ArticleGenome biology2008
Core promoters are predicted by their distinct physicochemical properties in the genome of Plasmodium falciparum.
Article in Genome biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Transcriptome analysis reveals a de novo DNA element that may interact with chromatin-associated proteins in Plasmodium berghei during erythrocytic development.Scientific reports · 2025Article
- ncPro-ML: An integrated computational tool for identifying non-coding RNA promoters in multiple species.Computational and structural biotechnology journal · 2020Article
- What functional genomics has taught us about transcriptional regulation in malaria parasites.Briefings in functional genomics · 2019Review
- Genome-wide analysis of the human malaria parasiteOncotarget · 2017Article
- Genome-wide identification of novel intergenic enhancer-like elements: implications in the regulation of transcription in Plasmodium falciparum.BMC genomics · 2017Article
- Indels, structural variation, and recombination drive genomic diversity in Plasmodium falciparum.Genome research · 2016Article
- Landscape and Dynamics of Transcription Initiation in the Malaria Parasite Plasmodium falciparum.Cell reports · 2016Article
- Triaging informative cis-regulatory elements for the combinatorial control of temporal gene expression during Plasmodium falciparum intraerythrocytic development.Parasites & vectors · 2015Article
- iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition.Nucleic acids research · 2014Article
- Homopolymer tract organization in the human malarial parasite Plasmodium falciparum and related Apicomplexan parasites.BMC genomics · 2014Article
- Novel core promoter elements in the oomycete pathogen Phytophthora infestans and their influence on expression detected by genome-wide analysis.BMC genomics · 2013Article
- Chromatin-driven de novo discovery of DNA binding motifs in the human malaria parasite.BMC genomics · 2011Article
- Nucleosome occupancy at transcription start sites in the human malaria parasite: a hard-wired evolution of virulence?Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2011Article
- Expression of P. falciparum var genes involves exchange of the histone variant H2A.Z at the promoter.PLoS pathogens · 2011Article
- Computing DNA duplex instability profiles efficiently with a two-state model: trends of promoters and binding sites.BMC bioinformatics · 2010Article
- Identification and genome-wide prediction of DNA binding specificities for the ApiAP2 family of regulators from the malaria parasite.PLoS pathogens · 2010Article
- Chromatin-mediated epigenetic regulation in the malaria parasite Plasmodium falciparum.Eukaryotic cell · 2010Review
- Revisiting the Plasmodium falciparum RIFIN family: from comparative genomics to 3D-model prediction.BMC genomics · 2009Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Little is known about the structure and distinguishing features of core promoters in Plasmodium falciparum. In this work, we describe the first method to computationally identify core promoters in this AT-rich genome. This prediction algorithm uses solely DNA physicochemical properties as descriptors. Our results add to a growing body of evidence that a physicochemical code for eukaryotic genomes plays a crucial role in core promoter recognition.
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