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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:005160413 | Breast | IDC | protein maturation | 35/1434 | 294/18723 | 6.18e-03 | 4.40e-02 | 35 |
GO:001605213 | Breast | IDC | carbohydrate catabolic process | 21/1434 | 154/18723 | 7.00e-03 | 4.83e-02 | 21 |
GO:004603424 | Breast | DCIS | ATP metabolic process | 85/1390 | 277/18723 | 6.79e-31 | 1.92e-27 | 85 |
GO:000609123 | Breast | DCIS | generation of precursor metabolites and energy | 103/1390 | 490/18723 | 1.46e-22 | 1.65e-19 | 103 |
GO:003629323 | Breast | DCIS | response to decreased oxygen levels | 60/1390 | 322/18723 | 2.64e-11 | 4.56e-09 | 60 |
GO:007048223 | Breast | DCIS | response to oxygen levels | 63/1390 | 347/18723 | 2.66e-11 | 4.56e-09 | 63 |
GO:000166623 | Breast | DCIS | response to hypoxia | 58/1390 | 307/18723 | 3.19e-11 | 5.16e-09 | 58 |
GO:003629422 | Breast | DCIS | cellular response to decreased oxygen levels | 34/1390 | 161/18723 | 2.21e-08 | 1.49e-06 | 34 |
GO:007145622 | Breast | DCIS | cellular response to hypoxia | 32/1390 | 151/18723 | 5.21e-08 | 3.17e-06 | 32 |
GO:007145322 | Breast | DCIS | cellular response to oxygen levels | 35/1390 | 177/18723 | 7.89e-08 | 4.47e-06 | 35 |
GO:001969324 | Breast | DCIS | ribose phosphate metabolic process | 58/1390 | 396/18723 | 4.80e-07 | 2.11e-05 | 58 |
GO:000915024 | Breast | DCIS | purine ribonucleotide metabolic process | 55/1390 | 368/18723 | 4.92e-07 | 2.14e-05 | 55 |
GO:000925924 | Breast | DCIS | ribonucleotide metabolic process | 56/1390 | 385/18723 | 9.44e-07 | 3.79e-05 | 56 |
GO:000616324 | Breast | DCIS | purine nucleotide metabolic process | 56/1390 | 396/18723 | 2.31e-06 | 8.29e-05 | 56 |
GO:000911723 | Breast | DCIS | nucleotide metabolic process | 65/1390 | 489/18723 | 3.19e-06 | 1.03e-04 | 65 |
GO:004693923 | Breast | DCIS | nucleotide phosphorylation | 22/1390 | 101/18723 | 3.82e-06 | 1.16e-04 | 22 |
GO:007252124 | Breast | DCIS | purine-containing compound metabolic process | 57/1390 | 416/18723 | 5.07e-06 | 1.48e-04 | 57 |
GO:000675323 | Breast | DCIS | nucleoside phosphate metabolic process | 65/1390 | 497/18723 | 5.51e-06 | 1.59e-04 | 65 |
GO:000616523 | Breast | DCIS | nucleoside diphosphate phosphorylation | 21/1390 | 99/18723 | 9.76e-06 | 2.59e-04 | 21 |
GO:000913223 | Breast | DCIS | nucleoside diphosphate metabolic process | 23/1390 | 124/18723 | 3.75e-05 | 8.07e-04 | 23 |
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 | c.570N>A | p.Met190Ile | p.M190I | P00558 | protein_coding | tolerated(0.07) | benign(0.384) | TCGA-A8-A09N-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Unknown | Unknown | SD | |
PGK1 | SNV | Missense_Mutation | c.877N>C | p.Asp293His | p.D293H | P00558 | protein_coding | deleterious(0.01) | possibly_damaging(0.704) | TCGA-AC-A23H-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Unknown | Unknown | PD | |
PGK1 | SNV | Missense_Mutation | novel | c.11N>G | p.Ser4Cys | p.S4C | P00558 | protein_coding | deleterious(0.01) | possibly_damaging(0.594) | TCGA-BH-A0B6-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
PGK1 | SNV | Missense_Mutation | c.599C>T | p.Ala200Val | p.A200V | P00558 | protein_coding | tolerated(0.21) | benign(0.173) | TCGA-BH-A0HF-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | arimidex | SD | |
PGK1 | SNV | Missense_Mutation | c.725T>C | p.Phe242Ser | p.F242S | P00558 | protein_coding | deleterious(0.01) | possibly_damaging(0.452) | TCGA-D8-A27T-01 | Breast | breast invasive carcinoma | Female | <65 | III/IV | Chemotherapy | doxorubicine+cyclophosphamide | SD | |
PGK1 | SNV | Missense_Mutation | novel | c.388N>T | p.Gly130Trp | p.G130W | P00558 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-VS-A94Z-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR |
PGK1 | SNV | Missense_Mutation | rs141397576 | c.107A>C | p.Asn36Thr | p.N36T | P00558 | protein_coding | deleterious(0.03) | possibly_damaging(0.907) | TCGA-AA-3975-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
PGK1 | SNV | Missense_Mutation | c.802N>T | p.Asp268Tyr | p.D268Y | P00558 | protein_coding | deleterious(0) | possibly_damaging(0.598) | TCGA-AA-3984-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
PGK1 | SNV | Missense_Mutation | novel | c.365N>C | p.Leu122Pro | p.L122P | P00558 | protein_coding | deleterious(0) | probably_damaging(0.997) | TCGA-AZ-6605-01 | Colorectum | colon adenocarcinoma | Male | >=65 | III/IV | Chemotherapy | folfox | SD |
PGK1 | SNV | Missense_Mutation | c.1061N>T | p.Ala354Val | p.A354V | P00558 | protein_coding | deleterious(0.03) | benign(0.003) | TCGA-CK-4951-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | 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 |
5230 | PGK1 | ENZYME, KINASE | lamivudine | LAMIVUDINE |
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