49e-06 | -1.66e-01 | 0.2786 |
5550 | PREP | A001-C-119 | Human | Colorectum | FAP | 8.78e-10 | -5.45e-01 | -0.1557 |
5550 | PREP | A001-C-108 | Human | Colorectum | FAP | 2.77e-24 | -3.59e-01 | -0.0272 |
5550 | PREP | A002-C-205 | Human | Colorectum | FAP | 9.83e-28 | -5.10e-01 | -0.1236 |
5550 | PREP | A001-C-104 | Human | Colorectum | FAP | 1.71e-07 | -1.80e-01 | 0.0184 |
5550 | PREP | A015-C-005 | Human | Colorectum | FAP | 3.10e-03 | -9.10e-02 | -0.0336 |
5550 | PREP | A015-C-006 | Human | Colorectum | FAP | 2.28e-20 | -6.11e-01 | -0.0994 |
5550 | PREP | A015-C-106 | Human | Colorectum | FAP | 1.35e-18 | -3.86e-01 | -0.0511 |
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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:009887619 | Thyroid | ATC | vesicle-mediated transport to the plasma membrane | 77/6293 | 136/18723 | 2.86e-08 | 5.43e-07 | 77 |
GO:006195123 | Thyroid | ATC | establishment of protein localization to plasma membrane | 41/6293 | 60/18723 | 4.02e-08 | 7.37e-07 | 41 |
GO:004300117 | Thyroid | ATC | Golgi to plasma membrane protein transport | 30/6293 | 40/18723 | 1.01e-07 | 1.71e-06 | 30 |
GO:004214715 | Thyroid | ATC | retrograde transport, endosome to Golgi | 49/6293 | 91/18723 | 5.48e-05 | 4.23e-04 | 49 |
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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 |
PREP | SNV | Missense_Mutation | novel | c.1915N>A | p.Asp639Asn | p.D639N | P48147 | protein_coding | deleterious(0) | probably_damaging(0.976) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
PREP | SNV | Missense_Mutation | novel | c.130N>A | p.Glu44Lys | p.E44K | P48147 | protein_coding | tolerated(0.21) | benign(0.021) | TCGA-5L-AAT1-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Hormone Therapy | letrozol | SD |
PREP | SNV | Missense_Mutation | c.1956N>G | p.Phe652Leu | p.F652L | P48147 | protein_coding | tolerated(0.87) | benign(0.02) | TCGA-A8-A06Q-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
PREP | SNV | Missense_Mutation | c.1582G>A | p.Asp528Asn | p.D528N | P48147 | protein_coding | tolerated(0.08) | benign(0.434) | TCGA-A8-A092-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | CR | |
PREP | SNV | Missense_Mutation | c.62N>T | p.Gly21Val | p.G21V | P48147 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-A8-A09C-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PREP | SNV | Missense_Mutation | novel | c.58N>T | p.His20Tyr | p.H20Y | P48147 | protein_coding | deleterious(0.02) | possibly_damaging(0.6) | TCGA-AN-A0XW-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD |
PREP | SNV | Missense_Mutation | c.1301N>G | p.Asp434Gly | p.D434G | P48147 | protein_coding | tolerated(0.29) | benign(0.013) | TCGA-BH-A18G-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PREP | SNV | Missense_Mutation | c.715G>A | p.Glu239Lys | p.E239K | P48147 | protein_coding | tolerated(0.25) | benign(0.081) | TCGA-C8-A1HF-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PREP | SNV | Missense_Mutation | c.34G>C | p.Asp12His | p.D12H | P48147 | protein_coding | deleterious(0) | probably_damaging(0.937) | TCGA-D8-A1JA-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | adriamycin | PD | |
PREP | insertion | In_Frame_Ins | novel | c.285_286insCTTAGAATAATAAACATTTGTTTTTGCTATGAGCCT | p.Gln95_Asn96insLeuArgIleIleAsnIleCysPheCysTyrGluPro | p.Q95_N96insLRIINICFCYEP | P48147 | protein_coding | TCGA-A8-A097-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | 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 |
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | inhibitor | 405560408 | ||
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | ONO-1603 | CHEMBL1087333 | ||
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | STZ | STREPTOZOCIN | 8190911 | |
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | S-17092-1 | |||
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | inhibitor | 252166765 | ||
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | ALV-003 | LATIGLUTENASE | ||
5550 | PREP | PROTEASE, ENZYME, DRUGGABLE GENOME | inhibitor | 178103179 |
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