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Whole-genome analysis of mRNA decay in Plasmodium falciparum reveals a global lengthening of mRNA half-life during the intra-erythrocytic development cycle
Jennifer L Shock, Kael F Fischer, Joseph L DeRisi
Genome Biol. 2007; 8(7): R134. Published online 2007 August 7. doi: 10.1186/gb-2007-8-7-r134
PMCID:
PMC2323219
Abstract Full Text PDF–495K Supplementary Material

Is Cited by the Following 32 Articles in this Archive:

Genomics and Integrated Systems Biology in Plasmodium falciparum: A Path to Malaria Control and Eradication
Karine G. Le Roch, Duk-Won D. Chung, Nadia Ponts
Parasite Immunol. Author manuscript; available in PMC 2013 February 1.
Published in final edited form as: Parasite Immunol. 2012 February; 34(2-3): 50–60. doi: 10.1111/j.1365-3024.2011.01340.x
PMCID:
PMC3265687
Free in PMC on 2013/02/01
Chromatin-driven de novo discovery of DNA binding motifs in the human malaria parasite
Elena Y Harris, Nadia Ponts, Karine G Le Roch, Stefano Lonardi
BMC Genomics. 2011; 12: 601. Published online 2011 December 13. doi: 10.1186/1471-2164-12-601
PMCID:
PMC3282892
Abstract Full Text PDF–951K Supplementary Material
The role of the 5′–3′ exoribonuclease XRNA in transcriptome-wide mRNA degradation
Theresa Manful, Abeer Fadda, Christine Clayton
RNA. 2011 November; 17(11): 2039–2047. doi: 10.1261/rna.2837311
PMCID:
PMC3198596
Free in PMC on 2012/11/01
Transcription and Expression of Plasmodium falciparum Histidine-Rich Proteins in Different Stages and Strains: Implications for Rapid Diagnostic Tests
Joanne Baker, Michelle L. Gatton, Jennifer Peters, Mei-Fong Ho, James S. McCarthy, Qin Cheng
PLoS One. 2011; 6(7): e22593. Published online 2011 July 22. doi: 10.1371/journal.pone.0022593
PMCID:
PMC3142190
Abstract Full Text PDF–527K Supplementary Material
Functional characterization of a SUMO deconjugating protease of Plasmodium falciparum using newly identified small molecule inhibitors
Elizabeth L. Ponder, Victoria E. Albrow, Brittany A. Leader, Miklós Békés, Jowita Mikolajczyk, Urša Pečar Fonović, Aimee Shen, Marcin Drag, Junpeng Xiao, Edgar Deu, Amy J. Campbell, James C. Powers, Guy S. Salvesen, Matthew Bogyo
Chem Biol. Author manuscript; available in PMC 2012 June 24.
Published in final edited form as: Chem Biol. 2011 June 24; 18(6): 711–721. doi: 10.1016/j.chembiol.2011.04.010
PMCID:
PMC3131532
Free in PMC on 2012/06/24
Polysome profiling of the malaria parasite Plasmodium falciparum
Joshua R. Lacsina, Gregory LaMonte, Christopher V. Nicchitta, Jen-Tsan Chi
Mol Biochem Parasitol. Author manuscript; available in PMC 2012 September 1.
Published in final edited form as: Mol Biochem Parasitol. 2011 September; 179(1): 42–46. Published online 2011 May 13. doi: 10.1016/j.molbiopara.2011.05.003
PMCID:
PMC3135974
Free in PMC on 2012/09/01
Analysis of the Molecular Mechanisms Governing the Stage-Specific Expression of a Prototypical Housekeeping Gene during Intraerythrocytic Development of P. falciparum
Eleanor H. Wong, Sandra Hasenkamp, Paul Horrocks
J Mol Biol. 2011 April 29; 408(2-4): 205–221. doi: 10.1016/j.jmb.2011.02.043
PMCID:
PMC3081073
Abstract Full Text Supplementary Material
RNA-Seq analysis of splicing in Plasmodium falciparum uncovers new splice junctions, alternative splicing and splicing of antisense transcripts
Katherine Sorber, Michelle T. Dimon, Joseph L. DeRisi
Nucleic Acids Res. 2011 May; 39(9): 3820–3835. Published online 2011 January 17. doi: 10.1093/nar/gkq1223
PMCID:
PMC3089446
Abstract Full Text PDF–363K Supplementary Material
H2A.Z Demarcates Intergenic Regions of the Plasmodium falciparum Epigenome That Are Dynamically Marked by H3K9ac and H3K4me3
Richárd Bártfai, Wieteke A. M. Hoeijmakers, Adriana M. Salcedo-Amaya, Arne H. Smits, Eva Janssen-Megens, Anita Kaan, Moritz Treeck, Tim-Wolf Gilberger, Kees-Jan Françoijs, Hendrik G. Stunnenberg
PLoS Pathog. 2010 December; 6(12): e1001223. Published online 2010 December 16. doi: 10.1371/journal.ppat.1001223
PMCID:
PMC3002978
Abstract Full Text PDF–728K Supplementary Material
The Apicomplexan AP2 family: Integral factors regulating Plasmodium development
Heather J. Painter, Tracey L. Campbell, Manuel Llinás
Mol Biochem Parasitol. Author manuscript; available in PMC 2012 March 1.
Published in final edited form as: Mol Biochem Parasitol. 2011 March; 176(1): 1–7. Published online 2010 November 30. doi: 10.1016/j.molbiopara.2010.11.014
PMCID:
PMC3026892
Abstract Full Text PDF–578K
Investigating transcriptional regulation of Plasmodium falciparum upon drug perturbation
Tharina van Brummlen, John VW Becker, Dalu T Mancama, Heinrich Hoppe
Malar J. 2010; 9(Suppl 2): O32. Published online 2010 October 20. doi: 10.1186/1475-2875-9-S2-O32
PMCID:
PMC2963241
Full Text PDF–148K
A Genetic Screen for Attenuated Growth Identifies Genes Crucial for Intraerythrocytic Development of Plasmodium falciparum
Bharath Balu, Naresh Singh, Steven P. Maher, John H. Adams
PLoS One. 2010; 5(10): e13282. Published online 2010 October 11. doi: 10.1371/journal.pone.0013282
PMCID:
PMC2952599
Abstract Full Text PDF–2.4M Supplementary Material
Mitochondrial Electron Transport Inhibition and Viability of Intraerythrocytic Plasmodium falciparum
Heather J. Painter, Joanne M. Morrisey, Akhil B. Vaidya
Antimicrob Agents Chemother. 2010 December; 54(12): 5281–5287. Published online 2010 September 20. doi: 10.1128/AAC.00937-10
PMCID:
PMC2981233
Abstract Full Text PDF–1.5M Supplementary Material
Short RNA half-lives in the slow-growing marine cyanobacterium Prochlorococcus
Claudia Steglich, Debbie Lindell, Matthias Futschik, Trent Rector, Robert Steen, Sallie W Chisholm
Genome Biol. 2010; 11(5): R54. Published online 2010 May 19. doi: 10.1186/gb-2010-11-5-r54
PMCID:
PMC2897979
Abstract Full Text PDF–1.4M Supplementary Material
Plasmodium falciparum spermidine synthase inhibition results in unique perturbation-specific effects observed on transcript, protein and metabolite levels
John VW Becker, Linda Mtwisha, Bridget G Crampton, Stoyan Stoychev, Anna C van Brummelen, Shaun Reeksting, Abraham I Louw, Lyn-Marie Birkholtz, Dalu T Mancama
BMC Genomics. 2010; 11: 235. Published online 2010 April 12. doi: 10.1186/1471-2164-11-235
PMCID:
PMC2867828
Abstract Full Text PDF–795K Supplementary Material
Nucleosome landscape and control of transcription in the human malaria parasite
Nadia Ponts, Elena Y. Harris, Jacques Prudhomme, Ivan Wick, Colleen Eckhardt-Ludka, Glenn R. Hicks, Gary Hardiman, Stefano Lonardi, Karine G. Le Roch
Genome Res. 2010 February; 20(2): 228–238. doi: 10.1101/gr.101063.109
PMCID:
PMC2813478
Abstract Full Text PDF–1.0M
Transcriptome analysis of differentiating trypanosomes reveals the existence of multiple post-transcriptional regulons
Rafael Queiroz, Corinna Benz, Kurt Fellenberg, Jörg D Hoheisel, Christine Clayton
BMC Genomics. 2009; 10: 495. Published online 2009 October 26. doi: 10.1186/1471-2164-10-495
PMCID:
PMC2772864
Abstract Full Text PDF–877K Supplementary Material
piggyBac is an effective tool for functional analysis of the Plasmodium falciparum genome
Bharath Balu, Chitra Chauhan, Steven P Maher, Douglas A Shoue, Jessica C Kissinger, Malcolm J Fraser, Jr, John H Adams
BMC Microbiol. 2009; 9: 83. Published online 2009 May 7. doi: 10.1186/1471-2180-9-83
PMCID:
PMC2686711
Abstract Full Text PDF–849K Supplementary Material
Patterns of Gene-Specific and Total Transcriptional Activity during the Plasmodium falciparum Intraerythrocytic Developmental Cycle
Jennifer S. Sims, Kevin T. Militello, Peter A. Sims, Vishal P. Patel, Jacob M. Kasper, Dyann F. Wirth
Eukaryot Cell. 2009 March; 8(3): 327–338. Published online 2009 January 16. doi: 10.1128/EC.00340-08
PMCID:
PMC2653245
Abstract Full Text PDF–1.2M Supplementary Material
Identification of putative regulatory motifs in the upstream regions of co-expressed functional groups of genes in Plasmodium falciparum
Prathima Iengar, NV Joshi
BMC Genomics. 2009; 10: 18. Published online 2009 January 13. doi: 10.1186/1471-2164-10-18
PMCID:
PMC2662883
Abstract Full Text PDF–1.3M Supplementary Material
Malaria Parasite Development in the Mosquito and Infection of the Mammalian Host
Ahmed S.I. Aly, Ashley M. Vaughan, Stefan H.I. Kappe
Annu Rev Microbiol. Author manuscript; available in PMC 2010 March 18.
Published in final edited form as: Annu Rev Microbiol. 2009; 63: 195–221. doi: 10.1146/annurev.micro.091208.073403
PMCID:
PMC2841446
Abstract Full Text PDF–263K Supplementary Material
Database for mRNA Half-Life of 19 977 Genes Obtained by DNA Microarray Analysis of Pluripotent and Differentiating Mouse Embryonic Stem Cells
Lioudmila V. Sharova, Alexei A. Sharov, Timur Nedorezov, Yulan Piao, Nabeebi Shaik, Minoru S.H. Ko
DNA Res. 2009 February; 16(1): 45–58. Published online 2008 November 11. doi: 10.1093/dnares/dsn030
PMCID:
PMC2644350
Abstract Full Text PDF–549K Supplementary Material
A systematic approach to understand the mechanism of action of the bisthiazolium compound T4 on the human malaria parasite, Plasmodium falciparum
Karine G Le Roch, Jeffrey R Johnson, Hugues Ahiboh, Duk-Won D Chung, Jacques Prudhomme, David Plouffe, Kerstin Henson, Yingyao Zhou, William Witola, John R Yates, Choukri Ben Mamoun, Elizabeth A Winzeler, Henri Vial
BMC Genomics. 2008; 9: 513. Published online 2008 October 30. doi: 10.1186/1471-2164-9-513
PMCID:
PMC2596145
Abstract Full Text PDF–1.6M Supplementary Material
Diverse RNA-Binding Proteins Interact with Functionally Related Sets of RNAs, Suggesting an Extensive Regulatory System
Daniel J Hogan, Daniel P Riordan, André P Gerber, Daniel Herschlag, Patrick O Brown
PLoS Biol. 2008 October; 6(10): e255. Published online 2008 October 28. doi: 10.1371/journal.pbio.0060255
PMCID:
PMC2573929
Abstract Full Text PDF–925K Supplementary Material
PlasmoDraft: a database of Plasmodium falciparum gene function predictions based on postgenomic data
Laurent Bréhélin, Jean-François Dufayard, Olivier Gascuel
BMC Bioinformatics. 2008; 9: 440. Published online 2008 October 16. doi: 10.1186/1471-2105-9-440
PMCID:
PMC2605471
Abstract Full Text PDF–1.5M
Identification of cardioviruses related to Theiler's murine encephalomyelitis virus in human infections
Charles Y. Chiu, Alexander L. Greninger, Kimberly Kanada, Thomas Kwok, Kael F. Fischer, Charles Runckel, Janice K. Louie, Carol A. Glaser, Shigeo Yagi, David P. Schnurr, Tom D. Haggerty, Julie Parsonnet, Don Ganem, Joseph L. DeRisi
Proc Natl Acad Sci U S A. 2008 September 16; 105(37): 14124–14129. Published online 2008 September 3. doi: 10.1073/pnas.0805968105
PMCID:
PMC2528868
Abstract Full Text PDF–1.2M Supplementary Material
Computational Analysis of Constraints on Noncoding Regions, Coding Regions and Gene Expression in Relation to Plasmodium Phenotypic Diversity
Kobby Essien, Sridhar Hannenhalli, Christian J. Stoeckert, Jr.
PLoS ONE. 2008; 3(9): e3122. Published online 2008 September 1. doi: 10.1371/journal.pone.0003122
PMCID:
PMC2518851
Abstract Full Text PDF–572K Supplementary Material
Dynamic RNA profiling in Plasmodium falciparum synchronized blood stages exposed to lethal doses of artesunate
Onguma Natalang, Emmanuel Bischoff, Guillaume Deplaine, Caroline Proux, Marie-Agnès Dillies, Odile Sismeiro, Ghislaine Guigon, Serge Bonnefoy, Jintana Patarapotikul, Odile Mercereau-Puijalon, Jean-Yves Coppée, Peter H David
BMC Genomics. 2008; 9: 388. Published online 2008 August 18. doi: 10.1186/1471-2164-9-388
PMCID:
PMC2536677
Abstract Full Text PDF–424K Supplementary Material
An Erythrocyte Vesicle Protein Exported by the Malaria Parasite Promotes Tubovesicular Lipid Import from the Host Cell Surface
Pamela A. Tamez, Souvik Bhattacharjee, Christiaan van Ooij, N. Luisa Hiller, Manuel Llinás, Bharath Balu, John H. Adams, Kasturi Haldar
PLoS Pathog. 2008 August; 4(8): e1000118. Published online 2008 August 8. doi: 10.1371/journal.ppat.1000118
PMCID:
PMC2483944
Abstract Full Text PDF–637K Supplementary Material
Deciphering the Ubiquitin-Mediated Pathway in Apicomplexan Parasites: A Potential Strategy to Interfere with Parasite Virulence
Nadia Ponts, Jianfeng Yang, Duk-Won Doug Chung, Jacques Prudhomme, Thomas Girke, Paul Horrocks, Karine G. Le Roch
PLoS ONE. 2008; 3(6): e2386. Published online 2008 June 11. doi: 10.1371/journal.pone.0002386
PMCID:
PMC2408969
Abstract Full Text PDF–1.3M Supplementary Material
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