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Table 2 Pathway enrichment of the up-regulated differentially expressed genes

From: Identification of genes associated with methotrexate resistance in methotrexate-resistant osteosarcoma cell lines

Pathway Term Name Count Gene symbol p value
KEGG pathway 970 Aminoacyl-tRNA biosynthesis 12 AARS, PARS2, TARS, YARS, … 6.95E−07
260 Glycine, serine, and threonine metabolism 5 CBS, CTH, PHGDH, PSAT1, SHMT2 3.5E−03
532 Glycosaminoglycan biosynthesis-chondroitin sulfate 4 CHPF, CHST15, UST, XYLT1 5.2E−03
565 Ether lipid metabolism 5 ENPP2, LPCAT1, PLA2G12A, PLA2G4A, PPAP2B 6.0E−03
REACTOME pathway (top ten terms) 379716 Cytosolic tRNA aminoacylation 10 AARS, PARS2, TARS, YARS, … 1.50E−09
379724 tRNA aminoacylation 12 AARS, PARS2, TARS, YARS, … 5.17E−09
352230 Amino acid transport across the plasma membrane 8 SLC1A4, SLC1A5, SLC3A2, SLC7A5, … 4.75E−06
425374 Amino acid and oligopeptide SLC transporters 9 SLC1A4, SLC1A5, SLC3A2, SLC7A5, … 2.39E−05
380994 Activation of genes by ATF4 4 ASNS, ATF3, DDIT3, HERPUD1 3.61E−05
70614 Amino acid synthesis and interconversion (transamination) 5 ASNS, GLS, GPT2, PHGDH, PSAT1 0.000160459
381042 PERK regulated gene expression 4 ASNS, ATF3, DDIT3, HERPUD1 4.48E−04
1614603 Cysteine formation from homocysteine 2 CBS, CTH 1.1E−03
73943 Reversal of alkylation damage by DNA dioxygenases 2 ALKBH2, ALKBH3 1.1E−03
73942 DNA damage reversal 2 ALKBH2, ALKBH3 3.1E−03
  1. KEGG Kyoto Encyclopedia of Genes and Genomes