Skip to main content

Advertisement

Table 2 Evaluation of metabolite pathways in breast cancer and the corresponding normal breast tissue samples

From: Differences in elongation of very long chain fatty acids and fatty acid metabolism between triple-negative and hormone receptor-positive breast cancer

A
Pathway Biochemical name Log2-fold (Breast cancer/Normal breast) p-value FDR-adjusted p-value
Glycolysis G1P (glucose-1-phosphate) −0.280 0.261 0.315
G6P (Glucose-6-phosphate) −0.370 0.065 0.076
F6P (Fructose-6-phosphate) −0.071 0.837 0.809
FBP (fructose-1,6-bisphosphate) 0.190 0.470 0.688
GAP (Glyceraldehyde-3-phosphate) −0.261 0.163 0.327
PEP (Phosphoenol-pyruvate) 0.087 0.925 0.829
Pyruvic acid −0.058 0.487 0.788
Lactic acid 1.828 <0.0001 <0.0001
TCA cycle Pyruvic acid −0.058 0.487 0.788
Lactic acid 1.828 <0.0001 <0.0001
Acetyl-CoA 0.043 0.921 0.902
Oxaloacetic acid −0.364 0.134 0.031
Citric acid −0.009 0.307 0.962
cis-Aconitic acid 1.028 <0.0001 <0.0001
Isocitric acid 0.382 0.016 0.036
2-Ketoglutaric acid −0.791 <0.0001 <0.0001
Succinic acid −0.954 <0.0001 <0.0001
Fumaric acid 0.071 0.617 0.789
Malic acid 0.103 0.436 0.660
Glutamine pathway L-Glutamate 1.404 <0.0001 <0.0001
L-Glutamine 1.650 <0.0001 <0.0001
GABA 0.109 0.890 0.696
Choline pathway Choline 0.913 <0.0001 <0.0001
Phosphocholine 2.784 <0.0001 <0.0001
Betaine 2.256 <0.0001 <0.0001
Urea cycle L-Asparate 0.636 <0.0001 <0.0001
Fumaric acid 0.071 0.617 0.787
L-Arginine 1.314 <0.0001 <0.0001
L-Ornithine −0.120 0.766 0.660
L-Citrulline 0.925 <0.0001 <0.0001
Uric Acid −0.073 0.185 0.667
Tryptophan cycle L-Tryptophan −0.792 <0.0001 <0.0001
L-Kynurenine −0.079 0.404 0.754
Anthranilic acid −0.313 0.291 0.372
Glutathione cycle GSH 0.732 0.012 0.017
GSSG −0.148 0.505 0.705
gamma-L-Glutamylcysteine 0.084 0.800 0.799
Glycine 2.388 <0.0001 <0.0001
L-Cysteine 0.271 0.065 0.150
Purine pathway Guanine 0.093 0.355 0.688
Guanosine 1.449 <0.0001 <0.0001
Hypoxanthine 1.448 <0.0001 <0.0001
Xanthine 0.165 0.315 0.447
Adenine −0.027 0.837 0.9480
Adenosine 0.301 0.035 0.200
Pyrimidine pathway Cytidine −0.073 0.660 0.787
Cytosine + Histamine −0.213 0.212 0.269
beta-Alanine 1.664 <0.0001 <0.0001
Thymine 0.043 0.908 0.910
Uridine 0.926 <0.0001 <0.0001
Amino acid metabolism Glycine 2.388 <0.0001 <0.0001
L-Arginine 1.314 <0.0001 <0.0001
L-Asparate 0.636 <0.0001 <0.0001
L-Asparagine 0.524 <0.0001 0.0025
L-Cysteine 0.271 0.065 0.150
L-Cystine −0.260 0.217 0.338
L-Lysine 1.203 <0.0001 <0.0001
L-Glutamine 1.650 <0.0001 <0.0001
L-Glutamate 1.404 <0.0001 <0.0001
L-Histidine 0.719 <0.0001 0.00080
L-Isoleucine 1.597 <0.0001 <0.0001
L-Leucine 1.386 <0.0001 <0.0001
L-Methionine 1.016 <0.0001 <0.0001
L-Phenylalanine 1.493 <0.0001 <0.0001
L-Proline 1.714 <0.0001 <0.0001
L-Serine 1.484 <0.0001 <0.0001
L-Threonine 1.261 <0.0001 <0.0001
L-Tryptophan −0.792 <0.0001 <0.0001
L-Tyrosine 1.271 <0.0001 <0.0001
L-Valine 1.267 <0.0001 <0.0001
B
Pathway Biochemical name Log2-fold (TN/EP + H-) p-value FDR-adjusted p-value
Glycolysis G1P (glucose-1-phosphate) 0.463 0.092 0.689
G6P (Glucose-6-phosphate) 0.090 0.685 0.931
F6P (Fructose-6-phosphate) 0.821 0.005 0.040
FBP (fructose-1,6-bisphosphate) −0.665 0.330 0.689
GAP (Glyceraldehyde-3-phosphate) 0.641 0.036 0.511
PEP (Phosphoenol-pyruvate) 0.743 0.095 0.643
Pyruvic acid −0.148 0.555 0.906
Lactic acid 0.302 0.272 0.689
TCA cycle Pyruvic acid −0.148 0.555 0.906
Lactic acid 0.302 0.272 0.689
Acetyl-CoA −0.140 0.883 0.931
Oxaloacetic acid 0.461 0.077 0.511
Citric acid −0.272 0.420 0.770
cis-Aconitic acid 0.200 0.474 0.781
Isocitric acid −0.058 0.598 0.937
2-Ketoglutaric acid 0.155 0.657 0.906
Succinic acid −0.825 0.011 0.511
Fumaric acid −0.277 0.419 0.707
Malic acid 0.330 0.228 0.689
Glutamine pathway L-Glutamate 0.557 0.005 0.045
L-Glutamine −0.281 0.242 0.689
GABA 0.483 0.007 0.689
Choline pathway Choline 0.491 0.041 0.511
Phosphocholine 0.032 0.779 0.937
Betaine −0.448 0.978 0.835
Urea cycle L-Asparate 0.091 0.697 0.931
Fumaric acid −0.277 0.419 0.707
L-Arginine −0.301 0.399 0.770
L-Ornithine −0.009 0.906 0.979
L-Citrulline 0.243 0.130 0.906
Uric Acid 0.221 0.305 0.906
Tryptophan cycle L-Tryptophan 0.182 0.182 0.906
L-Kynurenine 0.377 0.157 0.689
Anthranilic acid −1.492 0.020 0.066
Glutathione cycle GSH −0.488 0.291 0.770
GSSG 0.289 0.304 0.718
gamma-L-Glutamylcysteine −0.261 0.254 0.835
Glycine 0.333 0.144 0.689
L-Cysteine 0.379 0.102 0.689
Purine pathway Guanine −0.075 0.935 0.931
Guanosine −0.130 0.683 0.906
Hypoxanthine 0.277 0.201 0.689
Xanthine 0.046 0.978 0.937
Adenine −0.901 0.467 0.740
Adenosine −0.570 0.214 0.689
Pyrimidine pathway Cytidine −0.268 0.710 0.835
Cytosine + Histamine 0.212 0.493 0.835
beta-Alanine 0.078 0.618 0.931
Thymine −0.842 0.310 0.689
Uridine 0.111 0.697 0.906
Amino acid metabolism Glycine 0.333 0.144 0.689
L-Arginine −0.301 0.399 0.770
L-Asparate 0.091 0.697 0.931
L-Asparagine 0.008 0.849 0.979
L-Cysteine 0.379 0.102 0.689
L-Cystine 0.160 0.775 0.927
L-Lysine −0.058 0.964 0.937
L-Glutamine −0.281 0.242 0.689
L-Glutamate 0.557 0.005 0.045
L-Histidine 0.426 0.235 0.689
L-Isoleucine 0.172 0.177 0.931
L-Leucine 0.047 0.389 0.937
L-Methionine 0.128 0.257 0.931
L-Phenylalanine 0.046 0.508 0.937
L-Proline 0.085 0.474 0.937
L-Serine −0.042 0.935 0.937
L-Threonine 0.304 0.441 0.689
L-Tryptophan 0.182 0.182 0.906
L-Tyrosine 0.055 0.474 0.937
L-Valine 0.269 0.071 0.770
C
Pathway Biochemical name Log2-fold (TN/Normal breast) p-value FDR-adjusted p-value
Glycolysis G1P (glucose-1-phosphate) −0.428 0.594 0.510
G6P (Glucose-6-phosphate) −0.230 0.699 0.665
F6P (Fructose-6-phosphate) 0.394 0.357 0.422
FBP (fructose-1,6-bisphosphate) −0.606 0.835 0.607
GAP (Glyceraldehyde-3-phosphate) −0.006 0.939 0.990
PEP (Phosphoenol-pyruvate) 1.241 0.030 0.072
Pyruvic acid −0.231 0.341 0.656
Lactic acid 2.501 <0.0001 <0.0001
TCA cycle Pyruvic acid −0.231 0.341 0.656
Lactic acid 2.501 <0.0001 0.001
Acetyl-CoA 0.361 0.516 0.646
Oxaloacetic acid 0.112 0.840 0.821
Citric acid −0.104 0.665 0.856
cis-Aconitic acid 1.428 0.003 0.0060
Isocitric acid 0.669 0.479 0.248
2-Ketoglutaric acid −0.760 0.112 0.076
Succinic acid −1.624 0.003 0.0017
Fumaric acid −0.078 0.921 0.872
Malic acid 0.570 0.132 0.263
Glutamine pathway L-Glutamate 1.673 <0.0001 <0.0001
L-Glutamine 1.631 <0.0001 <0.0001
GABA 0.321 0.371 0.402
choline pathway Choline 1.493 0.002 0.0073
Phosphocholine 2.442 <0.0001 <0.0001
Betaine 2.357 <0.0001 0.011
Urea cycle L-Asparate 0.587 0.175 0.318
Fumaric acid −0.078 0.921 0.872
L-Arginine 0.917 0.006 0.027
L-Ornithine −0.515 0.471 0.340
L-Citrulline 1.217 <0.0001 0.010
Uric Acid −0.016 0.665 0.656
Tryptophan cycle L-Tryptophan −0.785 0.040 0.045
L-Kynurenine 0.194 0.559 0.713
Anthranilic acid −1.739 0.112 0.130
Glutathione cycle GSH 0.969 0.143 0.263
GSSG −0.443 0.188 0.327
gamma-L-Glutamylcysteine −0.436 0.270 0.646
Glycine 2.790 <0.0001 <0.0001
L-Cysteine 0.621 0.046 0.063
purine pathway Guanine 0.150 0.689 0.745
Guanosine 1.680 <0.0001 <0.0001
Hypoxanthine 2.389 <0.0001 <0.0001
Xanthine 0.079 0.708 0.872
Adenine −0.229 0.663 0.844
Adenosine −0.125 0.689 0.826
Pyrimidine pathway Cytidine −0.567 0.215 0.263
Cytosine + Histamine −0.343 0.373 0.452
beta-Alanine 1.814 <0.0001 <0.0001
Thymine −0.426 0.897 0.665
Uridine 1.072 0.012 0.028
Amino acid metabolism Glycine 2.790 <0.0001 <0.0001
L-Arginine 0.917 0.006 0.027
L-Asparate 0.587 0.175 0.318
L-Asparagine 0.809 0.035 0.064
L-Cysteine 0.621 0.046 0.063
L-Cystine −0.039 0.840 0.235
L-Lysine 1.094 0.012 0.021
L-Glutamine 1.631 <0.0001 <0.0001
L-Glutamate 1.673 <0.0001 <0.0001
L-Histidine 1.056 0.040 0.084
L-Isoleucine 1.723 <0.0001 0.00016
L-Leucine 1.479 0.003 0.0073
L-Methionine 1.219 0.006 0.0030
L-Phenylalanine 1.426 0.002 0.0099
L-Proline 2.017 0.002 0.0012
L-Serine 1.474 0.002 0.0079
L-Threonine 1.492 0.0011 0.0073
L-Tryptophan −0.785 0.040 0.035
L-Tyrosine 1.383 <0.0001 0.00026
L-Valine 1.458 <0.0001 0.00015
D
Pathway Biochemical name Log2-fold (EP + H-
/Normal breast)
p-value FDR-adjusted p-value
Glycolysis G1P (glucose-1-phosphate) −0.222 0.422 0.559
G6P (Glucose-6-phosphate) −0.404 0.131 0.083
F6P (Fructose-6-phosphate) −0.440 0.185 0.068
FBP (fructose-1,6-bisphosphate) 0.345 0.525 0.548
GAP (Glyceraldehyde-3-phosphate) −0.417 0.054 0.128
PEP (Phosphoenol-pyruvate) −0.113 0.653 0.814
Pyruvic acid −0.095 0.473 0.712
Lactic acid 1.683 <0.0001 <0.0001
TCA cycle Pyruvic acid −0.095 0.473 0.712
Lactic acid 1.683 <0.0001 <0.0001
Acetyl-CoA −0.055 0.804 0.866
Oxaloacetic acid −0.412 0.241 0.049
Citric acid 0.070 0.330 0.805
cis-Aconitic acid 0.884 <0.0001 <0.0001
Isocitric acid 0.377 0.044 0.078
2-Ketoglutaric acid −0.810 <0.0001 <0.0001
Succinic acid −0.720 <0.0001 <0.0001
Fumaric acid 0.079 0.982 0.775
Malic acid 0.045 0.997 0.854
Glutamine pathway L-Glutamate 1.266 <0.0001 <0.0001
L-Glutamine 1.719 <0.0001 <0.0001
GABA −0.058 0.171 0.854
choline pathway Choline 0.731 <0.0001 0.00033
Phosphocholine 2.218 <0.0001 <0.0001
Betaine 2.313 <0.0001 <0.0001
Urea cycle L-Asparate 0.658 0.0005 0.00065
Fumaric acid 0.079 0.982 0.775
L-Arginine 1.467 <0.0001 <0.0001
L-Ornithine −0.058 0.859 0.854
L-Citrulline 0.945 <0.0001 <0.0001
Uric Acid −0.146 0.131 0.775
Tryptophan cycle L-Tryptophan −0.946 <0.0001 <0.0001
L-Kynurenine −0.134 0.324 0.643
Anthranilic acid −0.287 0.442 0.567
Glutathione cycle GSH 0.645 0.126 0.078
GSSG −0.078 0.677 0.854
gamma-L-Glutamylcysteine 0.132 0.759 0.742
Glycine 2.290 <0.0001 <0.0001
L-Cysteine 0.228 0.213 0.364
purine pathway Guanine 0.204 0.131 0.406
Guanosine 1.444 <0.0001 <0.0001
Hypoxanthine 1.336 <0.0001 <0.0001
Xanthine 0.097 0.495 0.742
Adenine −0.120 0.738 0.805
Adenosine 0.555 0.012 0.032
Pyrimidine pathway Cytidine 0.016 0.965 0.941
Cytosine + Histamine −0.273 0.239 0.275
beta-Alanine 1.668 <0.0001 <0.0001
Thymine 0.034 0.970 0.935
Uridine 0.981 <0.0001 <0.0001
Amino acid metabolism Glycine 2.290 <0.0001 <0.0001
L-Arginine 1.467 <0.0001 <0.0001
L-Asparate 0.658 0.0005 0.00065
L-Asparagine 0.472 0.005 0.032
L-Cysteine 0.228 0.213 0.364
L-Cystine −0.298 0.274 0.495
L-Lysine 1.270 <0.0001 <0.0001
L-Glutamine 1.719 <0.0001 <0.0001
L-Glutamate 1.266 <0.0001 <0.0001
L-Histidine 0.763 <0.0001 <0.0001
L-Isoleucine 1.575 <0.0001 <0.0001
L-Leucine 1.366 <0.0001 <0.0001
L-Methionine 1.064 <0.0001 <0.0001
L-Phenylalanine 1.640 <0.0001 <0.0001
L-Proline 1.663 <0.0001 <0.0001
L-Serine 1.506 <0.0001 <0.0001
L-Threonine 1.313 <0.0001 <0.0001
L-Tryptophan −0.946 <0.0001 <0.0001
L-Tyrosine 1.270 <0.0001 <0.0001
L-Valine 1.245 <0.0001 <0.0001
  1. The levels of metabolites in the breast cancer tissue samples and the corresponding normal breast tissue samples were analyzed using LC/MS, and then evaluations based on the glycolytic pathway, TCA cycle, glutamine pathway, choline pathway, urea cycle, tryptophan cycle, glutathione cycle, purine pathway, pyrimidine pathway, and amino acid metabolism were evaluated. The results for each metabolite are shown as A: Log2-fold values for the breast cancer tissue samples vs. the corresponding normal breast tissue samples; B: Log2-fold values for the TN tumors vs. the EP + H- tumors; C: Log2-fold values for the TN tumors vs. the corresponding normal breast tissue samples; and D: Log2-fold values for the EP + H- tumors vs. the corresponding normal breast tissue samples. The Wilcoxon signed-rank test was used for comparisons of metabolite levels between the pairs of breast cancer tissue samples and normal breast tissue samples, and the Mann-Whitney U-test was used for comparison involving the metabolites that were not detected in the paired samples. The false discovery rate (FDR)-adjusted p values were also calculated