Methotrexate - effect of drug on gene transcription
Siwo GH, Smith RS, Tan A, Button-Simons KA, Checkley LA, Ferdig MT. An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum. BMC Genomics. 2015 Dec 4;16:1030.PMID: 26637195
Ratio = Transcript of treated vs untreated control
PfID Annotation Ratio EC Transcript
PF3D7_1208000 ribosomal protein L29, apicoplast, putative 1.621
PF3D7_1039100 DnaJ protein, putative, pseudogene? MEC domain-containing protein 1.615
PF3D7_0200900 stevor, pseudogene 1.451
PF3D7_1101200
rifin 1.366
PF3D7_1400700 stevor PIR protein 1.360
PF3D7_1100500 rifin 1.360
PF3D7_1235200
V-type K+-independent H+-translocating inorganic pyrophosphatase, VP2 1.329 3.6.1.1
PF3D7_0101400
exported protein family 1, pseudogene 1.306
PF3D7_1370500 ncRNA 1.300
PF3D7_0617600
PIR protein stevor 1.293
PF3D7_0402700 rifin, pseudogene 1.279
PF3D7_1252500 Plasmodium exported protein, unknown function 1.267
PF3D7_1114300 ncRNA 1.249
PF3D7_0413300 rifin 1.240
PF3D7_1479200 Plasmodium exported protein (PHISTa), unknown function 1.238
PF3D7_0600400
erythrocyte membrane protein 1, PfEMP1 1.235
PF3D7_1150300 rifin 1.235
PF3D7_0400800 PIR protein stevor 1.234
PF3D7_1040500 rifin 1.228
PF3D7_1371500 probable protein, unknown function 1.226
PF3D7_0203100
protein kinase, putative 1.224 2.7.11.1
PF3D7_0927500 dynein light chain, putative 1.224
PF3D7_1476400 serine/threonine protein kinase, FIKK family, pseudogene 1.224 2.7.11.1
PF3D7_0631900
stevor PIR protein 1.223
PF3D7_0115400 stevor PIR protein 1.222
PF3D7_1134500 alpha/beta hydrolase, putative 1.221
PF3D7_0628100
hect domain-containing protein 1, putative 1.216 6.3.2.19
PF3D7_0221500
Pfmc-2TM Maurer's cleft two transmembrane protein, pseudogene 1.211
PF3D7_1040200
PIR protein stevor 1.208
PF3D7_0221600 Plasmodium exported protein, unknown function, pseudogene 1.207
PF3D7_1148600 rRNA 1.198
PF3D7_0100800
PIR protein rifin 1.194
PF3D7_0712400 erythrocyte membrane protein 1, PfEMP1 1.193
PF3D7_0514400 tRNA Phenylalanine 1.190
PF3D7_1000400 rifin PIR protein 1.188
PF3D7_0701600
Pfmc-2TM Maurer's cleft two transmembrane protein 1.181
PF3D7_0412900 erythrocyte membrane protein 1, PfEMP1 1.181
PF3D7_1253500 Plasmodium exported protein, unknown function 1.179
PF3D7_0712500 rifin, pseudogene 1.178
PF3D7_1476900 Plasmodium exported protein, unknown function, pseudogene 1.177
PF3D7_0700400 stevor PIR protein 1.176
PF3D7_1041000 PIR protein rifin 1.175
PF3D7_0412300 phosphopantothenoylcysteine synthetase, putative 1.173 6.3.2.5
PF3D7_1240300 erythrocyte membrane protein 1, PfEMP1 1.162
PF3D7_1301100 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.162 2.3.1.-
PF3D7_0100400
rifin PIR protein 1.161
PF3D7_1475000 mediator of RNA polymerase ii transcription subunit 31, putative 1.161
PF3D7_0401200 rifin 1.160
PF3D7_0320000
protein phosphatase inhibitor 2 1.160
PF3D7_1122100 GPI transamidase component GPI16, putative 1.159
PF3D7_0936100 early transcribed membrane protein 1.157
PF3D7_0400300 rifin PIR protein 1.156
PF3D7_0222100
Pfmc-2TM Maurer's cleft two transmembrane protein 1.156
PF3D7_0513400
GTP-binding protein yiha1, yiha1 1.151
PF3D7_1039700
Pfmc-2TM Maurer's cleft two transmembrane protein 1.151
PF3D7_1137100 ribosomal protein s9, mitochondrial, putative 1.149
PF3D7_1253600 rifin, pseudogene 1.149
PF3D7_0100500
erythrocyte membrane protein 1 (PfEMP1), exon 1, pseudogene 1.148
PF3D7_0500700 rifin, pseudogene 1.146
PF3D7_0531900 ITS2 1.145
PF3D7_0713100
Pfmc-2TM Maurer's cleft two transmembrane protein 1.144
PF3D7_0413100 erythrocyte membrane protein 1, PfEMP1 1.142
PF3D7_0732000 PIR protein stevor 1.141
PF3D7_1116200
pyridoxine biosynthesis protein PDX2 1.140 1.4.3.5
PF3D7_1479700 rifin PIR protein 1.139
PF3D7_1245700 ncRNA 1.139
PF3D7_0700300 rifin 1.138
PF3D7_0931200
selenoprotein 1.137
PF3D7_1254900 Plasmodium exported protein, unknown function, fragment 1.137
PF3D7_1253900 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.136
PF3D7_0425300 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.136
PF3D7_1100400 rifin 1.136
PF3D7_1254500 rifin 1.136
PF3D7_1127000 protein phosphatase, putative 1.135 3.1.3.16
PF3D7_1009700 tubulin--tyrosine ligase, putative 0.787 6.3.2.25
PF3D7_0510300 stripes inner membrane complex protein, putative 0.787
PF3D7_1337600 tRNA Serine 0.785
PF3D7_1400500 rifin PIR protein 0.784
PF3D7_1315100
serine/threonine protein kinase PK9 0.782 2.7.11.1
PF3D7_1135000 PQ-loop repeat-containing protein 0.781
PF3D7_1252200
chitinase 0.781 3.2.1.14
PF3D7_0417100 mRNA-binding protein PUF2 0.780
PF3D7_1026900
biotin-protein ligase 1 0.780 6.4.1.2
PF3D7_1361400 actin-depolymerizing factor 2 0.777
PF3D7_1401700 conserved plasmodium protein, unknown function 0.777
PF3D7_0212600
secreted protein with altered thrombospondin repeat domain 0.776
PF3D7_1010500 ankyrin-repeat protein, putative 0.772
PF3D7_1349100 nucleoside diphosphate hydrolase, putative 0.770 3.6.1.6
PF3D7_1357300 dynein light chain, putative 0.770
PF3D7_0813800
GDP-mannose 4,6-dehydratase 0.767 4.2.1.47
PF3D7_0605400 calcium-binding protein, putative 0.766
PF3D7_0303900 phosphatidylethanolamine-binding protein, putative 0.765
PF3D7_1004100 conserved plasmodium protein, unknown function 0.765
PF3D7_0507500
subtilisin-like protease 1 0.762 3.4.21.62
PF3D7_0607100 MYND finger protein, putative 0.759
PF3D7_1352900 fam-f protein Plasmodium exported protein, unknown function 0.758
PF3D7_1477200 Plasmodium exported protein (hyp15), unknown function 0.756
PF3D7_0819400
perforin-like protein 4 0.756
PF3D7_1208200 cysteine repeat modular protein 3 0.753
PF3D7_0823400 alpha/beta hydrolase, putative 0.753
PF3D7_1219200
rifin, pseudogene 0.751
PF3D7_0933800
tubulin delta chain, putative 0.750
PF3D7_1100600 Plasmodium exported protein (PHISTa), unknown function, pseudogene 0.743
PF3D7_1253800 Plasmodium exported protein (PHISTa), unknown function 0.741
PF3D7_1236600 p25-alpha family protein, putative 0.739
PF3D7_1347000 WD repeat-containing protein 92, putative 0.734
PF3D7_0919500 major facilitator superfamily domain-containing protein, MFS3 0.733
PF3D7_0507200
subtilisin-like protease 3 0.732 3.4.21.62
PF3D7_0818100
zinc finger protein, putative 0.731
PF3D7_0627200 myosin light chain, putative 0.730
PF3D7_0700600 Plasmodium exported protein, unknown function, pseudogene 0.727
PF3D7_0209600 transporter, putative 0.726
PF3D7_0409900 actin-like protein, putative 0.723
PF3D7_1355400 tRNA Threonine 0.718
PF3D7_0906400 dynein intermediate light chain, putative 0.715
PF3D7_1339000 conserved plasmodium protein, unknown function 0.711
PF3D7_0631400
Pfmc-2TM Maurer's cleft two transmembrane protein 0.703
PF3D7_1006100 CCR4-NOT transcription complex subunit 5, putative 0.696
PF3D7_1121400 WD repeat-containing protein, putative 0.689
PF3D7_0812300 sporozoite surface protein 3, putative 0.681
PF3D7_0812900 conserved plasmodium protein, unknown function 0.674
PF3D7_0801400 conserved plasmodium protein, unknown function 0.665
PF3D7_0403000 tRNA Asparagine 0.654
PF3D7_1460000 biotin-protein ligase 2 0.631 6.3.4.14
PF3D7_1370100 tRNA Cysteine 0.618
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