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Expression profiling of the schizont and trophozoite stages of Plasmodium falciparum with a long-oligonucleotide microarray
Zbynek Bozdech, Jingchun Zhu, Marcin P Joachimiak, Fred E Cohen, Brian Pulliam, Joseph L DeRisi
Genome Biol. 2003; 4(2): R9. Published online 2003 January 31. doi: 10.1186/gb-2003-4-2-r9
PMCID:
PMC151308
Abstract Full Text PDF–683K Supplementary Material

Is Cited by the Following 96 Articles in this Archive:

Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments
Barbara Dunn, Chandra Richter, Daniel J. Kvitek, Tom Pugh, Gavin Sherlock
Genome Res. 2012 May; 22(5): 908–924. doi: 10.1101/gr.130310.111
PMCID:
PMC3337436
Free in PMC on 2012/11/01
Transcript and protein expression profile of PF11_0394, a Plasmodium falciparum protein expressed in salivary gland sporozoites
Maggie S Schlarman, Renee N Roberts, Michael M Kariuki, Alexis N LaCrue, Ruguang Ou, Brenda T Beerntsen
Malar J. 2012; 11: 80. Published online 2012 March 23. doi: 10.1186/1475-2875-11-80
PMCID:
PMC3355004
Abstract Full Text PDF–3.0M
Virus Identification in Unknown Tropical Febrile Illness Cases Using Deep Sequencing
Nathan L. Yozwiak, Peter Skewes-Cox, Mark D. Stenglein, Angel Balmaseda, Eva Harris, Joseph L. DeRisi
PLoS Negl Trop Dis. 2012 February; 6(2): e1485. Published online 2012 February 7. doi: 10.1371/journal.pntd.0001485
PMCID:
PMC3274504
Abstract Full Text PDF–395K Supplementary Material
Protease-associated cellular networks in malaria parasite Plasmodium falciparum
Timothy G Lilburn, Hong Cai, Zhan Zhou, Yufeng Wang
BMC Genomics. 2011; 12(Suppl 5): S9. Published online 2011 December 23. doi: 10.1186/1471-2164-12-S5-S9
PMCID:
PMC3287505
Abstract Full Text PDF–3.1M Supplementary Material
Drug-induced permeabilization of parasite's digestive vacuole is a key trigger of programmed cell death in Plasmodium falciparum
J-H Ch'Ng, K Liew, A S-P Goh, E Sidhartha, K S-W Tan
Cell Death Dis. 2011 October; 2(10): e216. Published online 2011 October 13. doi: 10.1038/cddis.2011.97
PMCID:
PMC3219093
Abstract Full Text PDF–806K Supplementary Material
Array CGH Phylogeny: How accurate are Comparative Genomic Hybridization-based trees?
Luz B Gilbert, Takao Kasuga, N Louise Glass, John W Taylor
BMC Genomics. 2011; 12: 487. Published online 2011 October 6. doi: 10.1186/1471-2164-12-487
PMCID:
PMC3206521
Abstract Full Text PDF–484K Supplementary Material
Genome-Wide Direct Target Analysis Reveals a Role for SHORT-ROOT in Root Vascular Patterning through Cytokinin Homeostasis
Hongchang Cui, Yueling Hao, Mikhail Kovtun, Viktor Stolc, Xing-Wang Deng, Hitoshi Sakakibara, Mikiko Kojima
Plant Physiol. 2011 November; 157(3): 1221–1231. Published online 2011 September 27. doi: 10.1104/pp.111.183178
PMCID:
PMC3252171
Abstract Full Text PDF–1.5M
Design of a variant surface antigen-supplemented microarray chip for whole transcriptome analysis of multiple Plasmodium falciparum cytoadherent strains, and identification of strain-transcendent rif and stevor genes
Antoine Claessens, Ashfaq Ghumra, Archna P Gupta, Sachel Mok, Zbynek Bozdech, J Alexandra Rowe
Malar J. 2011; 10: 180. Published online 2011 June 30. doi: 10.1186/1475-2875-10-180
PMCID:
PMC3155837
Abstract Full Text PDF–6.4M Supplementary Material
Temporal Analysis of the Honey Bee Microbiome Reveals Four Novel Viruses and Seasonal Prevalence of Known Viruses, Nosema, and Crithidia
Charles Runckel, Michelle L. Flenniken, Juan C. Engel, J. Graham Ruby, Donald Ganem, Raul Andino, Joseph L. DeRisi
PLoS One. 2011; 6(6): e20656. Published online 2011 June 7. doi: 10.1371/journal.pone.0020656
PMCID:
PMC3110205
Abstract Full Text PDF–1.2M Supplementary Material
Seeds for effective oligonucleotide design
Lucian Ilie, Silvana Ilie, Shima Khoshraftar, Anahita Mansouri Bigvand
BMC Genomics. 2011; 12: 280. Published online 2011 June 1. doi: 10.1186/1471-2164-12-280
PMCID:
PMC3128067
Abstract Full Text PDF–316K Supplementary Material
Quantitative Time-course Profiling of Parasite and Host Cell Proteins in the Human Malaria Parasite Plasmodium falciparum
Bernardo Javier Foth, Neng Zhang, Balbir Kaur Chaal, Siu Kwan Sze, Peter Rainer Preiser, Zbynek Bozdech
Mol Cell Proteomics. 2011 August; 10(8): M110.006411. Published online 2011 May 5. doi: 10.1074/mcp.M110.006411
PMCID:
PMC3149090
Free in PMC on 2012/08/01
Investigating the Genome Diversity of B. cereus and Evolutionary Aspects of B. anthracis Emergence
Leka Papazisi, David A. Rasko, Shashikala Ratnayake, Geoff R. Bock, Brian G. Remortel, Lakshmi Appalla, Jia Liu, Tatiana Dracheva, John C. Braisted, Shamira Shallom, Benham Jarrahi, Erik Snesrud, Susie Ahn, Qiang Sun, Jenifer Rilstone, Ole Andreas Økstad, Anne-Brit Kolstø, Robert D. Fleischmann, Scott N. Peterson
Genomics. Author manuscript; available in PMC 2012 July 1.
Published in final edited form as: Genomics. 2011 July; 98(1): 26–39. Published online 2011 April 5. doi: 10.1016/j.ygeno.2011.03.008
PMCID:
PMC3129444
Free in PMC on 2012/07/01
Tracking Glideosome-Associated Protein 50 Reveals the Development and Organization of the Inner Membrane Complex of Plasmodium falciparum
Jeffrey A. Yeoman, Eric Hanssen, Alexander G. Maier, Nectarios Klonis, Bohumil Maco, Jake Baum, Lynne Turnbull, Cynthia B. Whitchurch, Matthew W. A. Dixon, Leann Tilley
Eukaryot Cell. 2011 April; 10(4): 556–564. doi: 10.1128/EC.00244-10
PMCID:
PMC3127638
Abstract Full Text PDF–2.3M Supplementary Material
UPS 2.0: unique probe selector for probe design and oligonucleotide microarrays at the pangenomic/ genomic level
Shu-Hwa Chen, Chen-Zen Lo, Sheng-Yao Su, Bao-Han Kuo, Chao A Hsiung, Chung-Yen Lin
BMC Genomics. 2010; 11(Suppl 4): S6. Published online 2010 December 2. doi: 10.1186/1471-2164-11-S4-S6
PMCID:
PMC3005932
Abstract Full Text PDF–1.4M
Direct and indirect effects of H-NS and Fis on global gene expression control in Escherichia coli
Christina Kahramanoglou, Aswin S. N. Seshasayee, Ana I. Prieto, David Ibberson, Sabine Schmidt, Jurgen Zimmermann, Vladimir Benes, Gillian M. Fraser, Nicholas M. Luscombe
Nucleic Acids Res. 2011 March; 39(6): 2073–2091. Published online 2010 November 20. doi: 10.1093/nar/gkq934
PMCID:
PMC3064808
Abstract Full Text PDF–2.3M Supplementary Material
Tracing phylogenomic events leading to diversity of Haemophilus influenzae and the emergence of Brazilian Purpuric Fever (BPF)-associated clones
Leka Papazisi, Shashikala Ratnayake, Brian G. Remortel, Geoffrey R. Bock, Wei Liang, Alexander I. Saeed, Jia Liu, Robert D. Fleischmann, Mogens Kilian, Scott N. Peterson
Genomics. Author manuscript; available in PMC 2011 November 1.
Published in final edited form as: Genomics. 2010 November; 96(5): 290–302. Published online 2010 July 30. doi: 10.1016/j.ygeno.2010.07.005
PMCID:
PMC2967034
Abstract Full Text PDF–1.7M Supplementary Material
A Genome-Wide Analysis Reveals No Nuclear Dobzhansky-Muller Pairs of Determinants of Speciation between S. cerevisiae and S. paradoxus, but Suggests More Complex Incompatibilities
Katy C. Kao, Katja Schwartz, Gavin Sherlock
PLoS Genet. 2010 July; 6(7): e1001038. Published online 2010 July 29. doi: 10.1371/journal.pgen.1001038
PMCID:
PMC2912382
Abstract Full Text PDF–1.1M Supplementary Material
VIPR: A probabilistic algorithm for analysis of microbial detection microarrays
Adam F Allred, Guang Wu, Tuya Wulan, Kael F Fischer, Michael R Holbrook, Robert B Tesh, David Wang
BMC Bioinformatics. 2010; 11: 384. Published online 2010 July 20. doi: 10.1186/1471-2105-11-384
PMCID:
PMC2921407
Abstract Full Text PDF–703K Supplementary Material
Protein Kinase A Dependent Phosphorylation of Apical Membrane Antigen 1 Plays an Important Role in Erythrocyte Invasion by the Malaria Parasite
Kerstin Leykauf, Moritz Treeck, Paul R. Gilson, Thomas Nebl, Thomas Braulke, Alan F. Cowman, Tim W. Gilberger, Brendan S. Crabb
PLoS Pathog. 2010 June; 6(6): e1000941. Published online 2010 June 3. doi: 10.1371/journal.ppat.1000941
PMCID:
PMC2880582
Abstract Full Text PDF–2.0M Supplementary Material
A Moonlighting Function of Plasmodium falciparum Histone 3, Mono-Methylated at Lysine 9?
Yen-Hoon Luah, Balbir Kaur Chaal, Eugenia Ziying Ong, Zbynek Bozdech
PLoS One. 2010; 5(4): e10252. Published online 2010 April 19. doi: 10.1371/journal.pone.0010252
PMCID:
PMC2856687
Abstract Full Text PDF–2.4M
Evaluating the Performance of Oligonucleotide Microarrays for Bacterial Strains with Increasing Genetic Divergence from the Reference Strain
Seungdae Oh, Deborah R. Yoder-Himes, James Tiedje, Joonhong Park, Konstantinos T. Konstantinidis
Appl Environ Microbiol. 2010 May; 76(9): 2980–2988. Published online 2010 March 12. doi: 10.1128/AEM.02826-09
PMCID:
PMC2863436
Abstract Full Text PDF–924K
Defining species specific genome differences in malaria parasites
Kingsley JL Liew, Guangan Hu, Zbynek Bozdech, Preiser R Peter
BMC Genomics. 2010; 11: 128. Published online 2010 February 23. doi: 10.1186/1471-2164-11-128
PMCID:
PMC2837034
Abstract Full Text PDF–2.0M Supplementary Material
Teolenn: an efficient and customizable workflow to design high-quality probes for microarray experiments
Laurent Jourdren, Aurélie Duclos, Christian Brion, Thomas Portnoy, Hugues Mathis, Antoine Margeot, Stéphane Le Crom
Nucleic Acids Res. 2010 June; 38(10): e117. Published online 2010 February 20. doi: 10.1093/nar/gkq110
PMCID:
PMC2879536
Abstract Full Text PDF–2.9M Supplementary Material
Histone Deacetylases Play a Major Role in the Transcriptional Regulation of the Plasmodium falciparum Life Cycle
Balbir K. Chaal, Archna P. Gupta, Brigitta D. Wastuwidyaningtyas, Yen-Hoon Luah, Zbynek Bozdech
PLoS Pathog. 2010 January; 6(1): e1000737. Published online 2010 January 22. doi: 10.1371/journal.ppat.1000737
PMCID:
PMC2809759
Abstract Full Text PDF–2.1M Supplementary Material
Delayed Correlation of mRNA and Protein Expression in Rapamycin-treated Cells and a Role for Ggc1 in Cellular Sensitivity to Rapamycin
Marjorie L. Fournier, Ariel Paulson, Norman Pavelka, Amber L. Mosley, Karin Gaudenz, William D. Bradford, Earl Glynn, Hua Li, Mihaela E. Sardiu, Brian Fleharty, Christopher Seidel, Laurence Florens, Michael P. Washburn
Mol Cell Proteomics. 2010 February; 9(2): 271–284. Published online 2009 November 10. doi: 10.1074/mcp.M900415-MCP200
PMCID:
PMC2830839
Abstract Full Text Supplementary Material
Screening and Quantification of the Expression of Antibiotic Resistance Genes in Acinetobacter baumannii with a Microarray
Sébastien Coyne, Ghislaine Guigon, Patrice Courvalin, Bruno Périchon
Antimicrob Agents Chemother. 2010 January; 54(1): 333–340. Published online 2009 November 2. doi: 10.1128/AAC.01037-09
PMCID:
PMC2798560
Abstract Full Text PDF–163K
Comparative Transcriptional and Genomic Analysis of Plasmodium falciparum Field Isolates
Margaret J. Mackinnon, Jinguang Li, Sachel Mok, Moses M. Kortok, Kevin Marsh, Peter R. Preiser, Zbynek Bozdech
PLoS Pathog. 2009 October; 5(10): e1000644. Published online 2009 October 30. doi: 10.1371/journal.ppat.1000644
PMCID:
PMC2764095
Abstract Full Text PDF–541K Supplementary Material
An Enhanced Single Base Extension Technique for the Analysis of Complex Viral Populations
Dale R. Webster, Armin G. Hekele, Adam S. Lauring, Kael F. Fischer, Hao Li, Raul Andino, Joseph L. DeRisi
PLoS One. 2009; 4(10): e7453. Published online 2009 October 16. doi: 10.1371/journal.pone.0007453
PMCID:
PMC2759544
Abstract Full Text PDF–513K Supplementary Material
Genome-wide expression profiling of in vivo-derived bloodstream parasite stages and dynamic analysis of mRNA alterations during synchronous differentiation in Trypanosoma brucei
Sarah Kabani, Katelyn Fenn, Alan Ross, Al Ivens, Terry K Smith, Peter Ghazal, Keith Matthews
BMC Genomics. 2009; 10: 427. Published online 2009 September 11. doi: 10.1186/1471-2164-10-427
PMCID:
PMC2753553
Abstract Full Text PDF–3.7M Supplementary Material
Genome-Wide Analysis of Plastid Gene Expression in Potato Leaf Chloroplasts and Tuber Amyloplasts: Transcriptional and Posttranscriptional Control
Vladimir T. Valkov, Nunzia Scotti, Sabine Kahlau, Daniel MacLean, Stefania Grillo, John C. Gray, Ralph Bock, Teodoro Cardi
Plant Physiol. 2009 August; 150(4): 2030–2044. doi: 10.1104/pp.109.140483
PMCID:
PMC2719133
Abstract Full Text PDF–1.0M Supplementary Material
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