PHGDH Gene Set

Dataset CM4AI KOLF21J CRISPRi Gene Perturbation Atlas
Category transcriptomics
Type gene perturbation
Description phosphoglycerate dehydrogenase|This gene encodes the enzyme which is involved in the early steps of L-serine synthesis in animal cells. L-serine is required for D-serine and other amino acid synthesis. The enzyme requires NAD/NADH as a cofactor and forms homotetramers for activity. Mutations in this gene have been found in a family with congenital microcephaly, psychomotor retardation and other symptoms. Multiple alternatively spliced transcript variants have been found, however the full-length nature of most are not known. [provided by RefSeq, Aug 2011] (NCBI Entrez Gene Database, 26227)
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Genes

312 genes differentially expressed following the PHGDH gene perturbation from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas.

increased expression

Symbol Name Standardized Value
IRX5 iroquois homeobox 5 3.17531
TMEM176A transmembrane protein 176A 3.17531
TXLNB taxilin beta 3.17531
GPR12 G protein-coupled receptor 12 3.17531
TNR tenascin R 3.17531
PTGER3 prostaglandin E receptor 3 (subtype EP3) 3.17531
PSMA8 proteasome (prosome, macropain) subunit, alpha type, 8 3.17531
LRG1 leucine-rich alpha-2-glycoprotein 1 3.17531
LRRC72 leucine rich repeat containing 72 3.17531
FRK fyn-related Src family tyrosine kinase 3.17531
FGF10 fibroblast growth factor 10 3.17531
NXPH3 neurexophilin 3 3.17531
SKOR2 SKI family transcriptional corepressor 2 3.17531
LPA lipoprotein, Lp(a) 3.17531
UCN urocortin 3.17531
H2BC3 H2B clustered histone 3 3.17531
ERMN ermin, ERM-like protein 3.17531
UMOD uromodulin 3.1751
PDIA2 protein disulfide isomerase family A, member 2 3.1751
FGF21 fibroblast growth factor 21 3.1751
RRAD Ras-related associated with diabetes 3.1751
MS4A4E membrane-spanning 4-domains, subfamily A, member 4E 3.1751
SLC26A4 solute carrier family 26 (anion exchanger), member 4 3.1751
XAF1 XIAP associated factor 1 3.1751
UGT1A9 UDP glucuronosyltransferase 1 family, polypeptide A9 3.1751
IGFL3 IGF-like family member 3 3.1751
OR4M2 olfactory receptor, family 4, subfamily M, member 2 3.1751
OR52A5 olfactory receptor, family 52, subfamily A, member 5 3.1751
PPBP pro-platelet basic protein (chemokine (C-X-C motif) ligand 7) 3.1751
OR2J2 olfactory receptor, family 2, subfamily J, member 2 3.1751
ZNF804B zinc finger protein 804B 3.1751
SERTM1 serine-rich and transmembrane domain containing 1 3.1751
MPP4 membrane protein, palmitoylated 4 (MAGUK p55 subfamily member 4) 3.1751
RNF133 ring finger protein 133 3.1751
SMCO1 single-pass membrane protein with coiled-coil domains 1 3.1751
CAPS calcyphosine 3.1751
AVP arginine vasopressin 3.1751
LRRC61 leucine rich repeat containing 61 3.1751
NPIPA8 nuclear pore complex interacting protein family, member A8 3.1751
SPDYE11 speedy/RINGO cell cycle regulator family member E11 3.1751
CLEC5A C-type lectin domain family 5, member A 3.1751
LCN15 lipocalin 15 3.1751
LCN12 lipocalin 12 3.1751
GMFG glia maturation factor, gamma 3.1751
RPL3L ribosomal protein L3-like 3.1751
OLIG2 oligodendrocyte lineage transcription factor 2 3.1751
OLIG3 oligodendrocyte transcription factor 3 3.1751
SLC10A6 solute carrier family 10 (sodium/bile acid cotransporter), member 6 3.1751
LOC107986837 uncharacterized LOC107986837 3.1751
AVPR1B arginine vasopressin receptor 1B 3.1751
ST6GALNAC2 ST6 (alpha-N-acetyl-neuraminyl-2,3-beta-galactosyl-1,3)-N-acetylgalactosaminide alpha-2,6-sialyltransferase 2 3.1751
TRPC7 transient receptor potential cation channel, subfamily C, member 7 3.1751
RD3 retinal degeneration 3 3.1751
ASB11 ankyrin repeat and SOCS box containing 11, E3 ubiquitin protein ligase 3.1751
KRT86 keratin 86, type II 3.1751
TNFSF8 tumor necrosis factor (ligand) superfamily, member 8 3.1751
DOK7 docking protein 7 3.1751
MCHR2 melanin-concentrating hormone receptor 2 3.1751
TLE7 TLE family member 7 3.1751
GASK1B golgi associated kinase 1B 3.1751
LNC-LBCS lncRNA bladder and prostate cancer suppressor, hnRNPK interacting 3.1751
C17ORF113 chromosome 17 open reading frame 113 3.1751
H4C12 H4 clustered histone 12 3.1751
LHFPL7 LHFPL tetraspan subfamily member 7 3.1751
CFAP107 cilia and flagella associated protein 107 3.1751
GARIN6 golgi associated RAB2 interactor family member 6 3.1751
ELOA2 elongin A2 3.1751
CFAP157 cilia and flagella associated protein 157 3.1751
CNTN6 contactin 6 3.1751
SMCP sperm mitochondria-associated cysteine-rich protein 3.1751
GPR132 G protein-coupled receptor 132 3.1751
TAS2R5 taste receptor, type 2, member 5 3.1751
HNF4A hepatocyte nuclear factor 4, alpha 3.1751
NTRK1 neurotrophic tyrosine kinase, receptor, type 1 3.1751
TSSK4 testis-specific serine kinase 4 3.1751
FOXL1 forkhead box L1 3.1751
SIX2 SIX homeobox 2 3.1751
FAM187B family with sequence similarity 187, member B 3.1751
LAPTM5 lysosomal protein transmembrane 5 3.1751
SLC22A11 solute carrier family 22 (organic anion/urate transporter), member 11 3.1751
LOC124906892 uncharacterized LOC124906892 3.1751
FAM153A family with sequence similarity 153, member A 3.1751
SLC12A3 solute carrier family 12 (sodium/chloride transporter), member 3 3.1751
PRR18 proline rich 18 3.1751
APOBEC4 apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 4 (putative) 3.1751
TLR4 toll-like receptor 4 3.1751
LRIT3 leucine-rich repeat, immunoglobulin-like and transmembrane domains 3 3.1751
OR51B5 olfactory receptor, family 51, subfamily B, member 5 3.1751
VSX2 visual system homeobox 2 3.1751
KLHL30 kelch-like family member 30 3.1751
MYBPHL myosin binding protein H-like 3.1751
FGB fibrinogen beta chain 3.1751
ITGBL1 integrin, beta-like 1 (with EGF-like repeat domains) 3.1751
VAX1 ventral anterior homeobox 1 3.1751
APOB apolipoprotein B 3.1751
SIGLEC15 sialic acid binding Ig-like lectin 15 3.1751
SMIM22 small integral membrane protein 22 3.1751
OTOP2 otopetrin 2 3.1751
KIF4B kinesin family member 4B 3.1751
RSAD2 radical S-adenosyl methionine domain containing 2 3.1751
KMO kynurenine 3-monooxygenase (kynurenine 3-hydroxylase) 3.1751
FZD1 frizzled class receptor 1 3.1751
WDFY4 WDFY family member 4 3.1751
ACKR1 atypical chemokine receptor 1 (Duffy blood group) 3.1751
ACKR3 atypical chemokine receptor 3 3.1751
ABCA10 ATP-binding cassette, sub-family A (ABC1), member 10 3.1751
NUTM2A NUT family member 2A 3.1751
LRRC43 leucine rich repeat containing 43 3.1751
DMRT1 doublesex and mab-3 related transcription factor 1 3.1751
HOPX HOP homeobox 3.1751
CHI3L2 chitinase 3-like 2 3.1751
TEX19 testis expressed 19 3.1751
DNTT DNA nucleotidylexotransferase 3.1751
LMOD3 leiomodin 3 (fetal) 3.1751
PLA2G4E phospholipase A2, group IVE 3.1751
KRT222 keratin 222, type II 3.1751
C11ORF91 chromosome 11 open reading frame 91 3.1751
ITGB3 integrin, beta 3 (platelet glycoprotein IIIa, antigen CD61) 3.1751
ZBP1 Z-DNA binding protein 1 3.1751
CNTF ciliary neurotrophic factor 3.1751
BRDT bromodomain, testis-specific 3.1751
CH25H cholesterol 25-hydroxylase 3.1751
DNAJB13 DnaJ (Hsp40) homolog, subfamily B, member 13 3.1751
TMEM132E transmembrane protein 132E 3.1751
EPO erythropoietin 3.1751
GPBAR1 G protein-coupled bile acid receptor 1 3.1751
TWIST1 twist family bHLH transcription factor 1 3.1751
CXORF58 chromosome X open reading frame 58 3.1751
CD33 CD33 molecule 3.1751
OR6B1 olfactory receptor, family 6, subfamily B, member 1 3.1751
MMEL1 membrane metallo-endopeptidase-like 1 3.1751
TCN1 transcobalamin I (vitamin B12 binding protein, R binder family) 3.1751
KIF12 kinesin family member 12 3.1751
NEUROD4 neuronal differentiation 4 3.1751
FOXG1 forkhead box G1 3.1751
ALLC allantoicase 3.1751
ORM2 orosomucoid 2 3.1751
LHX5 LIM homeobox 5 3.1751
HHIPL2 HHIP-like 2 3.1751
DDX4 DEAD (Asp-Glu-Ala-Asp) box polypeptide 4 3.1751
IGLL1 immunoglobulin lambda-like polypeptide 1 3.1751
POTEE POTE ankyrin domain family, member E 3.1751
BTG4 B-cell translocation gene 4 3.1751
PTPN7 protein tyrosine phosphatase, non-receptor type 7 3.1751
ZNF768 zinc finger protein 768 2.7915
TPRG1L tumor protein p63 regulated 1-like 2.73687
PCDHA12 protocadherin alpha 12 2.71594
SLC22A4 solute carrier family 22 (organic cation/zwitterion transporter), member 4 2.65906
FKBP3 FK506 binding protein 3, 25kDa 2.64023
PRTFDC1 phosphoribosyl transferase domain containing 1 2.59275
PDZD11 PDZ domain containing 11 2.58925
CLCN1 chloride channel, voltage-sensitive 1 2.54349
SPDEF SAM pointed domain containing ETS transcription factor 2.54349
TNFSF13B tumor necrosis factor (ligand) superfamily, member 13b 2.54252
IGF1R insulin-like growth factor 1 receptor 2.46968
MAP1LC3B2 microtubule-associated protein 1 light chain 3 beta 2 2.46968
RTN4 reticulon 4 2.46298
TMEM213 transmembrane protein 213 2.46214
TOE1 target of EGR1, member 1 (nuclear) 2.46214
GALNT6 polypeptide N-acetylgalactosaminyltransferase 6 2.4482
PAXBP1 PAX3 and PAX7 binding protein 1 2.41904
INPP5D inositol polyphosphate-5-phosphatase, 145kDa 2.37625
ERCC1 excision repair cross-complementation group 1 2.36744
FMO5 flavin containing monooxygenase 5 2.36592
AGT angiotensinogen (serpin peptidase inhibitor, clade A, member 8) 2.33293
PHF23 PHD finger protein 23 2.28074
NDUFC2 NADH dehydrogenase (ubiquinone) 1, subcomplex unknown, 2, 14.5kDa 2.27096
CALHM2 calcium homeostasis modulator 2 2.27096
YIPF2 Yip1 domain family, member 2 2.25903
FAM3D family with sequence similarity 3, member D 2.24202
SDSL serine dehydratase-like 2.24202
ANKRD53 ankyrin repeat domain 53 2.24202
CLIC2 chloride intracellular channel 2 2.24202
STK36 serine/threonine kinase 36 2.24144
PFKFB2 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2 2.23422
ACSL3 acyl-CoA synthetase long-chain family member 3 2.21251
SMIM17 small integral membrane protein 17 2.21251
CNR1 cannabinoid receptor 1 (brain) 2.21251
TMEM190 transmembrane protein 190 2.21251
SLC16A11 solute carrier family 16, member 11 2.21251
ATF7IP activating transcription factor 7 interacting protein 2.21251
CFAP53 cilia and flagella associated protein 53 2.21251
MYPOP Myb-related transcription factor, partner of profilin 2.18899
SNAP29 synaptosomal-associated protein, 29kDa 2.18679
COX4I1 cytochrome c oxidase subunit IV isoform 1 2.18679
PSMB3 proteasome (prosome, macropain) subunit, beta type, 3 2.18248
PCYOX1L prenylcysteine oxidase 1 like 2.17991
AKIRIN2 akirin 2 2.17937
RHOG ras homolog family member G 2.17937
LIG3 ligase III, DNA, ATP-dependent 2.17937
ZNF653 zinc finger protein 653 2.1773
STRA6 stimulated by retinoic acid 6 2.1773
DDX59 DEAD (Asp-Glu-Ala-Asp) box polypeptide 59 2.17349
MIPEP mitochondrial intermediate peptidase 2.17306
PACC1 proton activated chloride channel 1 2.16316
FHAD1 forkhead-associated (FHA) phosphopeptide binding domain 1 2.14965
RNF212 ring finger protein 212 2.13266
KAT8 K(lysine) acetyltransferase 8 2.12644
PLXNB2 plexin B2 2.12284
SMIM10 small integral membrane protein 10 2.11589
ATG12 autophagy related 12 2.10407
DNAJB12 DnaJ (Hsp40) homolog, subfamily B, member 12 2.10093
TRPT1 tRNA phosphotransferase 1 2.07059
TMEM171 transmembrane protein 171 2.07022
RNASEK ribonuclease, RNase K 2.04702
LDAF1 lipid droplet assembly factor 1 2.03842
POFUT3 protein O-fucosyltransferase 3 2.03752
TRIM28 tripartite motif containing 28 2.03752

decreased expression

Symbol Name Standardized Value
GUCY2D guanylate cyclase 2D, membrane (retina-specific) -3.17531
SUSD2 sushi domain containing 2 -3.17531
TUBA4B tubulin, alpha 4b -3.17531
ADGRD1 adhesion G protein-coupled receptor D1 -3.17531
HSD11B1 hydroxysteroid (11-beta) dehydrogenase 1 -3.17531
TGFBR2 transforming growth factor, beta receptor II (70/80kDa) -3.1751
TTLL4 tubulin tyrosine ligase-like family member 4 -3.1751
MMP26 matrix metallopeptidase 26 -3.1751
MYL3 myosin, light chain 3, alkali; ventricular, skeletal, slow -3.1751
SLC22A7 solute carrier family 22 (organic anion transporter), member 7 -3.1751
NKPD1 NTPase, KAP family P-loop domain containing 1 -3.1751
MMP12 matrix metallopeptidase 12 -3.1751
MANSC4 MANSC domain containing 4 -3.1751
DES desmin -3.1751
TEX46 testis expressed 46 -3.1751
COA1 cytochrome c oxidase assembly factor 1 homolog (S. cerevisiae) -3.1751
FLACC1 flagellum associated containing coiled-coil domains 1 -3.1751
PLCZ1 phospholipase C, zeta 1 -3.1751
REP15 RAB15 effector protein -3.1751
SVEP1 sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 -3.1751
LOC390937 Ets2 repressor factor-like -3.1751
ZNF98 zinc finger protein 98 -3.1751
ZBTB47 zinc finger and BTB domain containing 47 -3.1751
KCNJ9 potassium channel, inwardly rectifying subfamily J, member 9 -3.1751
C17ORF107 chromosome 17 open reading frame 107 -3.1751
BTNL2 butyrophilin-like 2 -3.1751
FLRT3 fibronectin leucine rich transmembrane protein 3 -3.1751
CCDC27 coiled-coil domain containing 27 -3.1751
CAMK2A calcium/calmodulin-dependent protein kinase II alpha -3.1751
PRH2 proline-rich protein HaeIII subfamily 2 -3.1751
KISS1 KiSS-1 metastasis-suppressor -3.1751
AKR7A3 aldo-keto reductase family 7, member A3 (aflatoxin aldehyde reductase) -3.1751
ZPBP zona pellucida binding protein -3.1751
EMILIN1 elastin microfibril interfacer 1 -3.1751
RIIAD1 regulatory subunit of type II PKA R-subunit (RIIa) domain containing 1 -3.1751
GOLGA8K golgin A8 family, member K -3.1751
IRAK2 interleukin-1 receptor-associated kinase 2 -3.08203
NPIPB15 nuclear pore complex interacting protein family, member B15 -3.07015
TBKBP1 TBK1 binding protein 1 -3.07015
MANSC1 MANSC domain containing 1 -3.03452
MEF2D myocyte enhancer factor 2D -2.96713
TIPE1 TNF alpha induced protein 8 like 1 -2.94658
FIBP fibroblast growth factor (acidic) intracellular binding protein -2.93775
PHGDH phosphoglycerate dehydrogenase -2.93689
VMAC vimentin-type intermediate filament associated coiled-coil protein -2.88297
CREB5 cAMP responsive element binding protein 5 -2.86846
ADARB1 adenosine deaminase, RNA-specific, B1 -2.81768
ZNF517 zinc finger protein 517 -2.77923
NALCN sodium leak channel, non selective -2.71594
RUNDC1 RUN domain containing 1 -2.70961
PSMC1 proteasome (prosome, macropain) 26S subunit, ATPase, 1 -2.68718
ATXN3 ataxin 3 -2.6065
MAML1 mastermind-like 1 (Drosophila) -2.6033
CYP19A1 cytochrome P450, family 19, subfamily A, polypeptide 1 -2.59
MCM3AP minichromosome maintenance complex component 3 associated protein -2.53662
PTPRD protein tyrosine phosphatase, receptor type, D -2.50554
KDM2A lysine (K)-specific demethylase 2A -2.50554
KRAS Kirsten rat sarcoma viral oncogene homolog -2.50533
TIMM8B translocase of inner mitochondrial membrane 8 homolog B (yeast) -2.47668
ZNF385B zinc finger protein 385B -2.46861
NEB nebulin -2.46214
WDR74 WD repeat domain 74 -2.44155
PEX12 peroxisomal biogenesis factor 12 -2.42482
TMEM82 transmembrane protein 82 -2.42482
SYNE2 spectrin repeat containing, nuclear envelope 2 -2.42147
TYW2 tRNA wybutosine-synthesizing protein 2 -2.39673
STAG2 stromal antigen 2 -2.39004
MYO15A myosin XVA -2.37506
FHL1 four and a half LIM domains 1 -2.37316
EEF1AKMT3 EEF1A lysine methyltransferase 3 -2.34753
PDCD5 programmed cell death 5 -2.32813
RENBP renin binding protein -2.32398
GPR146 G protein-coupled receptor 146 -2.30026
COL8A2 collagen, type VIII, alpha 2 -2.30026
RUFY4 RUN and FYVE domain containing 4 -2.28074
GSTM2 glutathione S-transferase mu 2 (muscle) -2.28074
ZC3H6 zinc finger CCCH-type containing 6 -2.28074
TRIP4 thyroid hormone receptor interactor 4 -2.27675
SRRM5 serine/arginine repetitive matrix 5 -2.27458
PDRG1 p53 and DNA-damage regulated 1 -2.25148
C1ORF115 chromosome 1 open reading frame 115 -2.2423
PUDP pseudouridine 5'-phosphatase -2.21797
ECH1 enoyl CoA hydratase 1, peroxisomal -2.20783
INF2 inverted formin, FH2 and WH2 domain containing -2.19435
GET4 golgi to ER traffic protein 4 homolog (S. cerevisiae) -2.1905
CFAP73 cilia and flagella associated protein 73 -2.1905
TRMT44 tRNA methyltransferase 44 homolog (S. cerevisiae) -2.17937
RPS16 ribosomal protein S16 -2.17937
FAM178B family with sequence similarity 178, member B -2.1162
MINDY4B MINDY family member 4B -2.1162
SPNS2 spinster homolog 2 (Drosophila) -2.1162
ARMC1 armadillo repeat containing 1 -2.1162
RDH16 retinol dehydrogenase 16 (all-trans) -2.1162
ANO3 anoctamin 3 -2.1162
UBQLN2 ubiquilin 2 -2.10517
USP38 ubiquitin specific peptidase 38 -2.10407
RXRB retinoid X receptor, beta -2.10407
P4HTM prolyl 4-hydroxylase, transmembrane (endoplasmic reticulum) -2.10093
PABPC5 poly(A) binding protein, cytoplasmic 5 -2.08718
ITPR1 inositol 1,4,5-trisphosphate receptor, type 1 -2.06982
GALNT13 polypeptide N-acetylgalactosaminyltransferase 13 -2.06174
TMEM43 transmembrane protein 43 -2.05685
PKD2L2 polycystic kidney disease 2-like 2 -2.05685
ADAMTS6 ADAM metallopeptidase with thrombospondin type 1 motif, 6 -2.03752