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Gene: TYMS |
Gene summary for TYMS |
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Gene information | Species | Human | Gene symbol | TYMS | Gene ID | 7298 |
Gene name | thymidylate synthetase | |
Gene Alias | HST422 | |
Cytomap | 18p11.32 | |
Gene Type | protein-coding | GO ID | GO:0001501 | UniProtAcc | P04818 |
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Malignant transformation analysis |
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Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
7298 | TYMS | GSM4909281 | Human | Breast | IDC | 4.26e-13 | 4.04e-01 | 0.21 |
7298 | TYMS | GSM4909282 | Human | Breast | IDC | 3.33e-61 | 1.00e+00 | -0.0288 |
7298 | TYMS | GSM4909287 | Human | Breast | IDC | 2.16e-23 | 6.13e-01 | 0.2057 |
7298 | TYMS | GSM4909288 | Human | Breast | IDC | 5.53e-04 | 4.83e-01 | 0.0988 |
7298 | TYMS | M2 | Human | Breast | IDC | 6.15e-03 | 4.18e-01 | 0.21 |
7298 | TYMS | HTA11_78_2000001011 | Human | Colorectum | AD | 1.20e-04 | 3.47e-01 | -0.1088 |
7298 | TYMS | HTA11_347_2000001011 | Human | Colorectum | AD | 4.99e-02 | 1.87e-01 | -0.1954 |
7298 | TYMS | HTA11_1391_2000001011 | Human | Colorectum | AD | 1.91e-03 | 2.74e-01 | -0.059 |
7298 | TYMS | HTA11_7663_2000001011 | Human | Colorectum | SER | 2.96e-03 | 2.89e-01 | 0.0131 |
7298 | TYMS | HTA11_10623_2000001011 | Human | Colorectum | AD | 4.39e-02 | 3.17e-01 | -0.0177 |
7298 | TYMS | HTA11_6818_2000001021 | Human | Colorectum | AD | 2.33e-04 | 2.85e-01 | 0.0588 |
7298 | TYMS | HTA11_99999970781_79442 | Human | Colorectum | MSS | 1.84e-05 | 2.84e-01 | 0.294 |
7298 | TYMS | HTA11_99999965062_69753 | Human | Colorectum | MSI-H | 5.52e-03 | 6.96e-01 | 0.3487 |
7298 | TYMS | LZE2T | Human | Esophagus | ESCC | 5.50e-08 | 1.25e+00 | 0.082 |
7298 | TYMS | LZE7T | Human | Esophagus | ESCC | 1.43e-02 | 1.44e-01 | 0.0667 |
7298 | TYMS | LZE6T | Human | Esophagus | ESCC | 3.94e-02 | 1.23e-01 | 0.0845 |
7298 | TYMS | P2T-E | Human | Esophagus | ESCC | 1.28e-24 | 1.51e+00 | 0.1177 |
7298 | TYMS | P4T-E | Human | Esophagus | ESCC | 5.39e-32 | 1.12e+00 | 0.1323 |
7298 | TYMS | P5T-E | Human | Esophagus | ESCC | 1.20e-42 | 1.24e+00 | 0.1327 |
7298 | TYMS | P8T-E | Human | Esophagus | ESCC | 4.87e-07 | 5.17e-01 | 0.0889 |
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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:00091623 | Oral cavity | LP | deoxyribonucleoside monophosphate metabolic process | 12/4623 | 23/18723 | 4.14e-03 | 2.66e-02 | 12 |
GO:0097305110 | Oral cavity | LP | response to alcohol | 80/4623 | 253/18723 | 7.24e-03 | 4.05e-02 | 80 |
GO:00091481 | Oral cavity | LP | pyrimidine nucleoside triphosphate biosynthetic process | 10/4623 | 19/18723 | 8.09e-03 | 4.40e-02 | 10 |
GO:000641729 | Skin | cSCC | regulation of translation | 226/4864 | 468/18723 | 8.78e-26 | 2.62e-23 | 226 |
GO:004873227 | Skin | cSCC | gland development | 167/4864 | 436/18723 | 7.64e-09 | 2.44e-07 | 167 |
GO:004854529 | Skin | cSCC | response to steroid hormone | 135/4864 | 339/18723 | 1.34e-08 | 4.09e-07 | 135 |
GO:000188925 | Skin | cSCC | liver development | 69/4864 | 147/18723 | 3.33e-08 | 8.87e-07 | 69 |
GO:006100825 | Skin | cSCC | hepaticobiliary system development | 70/4864 | 150/18723 | 3.56e-08 | 9.33e-07 | 70 |
GO:000762323 | Skin | cSCC | circadian rhythm | 89/4864 | 210/18723 | 1.55e-07 | 3.51e-06 | 89 |
GO:000675324 | Skin | cSCC | nucleoside phosphate metabolic process | 176/4864 | 497/18723 | 1.55e-06 | 2.62e-05 | 176 |
GO:000756827 | Skin | cSCC | aging | 127/4864 | 339/18723 | 1.80e-06 | 3.02e-05 | 127 |
GO:000911724 | Skin | cSCC | nucleotide metabolic process | 173/4864 | 489/18723 | 2.03e-06 | 3.35e-05 | 173 |
GO:1901654112 | Skin | cSCC | response to ketone | 79/4864 | 194/18723 | 4.82e-06 | 7.06e-05 | 79 |
GO:000914126 | Skin | cSCC | nucleoside triphosphate metabolic process | 51/4864 | 112/18723 | 5.89e-06 | 8.44e-05 | 51 |
GO:007189718 | Skin | cSCC | DNA biosynthetic process | 74/4864 | 180/18723 | 6.33e-06 | 8.92e-05 | 74 |
GO:003424915 | Skin | cSCC | negative regulation of cellular amide metabolic process | 104/4864 | 273/18723 | 6.44e-06 | 9.00e-05 | 104 |
GO:000914225 | Skin | cSCC | nucleoside triphosphate biosynthetic process | 41/4864 | 85/18723 | 8.38e-06 | 1.12e-04 | 41 |
GO:003109924 | Skin | cSCC | regeneration | 79/4864 | 198/18723 | 1.18e-05 | 1.51e-04 | 79 |
GO:00091235 | Skin | cSCC | nucleoside monophosphate metabolic process | 37/4864 | 76/18723 | 1.75e-05 | 2.11e-04 | 37 |
GO:004851123 | Skin | cSCC | rhythmic process | 110/4864 | 298/18723 | 1.83e-05 | 2.19e-04 | 110 |
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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 |
hsa002405 | Esophagus | ESCC | Pyrimidine metabolism | 41/4205 | 58/8465 | 9.14e-04 | 2.92e-03 | 1.49e-03 | 41 |
hsa015232 | Esophagus | ESCC | Antifolate resistance | 22/4205 | 30/8465 | 7.23e-03 | 1.76e-02 | 8.99e-03 | 22 |
hsa0123212 | Esophagus | ESCC | Nucleotide metabolism | 59/4205 | 85/8465 | 1.67e-04 | 6.58e-04 | 3.37e-04 | 59 |
hsa0024012 | Esophagus | ESCC | Pyrimidine metabolism | 41/4205 | 58/8465 | 9.14e-04 | 2.92e-03 | 1.49e-03 | 41 |
hsa0152311 | Esophagus | ESCC | Antifolate resistance | 22/4205 | 30/8465 | 7.23e-03 | 1.76e-02 | 8.99e-03 | 22 |
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 |
hsa002403 | Liver | HCC | Pyrimidine metabolism | 44/4020 | 58/8465 | 9.34e-06 | 7.11e-05 | 3.95e-05 | 44 |
hsa012323 | Liver | HCC | Nucleotide metabolism | 59/4020 | 85/8465 | 3.30e-05 | 1.88e-04 | 1.04e-04 | 59 |
hsa012324 | Oral cavity | OSCC | Nucleotide metabolism | 54/3704 | 85/8465 | 1.78e-04 | 5.95e-04 | 3.03e-04 | 54 |
hsa002404 | Oral cavity | OSCC | Pyrimidine metabolism | 37/3704 | 58/8465 | 1.62e-03 | 4.45e-03 | 2.26e-03 | 37 |
hsa0123211 | Oral cavity | OSCC | Nucleotide metabolism | 54/3704 | 85/8465 | 1.78e-04 | 5.95e-04 | 3.03e-04 | 54 |
hsa0024011 | Oral cavity | OSCC | Pyrimidine metabolism | 37/3704 | 58/8465 | 1.62e-03 | 4.45e-03 | 2.26e-03 | 37 |
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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 |
TYMS | SNV | Missense_Mutation | c.604N>C | p.Tyr202His | p.Y202H | P04818 | protein_coding | deleterious(0.03) | possibly_damaging(0.83) | TCGA-EW-A1PD-01 | Breast | breast invasive carcinoma | Male | <65 | I/II | Chemotherapy | docetaxel | SD | |
TYMS | insertion | Nonsense_Mutation | novel | c.576_577insGGCTGGAGTGCAGTGGTGTGATCTCCGCTCACGGCAA | p.Pro193GlyfsTer7 | p.P193Gfs*7 | P04818 | protein_coding | TCGA-BH-A0B8-01 | Breast | breast invasive carcinoma | Female | <65 | I/II | Hormone Therapy | arimidex | SD | ||
TYMS | SNV | Missense_Mutation | c.687N>G | p.Ser229Arg | p.S229R | P04818 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-AA-3811-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | PD | |
TYMS | SNV | Missense_Mutation | c.700N>G | p.Thr234Ala | p.T234A | P04818 | protein_coding | deleterious(0.04) | benign(0.356) | TCGA-CA-6719-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD | |
TYMS | SNV | Missense_Mutation | c.197N>A | p.Ser66Asn | p.S66N | P04818 | protein_coding | tolerated(0.37) | benign(0.003) | TCGA-G4-6588-01 | Colorectum | colon adenocarcinoma | Female | <65 | I/II | Unknown | Unknown | SD | |
TYMS | SNV | Missense_Mutation | c.527N>A | p.Arg176Lys | p.R176K | P04818 | protein_coding | deleterious(0) | possibly_damaging(0.805) | TCGA-AH-6544-01 | Colorectum | rectum adenocarcinoma | Male | <65 | III/IV | Chemotherapy | oxaliplatin | SD | |
TYMS | deletion | Frame_Shift_Del | c.486_487delAA | p.Arg163SerfsTer3 | p.R163Sfs*3 | P04818 | protein_coding | TCGA-A6-2686-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD | |||
TYMS | SNV | Missense_Mutation | novel | c.724N>A | p.Gly242Ser | p.G242S | P04818 | protein_coding | deleterious(0.02) | benign(0.395) | TCGA-AX-A06F-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | carboplatin | SD |
TYMS | SNV | Missense_Mutation | novel | c.233G>A | p.Arg78His | p.R78H | P04818 | protein_coding | deleterious(0) | probably_damaging(0.972) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | PD |
TYMS | SNV | Missense_Mutation | novel | c.369C>A | p.Phe123Leu | p.F123L | P04818 | protein_coding | tolerated(1) | benign(0.017) | TCGA-AX-A2HC-01 | Endometrium | uterine corpus endometrioid carcinoma | Female | <65 | III/IV | Chemotherapy | paclitaxel | 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 |
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | inhibitor | CHEMBL1200373 | ||
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | CAPECITABINE | CAPECITABINE | ||
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | OSI-7904L | OSI-7904 | ||
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | irinotecan | IRINOTECAN | 21273624,16456808 | |
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | HYDROCORTISONE | HYDROCORTISONE | 2707640 | |
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | METHOTREXATE | METHOTREXATE | 23652803 | |
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | FLUOROURACIL | FLUOROURACIL | 24450514 | |
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | TEGAFUR | TEGAFUR | ||
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | PEMETREXED | PEMETREXED | ||
7298 | TYMS | ENZYME, DRUGGABLE GENOME, CLINICALLY ACTIONABLE, DRUG RESISTANCE | INDOMETHACIN | INDOMETHACIN | 2707640 |
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