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Gene: PGK1 |
Gene summary for PGK1 |
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Gene information | Species | Human | Gene symbol | PGK1 | Gene ID | 5230 |
Gene name | phosphoglycerate kinase 1 | |
Gene Alias | HEL-S-68p | |
Cytomap | Xq21.1 | |
Gene Type | protein-coding | GO ID | GO:0001525 | UniProtAcc | P00558 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
5230 | PGK1 | GSM4909281 | Human | Breast | IDC | 1.29e-26 | 7.14e-01 | 0.21 |
5230 | PGK1 | GSM4909282 | Human | Breast | IDC | 2.75e-22 | 5.77e-01 | -0.0288 |
5230 | PGK1 | GSM4909285 | Human | Breast | IDC | 1.30e-13 | 5.32e-01 | 0.21 |
5230 | PGK1 | GSM4909286 | Human | Breast | IDC | 1.40e-05 | -2.60e-01 | 0.1081 |
5230 | PGK1 | GSM4909288 | Human | Breast | IDC | 7.40e-04 | 1.34e-01 | 0.0988 |
5230 | PGK1 | GSM4909289 | Human | Breast | IDC | 7.57e-06 | 4.47e-01 | 0.1064 |
5230 | PGK1 | GSM4909290 | Human | Breast | IDC | 2.59e-04 | 4.14e-01 | 0.2096 |
5230 | PGK1 | GSM4909294 | Human | Breast | IDC | 4.91e-14 | 4.19e-01 | 0.2022 |
5230 | PGK1 | GSM4909296 | Human | Breast | IDC | 5.12e-13 | -2.83e-01 | 0.1524 |
5230 | PGK1 | GSM4909297 | Human | Breast | IDC | 2.15e-10 | -7.55e-02 | 0.1517 |
5230 | PGK1 | GSM4909298 | Human | Breast | IDC | 2.06e-03 | -1.46e-01 | 0.1551 |
5230 | PGK1 | GSM4909301 | Human | Breast | IDC | 1.73e-03 | -2.49e-01 | 0.1577 |
5230 | PGK1 | GSM4909302 | Human | Breast | IDC | 3.17e-02 | 2.58e-01 | 0.1545 |
5230 | PGK1 | GSM4909304 | Human | Breast | IDC | 2.62e-03 | 3.73e-01 | 0.1636 |
5230 | PGK1 | GSM4909311 | Human | Breast | IDC | 3.59e-31 | -3.13e-01 | 0.1534 |
5230 | PGK1 | GSM4909312 | Human | Breast | IDC | 9.98e-10 | -1.77e-01 | 0.1552 |
5230 | PGK1 | GSM4909313 | Human | Breast | IDC | 1.84e-03 | -2.00e-01 | 0.0391 |
5230 | PGK1 | GSM4909315 | Human | Breast | IDC | 2.81e-42 | 7.84e-01 | 0.21 |
5230 | PGK1 | GSM4909316 | Human | Breast | IDC | 4.88e-08 | 2.77e-01 | 0.21 |
5230 | PGK1 | GSM4909317 | Human | Breast | IDC | 1.34e-07 | 4.67e-01 | 0.1355 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 |
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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). |
Page: 1 2 3 4 5 6 7 8 9 |
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GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:00460349 | Breast | Precancer | ATP metabolic process | 82/1080 | 277/18723 | 1.94e-36 | 5.19e-33 | 82 |
GO:00060918 | Breast | Precancer | generation of precursor metabolites and energy | 94/1080 | 490/18723 | 1.54e-25 | 1.64e-22 | 94 |
GO:00362939 | Breast | Precancer | response to decreased oxygen levels | 53/1080 | 322/18723 | 4.09e-12 | 6.84e-10 | 53 |
GO:00016669 | Breast | Precancer | response to hypoxia | 51/1080 | 307/18723 | 7.33e-12 | 1.11e-09 | 51 |
GO:00704829 | Breast | Precancer | response to oxygen levels | 55/1080 | 347/18723 | 7.47e-12 | 1.11e-09 | 55 |
GO:00362948 | Breast | Precancer | cellular response to decreased oxygen levels | 31/1080 | 161/18723 | 2.61e-09 | 2.11e-07 | 31 |
GO:00714538 | Breast | Precancer | cellular response to oxygen levels | 32/1080 | 177/18723 | 7.32e-09 | 5.52e-07 | 32 |
GO:00714565 | Breast | Precancer | cellular response to hypoxia | 29/1080 | 151/18723 | 8.98e-09 | 6.50e-07 | 29 |
GO:00196938 | Breast | Precancer | ribose phosphate metabolic process | 49/1080 | 396/18723 | 3.81e-07 | 1.78e-05 | 49 |
GO:00091509 | Breast | Precancer | purine ribonucleotide metabolic process | 46/1080 | 368/18723 | 6.47e-07 | 2.71e-05 | 46 |
GO:00091179 | Breast | Precancer | nucleotide metabolic process | 56/1080 | 489/18723 | 7.40e-07 | 3.00e-05 | 56 |
GO:00092598 | Breast | Precancer | ribonucleotide metabolic process | 47/1080 | 385/18723 | 9.69e-07 | 3.84e-05 | 47 |
GO:00469398 | Breast | Precancer | nucleotide phosphorylation | 20/1080 | 101/18723 | 1.07e-06 | 4.18e-05 | 20 |
GO:00067539 | Breast | Precancer | nucleoside phosphate metabolic process | 56/1080 | 497/18723 | 1.24e-06 | 4.70e-05 | 56 |
GO:00061639 | Breast | Precancer | purine nucleotide metabolic process | 47/1080 | 396/18723 | 2.14e-06 | 7.50e-05 | 47 |
GO:00091858 | Breast | Precancer | ribonucleoside diphosphate metabolic process | 20/1080 | 106/18723 | 2.37e-06 | 8.17e-05 | 20 |
GO:00060968 | Breast | Precancer | glycolytic process | 17/1080 | 81/18723 | 2.94e-06 | 9.73e-05 | 17 |
GO:00061658 | Breast | Precancer | nucleoside diphosphate phosphorylation | 19/1080 | 99/18723 | 3.23e-06 | 1.05e-04 | 19 |
GO:00067578 | Breast | Precancer | ATP generation from ADP | 17/1080 | 82/18723 | 3.52e-06 | 1.13e-04 | 17 |
GO:00091328 | Breast | Precancer | nucleoside diphosphate metabolic process | 21/1080 | 124/18723 | 7.98e-06 | 2.17e-04 | 21 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa0406616 | Breast | Precancer | HIF-1 signaling pathway | 23/684 | 109/8465 | 1.51e-05 | 1.59e-04 | 1.22e-04 | 23 |
hsa0001010 | Breast | Precancer | Glycolysis / Gluconeogenesis | 13/684 | 67/8465 | 2.39e-03 | 1.51e-02 | 1.16e-02 | 13 |
hsa0120012 | Breast | Precancer | Carbon metabolism | 18/684 | 115/8465 | 4.79e-03 | 2.75e-02 | 2.11e-02 | 18 |
hsa0406617 | Breast | Precancer | HIF-1 signaling pathway | 23/684 | 109/8465 | 1.51e-05 | 1.59e-04 | 1.22e-04 | 23 |
hsa0001013 | Breast | Precancer | Glycolysis / Gluconeogenesis | 13/684 | 67/8465 | 2.39e-03 | 1.51e-02 | 1.16e-02 | 13 |
hsa0120013 | Breast | Precancer | Carbon metabolism | 18/684 | 115/8465 | 4.79e-03 | 2.75e-02 | 2.11e-02 | 18 |
hsa0406623 | Breast | IDC | HIF-1 signaling pathway | 22/867 | 109/8465 | 1.36e-03 | 1.00e-02 | 7.50e-03 | 22 |
hsa0406633 | Breast | IDC | HIF-1 signaling pathway | 22/867 | 109/8465 | 1.36e-03 | 1.00e-02 | 7.50e-03 | 22 |
hsa0406642 | Breast | DCIS | HIF-1 signaling pathway | 22/846 | 109/8465 | 9.83e-04 | 7.05e-03 | 5.20e-03 | 22 |
hsa0406652 | Breast | DCIS | HIF-1 signaling pathway | 22/846 | 109/8465 | 9.83e-04 | 7.05e-03 | 5.20e-03 | 22 |
hsa0406618 | Cervix | CC | HIF-1 signaling pathway | 27/1267 | 109/8465 | 4.72e-03 | 1.64e-02 | 9.72e-03 | 27 |
hsa0406619 | Cervix | CC | HIF-1 signaling pathway | 27/1267 | 109/8465 | 4.72e-03 | 1.64e-02 | 9.72e-03 | 27 |
hsa01200 | Colorectum | AD | Carbon metabolism | 55/2092 | 115/8465 | 5.53e-08 | 8.42e-07 | 5.37e-07 | 55 |
hsa00010 | Colorectum | AD | Glycolysis / Gluconeogenesis | 34/2092 | 67/8465 | 3.63e-06 | 4.34e-05 | 2.77e-05 | 34 |
hsa04066 | Colorectum | AD | HIF-1 signaling pathway | 48/2092 | 109/8465 | 7.25e-06 | 7.84e-05 | 5.00e-05 | 48 |
hsa01230 | Colorectum | AD | Biosynthesis of amino acids | 28/2092 | 75/8465 | 9.99e-03 | 3.89e-02 | 2.48e-02 | 28 |
hsa012001 | Colorectum | AD | Carbon metabolism | 55/2092 | 115/8465 | 5.53e-08 | 8.42e-07 | 5.37e-07 | 55 |
hsa000101 | Colorectum | AD | Glycolysis / Gluconeogenesis | 34/2092 | 67/8465 | 3.63e-06 | 4.34e-05 | 2.77e-05 | 34 |
hsa040661 | Colorectum | AD | HIF-1 signaling pathway | 48/2092 | 109/8465 | 7.25e-06 | 7.84e-05 | 5.00e-05 | 48 |
hsa012301 | Colorectum | AD | Biosynthesis of amino acids | 28/2092 | 75/8465 | 9.99e-03 | 3.89e-02 | 2.48e-02 | 28 |
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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 |
PGK1 | SNV | Missense_Mutation | novel | c.985N>C | p.Thr329Pro | p.T329P | P00558 | protein_coding | tolerated(0.18) | benign(0.05) | TCGA-85-A512-01 | Lung | lung squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | etoposide | CR |
PGK1 | SNV | Missense_Mutation | novel | c.96C>G | p.Asn32Lys | p.N32K | P00558 | protein_coding | tolerated(0.27) | benign(0) | TCGA-UF-A7J9-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PGK1 | SNV | Missense_Mutation | c.364N>A | p.Leu122Ile | p.L122I | P00558 | protein_coding | deleterious(0.01) | possibly_damaging(0.858) | TCGA-BR-6452-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PGK1 | SNV | Missense_Mutation | c.1226N>A | p.Pro409His | p.P409H | P00558 | protein_coding | deleterious(0) | probably_damaging(0.999) | TCGA-BR-7707-01 | Stomach | stomach adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |
PGK1 | SNV | Missense_Mutation | c.26T>G | p.Leu9Arg | p.L9R | P00558 | protein_coding | deleterious(0) | probably_damaging(0.943) | TCGA-BR-8591-01 | Stomach | stomach adenocarcinoma | Male | >=65 | III/IV | Unknown | Unknown | SD | |
PGK1 | SNV | Missense_Mutation | c.965N>G | p.Lys322Arg | p.K322R | P00558 | protein_coding | tolerated(0.08) | benign(0.013) | TCGA-D7-A4Z0-01 | Stomach | stomach adenocarcinoma | Female | <65 | I/II | Chemotherapy | 5-fluorouracilum | SD | |
PGK1 | insertion | Nonsense_Mutation | novel | c.595_596insCAAAAAACACTT | p.Lys199delinsThrLysAsnThrTer | p.K199delinsTKNT* | P00558 | protein_coding | TCGA-ET-A40S-01 | Thyroid | thyroid carcinoma | 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 |
5230 | PGK1 | ENZYME, KINASE | lamivudine | LAMIVUDINE |
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