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All malaria expression data are available through our web site (http://carrier.gnf.org/publications/Py) and PlasmoDB (http://www.plasmoDB.org).
In the future we aim to incorporate data acquired from these P. falciparum life cycle stages and drug treatments as well as corresponding rodent malaria expression data using a high-density microarray platform.
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We developed a custom nCounter® malaria parasite gene probe set containing 328 genes, which were selected from a compendium of preexisting malaria expression microarray data sets (Methods).
To infer function of malaria proteins, we had previously collected detailed expression data from P. falciparum [9].
For this we used expression data from PlasmoDB 36 and the malaria transcriptome database (http://malaria.ucsf.edu/) 39 regarding the MB free situation.
YANAsquare estimated an overall flux distribution according to overall expression data from PlasmoDB 36 and the malaria transcriptome database.
Gene expression data for the asexual intraerythrocytic developmental cycle (IDC) of the malaria parasite P.falciparum are from Bozdech et al. [ 40] (Quality Control data set, 5081 vectors with 46 coordinates).
Figure 4 shows RNA-Seq expression data of seven time points of the blood stage of the malaria parasite Plasmodium falciparum [ 4].
To create models for the function of various malaria genes and to further validate the data, yoelii-falciparum ortholog pairs were identified and the combined expression data vectors were then hierarchically arranged.
Here we add P. falciparum in vitro zygote and ookinete gene expression data, as well as data from a variety of developmental stages from the rodent malaria parasite, P. yoelii.
Since especially the liver stage in the human host is experimentally difficult to assess, we additionally analyzed gene expression data, covering the full life cycle of P. yoelii a close relative of P. falciparum causing malaria in rodents.
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