genesbyexpressionpercentilebrucei5stg: Find <i>T.brucei</i> genes based on your specified expression...

In duncantl/REuPathDB: Interface to REST API of (EuPathDB)

Description

Find genes based on your specified expression percentile and lifecycle stage. <br><br>Whole genome comparison of RNA levels for both protein coding genes and structural RNAs in five different life cycle stages: in vivo slender bloodstream form, in vivo stumpy bloodstream form, cultured bloodstream form, log-phase procyclic culture form and stationary-phase procyclic culture form. RNA from three independent biological replicates from five different life cycle stages were hybridized to Nimblegen arrays (Madison,WI USA) that contained 8 probes per open reading frame and 3 probes per structural RNA spotted three times per array. <b>For this experiment, in the cases where the probe set mapped to near-identical genes, data was assigned to a single representative gene. (see Jensen et al. PMID: 19840382.) </b>

Arguments

expressionPercentileSampleBrucei5stg	Choose a Lifecycle stage Provide one or more values. Use comma as a delimter.
min_expression_percentile	Lower bound on expression percentile.
max_expression_percentile	Upper bound on expression percentile.
protein_coding_only	Should only protein coding genes be returned?
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

Value

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duncantl/REuPathDB documentation built on May 15, 2019, 5:28 p.m.