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Methotrexate - effect of drug on gene transcription |
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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 |
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Ratio = Transcript of treated vs untreated control |
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PfID |
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Annotation |
Ratio |
EC |
Transcript |
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| 32759 |
PF3D7_1208000 |
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ribosomal protein L29, apicoplast, putative |
1.621 |
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| 32742 |
PF3D7_1039100 |
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DnaJ protein, putative, pseudogene? MEC domain-containing protein |
1.615 |
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| 32682 |
PF3D7_0200900 |
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stevor, pseudogene |
1.451 |
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| 32750 |
PF3D7_1101200 |
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rifin |
1.366 |
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| 32783 |
PF3D7_1400700 |
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stevor PIR protein |
1.360 |
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| 32748 |
PF3D7_1100500 |
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rifin |
1.360 |
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| 32762 |
PF3D7_1235200 |
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V-type K+-independent H+-translocating inorganic pyrophosphatase, VP2 |
1.329 |
3.6.1.1 |
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| 32680 |
PF3D7_0101400 |
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exported protein family 1, pseudogene |
1.306 |
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| 32797 |
PF3D7_1370500 |
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ncRNA |
1.300 |
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| 32710 |
PF3D7_0617600 |
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PIR protein stevor |
1.293 |
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| 32694 |
PF3D7_0402700 |
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rifin, pseudogene |
1.279 |
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| 32766 |
PF3D7_1252500 |
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Plasmodium exported protein, unknown function |
1.267 |
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| 32798 |
PF3D7_1114300 |
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ncRNA |
1.249 |
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| 32699 |
PF3D7_0413300 |
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rifin |
1.240 |
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| 32790 |
PF3D7_1479200 |
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Plasmodium exported protein (PHISTa), unknown function |
1.238 |
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| 32707 |
PF3D7_0600400 |
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erythrocyte membrane protein 1, PfEMP1 |
1.235 |
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| 32758 |
PF3D7_1150300 |
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rifin |
1.235 |
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| 32692 |
PF3D7_0400800 |
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PIR protein stevor |
1.234 |
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| 32745 |
PF3D7_1040500 |
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rifin |
1.228 |
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| 32781 |
PF3D7_1371500 |
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probable protein, unknown function |
1.226 |
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| 32683 |
PF3D7_0203100 |
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protein kinase, putative |
1.224 |
2.7.11.1 |
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| 32732 |
PF3D7_0927500 |
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dynein light chain, putative |
1.224 |
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| 32787 |
PF3D7_1476400 |
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serine/threonine protein kinase, FIKK family, pseudogene |
1.224 |
2.7.11.1 |
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| 32714 |
PF3D7_0631900 |
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stevor PIR protein |
1.223 |
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| 32681 |
PF3D7_0115400 |
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stevor PIR protein |
1.222 |
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| 32755 |
PF3D7_1134500 |
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alpha/beta hydrolase, putative |
1.221 |
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| 32712 |
PF3D7_0628100 |
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hect domain-containing protein 1, putative |
1.216 |
6.3.2.19 |
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| 32686 |
PF3D7_0221500 |
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Pfmc-2TM Maurer's cleft two transmembrane protein, pseudogene |
1.211 |
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| 32744 |
PF3D7_1040200 |
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PIR protein stevor |
1.208 |
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| 32687 |
PF3D7_0221600 |
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Plasmodium exported protein, unknown function, pseudogene |
1.207 |
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| 32799 |
PF3D7_1148600 |
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rRNA |
1.198 |
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| 32679 |
PF3D7_0100800 |
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PIR protein rifin |
1.194 |
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| 32719 |
PF3D7_0712400 |
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erythrocyte membrane protein 1, PfEMP1 |
1.193 |
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| 32793 |
PF3D7_0514400 |
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tRNA Phenylalanine |
1.190 |
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| 32736 |
PF3D7_1000400 |
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rifin PIR protein |
1.188 |
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| 32718 |
PF3D7_0701600 |
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Pfmc-2TM Maurer's cleft two transmembrane protein |
1.181 |
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| 32697 |
PF3D7_0412900 |
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erythrocyte membrane protein 1, PfEMP1 |
1.181 |
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| 32767 |
PF3D7_1253500 |
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Plasmodium exported protein, unknown function |
1.179 |
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| 32720 |
PF3D7_0712500 |
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rifin, pseudogene |
1.178 |
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| 32788 |
PF3D7_1476900 |
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Plasmodium exported protein, unknown function, pseudogene |
1.177 |
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| 32716 |
PF3D7_0700400 |
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stevor PIR protein |
1.176 |
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| 32746 |
PF3D7_1041000 |
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PIR protein rifin |
1.175 |
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| 32696 |
PF3D7_0412300 |
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phosphopantothenoylcysteine synthetase, putative |
1.173 |
6.3.2.5 |
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| 32764 |
PF3D7_1240300 |
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erythrocyte membrane protein 1, PfEMP1 |
1.162 |
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| 32773 |
PF3D7_1301100 |
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Plasmodium exported protein (PHISTa), unknown function, pseudogene |
1.162 |
2.3.1.- |
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| 32677 |
PF3D7_0100400 |
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rifin PIR protein |
1.161 |
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| 32786 |
PF3D7_1475000 |
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mediator of RNA polymerase ii transcription subunit 31, putative |
1.161 |
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| 32693 |
PF3D7_0401200 |
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rifin |
1.160 |
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| 32690 |
PF3D7_0320000 |
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protein phosphatase inhibitor 2 |
1.160 |
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| 32753 |
PF3D7_1122100 |
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GPI transamidase component GPI16, putative |
1.159 |
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| 32735 |
PF3D7_0936100 |
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early transcribed membrane protein |
1.157 |
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| 32691 |
PF3D7_0400300 |
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rifin PIR protein |
1.156 |
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| 32688 |
PF3D7_0222100 |
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Pfmc-2TM Maurer's cleft two transmembrane protein |
1.156 |
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| 32706 |
PF3D7_0513400 |
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GTP-binding protein yiha1, yiha1 |
1.151 |
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| 32743 |
PF3D7_1039700 |
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Pfmc-2TM Maurer's cleft two transmembrane protein |
1.151 |
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| 32757 |
PF3D7_1137100 |
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ribosomal protein s9, mitochondrial, putative |
1.149 |
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| 32768 |
PF3D7_1253600 |
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rifin, pseudogene |
1.149 |
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| 32678 |
PF3D7_0100500 |
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erythrocyte membrane protein 1 (PfEMP1), exon 1, pseudogene |
1.148 |
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| 32702 |
PF3D7_0500700 |
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rifin, pseudogene |
1.146 |
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| 32792 |
PF3D7_0531900 |
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ITS2 |
1.145 |
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| 32721 |
PF3D7_0713100 |
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Pfmc-2TM Maurer's cleft two transmembrane protein |
1.144 |
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| 32698 |
PF3D7_0413100 |
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erythrocyte membrane protein 1, PfEMP1 |
1.142 |
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| 32722 |
PF3D7_0732000 |
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PIR protein stevor |
1.141 |
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| 32751 |
PF3D7_1116200 |
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pyridoxine biosynthesis protein PDX2 |
1.140 |
1.4.3.5 |
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| 32791 |
PF3D7_1479700 |
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rifin PIR protein |
1.139 |
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| 32800 |
PF3D7_1245700 |
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ncRNA |
1.139 |
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| 32715 |
PF3D7_0700300 |
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rifin |
1.138 |
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| 32733 |
PF3D7_0931200 |
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selenoprotein |
1.137 |
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| 32772 |
PF3D7_1254900 |
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Plasmodium exported protein, unknown function, fragment |
1.137 |
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| 32770 |
PF3D7_1253900 |
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Plasmodium exported protein (PHISTa), unknown function, pseudogene |
1.136 |
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| 32701 |
PF3D7_0425300 |
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Plasmodium exported protein (PHISTa), unknown function, pseudogene |
1.136 |
|
 |
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| 32747 |
PF3D7_1100400 |
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rifin |
1.136 |
|
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| 32771 |
PF3D7_1254500 |
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rifin |
1.136 |
|
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| 32754 |
PF3D7_1127000 |
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protein phosphatase, putative |
1.135 |
3.1.3.16 |
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| 32739 |
PF3D7_1009700 |
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tubulin--tyrosine ligase, putative |
0.787 |
6.3.2.25 |
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| 32705 |
PF3D7_0510300 |
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stripes inner membrane complex protein, putative |
0.787 |
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| 32801 |
PF3D7_1337600 |
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tRNA Serine |
0.785 |
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| 32782 |
PF3D7_1400500 |
|
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rifin PIR protein |
0.784 |
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| 32774 |
PF3D7_1315100 |
|
|
serine/threonine protein kinase PK9 |
0.782 |
2.7.11.1 |
 |
|
|
|
|
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|
|
|
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|
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|
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|
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| 32756 |
PF3D7_1135000 |
|
|
PQ-loop repeat-containing protein |
0.781 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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| 32765 |
PF3D7_1252200 |
|
|
chitinase |
0.781 |
3.2.1.14 |
 |
|
|
|
|
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|
|
|
|
|
|
|
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|
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|
|
| 32700 |
PF3D7_0417100 |
|
|
mRNA-binding protein PUF2 |
0.780 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 32741 |
PF3D7_1026900 |
|
|
biotin-protein ligase 1 |
0.780 |
6.4.1.2 |
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
| 32780 |
PF3D7_1361400 |
|
|
actin-depolymerizing factor 2 |
0.777 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 32784 |
PF3D7_1401700 |
|
|
conserved plasmodium protein, unknown function |
0.777 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
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| 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 |
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
| 32779 |
PF3D7_1357300 |
|
|
dynein light chain, putative |
0.770 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 32726 |
PF3D7_0813800 |
|
|
GDP-mannose 4,6-dehydratase |
0.767 |
4.2.1.47 |
 |
|
|
|
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|
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|
|
|
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|
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|
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|
|
| 32708 |
PF3D7_0605400 |
|
|
calcium-binding protein, putative |
0.766 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
|
|
|
| 32689 |
PF3D7_0303900 |
|
|
phosphatidylethanolamine-binding protein, putative |
0.765 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
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|
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|
|
| 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 |
|
 |
|
|
|
|
|
|
|
|
|
|
|
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|
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|
|
| 32761 |
PF3D7_1219200 |
|
|
rifin, pseudogene |
0.751 |
|
|
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|
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|
|
|
|
|
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|
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|
|
| 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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