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Gene: CPS1 |
Gene summary for CPS1 |
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Gene information | Species | Human | Gene symbol | CPS1 | Gene ID | 1373 |
Gene name | carbamoyl-phosphate synthase 1 | |
Gene Alias | CPSASE1 | |
Cytomap | 2q34 | |
Gene Type | protein-coding | GO ID | GO:0000050 | UniProtAcc | P31327 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
1373 | CPS1 | NAFLD1 | Human | Liver | NAFLD | 6.52e-14 | 1.39e+00 | -0.04 |
1373 | CPS1 | S41 | Human | Liver | Cirrhotic | 5.18e-09 | 1.11e+00 | -0.0343 |
1373 | CPS1 | S44 | Human | Liver | HCC | 1.02e-12 | 1.48e+00 | -0.0083 |
1373 | CPS1 | HCC1_Meng | Human | Liver | HCC | 1.76e-21 | -6.12e-01 | 0.0246 |
1373 | CPS1 | HCC2_Meng | Human | Liver | HCC | 3.58e-14 | -6.22e-01 | 0.0107 |
1373 | CPS1 | cirrhotic1 | Human | Liver | Cirrhotic | 9.67e-14 | -6.04e-01 | 0.0202 |
1373 | CPS1 | cirrhotic2 | Human | Liver | Cirrhotic | 2.29e-16 | -5.58e-01 | 0.0201 |
1373 | CPS1 | cirrhotic3 | Human | Liver | Cirrhotic | 7.62e-07 | -5.96e-01 | 0.0215 |
1373 | CPS1 | HCC1 | Human | Liver | HCC | 1.24e-10 | -3.63e-01 | 0.5336 |
1373 | CPS1 | HCC2 | Human | Liver | HCC | 4.55e-16 | 3.70e+00 | 0.5341 |
1373 | CPS1 | Pt13.a | Human | Liver | HCC | 4.18e-28 | -3.18e-01 | 0.021 |
1373 | CPS1 | Pt13.b | Human | Liver | HCC | 6.88e-31 | -3.15e-01 | 0.0251 |
1373 | CPS1 | Pt14.b | Human | Liver | HCC | 3.86e-14 | 4.27e-02 | 0.018 |
1373 | CPS1 | Pt14.d | Human | Liver | HCC | 2.91e-16 | -4.64e-01 | 0.0143 |
1373 | CPS1 | S014 | Human | Liver | HCC | 6.89e-05 | -5.15e-01 | 0.2254 |
1373 | CPS1 | S016 | Human | Liver | HCC | 9.10e-06 | -6.17e-01 | 0.2243 |
1373 | CPS1 | S028 | Human | Liver | HCC | 3.24e-02 | -5.85e-01 | 0.2503 |
1373 | CPS1 | S029 | Human | Liver | HCC | 9.37e-03 | -6.23e-01 | 0.2581 |
1373 | CPS1 | Pat01-B | Human | Stomach | GC | 1.57e-15 | 3.35e-01 | 0.5754 |
1373 | CPS1 | Pat02-B | Human | Stomach | GC | 8.23e-12 | 2.74e-01 | 0.0368 |
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∗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 |
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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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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00160535 | Liver | NAFLD | organic acid biosynthetic process | 77/1882 | 316/18723 | 1.03e-13 | 6.69e-11 | 77 |
GO:00463945 | Liver | NAFLD | carboxylic acid biosynthetic process | 75/1882 | 314/18723 | 6.37e-13 | 3.39e-10 | 75 |
GO:00485457 | Liver | NAFLD | response to steroid hormone | 75/1882 | 339/18723 | 3.44e-11 | 1.12e-08 | 75 |
GO:00713755 | Liver | NAFLD | cellular response to peptide hormone stimulus | 65/1882 | 290/18723 | 3.95e-10 | 9.62e-08 | 65 |
GO:00065203 | Liver | NAFLD | cellular amino acid metabolic process | 63/1882 | 284/18723 | 1.14e-09 | 2.17e-07 | 63 |
GO:00442425 | Liver | NAFLD | cellular lipid catabolic process | 52/1882 | 214/18723 | 1.15e-09 | 2.17e-07 | 52 |
GO:00094107 | Liver | NAFLD | response to xenobiotic stimulus | 88/1882 | 462/18723 | 2.53e-09 | 4.11e-07 | 88 |
GO:00086523 | Liver | NAFLD | cellular amino acid biosynthetic process | 26/1882 | 76/18723 | 1.00e-08 | 1.33e-06 | 26 |
GO:19016536 | Liver | NAFLD | cellular response to peptide | 71/1882 | 359/18723 | 1.82e-08 | 2.09e-06 | 71 |
GO:19016053 | Liver | NAFLD | alpha-amino acid metabolic process | 46/1882 | 195/18723 | 2.74e-08 | 2.86e-06 | 46 |
GO:00610087 | Liver | NAFLD | hepaticobiliary system development | 38/1882 | 150/18723 | 5.94e-08 | 5.42e-06 | 38 |
GO:00316677 | Liver | NAFLD | response to nutrient levels | 85/1882 | 474/18723 | 8.23e-08 | 7.09e-06 | 85 |
GO:00066413 | Liver | NAFLD | triglyceride metabolic process | 29/1882 | 100/18723 | 9.51e-08 | 7.62e-06 | 29 |
GO:00018897 | Liver | NAFLD | liver development | 37/1882 | 147/18723 | 1.06e-07 | 8.12e-06 | 37 |
GO:00160426 | Liver | NAFLD | lipid catabolic process | 63/1882 | 320/18723 | 1.35e-07 | 1.02e-05 | 63 |
GO:00434346 | Liver | NAFLD | response to peptide hormone | 76/1882 | 414/18723 | 1.51e-07 | 1.09e-05 | 76 |
GO:00513846 | Liver | NAFLD | response to glucocorticoid | 36/1882 | 148/18723 | 3.88e-07 | 2.52e-05 | 36 |
GO:19016073 | Liver | NAFLD | alpha-amino acid biosynthetic process | 22/1882 | 68/18723 | 4.13e-07 | 2.62e-05 | 22 |
GO:00066392 | Liver | NAFLD | acylglycerol metabolic process | 32/1882 | 128/18723 | 8.82e-07 | 4.60e-05 | 32 |
GO:00066382 | Liver | NAFLD | neutral lipid metabolic process | 32/1882 | 129/18723 | 1.06e-06 | 5.35e-05 | 32 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0120010 | Liver | NAFLD | Carbon metabolism | 26/1043 | 115/8465 | 1.39e-03 | 1.71e-02 | 1.38e-02 | 26 |
hsa0120011 | Liver | NAFLD | Carbon metabolism | 26/1043 | 115/8465 | 1.39e-03 | 1.71e-02 | 1.38e-02 | 26 |
hsa0120021 | Liver | Cirrhotic | Carbon metabolism | 64/2530 | 115/8465 | 6.37e-09 | 1.18e-07 | 7.26e-08 | 64 |
hsa012304 | Liver | Cirrhotic | Biosynthesis of amino acids | 35/2530 | 75/8465 | 1.54e-03 | 7.83e-03 | 4.83e-03 | 35 |
hsa0120031 | Liver | Cirrhotic | Carbon metabolism | 64/2530 | 115/8465 | 6.37e-09 | 1.18e-07 | 7.26e-08 | 64 |
hsa0123011 | Liver | Cirrhotic | Biosynthesis of amino acids | 35/2530 | 75/8465 | 1.54e-03 | 7.83e-03 | 4.83e-03 | 35 |
hsa0120041 | Liver | HCC | Carbon metabolism | 89/4020 | 115/8465 | 3.92e-11 | 6.56e-10 | 3.65e-10 | 89 |
hsa0123021 | Liver | HCC | Biosynthesis of amino acids | 53/4020 | 75/8465 | 3.79e-05 | 2.11e-04 | 1.18e-04 | 53 |
hsa0120051 | Liver | HCC | Carbon metabolism | 89/4020 | 115/8465 | 3.92e-11 | 6.56e-10 | 3.65e-10 | 89 |
hsa0123031 | Liver | HCC | Biosynthesis of amino acids | 53/4020 | 75/8465 | 3.79e-05 | 2.11e-04 | 1.18e-04 | 53 |
hsa00220 | Stomach | GC | Arginine biosynthesis | 6/708 | 22/8465 | 7.81e-03 | 4.10e-02 | 2.88e-02 | 6 |
hsa002201 | Stomach | GC | Arginine biosynthesis | 6/708 | 22/8465 | 7.81e-03 | 4.10e-02 | 2.88e-02 | 6 |
hsa00910 | Stomach | SIM | Nitrogen metabolism | 5/465 | 17/8465 | 1.75e-03 | 1.33e-02 | 1.07e-02 | 5 |
hsa009101 | Stomach | SIM | Nitrogen metabolism | 5/465 | 17/8465 | 1.75e-03 | 1.33e-02 | 1.07e-02 | 5 |
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Cell-cell communication analysis |
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Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
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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 |
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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 |
CPS1 | SNV | Missense_Mutation | c.1931N>T | p.Arg644Leu | p.R644L | P31327 | protein_coding | deleterious(0) | probably_damaging(0.983) | TCGA-G9-6338-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD | |
CPS1 | SNV | Missense_Mutation | rs772782772 | c.2458C>T | p.Arg820Trp | p.R820W | P31327 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-KC-A7FA-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD |
CPS1 | SNV | Missense_Mutation | novel | c.2937C>G | p.Asp979Glu | p.D979E | P31327 | protein_coding | tolerated(0.41) | benign(0.007) | TCGA-KK-A8ID-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Hormone Therapy | lupron | CR |
CPS1 | SNV | Missense_Mutation | novel | c.3508N>A | p.Val1170Met | p.V1170M | P31327 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-V1-A9OX-01 | Prostate | prostate adenocarcinoma | Male | <65 | 8 | Unknown | Unknown | SD |
CPS1 | SNV | Missense_Mutation | c.3007N>T | p.Val1003Phe | p.V1003F | P31327 | protein_coding | deleterious(0) | probably_damaging(0.998) | TCGA-BR-4267-01 | Stomach | stomach adenocarcinoma | Male | <65 | I/II | Unknown | Unknown | SD | |
CPS1 | SNV | Missense_Mutation | c.1891N>C | p.Ser631Pro | p.S631P | P31327 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-BR-4361-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
CPS1 | SNV | Missense_Mutation | rs147443001 | c.2083N>T | p.Arg695Cys | p.R695C | P31327 | protein_coding | deleterious(0) | probably_damaging(0.996) | TCGA-BR-4361-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
CPS1 | SNV | Missense_Mutation | c.3227N>G | p.Lys1076Arg | p.K1076R | P31327 | protein_coding | tolerated(1) | benign(0.003) | TCGA-BR-4369-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | |
CPS1 | SNV | Missense_Mutation | c.1661N>C | p.Gln554Pro | p.Q554P | P31327 | protein_coding | deleterious(0.01) | possibly_damaging(0.5) | TCGA-BR-6457-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Ancillary | leucovorin | CR | |
CPS1 | SNV | Missense_Mutation | novel | c.3204C>A | p.Asn1068Lys | p.N1068K | P31327 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-BR-6707-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Chemotherapy | oxaliplatin | PD |
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Related drugs of malignant transformation related genes |
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(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | sodium phenylbutyrate | |||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | Polidocanol - BioForm Medical/Chemische Fabrik Kreussler & Co | |||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | positive modulator | CHEMBL1201780 | CARGLUMIC ACID | |
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | sodium benzoate / sodium phenylacetate | |||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | l-methionine | METHIONINE | 24651765 | |
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | valproic acid | 20456087 | ||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | Sodium Phenylbutyrate | |||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | Carglumic acid | |||
1373 | CPS1 | CLINICALLY ACTIONABLE, ENZYME, DRUGGABLE GENOME | antiepileptics | 20456087 |
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