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Gene: PYCR1 |
Gene summary for PYCR1 |
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Gene information | Species | Human | Gene symbol | PYCR1 | Gene ID | 5831 |
Gene name | pyrroline-5-carboxylate reductase 1 | |
Gene Alias | ARCL2B | |
Cytomap | 17q25.3 | |
Gene Type | protein-coding | GO ID | GO:0000302 | UniProtAcc | E2QRB3 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5831 | PYCR1 | LZE4T | Human | Esophagus | ESCC | 4.22e-04 | 2.28e-01 | 0.0811 |
5831 | PYCR1 | LZE7T | Human | Esophagus | ESCC | 1.75e-04 | 5.95e-01 | 0.0667 |
5831 | PYCR1 | LZE22T | Human | Esophagus | ESCC | 2.03e-09 | 1.05e+00 | 0.068 |
5831 | PYCR1 | LZE24T | Human | Esophagus | ESCC | 1.17e-28 | 9.56e-01 | 0.0596 |
5831 | PYCR1 | LZE21T | Human | Esophagus | ESCC | 1.11e-03 | 5.15e-01 | 0.0655 |
5831 | PYCR1 | P1T-E | Human | Esophagus | ESCC | 1.73e-06 | 5.48e-01 | 0.0875 |
5831 | PYCR1 | P2T-E | Human | Esophagus | ESCC | 1.96e-44 | 1.02e+00 | 0.1177 |
5831 | PYCR1 | P4T-E | Human | Esophagus | ESCC | 5.63e-35 | 9.85e-01 | 0.1323 |
5831 | PYCR1 | P5T-E | Human | Esophagus | ESCC | 2.52e-37 | 8.35e-01 | 0.1327 |
5831 | PYCR1 | P8T-E | Human | Esophagus | ESCC | 4.51e-09 | 2.29e-01 | 0.0889 |
5831 | PYCR1 | P9T-E | Human | Esophagus | ESCC | 7.77e-05 | 2.81e-01 | 0.1131 |
5831 | PYCR1 | P10T-E | Human | Esophagus | ESCC | 1.81e-50 | 1.05e+00 | 0.116 |
5831 | PYCR1 | P11T-E | Human | Esophagus | ESCC | 2.44e-21 | 1.29e+00 | 0.1426 |
5831 | PYCR1 | P12T-E | Human | Esophagus | ESCC | 5.66e-42 | 9.36e-01 | 0.1122 |
5831 | PYCR1 | P15T-E | Human | Esophagus | ESCC | 2.91e-26 | 8.72e-01 | 0.1149 |
5831 | PYCR1 | P16T-E | Human | Esophagus | ESCC | 1.62e-50 | 9.96e-01 | 0.1153 |
5831 | PYCR1 | P17T-E | Human | Esophagus | ESCC | 4.35e-05 | 4.57e-01 | 0.1278 |
5831 | PYCR1 | P19T-E | Human | Esophagus | ESCC | 1.38e-08 | 1.13e+00 | 0.1662 |
5831 | PYCR1 | P20T-E | Human | Esophagus | ESCC | 8.98e-44 | 1.15e+00 | 0.1124 |
5831 | PYCR1 | P21T-E | Human | Esophagus | ESCC | 4.82e-79 | 1.70e+00 | 0.1617 |
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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:0006979111 | Esophagus | ESCC | response to oxidative stress | 303/8552 | 446/18723 | 7.15e-22 | 1.30e-19 | 303 |
GO:0062197111 | Esophagus | ESCC | cellular response to chemical stress | 234/8552 | 337/18723 | 5.37e-19 | 5.97e-17 | 234 |
GO:0034599111 | Esophagus | ESCC | cellular response to oxidative stress | 197/8552 | 288/18723 | 3.76e-15 | 2.15e-13 | 197 |
GO:0000302111 | Esophagus | ESCC | response to reactive oxygen species | 150/8552 | 222/18723 | 3.06e-11 | 1.02e-09 | 150 |
GO:0042542111 | Esophagus | ESCC | response to hydrogen peroxide | 102/8552 | 146/18723 | 2.64e-09 | 5.81e-08 | 102 |
GO:003461420 | Esophagus | ESCC | cellular response to reactive oxygen species | 103/8552 | 155/18723 | 1.34e-07 | 2.17e-06 | 103 |
GO:00703018 | Esophagus | ESCC | cellular response to hydrogen peroxide | 68/8552 | 98/18723 | 1.70e-06 | 2.03e-05 | 68 |
GO:005188110 | Esophagus | ESCC | regulation of mitochondrial membrane potential | 51/8552 | 74/18723 | 4.42e-05 | 3.51e-04 | 51 |
GO:00086525 | Esophagus | ESCC | cellular amino acid biosynthetic process | 51/8552 | 76/18723 | 1.30e-04 | 8.88e-04 | 51 |
GO:00463948 | Esophagus | ESCC | carboxylic acid biosynthetic process | 175/8552 | 314/18723 | 1.98e-04 | 1.26e-03 | 175 |
GO:00160538 | Esophagus | ESCC | organic acid biosynthetic process | 175/8552 | 316/18723 | 3.04e-04 | 1.82e-03 | 175 |
GO:19016075 | Esophagus | ESCC | alpha-amino acid biosynthetic process | 45/8552 | 68/18723 | 5.13e-04 | 2.84e-03 | 45 |
GO:003647320 | Esophagus | ESCC | cell death in response to oxidative stress | 59/8552 | 95/18723 | 9.12e-04 | 4.65e-03 | 59 |
GO:190288220 | Esophagus | ESCC | regulation of response to oxidative stress | 58/8552 | 98/18723 | 4.86e-03 | 1.88e-02 | 58 |
GO:190040720 | Esophagus | ESCC | regulation of cellular response to oxidative stress | 52/8552 | 89/18723 | 1.04e-02 | 3.56e-02 | 52 |
GO:190320120 | Esophagus | ESCC | regulation of oxidative stress-induced cell death | 44/8552 | 74/18723 | 1.18e-02 | 3.94e-02 | 44 |
GO:000697922 | Liver | HCC | response to oxidative stress | 281/7958 | 446/18723 | 9.75e-19 | 1.24e-16 | 281 |
GO:006219722 | Liver | HCC | cellular response to chemical stress | 216/7958 | 337/18723 | 6.86e-16 | 5.44e-14 | 216 |
GO:001605321 | Liver | HCC | organic acid biosynthetic process | 200/7958 | 316/18723 | 5.24e-14 | 3.22e-12 | 200 |
GO:004639421 | Liver | HCC | carboxylic acid biosynthetic process | 198/7958 | 314/18723 | 1.19e-13 | 6.78e-12 | 198 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0123023 | Esophagus | ESCC | Biosynthesis of amino acids | 49/4205 | 75/8465 | 4.35e-03 | 1.12e-02 | 5.74e-03 | 49 |
hsa0123033 | Esophagus | ESCC | Biosynthesis of amino acids | 49/4205 | 75/8465 | 4.35e-03 | 1.12e-02 | 5.74e-03 | 49 |
hsa0123021 | Liver | HCC | Biosynthesis of amino acids | 53/4020 | 75/8465 | 3.79e-05 | 2.11e-04 | 1.18e-04 | 53 |
hsa0033021 | Liver | HCC | Arginine and proline metabolism | 33/4020 | 50/8465 | 6.28e-03 | 1.77e-02 | 9.83e-03 | 33 |
hsa0123031 | Liver | HCC | Biosynthesis of amino acids | 53/4020 | 75/8465 | 3.79e-05 | 2.11e-04 | 1.18e-04 | 53 |
hsa0033031 | Liver | HCC | Arginine and proline metabolism | 33/4020 | 50/8465 | 6.28e-03 | 1.77e-02 | 9.83e-03 | 33 |
hsa012305 | Oral cavity | OSCC | Biosynthesis of amino acids | 45/3704 | 75/8465 | 3.27e-03 | 8.23e-03 | 4.19e-03 | 45 |
hsa0033010 | Oral cavity | OSCC | Arginine and proline metabolism | 30/3704 | 50/8465 | 1.50e-02 | 3.26e-02 | 1.66e-02 | 30 |
hsa0123012 | Oral cavity | OSCC | Biosynthesis of amino acids | 45/3704 | 75/8465 | 3.27e-03 | 8.23e-03 | 4.19e-03 | 45 |
hsa0033013 | Oral cavity | OSCC | Arginine and proline metabolism | 30/3704 | 50/8465 | 1.50e-02 | 3.26e-02 | 1.66e-02 | 30 |
hsa0123022 | Oral cavity | LP | Biosynthesis of amino acids | 36/2418 | 75/8465 | 2.68e-04 | 1.51e-03 | 9.74e-04 | 36 |
hsa0033023 | Oral cavity | LP | Arginine and proline metabolism | 26/2418 | 50/8465 | 3.94e-04 | 2.08e-03 | 1.34e-03 | 26 |
hsa0123032 | Oral cavity | LP | Biosynthesis of amino acids | 36/2418 | 75/8465 | 2.68e-04 | 1.51e-03 | 9.74e-04 | 36 |
hsa0033033 | Oral cavity | LP | Arginine and proline metabolism | 26/2418 | 50/8465 | 3.94e-04 | 2.08e-03 | 1.34e-03 | 26 |
hsa0033022 | Prostate | Tumor | Arginine and proline metabolism | 19/1791 | 50/8465 | 4.73e-03 | 1.67e-02 | 1.03e-02 | 19 |
hsa0033032 | Prostate | Tumor | Arginine and proline metabolism | 19/1791 | 50/8465 | 4.73e-03 | 1.67e-02 | 1.03e-02 | 19 |
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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 |
PYCR1 | SNV | Missense_Mutation | rs373840170 | c.983N>T | p.Ser328Leu | p.S328L | P32322 | protein_coding | tolerated_low_confidence(0.14) | benign(0.003) | TCGA-34-8454-01 | Lung | lung squamous cell carcinoma | Female | <65 | III/IV | Chemotherapy | cisplatin | SD |
PYCR1 | deletion | Frame_Shift_Del | novel | c.223delA | p.Met75TrpfsTer3 | p.M75Wfs*3 | P32322 | protein_coding | TCGA-34-2608-01 | Lung | lung squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD | ||
PYCR1 | SNV | Missense_Mutation | rs775495682 | c.787G>A | p.Gly263Arg | p.G263R | P32322 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-D6-6516-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PYCR1 | SNV | Missense_Mutation | c.824G>T | p.Gly275Val | p.G275V | P32322 | protein_coding | deleterious(0) | probably_damaging(0.922) | TCGA-G9-6499-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | SD | |
PYCR1 | SNV | Missense_Mutation | rs139869668 | c.560C>T | p.Thr187Met | p.T187M | P32322 | protein_coding | tolerated(0.18) | possibly_damaging(0.514) | TCGA-V1-A8X3-01 | Prostate | prostate adenocarcinoma | Male | <65 | 7 | Unknown | Unknown | SD |
PYCR1 | SNV | Missense_Mutation | c.575N>T | p.Asp192Val | p.D192V | P32322 | protein_coding | tolerated(0.18) | benign(0.025) | TCGA-XK-AAIW-01 | Prostate | prostate adenocarcinoma | Male | >=65 | 9 | Unknown | Unknown | PD | |
PYCR1 | SNV | Missense_Mutation | rs772766530 | c.877N>T | p.Arg293Trp | p.R293W | P32322 | protein_coding | deleterious(0) | possibly_damaging(0.881) | TCGA-BR-6852-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PYCR1 | SNV | Missense_Mutation | rs746669423 | c.872N>A | p.Arg291His | p.R291H | P32322 | protein_coding | deleterious(0) | probably_damaging(0.99) | TCGA-CD-A4MG-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
PYCR1 | SNV | Missense_Mutation | c.118N>G | p.Phe40Val | p.F40V | P32322 | protein_coding | tolerated(0.49) | benign(0.013) | TCGA-CG-4437-01 | Stomach | stomach adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
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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 |
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