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Items: 1 to 50 of 76

1.

Altered expression of K13 disrupts DNA replication and repair in Plasmodium falciparum.

Gibbons J, Button-Simons KA, Adapa SR, Li S, Pietsch M, Zhang M, Liao X, Adams JH, Ferdig MT, Jiang RHY.

BMC Genomics. 2018 Nov 29;19(1):849. doi: 10.1186/s12864-018-5207-7.

2.

Hackathons as a means of accelerating scientific discoveries and knowledge transfer.

Ghouila A, Siwo GH, Entfellner JD, Panji S, Button-Simons KA, Davis SZ, Fadlelmola FM; DREAM of Malaria Hackathon Participants, Ferdig MT, Mulder N.

Genome Res. 2018 May;28(5):759-765. doi: 10.1101/gr.228460.117. Epub 2018 Apr 12.

3.

Simultaneous genome-wide gene expression and transcript isoform profiling in the human malaria parasite.

Turnbull LB, Siwo GH, Button-Simons KA, Tan A, Checkley LA, Painter HJ, Llinás M, Ferdig MT.

PLoS One. 2017 Nov 7;12(11):e0187595. doi: 10.1371/journal.pone.0187595. eCollection 2017.

4.

Antiplasmodial activity of targeted zinc(II)-dipicolylamine complexes.

Rice DR, de Lourdes Betancourt Mendiola M, Murillo-Solano C, Checkley LA, Ferdig MT, Pizarro JC, Smith BD.

Bioorg Med Chem. 2017 May 15;25(10):2754-2760. doi: 10.1016/j.bmc.2017.03.050. Epub 2017 Mar 27.

5.

Open Source Drug Discovery with the Malaria Box Compound Collection for Neglected Diseases and Beyond.

Van Voorhis WC, Adams JH, Adelfio R, Ahyong V, Akabas MH, Alano P, Alday A, Alemán Resto Y, Alsibaee A, Alzualde A, Andrews KT, Avery SV, Avery VM, Ayong L, Baker M, Baker S, Ben Mamoun C, Bhatia S, Bickle Q, Bounaadja L, Bowling T, Bosch J, Boucher LE, Boyom FF, Brea J, Brennan M, Burton A, Caffrey CR, Camarda G, Carrasquilla M, Carter D, Belen Cassera M, Chih-Chien Cheng K, Chindaudomsate W, Chubb A, Colon BL, Colón-López DD, Corbett Y, Crowther GJ, Cowan N, D'Alessandro S, Le Dang N, Delves M, DeRisi JL, Du AY, Duffy S, Abd El-Salam El-Sayed S, Ferdig MT, Fernández Robledo JA, Fidock DA, Florent I, Fokou PV, Galstian A, Gamo FJ, Gokool S, Gold B, Golub T, Goldgof GM, Guha R, Guiguemde WA, Gural N, Guy RK, Hansen MA, Hanson KK, Hemphill A, Hooft van Huijsduijnen R, Horii T, Horrocks P, Hughes TB, Huston C, Igarashi I, Ingram-Sieber K, Itoe MA, Jadhav A, Naranuntarat Jensen A, Jensen LT, Jiang RH, Kaiser A, Keiser J, Ketas T, Kicka S, Kim S, Kirk K, Kumar VP, Kyle DE, Lafuente MJ, Landfear S, Lee N, Lee S, Lehane AM, Li F, Little D, Liu L, Llinás M, Loza MI, Lubar A, Lucantoni L, Lucet I, Maes L, Mancama D, Mansour NR, March S, McGowan S, Medina Vera I, Meister S, Mercer L, Mestres J, Mfopa AN, Misra RN, Moon S, Moore JP, Morais Rodrigues da Costa F, Müller J, Muriana A, Nakazawa Hewitt S, Nare B, Nathan C, Narraidoo N, Nawaratna S, Ojo KK, Ortiz D, Panic G, Papadatos G, Parapini S, Patra K, Pham N, Prats S, Plouffe DM, Poulsen SA, Pradhan A, Quevedo C, Quinn RJ, Rice CA, Abdo Rizk M, Ruecker A, St Onge R, Salgado Ferreira R, Samra J, Robinett NG, Schlecht U, Schmitt M, Silva Villela F, Silvestrini F, Sinden R, Smith DA, Soldati T, Spitzmüller A, Stamm SM, Sullivan DJ, Sullivan W, Suresh S, Suzuki BM, Suzuki Y, Swamidass SJ, Taramelli D, Tchokouaha LR, Theron A, Thomas D, Tonissen KF, Townson S, Tripathi AK, Trofimov V, Udenze KO, Ullah I, Vallieres C, Vigil E, Vinetz JM, Voong Vinh P, Vu H, Watanabe NA, Weatherby K, White PM, Wilks AF, Winzeler EA, Wojcik E, Wree M, Wu W, Yokoyama N, Zollo PH, Abla N, Blasco B, Burrows J, Laleu B, Leroy D, Spangenberg T, Wells T, Willis PA.

PLoS Pathog. 2016 Jul 28;12(7):e1005763. doi: 10.1371/journal.ppat.1005763. eCollection 2016 Jul.

6.

Garcinol Inhibits GCN5-Mediated Lysine Acetyltransferase Activity and Prevents Replication of the Parasite Toxoplasma gondii.

Jeffers V, Gao H, Checkley LA, Liu Y, Ferdig MT, Sullivan WJ Jr.

Antimicrob Agents Chemother. 2016 Mar 25;60(4):2164-70. doi: 10.1128/AAC.03059-15. Print 2016 Apr.

7.

An integrative analysis of small molecule transcriptional responses in the human malaria parasite Plasmodium falciparum.

Siwo GH, Smith RS, Tan A, Button-Simons KA, Checkley LA, Ferdig MT.

BMC Genomics. 2015 Dec 4;16:1030. doi: 10.1186/s12864-015-2165-1.

8.

Population Structure Shapes Copy Number Variation in Malaria Parasites.

Cheeseman IH, Miller B, Tan JC, Tan A, Nair S, Nkhoma SC, De Donato M, Rodulfo H, Dondorp A, Branch OH, Mesia LR, Newton P, Mayxay M, Amambua-Ngwa A, Conway DJ, Nosten F, Ferdig MT, Anderson TJ.

Mol Biol Evol. 2016 Mar;33(3):603-20. doi: 10.1093/molbev/msv282. Epub 2015 Nov 26.

9.

Chemogenomic profiling of Plasmodium falciparum as a tool to aid antimalarial drug discovery.

Pradhan A, Siwo GH, Singh N, Martens B, Balu B, Button-Simons KA, Tan A, Zhang M, Udenze KO, Jiang RH, Ferdig MT, Adams JH, Kyle DE.

Sci Rep. 2015 Nov 6;5:15930. doi: 10.1038/srep15930.

10.

Guanabenz repurposed as an antiparasitic with activity against acute and latent toxoplasmosis.

Benmerzouga I, Checkley LA, Ferdig MT, Arrizabalaga G, Wek RC, Sullivan WJ Jr.

Antimicrob Agents Chemother. 2015 Nov;59(11):6939-45. doi: 10.1128/AAC.01683-15. Epub 2015 Aug 24.

11.

Plasmodium falciparum genetic crosses in a humanized mouse model.

Vaughan AM, Pinapati RS, Cheeseman IH, Camargo N, Fishbaugher M, Checkley LA, Nair S, Hutyra CA, Nosten FH, Anderson TJ, Ferdig MT, Kappe SH.

Nat Methods. 2015 Jul;12(7):631-3. doi: 10.1038/nmeth.3432. Epub 2015 Jun 1.

12.

Functional analysis of sirtuin genes in multiple Plasmodium falciparum strains.

Merrick CJ, Jiang RH, Skillman KM, Samarakoon U, Moore RM, Dzikowski R, Ferdig MT, Duraisingh MT.

PLoS One. 2015 Mar 17;10(3):e0118865. doi: 10.1371/journal.pone.0118865. eCollection 2015.

13.

Predicting functional and regulatory divergence of a drug resistance transporter gene in the human malaria parasite.

Siwo GH, Tan A, Button-Simons KA, Samarakoon U, Checkley LA, Pinapati RS, Ferdig MT.

BMC Genomics. 2015 Feb 22;16:115. doi: 10.1186/s12864-015-1261-6.

14.

Independent emergence of artemisinin resistance mutations among Plasmodium falciparum in Southeast Asia.

Takala-Harrison S, Jacob CG, Arze C, Cummings MP, Silva JC, Dondorp AM, Fukuda MM, Hien TT, Mayxay M, Noedl H, Nosten F, Kyaw MP, Nhien NT, Imwong M, Bethell D, Se Y, Lon C, Tyner SD, Saunders DL, Ariey F, Mercereau-Puijalon O, Menard D, Newton PN, Khanthavong M, Hongvanthong B, Starzengruber P, Fuehrer HP, Swoboda P, Khan WA, Phyo AP, Nyunt MM, Nyunt MH, Brown TS, Adams M, Pepin CS, Bailey J, Tan JC, Ferdig MT, Clark TG, Miotto O, MacInnis B, Kwiatkowski DP, White NJ, Ringwald P, Plowe CV.

J Infect Dis. 2015 Mar 1;211(5):670-9. doi: 10.1093/infdis/jiu491. Epub 2014 Sep 1.

15.

A microarray platform and novel SNP calling algorithm to evaluate Plasmodium falciparum field samples of low DNA quantity.

Jacob CG, Tan JC, Miller BA, Tan A, Takala-Harrison S, Ferdig MT, Plowe CV.

BMC Genomics. 2014 Aug 26;15:719. doi: 10.1186/1471-2164-15-719.

16.

Networks' Characteristics Matter for Systems Biology.

Rider AK, Milenković T, Siwo GH, Pinapati RS, Emrich SJ, Ferdig MT, Chawla NV.

Netw Sci (Camb Univ Press). 2014 Aug;2(2):139-161. Epub 2014 Sep 3.

17.

A supervised learning approach to the ensemble clustering of genes.

Rider AK, Siwo G, Emrich SJ, Ferdig MT, Chawla NV.

Int J Data Min Bioinform. 2014;9(2):199-219.

PMID:
24864378
18.

A HECT ubiquitin-protein ligase as a novel candidate gene for altered quinine and quinidine responses in Plasmodium falciparum.

Sanchez CP, Liu CH, Mayer S, Nurhasanah A, Cyrklaff M, Mu J, Ferdig MT, Stein WD, Lanzer M.

PLoS Genet. 2014 May 15;10(5):e1004382. doi: 10.1371/journal.pgen.1004382. eCollection 2014 May.

19.

Expression of the essential Kinase PfCDPK1 from Plasmodium falciparum in Toxoplasma gondii facilitates the discovery of novel antimalarial drugs.

Gaji RY, Checkley L, Reese ML, Ferdig MT, Arrizabalaga G.

Antimicrob Agents Chemother. 2014 May;58(5):2598-607. doi: 10.1128/AAC.02261-13. Epub 2014 Feb 18.

20.

Metabolic QTL analysis links chloroquine resistance in Plasmodium falciparum to impaired hemoglobin catabolism.

Lewis IA, Wacker M, Olszewski KL, Cobbold SA, Baska KS, Tan A, Ferdig MT, Llinás M.

PLoS Genet. 2014 Jan;10(1):e1004085. doi: 10.1371/journal.pgen.1004085. Epub 2014 Jan 2.

21.

A process similar to autophagy is associated with cytocidal chloroquine resistance in Plasmodium falciparum.

Gaviria D, Paguio MF, Turnbull LB, Tan A, Siriwardana A, Ghosh D, Ferdig MT, Sinai AP, Roepe PD.

PLoS One. 2013 Nov 20;8(11):e79059. doi: 10.1371/journal.pone.0079059. eCollection 2013.

22.

An apicoplast localized ubiquitylation system is required for the import of nuclear-encoded plastid proteins.

Agrawal S, Chung DW, Ponts N, van Dooren GG, Prudhomme J, Brooks CF, Rodrigues EM, Tan JC, Ferdig MT, Striepen B, Le Roch KG.

PLoS Pathog. 2013;9(6):e1003426. doi: 10.1371/journal.ppat.1003426. Epub 2013 Jun 13.

23.

Direct evidence for the adaptive role of copy number variation on antifolate susceptibility in Plasmodium falciparum.

Heinberg A, Siu E, Stern C, Lawrence EA, Ferdig MT, Deitsch KW, Kirkman LA.

Mol Microbiol. 2013 May;88(4):702-12. doi: 10.1111/mmi.12162. Epub 2013 Apr 24.

24.

Mutation in the Plasmodium falciparum CRT protein determines the stereospecific activity of antimalarial cinchona alkaloids.

Griffin CE, Hoke JM, Samarakoon U, Duan J, Mu J, Ferdig MT, Warhurst DC, Cooper RA.

Antimicrob Agents Chemother. 2012 Oct;56(10):5356-64. doi: 10.1128/AAC.05667-11. Epub 2012 Aug 6.

25.

Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing.

Manske M, Miotto O, Campino S, Auburn S, Almagro-Garcia J, Maslen G, O'Brien J, Djimde A, Doumbo O, Zongo I, Ouedraogo JB, Michon P, Mueller I, Siba P, Nzila A, Borrmann S, Kiara SM, Marsh K, Jiang H, Su XZ, Amaratunga C, Fairhurst R, Socheat D, Nosten F, Imwong M, White NJ, Sanders M, Anastasi E, Alcock D, Drury E, Oyola S, Quail MA, Turner DJ, Ruano-Rubio V, Jyothi D, Amenga-Etego L, Hubbart C, Jeffreys A, Rowlands K, Sutherland C, Roper C, Mangano V, Modiano D, Tan JC, Ferdig MT, Amambua-Ngwa A, Conway DJ, Takala-Harrison S, Plowe CV, Rayner JC, Rockett KA, Clark TG, Newbold CI, Berriman M, MacInnis B, Kwiatkowski DP.

Nature. 2012 Jul 19;487(7407):375-9. doi: 10.1038/nature11174.

26.

Quantification of multiple infections of Plasmodium falciparum in vitro.

Wacker MA, Turnbull LB, Walker LA, Mount MC, Ferdig MT.

Malar J. 2012 May 30;11:180. doi: 10.1186/1475-2875-11-180.

27.

A major genome region underlying artemisinin resistance in malaria.

Cheeseman IH, Miller BA, Nair S, Nkhoma S, Tan A, Tan JC, Al Saai S, Phyo AP, Moo CL, Lwin KM, McGready R, Ashley E, Imwong M, Stepniewska K, Yi P, Dondorp AM, Mayxay M, Newton PN, White NJ, Nosten F, Ferdig MT, Anderson TJ.

Science. 2012 Apr 6;336(6077):79-82. doi: 10.1126/science.1215966.

28.

Symmetric Epistasis Estimation (SEE) and its application to dissecting interaction map of Plasmodium falciparum.

Huang Y, Siwo G, Wuchty S, Ferdig MT, Przytycka TM.

Mol Biosyst. 2012 Apr;8(5):1544-52. doi: 10.1039/c2mb05333k. Epub 2012 Mar 15.

29.

Differential association of Plasmodium falciparum Na+/H+ exchanger polymorphism and quinine responses in field- and culture-adapted isolates of Plasmodium falciparum.

Pelleau S, Bertaux L, Briolant S, Ferdig MT, Sinou V, Pradines B, Parzy D, Jambou R.

Antimicrob Agents Chemother. 2011 Dec;55(12):5834-41. doi: 10.1128/AAC.00477-11. Epub 2011 Sep 26.

30.

The landscape of inherited and de novo copy number variants in a Plasmodium falciparum genetic cross.

Samarakoon U, Gonzales JM, Patel JJ, Tan A, Checkley L, Ferdig MT.

BMC Genomics. 2011 Sep 22;12:457. doi: 10.1186/1471-2164-12-457.

31.

Shared molecular strategies of the malaria parasite P. falciparum and the human virus HIV-1.

Wuchty S, Siwo GH, Ferdig MT.

Mol Cell Proteomics. 2011 Oct;10(10):M111.009035. doi: 10.1074/mcp.M111.009035. Epub 2011 May 17.

32.

An optimized microarray platform for assaying genomic variation in Plasmodium falciparum field populations.

Tan JC, Miller BA, Tan A, Patel JJ, Cheeseman IH, Anderson TJ, Manske M, Maslen G, Kwiatkowski DP, Ferdig MT.

Genome Biol. 2011;12(4):R35. doi: 10.1186/gb-2011-12-4-r35. Epub 2011 Apr 8.

33.

High-throughput 454 resequencing for allele discovery and recombination mapping in Plasmodium falciparum.

Samarakoon U, Regier A, Tan A, Desany BA, Collins B, Tan JC, Emrich SJ, Ferdig MT.

BMC Genomics. 2011 Feb 17;12:116. doi: 10.1186/1471-2164-12-116.

34.

Design, synthesis, and study of a mycobactin-artemisinin conjugate that has selective and potent activity against tuberculosis and malaria.

Miller MJ, Walz AJ, Zhu H, Wu C, Moraski G, Möllmann U, Tristani EM, Crumbliss AL, Ferdig MT, Checkley L, Edwards RL, Boshoff HI.

J Am Chem Soc. 2011 Feb 23;133(7):2076-9. doi: 10.1021/ja109665t. Epub 2011 Jan 28.

35.

Quantitative trait loci mapping reveals candidate pathways regulating cell cycle duration in Plasmodium falciparum.

Reilly Ayala HB, Wacker MA, Siwo G, Ferdig MT.

BMC Genomics. 2010 Oct 18;11:577. doi: 10.1186/1471-2164-11-577.

36.

Viral organization of human proteins.

Wuchty S, Siwo G, Ferdig MT.

PLoS One. 2010 Aug 25;5(8):e11796. doi: 10.1371/journal.pone.0011796.

37.

Chloroquine susceptibility and reversibility in a Plasmodium falciparum genetic cross.

Patel JJ, Thacker D, Tan JC, Pleeter P, Checkley L, Gonzales JM, Deng B, Roepe PD, Cooper RA, Ferdig MT.

Mol Microbiol. 2010 Nov;78(3):770-87. doi: 10.1111/j.1365-2958.2010.07366.x. Epub 2010 Sep 29.

38.

Variable numbers of tandem repeats in Plasmodium falciparum genes.

Tan JC, Tan A, Checkley L, Honsa CM, Ferdig MT.

J Mol Evol. 2010 Oct;71(4):268-78. doi: 10.1007/s00239-010-9381-8. Epub 2010 Aug 22.

39.

Gene copy number and malaria biology.

Anderson TJ, Patel J, Ferdig MT.

Trends Parasitol. 2009 Jul;25(7):336-43. doi: 10.1016/j.pt.2009.04.005. Epub 2009 Jun 24. Review.

40.

Graph theoretical approach to study eQTL: a case study of Plasmodium falciparum.

Huang Y, Wuchty S, Ferdig MT, Przytycka TM.

Bioinformatics. 2009 Jun 15;25(12):i15-20. doi: 10.1093/bioinformatics/btp189.

41.
42.

Probing the multifactorial basis of Plasmodium falciparum quinine resistance: evidence for a strain-specific contribution of the sodium-proton exchanger PfNHE.

Nkrumah LJ, Riegelhaupt PM, Moura P, Johnson DJ, Patel J, Hayton K, Ferdig MT, Wellems TE, Akabas MH, Fidock DA.

Mol Biochem Parasitol. 2009 Jun;165(2):122-31. doi: 10.1016/j.molbiopara.2009.01.011. Epub 2009 Jan 30.

43.

A comprehensive Plasmodium falciparum protein interaction map reveals a distinct architecture of a core interactome.

Wuchty S, Adams JH, Ferdig MT.

Proteomics. 2009 Apr;9(7):1841-9. doi: 10.1002/pmic.200800383.

44.

Optimizing comparative genomic hybridization probes for genotyping and SNP detection in Plasmodium falciparum.

Tan JC, Patel JJ, Tan A, Blain JC, Albert TJ, Lobo NF, Ferdig MT.

Genomics. 2009 Jun;93(6):543-50. doi: 10.1016/j.ygeno.2009.02.007. Epub 2009 Mar 11.

45.

Adaptive copy number evolution in malaria parasites.

Nair S, Miller B, Barends M, Jaidee A, Patel J, Mayxay M, Newton P, Nosten F, Ferdig MT, Anderson TJ.

PLoS Genet. 2008 Oct;4(10):e1000243. doi: 10.1371/journal.pgen.1000243. Epub 2008 Oct 31.

46.

Regulatory hotspots in the malaria parasite genome dictate transcriptional variation.

Gonzales JM, Patel JJ, Ponmee N, Jiang L, Tan A, Maher SP, Wuchty S, Rathod PK, Ferdig MT.

PLoS Biol. 2008 Sep 30;6(9):e238. doi: 10.1371/journal.pbio.0060238.

47.

Genome-wide compensatory changes accompany drug- selected mutations in the Plasmodium falciparum crt gene.

Jiang H, Patel JJ, Yi M, Mu J, Ding J, Stephens R, Cooper RA, Ferdig MT, Su XZ.

PLoS One. 2008 Jun 25;3(6):e2484. doi: 10.1371/journal.pone.0002484.

48.

Quantitative dissection of clone-specific growth rates in cultured malaria parasites.

Reilly HB, Wang H, Steuter JA, Marx AM, Ferdig MT.

Int J Parasitol. 2007 Dec;37(14):1599-607. Epub 2007 May 18.

49.

Plasmodium falciparum Na+/H+ exchanger activity and quinine resistance.

Bennett TN, Patel J, Ferdig MT, Roepe PD.

Mol Biochem Parasitol. 2007 May;153(1):48-58. Epub 2007 Feb 8.

50.

Genetic crosses in the apicomplexan parasite Cryptosporidium parvum define recombination parameters.

Tanriverdi S, Blain JC, Deng B, Ferdig MT, Widmer G.

Mol Microbiol. 2007 Mar;63(5):1432-9.

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