genesbyrnaseqpfexpressionfoldchange: Find P. falciparum genes that are differentially...
In duncantl/REuPathDB: Interface to REST API of (EuPathDB)

Description Arguments Value

Find P. falciparum genes that are differentially expressed between field parasites from pregnant women and those from children. NSR-seq was used to analyze the transcriptome of an unsynchronized in vitro culture of human malaria parasite P. falciparum reference strain 3D7, and two pools of field isolates from malaria-infected pregnant women and children adapted to short-term in vitro culture and matched by the percentage of rings, thophozoites and schizonts. A gene signature of Plasmodium falciparum parasites infecting children identified by NSR-seq transcriptional profiling. Marissa Vignali, Christopher D. Armour , Jingyang Chen, Robert Morrison, John C. Castle, Matthew C. Biery, Heather Bouzek, Wonjong Moon, Tomas Babak, Michal Fried, Christopher K. Raymond and Patrick E. Duffy. Submitted

`RNA_pfal_fc_two_pd`	the reference sample
`RNA_pfal_fc_one_pd`	the comparison sample
`fold_change`	Enter a non-negative number. NOTE: Fold change is reported in the summary as positive numbers for up-regulated genes and negative numbers for down-regulated genes
`regulated_dir`	For ConditionA vs. ConditionB, select up-regulated for genes where ConditionA > ConditionB and select down-regulated for genes where ConditionB > ConditionA.
`minimum_percentile_value`	Enter a number for the minimum percentile value of the reference if down-regulated or the comparator if up-regulated the selected samples must meet in order to be included in the fold change calculation.
`o-fields`	Single valued attributes of the feature. Provide one or more values. Use comma as a delimter.
`o-tables`	Multi-valued attributes of the feature. Provide one or more values. Use comma as a delimter.
`.convert`	a logical value or a function that controls how the result of the method is returned. If this is a function, the character string or raw vector is passed to this function and it converts it appropriately. If this is a logical value and `TRUE`, then we attempt to convert the result based on its Content-Type returned by the Web server. If this is `FALSE`, the value from the Web server is returned as is.
`.url`	the URL for the Web request. This defaults to the correct value, but can be specified by the caller if the method is available at a different URL, e.g. locally or in a mirror server.
`.json`	a logical value controlling whether to use the JSON or the XML version of the method