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Gene: NME4 |
Gene summary for NME4 |
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Gene information | Species | Human | Gene symbol | NME4 | Gene ID | 4833 |
Gene name | NME/NM23 nucleoside diphosphate kinase 4 | |
Gene Alias | NDPK-D | |
Cytomap | 16p13.3 | |
Gene Type | protein-coding | GO ID | GO:0006139 | UniProtAcc | A0A087WVT9 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
4833 | NME4 | P107T-E | Human | Esophagus | ESCC | 1.20e-97 | 2.01e+00 | 0.171 |
4833 | NME4 | P126T-E | Human | Esophagus | ESCC | 5.52e-09 | 1.21e+00 | 0.1125 |
4833 | NME4 | P127T-E | Human | Esophagus | ESCC | 1.72e-39 | 8.52e-01 | 0.0826 |
4833 | NME4 | P128T-E | Human | Esophagus | ESCC | 3.62e-63 | 1.97e+00 | 0.1241 |
4833 | NME4 | P130T-E | Human | Esophagus | ESCC | 3.67e-106 | 2.30e+00 | 0.1676 |
4833 | NME4 | S43 | Human | Liver | Cirrhotic | 3.16e-02 | -1.42e-01 | -0.0187 |
4833 | NME4 | HCC1_Meng | Human | Liver | HCC | 6.75e-79 | 5.64e-01 | 0.0246 |
4833 | NME4 | HCC2_Meng | Human | Liver | HCC | 3.77e-39 | 1.20e-01 | 0.0107 |
4833 | NME4 | cirrhotic1 | Human | Liver | Cirrhotic | 5.35e-07 | 1.35e-01 | 0.0202 |
4833 | NME4 | cirrhotic2 | Human | Liver | Cirrhotic | 2.32e-07 | 1.31e-01 | 0.0201 |
4833 | NME4 | cirrhotic3 | Human | Liver | Cirrhotic | 1.19e-15 | 3.32e-01 | 0.0215 |
4833 | NME4 | HCC1 | Human | Liver | HCC | 1.54e-02 | 3.70e+00 | 0.5336 |
4833 | NME4 | HCC2 | Human | Liver | HCC | 6.36e-16 | 4.12e+00 | 0.5341 |
4833 | NME4 | Pt13.b | Human | Liver | HCC | 1.13e-24 | 3.30e-01 | 0.0251 |
4833 | NME4 | Pt14.a | Human | Liver | HCC | 2.28e-03 | 3.14e-01 | 0.0169 |
4833 | NME4 | Pt14.b | Human | Liver | HCC | 1.84e-05 | 2.45e-01 | 0.018 |
4833 | NME4 | S014 | Human | Liver | HCC | 1.87e-54 | 2.51e+00 | 0.2254 |
4833 | NME4 | S015 | Human | Liver | HCC | 2.01e-44 | 2.28e+00 | 0.2375 |
4833 | NME4 | S016 | Human | Liver | HCC | 8.26e-62 | 2.33e+00 | 0.2243 |
4833 | NME4 | S027 | Human | Liver | HCC | 6.04e-13 | 1.26e+00 | 0.2446 |
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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:000920614 | Breast | IDC | purine ribonucleoside triphosphate biosynthetic process | 24/1434 | 68/18723 | 7.70e-11 | 1.07e-08 | 24 |
GO:000914514 | Breast | IDC | purine nucleoside triphosphate biosynthetic process | 24/1434 | 69/18723 | 1.10e-10 | 1.38e-08 | 24 |
GO:000914214 | Breast | IDC | nucleoside triphosphate biosynthetic process | 26/1434 | 85/18723 | 4.72e-10 | 5.06e-08 | 26 |
GO:000920113 | Breast | IDC | ribonucleoside triphosphate biosynthetic process | 24/1434 | 74/18723 | 5.73e-10 | 6.03e-08 | 24 |
GO:000914414 | Breast | IDC | purine nucleoside triphosphate metabolic process | 26/1434 | 88/18723 | 1.09e-09 | 1.07e-07 | 26 |
GO:000920514 | Breast | IDC | purine ribonucleoside triphosphate metabolic process | 25/1434 | 82/18723 | 1.10e-09 | 1.07e-07 | 25 |
GO:000914114 | Breast | IDC | nucleoside triphosphate metabolic process | 29/1434 | 112/18723 | 3.68e-09 | 3.03e-07 | 29 |
GO:000919913 | Breast | IDC | ribonucleoside triphosphate metabolic process | 25/1434 | 89/18723 | 7.22e-09 | 5.47e-07 | 25 |
GO:000915214 | Breast | IDC | purine ribonucleotide biosynthetic process | 34/1434 | 169/18723 | 1.63e-07 | 8.92e-06 | 34 |
GO:004639013 | Breast | IDC | ribose phosphate biosynthetic process | 36/1434 | 190/18723 | 3.40e-07 | 1.73e-05 | 36 |
GO:000926013 | Breast | IDC | ribonucleotide biosynthetic process | 35/1434 | 182/18723 | 3.40e-07 | 1.73e-05 | 35 |
GO:000915014 | Breast | IDC | purine ribonucleotide metabolic process | 55/1434 | 368/18723 | 1.30e-06 | 5.72e-05 | 55 |
GO:001969314 | Breast | IDC | ribose phosphate metabolic process | 58/1434 | 396/18723 | 1.31e-06 | 5.73e-05 | 58 |
GO:000675313 | Breast | IDC | nucleoside phosphate metabolic process | 68/1434 | 497/18723 | 2.01e-06 | 8.23e-05 | 68 |
GO:000911713 | Breast | IDC | nucleotide metabolic process | 67/1434 | 489/18723 | 2.28e-06 | 9.05e-05 | 67 |
GO:000925914 | Breast | IDC | ribonucleotide metabolic process | 56/1434 | 385/18723 | 2.47e-06 | 9.63e-05 | 56 |
GO:000616413 | Breast | IDC | purine nucleotide biosynthetic process | 34/1434 | 191/18723 | 3.11e-06 | 1.15e-04 | 34 |
GO:190129313 | Breast | IDC | nucleoside phosphate biosynthetic process | 41/1434 | 256/18723 | 5.15e-06 | 1.73e-04 | 41 |
GO:000616314 | Breast | IDC | purine nucleotide metabolic process | 56/1434 | 396/18723 | 5.90e-06 | 1.90e-04 | 56 |
GO:004693913 | Breast | IDC | nucleotide phosphorylation | 22/1434 | 101/18723 | 6.31e-06 | 1.98e-04 | 22 |
Page: 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 |
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Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa012325 | Esophagus | ESCC | Nucleotide metabolism | 59/4205 | 85/8465 | 1.67e-04 | 6.58e-04 | 3.37e-04 | 59 |
hsa012405 | Esophagus | ESCC | Biosynthesis of cofactors | 97/4205 | 153/8465 | 3.88e-04 | 1.35e-03 | 6.94e-04 | 97 |
hsa002405 | Esophagus | ESCC | Pyrimidine metabolism | 41/4205 | 58/8465 | 9.14e-04 | 2.92e-03 | 1.49e-03 | 41 |
hsa0123212 | Esophagus | ESCC | Nucleotide metabolism | 59/4205 | 85/8465 | 1.67e-04 | 6.58e-04 | 3.37e-04 | 59 |
hsa0124012 | Esophagus | ESCC | Biosynthesis of cofactors | 97/4205 | 153/8465 | 3.88e-04 | 1.35e-03 | 6.94e-04 | 97 |
hsa0024012 | Esophagus | ESCC | Pyrimidine metabolism | 41/4205 | 58/8465 | 9.14e-04 | 2.92e-03 | 1.49e-03 | 41 |
hsa01240 | Liver | Cirrhotic | Biosynthesis of cofactors | 66/2530 | 153/8465 | 3.11e-04 | 1.99e-03 | 1.23e-03 | 66 |
hsa01232 | Liver | Cirrhotic | Nucleotide metabolism | 39/2530 | 85/8465 | 1.27e-03 | 6.73e-03 | 4.15e-03 | 39 |
hsa00240 | Liver | Cirrhotic | Pyrimidine metabolism | 27/2530 | 58/8465 | 5.31e-03 | 1.88e-02 | 1.16e-02 | 27 |
hsa00983 | Liver | Cirrhotic | Drug metabolism - other enzymes | 34/2530 | 80/8465 | 1.08e-02 | 3.57e-02 | 2.20e-02 | 34 |
hsa012401 | Liver | Cirrhotic | Biosynthesis of cofactors | 66/2530 | 153/8465 | 3.11e-04 | 1.99e-03 | 1.23e-03 | 66 |
hsa012321 | Liver | Cirrhotic | Nucleotide metabolism | 39/2530 | 85/8465 | 1.27e-03 | 6.73e-03 | 4.15e-03 | 39 |
hsa002401 | Liver | Cirrhotic | Pyrimidine metabolism | 27/2530 | 58/8465 | 5.31e-03 | 1.88e-02 | 1.16e-02 | 27 |
hsa009831 | Liver | Cirrhotic | Drug metabolism - other enzymes | 34/2530 | 80/8465 | 1.08e-02 | 3.57e-02 | 2.20e-02 | 34 |
hsa012402 | Liver | HCC | Biosynthesis of cofactors | 103/4020 | 153/8465 | 4.67e-07 | 5.05e-06 | 2.81e-06 | 103 |
hsa002402 | Liver | HCC | Pyrimidine metabolism | 44/4020 | 58/8465 | 9.34e-06 | 7.11e-05 | 3.95e-05 | 44 |
hsa012322 | Liver | HCC | Nucleotide metabolism | 59/4020 | 85/8465 | 3.30e-05 | 1.88e-04 | 1.04e-04 | 59 |
hsa009832 | Liver | HCC | Drug metabolism - other enzymes | 54/4020 | 80/8465 | 2.25e-04 | 1.09e-03 | 6.08e-04 | 54 |
hsa012403 | Liver | HCC | Biosynthesis of cofactors | 103/4020 | 153/8465 | 4.67e-07 | 5.05e-06 | 2.81e-06 | 103 |
hsa002403 | Liver | HCC | Pyrimidine metabolism | 44/4020 | 58/8465 | 9.34e-06 | 7.11e-05 | 3.95e-05 | 44 |
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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 |
NME4 | SNV | Missense_Mutation | rs200178276 | c.427G>A | p.Val143Ile | p.V143I | O00746 | protein_coding | tolerated(1) | benign(0) | TCGA-G4-6588-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NME4 | SNV | Missense_Mutation | novel | c.247G>A | p.Glu83Lys | p.E83K | O00746 | protein_coding | tolerated(0.29) | benign(0.086) | TCGA-AJ-A3NE-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NME4 | SNV | Missense_Mutation | novel | c.559N>A | p.Ala187Thr | p.A187T | O00746 | protein_coding | deleterious_low_confidence(0) | benign(0.014) | TCGA-AX-A2HA-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Unknown | Unknown | SD |
NME4 | SNV | Missense_Mutation | novel | c.187N>G | p.Arg63Gly | p.R63G | O00746 | protein_coding | deleterious(0.01) | possibly_damaging(0.501) | TCGA-BS-A0UJ-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
NME4 | SNV | Missense_Mutation | rs571220712 | c.454G>A | p.Ala152Thr | p.A152T | O00746 | protein_coding | deleterious(0.02) | benign(0.314) | TCGA-DI-A1BU-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | I/II | Chemotherapy | paclitaxel | SD |
NME4 | SNV | Missense_Mutation | rs778308477 | c.506G>T | p.Ser169Ile | p.S169I | O00746 | protein_coding | deleterious(0.01) | possibly_damaging(0.881) | TCGA-66-2778-01 | Lung | lung squamous cell carcinoma | Female | >=65 | III/IV | Chemotherapy | cisplatin | CR |
NME4 | SNV | Missense_Mutation | rs145944648 | c.382N>A | p.Asp128Asn | p.D128N | O00746 | protein_coding | tolerated(1) | benign(0.055) | TCGA-CN-A63T-01 | Oral cavity | head & neck squamous cell carcinoma | Male | <65 | I/II | Chemotherapy | cisplatin | CR |
NME4 | SNV | Missense_Mutation | novel | c.458N>A | p.Ser153Asn | p.S153N | O00746 | protein_coding | deleterious(0) | possibly_damaging(0.851) | TCGA-F7-A624-01 | Oral cavity | head & neck squamous cell carcinoma | Male | >=65 | I/II | Unknown | Unknown | SD |
NME4 | deletion | Frame_Shift_Del | rs770464890 | c.471delN | p.Ala159ProfsTer15 | p.A159Pfs*15 | O00746 | protein_coding | TCGA-D7-A6EY-01 | Stomach | stomach adenocarcinoma | Female | >=65 | III/IV | 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 |
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