Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction

Table 3 Evaluation of the suitability of ISOpure and other expression deconvolution methods for clinical use.^a.b

Method	Estimates individual cancer profiles	Uses unmatched normal tissues	Requires minimal additional data	Tested on clinical data
ISOpure	Yes	Yes	Yes	Yes
ISOLATE [14]	No	NA	Yes	No
Erkkila [28]	No	NA	Yes	No
Lahdeskmaki [27]	No	NA	Yes	No
Venet [26]	No	NA	Yes	No
Tolliver [31]	No	NA	Yes	No
Ghosh [29]	No	Yes	No	No
Shen-Orr [30]	No	NA	No	No
Bar-Joseph [32]	No	NA	No	No
Wang [21]	No	NA	No	No
Stuart [20]	No	NA	No	No
Gosink [34]	Yes	No	Yes	No
Clarke [33]	Yes	No	Yes	No

^aMethods require minimal additional data if they do not require mixing proportions of normal and cancer cells for each input tumor sample for deconvolution.
^bNA, not applicable; No, negative assessment; Yes, positive assessment.

ISSN: 1756-994X