Methotrexate_SW 1088 Gene Set

Dataset Tahoe Therapeutics Tahoe 100M Perturbation Atlas
Category transcriptomics
Type cell type
Description Methotrexate perturbation in SW 1088 cell line (Tahoe Therapeutics)
Similar Terms
Downloads & Tools

Genes

200 genes differentially expressed following the Methotrexate_SW 1088 drug perturbation from the Tahoe Therapeutics Tahoe 100M Perturbation Atlas dataset.

increased expression

Symbol Name Standardized Value
COL6A3 collagen, type VI, alpha 3 0.237777
FNDC3B fibronectin type III domain containing 3B 0.101922
PHLDA1 pleckstrin homology-like domain, family A, member 1 0.0932567
KMT2E lysine (K)-specific methyltransferase 2E 0.0815199
B2M beta-2-microglobulin 0.0813684
COL4A1 collagen, type IV, alpha 1 0.0812903
MYH9 myosin, heavy chain 9, non-muscle 0.0800356
ERRFI1 ERBB receptor feedback inhibitor 1 0.0780936
RNF145 ring finger protein 145 0.0716094
HYCC1 hyccin PI4KA lipid kinase complex subunit 1 0.0713289
LOXL2 lysyl oxidase-like 2 0.0685226
COL5A1 collagen, type V, alpha 1 0.0668299
DSCAM Down syndrome cell adhesion molecule 0.0665153
ARRDC3 arrestin domain containing 3 0.0627802
TENT5A terminal nucleotidyltransferase 5A 0.0622589
SLC4A7 solute carrier family 4, sodium bicarbonate cotransporter, member 7 0.0598072
IGFBP7 insulin-like growth factor binding protein 7 0.0592881
HSP90AB1 heat shock protein 90kDa alpha (cytosolic), class B member 1 0.0561344
ACTN1 actinin, alpha 1 0.0505512
HIF1A hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor) 0.0496184
AKAP9 A kinase (PRKA) anchor protein 9 0.049179
GSE1 Gse1 coiled-coil protein 0.0490413
NAV1 neuron navigator 1 0.0489766
RTN4 reticulon 4 0.0488637
TPM3 tropomyosin 3 0.0466169
DPYSL2 dihydropyrimidinase-like 2 0.044825
SCD stearoyl-CoA desaturase (delta-9-desaturase) 0.0441461
IQGAP1 IQ motif containing GTPase activating protein 1 0.0423788
PIAS1 protein inhibitor of activated STAT, 1 0.0419676
AKAP12 A kinase (PRKA) anchor protein 12 0.0416004
RAB8B RAB8B, member RAS oncogene family 0.0413268
SPRED2 sprouty-related, EVH1 domain containing 2 0.0407582
ATP13A3 ATPase type 13A3 0.0406064
FRMD4A FERM domain containing 4A 0.0405519
CALD1 caldesmon 1 0.0402227
AUTS2 autism susceptibility candidate 2 0.0398642
GBE1 glucan (1,4-alpha-), branching enzyme 1 0.039507
LAMC1 laminin, gamma 1 (formerly LAMB2) 0.0387598
CALR calreticulin 0.0386573
EEF2 eukaryotic translation elongation factor 2 0.0382837
MACF1 microtubule-actin crosslinking factor 1 0.0380514
MATR3 matrin 3 0.0378801
COL1A2 collagen, type I, alpha 2 0.0374153
UGCG UDP-glucose ceramide glucosyltransferase 0.0365875
ELL2 elongation factor, RNA polymerase II, 2 0.036393
ACTN4 actinin, alpha 4 0.0363852
CACUL1 CDK2-associated, cullin domain 1 0.0361004
ARB2A ARB2 cotranscriptional regulator A 0.0355282
YWHAQ tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, theta 0.0354642
UBC ubiquitin C 0.035356
MSN moesin 0.0350138
ACSL3 acyl-CoA synthetase long-chain family member 3 0.0346291
CHD9 chromodomain helicase DNA binding protein 9 0.0341705
PRKCA protein kinase C, alpha 0.0338437
MBD5 methyl-CpG binding domain protein 5 0.0337666
CALM2 calmodulin 2 (phosphorylase kinase, delta) 0.0336846
BRD4 bromodomain containing 4 0.0329129
AVL9 AVL9 homolog (S. cerevisiase) 0.0328735
MYLK myosin light chain kinase 0.0328065
FLNA filamin A, alpha 0.0322897
HUWE1 HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase 0.0315148
ZNF395 zinc finger protein 395 0.0313308
CSNK1A1 casein kinase 1, alpha 1 0.031185
SEC22A SEC22 vesicle trafficking protein homolog A (S. cerevisiae) 0.0307775
HNRNPR heterogeneous nuclear ribonucleoprotein R 0.030725
IST1 increased sodium tolerance 1 homolog (yeast) 0.0304197
PKM pyruvate kinase, muscle 0.0302791
SPARC secreted protein, acidic, cysteine-rich (osteonectin) 0.0301143
KCNMA1 potassium channel, calcium activated large conductance subfamily M alpha, member 1 0.0300441
SBF2 SET binding factor 2 0.0299654
AKAP13 A kinase (PRKA) anchor protein 13 0.0298747
ZBTB20 zinc finger and BTB domain containing 20 0.0298325
SLC2A1 solute carrier family 2 (facilitated glucose transporter), member 1 0.0297121
SLC20A1 solute carrier family 20 (phosphate transporter), member 1 0.0295059
GIGYF2 GRB10 interacting GYF protein 2 0.0293547
TXNL1 thioredoxin-like 1 0.0293384
SFPQ splicing factor proline/glutamine-rich 0.0289951
ZBTB1 zinc finger and BTB domain containing 1 0.0289201
VMP1 vacuole membrane protein 1 0.0287322
ANXA2 annexin A2 0.0286102
SYNGAP1 synaptic Ras GTPase activating protein 1 0.0285315
NIPSNAP2 nipsnap homolog 2 0.0281785
ATP2A2 ATPase, Ca++ transporting, cardiac muscle, slow twitch 2 0.0281552
WDR41 WD repeat domain 41 0.0279392
APLP2 amyloid beta (A4) precursor-like protein 2 0.0278932
THBS1 thrombospondin 1 0.0278865
DHFR dihydrofolate reductase 0.0278277
TAGLN2 transgelin 2 0.0278042
ZCCHC7 zinc finger, CCHC domain containing 7 0.0272447
UBE2D3 ubiquitin-conjugating enzyme E2D 3 0.0270538
TANK TRAF family member-associated NFKB activator 0.0270061
RAB31 RAB31, member RAS oncogene family 0.0268981
PSD3 pleckstrin and Sec7 domain containing 3 0.0268444
NAMPT nicotinamide phosphoribosyltransferase 0.0267714
PPP1R12A protein phosphatase 1, regulatory subunit 12A 0.0266509
TGFB2 transforming growth factor, beta 2 0.0266435
FERMT2 fermitin family member 2 0.0263471
BIRC2 baculoviral IAP repeat containing 2 0.0263066
ABLIM3 actin binding LIM protein family, member 3 0.0262153
BCAR3 breast cancer anti-estrogen resistance 3 0.0261884

decreased expression

Symbol Name Standardized Value
TIMP3 TIMP metallopeptidase inhibitor 3 -0.152499
HSPA5 heat shock 70kDa protein 5 (glucose-regulated protein, 78kDa) -0.129723
HSP90B1 heat shock protein 90kDa beta (Grp94), member 1 -0.128683
GAPDH glyceraldehyde-3-phosphate dehydrogenase -0.07453
TGFBI transforming growth factor, beta-induced, 68kDa -0.0738207
TMSB10 thymosin beta 10 -0.0659431
TMEM158 transmembrane protein 158 (gene/pseudogene) -0.0651695
HLA-B major histocompatibility complex, class I, B -0.0593065
SPDYA speedy/RINGO cell cycle regulator family member A -0.0497428
SERPINE2 serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 2 -0.0487837
ZMYND8 zinc finger, MYND-type containing 8 -0.0446164
CANX calnexin -0.0434369
CXCL8 chemokine (C-X-C motif) ligand 8 -0.0423916
P4HA2 prolyl 4-hydroxylase, alpha polypeptide II -0.0414974
RAD51B RAD51 paralog B -0.0409907
ZC3HAV1 zinc finger CCCH-type, antiviral 1 -0.040698
FBXO11 F-box protein 11 -0.0389529
SDC4 syndecan 4 -0.0378593
WSB1 WD repeat and SOCS box containing 1 -0.0359146
DPYD dihydropyrimidine dehydrogenase -0.0358211
SOD2 superoxide dismutase 2, mitochondrial -0.0348959
CA12 carbonic anhydrase XII -0.0340662
VDAC1 voltage-dependent anion channel 1 -0.0339165
FTL ferritin, light polypeptide -0.0333434
PLOD1 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 1 -0.0328793
GNB1 guanine nucleotide binding protein (G protein), beta polypeptide 1 -0.0327838
YWHAB tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, beta -0.0322763
ANLN anillin, actin binding protein -0.0318138
ARPC2 actin related protein 2/3 complex, subunit 2, 34kDa -0.0317831
TFPI2 tissue factor pathway inhibitor 2 -0.0315783
FNDC3A fibronectin type III domain containing 3A -0.031067
OSMR oncostatin M receptor -0.0299613
NAV2 neuron navigator 2 -0.0298369
BIRC6 baculoviral IAP repeat containing 6 -0.0293888
TIMP1 TIMP metallopeptidase inhibitor 1 -0.0293412
CLIC4 chloride intracellular channel 4 -0.0290278
CALU calumenin -0.0287181
FUS FUS RNA binding protein -0.0279594
CD55 CD55 molecule, decay accelerating factor for complement (Cromer blood group) -0.0267402
PTGS2 prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase) -0.0263935
RICTOR RPTOR independent companion of MTOR, complex 2 -0.0263078
IMMP2L IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae) -0.0262432
FN1 fibronectin 1 -0.026147
LPP LIM domain containing preferred translocation partner in lipoma -0.0260455
XPO1 exportin 1 -0.0260196
TPT1 tumor protein, translationally-controlled 1 -0.0257949
GOLGB1 golgin B1 -0.025443
SLC25A37 solute carrier family 25 (mitochondrial iron transporter), member 37 -0.0252403
PTPRM protein tyrosine phosphatase, receptor type, M -0.0252323
PRPF40A PRP40 pre-mRNA processing factor 40 homolog A (S. cerevisiae) -0.0251374
UBR5 ubiquitin protein ligase E3 component n-recognin 5 -0.0250413
RPS19 ribosomal protein S19 -0.0249905
HMGA2 high mobility group AT-hook 2 -0.0249489
ASCC3 activating signal cointegrator 1 complex subunit 3 -0.0248575
MKLN1 muskelin 1, intracellular mediator containing kelch motifs -0.0248285
RPS23 ribosomal protein S23 -0.0245687
VIM vimentin -0.0244726
COL6A2 collagen, type VI, alpha 2 -0.0238313
MAGT1 magnesium transporter 1 -0.0236548
TMEM263 transmembrane protein 263 -0.0234128
TMEM45A transmembrane protein 45A -0.0233998
FKBP10 FK506 binding protein 10, 65 kDa -0.023361
CDR2 cerebellar degeneration-related protein 2, 62kDa -0.023265
TRPC1 transient receptor potential cation channel, subfamily C, member 1 -0.0226385
SH3RF3 SH3 domain containing ring finger 3 -0.0225023
PTGES2 prostaglandin E synthase 2 -0.0224115
NRXN3 neurexin 3 -0.0224068
PAIP2 poly(A) binding protein interacting protein 2 -0.0223018
SENP6 SUMO1/sentrin specific peptidase 6 -0.0221492
SMURF2 SMAD specific E3 ubiquitin protein ligase 2 -0.0221189
FNIP1 folliculin interacting protein 1 -0.0213713
CHD6 chromodomain helicase DNA binding protein 6 -0.0213261
INTS6 integrator complex subunit 6 -0.0211521
ARHGAP12 Rho GTPase activating protein 12 -0.0211079
ATP2B1 ATPase, Ca++ transporting, plasma membrane 1 -0.0209445
MAML3 mastermind-like 3 (Drosophila) -0.0209263
MYO9A myosin IXA -0.0208708
HSP90AA1 heat shock protein 90kDa alpha (cytosolic), class A member 1 -0.0208327
JMJD1C jumonji domain containing 1C -0.0207978
HIP1 huntingtin interacting protein 1 -0.0207666
SEC63 SEC63 homolog (S. cerevisiae) -0.0206546
CKAP4 cytoskeleton-associated protein 4 -0.0205823
RHOA ras homolog family member A -0.0205234
IL6ST interleukin 6 signal transducer -0.0204118
DHRSX dehydrogenase/reductase (SDR family) X-linked -0.0203839
TAX1BP1 Tax1 (human T-cell leukemia virus type I) binding protein 1 -0.0203199
OSBPL8 oxysterol binding protein-like 8 -0.0202986
HERC4 HECT and RLD domain containing E3 ubiquitin protein ligase 4 -0.0202464
PTPN14 protein tyrosine phosphatase, non-receptor type 14 -0.0202214
PLOD2 procollagen-lysine, 2-oxoglutarate 5-dioxygenase 2 -0.020037
BRIP1 BRCA1 interacting protein C-terminal helicase 1 -0.0200292
UMAD1 UBAP1-MVB12-associated (UMA) domain containing 1 -0.0199753
TRPC4AP transient receptor potential cation channel, subfamily C, member 4 associated protein -0.0199074
PRKRIP1 PRKR interacting protein 1 (IL11 inducible) -0.0198779
RPS27A ribosomal protein S27a -0.0198733
USO1 USO1 vesicle transport factor -0.0198677
SUCLG2 succinate-CoA ligase, GDP-forming, beta subunit -0.0198008
UBE2K ubiquitin-conjugating enzyme E2K -0.0197676
IGFBP3 insulin-like growth factor binding protein 3 -0.0197606
SOX5 SRY (sex determining region Y)-box 5 -0.0197556