Methotrexate_NCI-H1792 Gene Set

Dataset Tahoe Therapeutics Tahoe 100M Perturbation Atlas
Category transcriptomics
Type cell type
Description Methotrexate perturbation in NCI-H1792 cell line (Tahoe Therapeutics)
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Genes

200 genes differentially expressed following the Methotrexate_NCI-H1792 drug perturbation from the Tahoe Therapeutics Tahoe 100M Perturbation Atlas dataset.

increased expression

Symbol Name Standardized Value
IGFBP3 insulin-like growth factor binding protein 3 0.122413
FAM20C family with sequence similarity 20, member C 0.0796195
SCD stearoyl-CoA desaturase (delta-9-desaturase) 0.0670775
SRGAP1 SLIT-ROBO Rho GTPase activating protein 1 0.063049
PCBP2 poly(rC) binding protein 2 0.062488
GRB10 growth factor receptor-bound protein 10 0.0617499
CAMK1D calcium/calmodulin-dependent protein kinase ID 0.0554893
AGAP1 ArfGAP with GTPase domain, ankyrin repeat and PH domain 1 0.0516159
ABCA1 ATP-binding cassette, sub-family A (ABC1), member 1 0.0504899
AKAP12 A kinase (PRKA) anchor protein 12 0.0502573
EFNA5 ephrin-A5 0.0498774
RAI14 retinoic acid induced 14 0.0498465
TRIO trio Rho guanine nucleotide exchange factor 0.047912
NHS Nance-Horan syndrome (congenital cataracts and dental anomalies) 0.0428645
SMAD3 SMAD family member 3 0.0425448
PTK2 protein tyrosine kinase 2 0.0399241
ITPR1 inositol 1,4,5-trisphosphate receptor, type 1 0.0398189
SLC5A3 solute carrier family 5 (sodium/myo-inositol cotransporter), member 3 0.0384661
ZEB2 zinc finger E-box binding homeobox 2 0.0377381
KANSL1 KAT8 regulatory NSL complex subunit 1 0.0349364
PYGL phosphorylase, glycogen, liver 0.0349034
AOPEP aminopeptidase O (putative) 0.033671
ETV6 ets variant 6 0.0326293
BHLHE40 basic helix-loop-helix family, member e40 0.0315968
LOXL2 lysyl oxidase-like 2 0.0314714
PFKFB3 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 3 0.0308686
HNRNPU heterogeneous nuclear ribonucleoprotein U (scaffold attachment factor A) 0.0307307
FAM13A family with sequence similarity 13, member A 0.0289646
SETD5 SET domain containing 5 0.0289577
DENND1A DENN/MADD domain containing 1A 0.0288988
RAB8B RAB8B, member RAS oncogene family 0.0280746
FMNL2 formin-like 2 0.0277512
MTSS1 metastasis suppressor 1 0.0276401
HIVEP2 human immunodeficiency virus type I enhancer binding protein 2 0.0274601
CSGALNACT1 chondroitin sulfate N-acetylgalactosaminyltransferase 1 0.0273967
RNF145 ring finger protein 145 0.0268824
SEPTIN9 septin 9 0.026838
AKAP13 A kinase (PRKA) anchor protein 13 0.0260416
RERE arginine-glutamic acid dipeptide (RE) repeats 0.0260204
PFKP phosphofructokinase, platelet 0.0255819
ITCH itchy E3 ubiquitin protein ligase 0.0248752
RNF24 ring finger protein 24 0.0247817
RUNX1 runt-related transcription factor 1 0.0246216
CDC73 cell division cycle 73 0.0242685
YEATS2 YEATS domain containing 2 0.0241847
RICTOR RPTOR independent companion of MTOR, complex 2 0.0238505
KYNU kynureninase 0.0237409
ZNRF1 zinc and ring finger 1, E3 ubiquitin protein ligase 0.0235691
BMERB1 bMERB domain containing 1 0.0234541
WAC WW domain containing adaptor with coiled-coil 0.0232227
MYO1B myosin IB 0.0227738
MEF2A myocyte enhancer factor 2A 0.0224947
MINDY2 MINDY lysine 48 deubiquitinase 2 0.0224175
PALM2AKAP2 PALM2 and AKAP2 fusion 0.02215
NFATC2 nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 2 0.0221359
ESYT2 extended synaptotagmin-like protein 2 0.0218296
CD55 CD55 molecule, decay accelerating factor for complement (Cromer blood group) 0.0214868
RPS18 ribosomal protein S18 0.0212415
SHB Src homology 2 domain containing adaptor protein B 0.0210378
RUNX2 runt-related transcription factor 2 0.0210052
SVIL supervillin 0.0209897
ADD3 adducin 3 (gamma) 0.0208238
NEDD4L neural precursor cell expressed, developmentally down-regulated 4-like, E3 ubiquitin protein ligase 0.0206267
EPS8 epidermal growth factor receptor pathway substrate 8 0.0205962
ATP13A3 ATPase type 13A3 0.0205164
BACE2 beta-site APP-cleaving enzyme 2 0.0205035
LAMC1 laminin, gamma 1 (formerly LAMB2) 0.0201033
TGM2 transglutaminase 2 0.0200238
PDGFC platelet derived growth factor C 0.0200081
RPL3 ribosomal protein L3 0.0199456
MAFK v-maf avian musculoaponeurotic fibrosarcoma oncogene homolog K 0.0198636
LHFPL2 lipoma HMGIC fusion partner-like 2 0.019778
FNDC3B fibronectin type III domain containing 3B 0.019558
ARHGAP5 Rho GTPase activating protein 5 0.0195079
NGLY1 N-glycanase 1 0.0194542
SGIP1 SH3-domain GRB2-like (endophilin) interacting protein 1 0.0193647
PICALM phosphatidylinositol binding clathrin assembly protein 0.019173
PITPNC1 phosphatidylinositol transfer protein, cytoplasmic 1 0.019115
HTRA3 HtrA serine peptidase 3 0.0189115
IL1RAP interleukin 1 receptor accessory protein 0.0186102
NRG1 neuregulin 1 0.0184975
DST dystonin 0.0183592
PIAS2 protein inhibitor of activated STAT, 2 0.0183429
ZNF609 zinc finger protein 609 0.0180339
SEMA4B sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B 0.0180195
BIRC6 baculoviral IAP repeat containing 6 0.0180152
SLC44A1 solute carrier family 44 (choline transporter), member 1 0.0180056
BMPR2 bone morphogenetic protein receptor, type II (serine/threonine kinase) 0.0179077
MRPS6 mitochondrial ribosomal protein S6 0.0177967
SNTB1 syntrophin, beta 1 (dystrophin-associated protein A1, 59kDa, basic component 1) 0.0176647
PTGIS prostaglandin I2 (prostacyclin) synthase 0.0175549
PFKFB4 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 4 0.0175076
HERC4 HECT and RLD domain containing E3 ubiquitin protein ligase 4 0.017455
LRRC8C leucine rich repeat containing 8 family, member C 0.0174527
DLGAP4 discs, large (Drosophila) homolog-associated protein 4 0.0172146
CEP250 centrosomal protein 250kDa 0.0171522
UBE2H ubiquitin-conjugating enzyme E2H 0.017089
ZBTB1 zinc finger and BTB domain containing 1 0.0168416
SSH2 slingshot protein phosphatase 2 0.0166913
UBR5 ubiquitin protein ligase E3 component n-recognin 5 0.0166734

decreased expression

Symbol Name Standardized Value
GAPDH glyceraldehyde-3-phosphate dehydrogenase -0.329896
VIM vimentin -0.221886
TMSB10 thymosin beta 10 -0.154312
HSP90B1 heat shock protein 90kDa beta (Grp94), member 1 -0.11854
UBC ubiquitin C -0.105406
HSPA5 heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) -0.0885578
MT2A metallothionein 2A -0.0848036
FTL ferritin, light polypeptide -0.0831459
CXCL8 chemokine (C-X-C motif) ligand 8 -0.082992
P4HB prolyl 4-hydroxylase, beta polypeptide -0.0812016
TPT1 tumor protein, translationally-controlled 1 -0.0661881
CD44 CD44 molecule (Indian blood group) -0.0611162
RPLP1 ribosomal protein, large, P1 -0.0580797
PDIA3 protein disulfide isomerase family A, member 3 -0.0508719
IER3 immediate early response 3 -0.0491894
RPL23 ribosomal protein L23 -0.0483296
B2M beta-2-microglobulin -0.0477445
TIMP1 TIMP metallopeptidase inhibitor 1 -0.0474763
PTMA prothymosin, alpha -0.0458289
PABPC1 poly(A) binding protein, cytoplasmic 1 -0.0454132
RAB1A RAB1A, member RAS oncogene family -0.0445212
NDRG1 N-myc downstream regulated 1 -0.0435973
PKM pyruvate kinase, muscle -0.0429098
NAP1L1 nucleosome assembly protein 1-like 1 -0.042162
RPS8 ribosomal protein S8 -0.0416377
ENO1 enolase 1, (alpha) -0.0415782
RPLP0 ribosomal protein, large, P0 -0.040982
DDIT3 DNA-damage-inducible transcript 3 -0.039841
RPLP2 ribosomal protein, large, P2 -0.0389805
POTEF POTE ankyrin domain family, member F -0.038952
LDHA lactate dehydrogenase A -0.0382479
RPS24 ribosomal protein S24 -0.0382448
CALR calreticulin -0.0378306
TM4SF1 transmembrane 4 L six family member 1 -0.0369369
MAP4K4 mitogen-activated protein kinase kinase kinase kinase 4 -0.0367797
TFPI2 tissue factor pathway inhibitor 2 -0.0362456
RPL32 ribosomal protein L32 -0.0345142
ASPH aspartate beta-hydroxylase -0.0344965
MARCKS myristoylated alanine-rich protein kinase C substrate -0.0336345
SLC38A2 solute carrier family 38, member 2 -0.0334111
RPS12 ribosomal protein S12 -0.0331032
RPS19 ribosomal protein S19 -0.0326238
RPS27A ribosomal protein S27a -0.0322976
RAB27B RAB27B, member RAS oncogene family -0.0322176
RPL19 ribosomal protein L19 -0.0318501
TXNRD1 thioredoxin reductase 1 -0.0316911
ACTG1 actin gamma 1 -0.0314065
SERPINE1 serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 1 -0.0313344
IFI6 interferon, alpha-inducible protein 6 -0.0312974
KLF6 Kruppel-like factor 6 -0.0309857
RPS6 ribosomal protein S6 -0.030892
RPL9 ribosomal protein L9 -0.0308503
RPL37 ribosomal protein L37 -0.0307465
TMSB4X thymosin beta 4, X-linked -0.0304574
TMEM263 transmembrane protein 263 -0.0303239
HSP90AA1 heat shock protein 90kDa alpha (cytosolic), class A member 1 -0.0293501
IFI16 interferon, gamma-inducible protein 16 -0.0292131
LMAN1 lectin, mannose-binding, 1 -0.0291047
RPL28 ribosomal protein L28 -0.0285668
CDCP1 CUB domain containing protein 1 -0.0284174
RPL12 ribosomal protein L12 -0.0280949
EIF3B eukaryotic translation initiation factor 3, subunit B -0.0279132
S100A10 S100 calcium binding protein A10 -0.0278848
CCNI cyclin I -0.0273677
PFN1 profilin 1 -0.0272645
RPS29 ribosomal protein S29 -0.0270924
HSP90AB1 heat shock protein 90kDa alpha (cytosolic), class B member 1 -0.0269478
SOS1 son of sevenless homolog 1 (Drosophila) -0.0269276
MAP1LC3B microtubule-associated protein 1 light chain 3 beta -0.0265787
RPL35A ribosomal protein L35a -0.0264303
DCBLD2 discoidin, CUB and LCCL domain containing 2 -0.0262574
RPL37A ribosomal protein L37a -0.0259494
RPS3 ribosomal protein S3 -0.0258288
S100A6 S100 calcium binding protein A6 -0.0257019
RPS11 ribosomal protein S11 -0.0255013
RPS21 ribosomal protein S21 -0.0254425
RPL7A ribosomal protein L7a -0.0250731
DTNA dystrobrevin, alpha -0.0250562
CALU calumenin -0.0245992
LOC112694756 uncharaterized LOC112694756 -0.0244316
IL6ST interleukin 6 signal transducer -0.0242562
PDIA4 protein disulfide isomerase family A, member 4 -0.0242494
YWHAB tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta -0.0242381
RPL34 ribosomal protein L34 -0.0240486
PNRC1 proline-rich nuclear receptor coactivator 1 -0.023609
EIF4A1 eukaryotic translation initiation factor 4A1 -0.023452
GOLGA4 golgin A4 -0.0232748
TAX1BP1 Tax1 (human T-cell leukemia virus type I) binding protein 1 -0.0232561
NUCKS1 nuclear casein kinase and cyclin-dependent kinase substrate 1 -0.0229339
ACTR2 ARP2 actin-related protein 2 homolog (yeast) -0.0228338
NCOA7 nuclear receptor coactivator 7 -0.0227829
AHNAK AHNAK nucleoprotein -0.0226845
ARL6IP1 ADP-ribosylation factor-like 6 interacting protein 1 -0.0225983
RPS23 ribosomal protein S23 -0.0225717
JUN jun proto-oncogene -0.0223552
EMP1 epithelial membrane protein 1 -0.0219844
ATP2A2 ATPase, Ca++ transporting, cardiac muscle, slow twitch 2 -0.0219769
PHLDA1 pleckstrin homology-like domain, family A, member 1 -0.0217436
HLA-A major histocompatibility complex, class I, A -0.0217287
ABL2 ABL proto-oncogene 2, non-receptor tyrosine kinase -0.0217114