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
32759 PF3D7_1208000 ribosomal protein L29, apicoplast, putative 1.621
32742 PF3D7_1039100 DnaJ protein, putative, pseudogene? MEC domain-containing protein 1.615
32682 PF3D7_0200900 stevor, pseudogene 1.451
32750 PF3D7_1101200 rifin 1.366
32783 PF3D7_1400700 stevor PIR protein 1.360
32748 PF3D7_1100500 rifin 1.360
32762 PF3D7_1235200
V-type K+-independent H+-translocating inorganic pyrophosphatase, VP2 1.329 3.6.1.1
32680 PF3D7_0101400 exported protein family 1, pseudogene 1.306
32797 PF3D7_1370500 ncRNA 1.300
32710 PF3D7_0617600
PIR protein stevor 1.293
32694 PF3D7_0402700 rifin, pseudogene 1.279
32766 PF3D7_1252500 Plasmodium exported protein, unknown function 1.267
32798 PF3D7_1114300 ncRNA 1.249
32699 PF3D7_0413300 rifin 1.240
32790 PF3D7_1479200 Plasmodium exported protein (PHISTa), unknown function 1.238
32707 PF3D7_0600400
erythrocyte membrane protein 1, PfEMP1 1.235
32758 PF3D7_1150300 rifin 1.235
32692 PF3D7_0400800 PIR protein stevor 1.234
32745 PF3D7_1040500 rifin 1.228
32781 PF3D7_1371500 probable protein, unknown function 1.226
32683 PF3D7_0203100
protein kinase, putative 1.224 2.7.11.1
32732 PF3D7_0927500 dynein light chain, putative 1.224
32787 PF3D7_1476400 serine/threonine protein kinase, FIKK family, pseudogene 1.224 2.7.11.1
32714 PF3D7_0631900
stevor PIR protein 1.223
32681 PF3D7_0115400 stevor PIR protein 1.222
32755 PF3D7_1134500 alpha/beta hydrolase, putative 1.221
32712 PF3D7_0628100
hect domain-containing protein 1, putative 1.216 6.3.2.19
32686 PF3D7_0221500 Pfmc-2TM Maurer's cleft two transmembrane protein, pseudogene 1.211
32744 PF3D7_1040200
PIR protein stevor 1.208
32687 PF3D7_0221600 Plasmodium exported protein, unknown function, pseudogene 1.207
32799 PF3D7_1148600 rRNA 1.198
32679 PF3D7_0100800 PIR protein rifin 1.194
32719 PF3D7_0712400 erythrocyte membrane protein 1, PfEMP1 1.193
32793 PF3D7_0514400 tRNA Phenylalanine 1.190
32736 PF3D7_1000400 rifin PIR protein 1.188
32718 PF3D7_0701600 Pfmc-2TM Maurer's cleft two transmembrane protein 1.181
32697 PF3D7_0412900 erythrocyte membrane protein 1, PfEMP1 1.181
32767 PF3D7_1253500 Plasmodium exported protein, unknown function 1.179
32720 PF3D7_0712500 rifin, pseudogene 1.178
32788 PF3D7_1476900 Plasmodium exported protein, unknown function, pseudogene 1.177
32716 PF3D7_0700400 stevor PIR protein 1.176
32746 PF3D7_1041000 PIR protein rifin 1.175
32696 PF3D7_0412300 phosphopantothenoylcysteine synthetase, putative 1.173 6.3.2.5
32764 PF3D7_1240300 erythrocyte membrane protein 1, PfEMP1 1.162
32773 PF3D7_1301100 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.162 2.3.1.-
32677 PF3D7_0100400 rifin PIR protein 1.161
32786 PF3D7_1475000 mediator of RNA polymerase ii transcription subunit 31, putative 1.161
32693 PF3D7_0401200 rifin 1.160
32690 PF3D7_0320000
protein phosphatase inhibitor 2 1.160
32753 PF3D7_1122100 GPI transamidase component GPI16, putative 1.159
32735 PF3D7_0936100 early transcribed membrane protein 1.157
32691 PF3D7_0400300 rifin PIR protein 1.156
32688 PF3D7_0222100
Pfmc-2TM Maurer's cleft two transmembrane protein 1.156
32706 PF3D7_0513400
GTP-binding protein yiha1, yiha1 1.151
32743 PF3D7_1039700
Pfmc-2TM Maurer's cleft two transmembrane protein 1.151
32757 PF3D7_1137100 ribosomal protein s9, mitochondrial, putative 1.149
32768 PF3D7_1253600 rifin, pseudogene 1.149
32678 PF3D7_0100500 erythrocyte membrane protein 1 (PfEMP1), exon 1, pseudogene 1.148
32702 PF3D7_0500700 rifin, pseudogene 1.146
32792 PF3D7_0531900 ITS2 1.145
32721 PF3D7_0713100 Pfmc-2TM Maurer's cleft two transmembrane protein 1.144
32698 PF3D7_0413100 erythrocyte membrane protein 1, PfEMP1 1.142
32722 PF3D7_0732000 PIR protein stevor 1.141
32751 PF3D7_1116200
pyridoxine biosynthesis protein PDX2 1.140 1.4.3.5
32791 PF3D7_1479700 rifin PIR protein 1.139
32800 PF3D7_1245700 ncRNA 1.139
32715 PF3D7_0700300 rifin 1.138
32733 PF3D7_0931200
selenoprotein 1.137
32772 PF3D7_1254900 Plasmodium exported protein, unknown function, fragment 1.137
32770 PF3D7_1253900 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.136
32701 PF3D7_0425300 Plasmodium exported protein (PHISTa), unknown function, pseudogene 1.136
32747 PF3D7_1100400 rifin 1.136
32771 PF3D7_1254500 rifin 1.136
32754 PF3D7_1127000 protein phosphatase, putative 1.135 3.1.3.16
32739 PF3D7_1009700 tubulin--tyrosine ligase, putative 0.787 6.3.2.25
32705 PF3D7_0510300 stripes inner membrane complex protein, putative 0.787
32801 PF3D7_1337600 tRNA Serine 0.785
32782 PF3D7_1400500 rifin PIR protein 0.784
32774 PF3D7_1315100
serine/threonine protein kinase PK9 0.782 2.7.11.1
32756 PF3D7_1135000 PQ-loop repeat-containing protein 0.781
32765 PF3D7_1252200
chitinase 0.781 3.2.1.14
32700 PF3D7_0417100 mRNA-binding protein PUF2 0.780
32741 PF3D7_1026900
biotin-protein ligase 1 0.780 6.4.1.2
32780 PF3D7_1361400 actin-depolymerizing factor 2 0.777
32784 PF3D7_1401700 conserved plasmodium protein, unknown function 0.777
32685 PF3D7_0212600
secreted protein with altered thrombospondin repeat domain 0.776
32740 PF3D7_1010500 ankyrin-repeat protein, putative 0.772
32777 PF3D7_1349100 nucleoside diphosphate hydrolase, putative 0.770 3.6.1.6
32779 PF3D7_1357300 dynein light chain, putative 0.770
32726 PF3D7_0813800
GDP-mannose 4,6-dehydratase 0.767 4.2.1.47
32708 PF3D7_0605400 calcium-binding protein, putative 0.766
32689 PF3D7_0303900 phosphatidylethanolamine-binding protein, putative 0.765
32737 PF3D7_1004100 conserved plasmodium protein, unknown function 0.765
32704 PF3D7_0507500
subtilisin-like protease 1 0.762 3.4.21.62
32709 PF3D7_0607100 MYND finger protein, putative 0.759
32778 PF3D7_1352900 fam-f protein Plasmodium exported protein, unknown function 0.758
32789 PF3D7_1477200 Plasmodium exported protein (hyp15), unknown function 0.756
32728 PF3D7_0819400 perforin-like protein 4 0.756
32760 PF3D7_1208200 cysteine repeat modular protein 3 0.753
32729 PF3D7_0823400 alpha/beta hydrolase, putative 0.753
32761 PF3D7_1219200 rifin, pseudogene 0.751
32734 PF3D7_0933800 tubulin delta chain, putative 0.750
32749 PF3D7_1100600 Plasmodium exported protein (PHISTa), unknown function, pseudogene 0.743
32769 PF3D7_1253800 Plasmodium exported protein (PHISTa), unknown function 0.741
32763 PF3D7_1236600 p25-alpha family protein, putative 0.739
32776 PF3D7_1347000 WD repeat-containing protein 92, putative 0.734
32731 PF3D7_0919500 major facilitator superfamily domain-containing protein, MFS3 0.733
32703 PF3D7_0507200
subtilisin-like protease 3 0.732 3.4.21.62
32727 PF3D7_0818100
zinc finger protein, putative 0.731
32711 PF3D7_0627200 myosin light chain, putative 0.730
32717 PF3D7_0700600 Plasmodium exported protein, unknown function, pseudogene 0.727
32684 PF3D7_0209600 transporter, putative 0.726
32695 PF3D7_0409900 actin-like protein, putative 0.723
32796 PF3D7_1355400 tRNA Threonine 0.718
32730 PF3D7_0906400 dynein intermediate light chain, putative 0.715
32775 PF3D7_1339000 conserved plasmodium protein, unknown function 0.711
32713 PF3D7_0631400
Pfmc-2TM Maurer's cleft two transmembrane protein 0.703
32738 PF3D7_1006100 CCR4-NOT transcription complex subunit 5, putative 0.696
32752 PF3D7_1121400 WD repeat-containing protein, putative 0.689
32724 PF3D7_0812300 sporozoite surface protein 3, putative 0.681
32725 PF3D7_0812900 conserved plasmodium protein, unknown function 0.674
32723 PF3D7_0801400 conserved plasmodium protein, unknown function 0.665
32794 PF3D7_0403000 tRNA Asparagine 0.654
32785 PF3D7_1460000 biotin-protein ligase 2 0.631 6.3.4.14
32795 PF3D7_1370100 tRNA Cysteine 0.618
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