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2016 ; 7
(16
): 22064-76
Nephropedia Template TP
gab.com Text
Twit Text FOAVip
Twit Text #
English Wikipedia
Mutation based treatment recommendations from next generation sequencing data: a
comparison of web tools
#MMPMID26980737
Patel JM
; Knopf J
; Reiner E
; Bossuyt V
; Epstein L
; DiGiovanna M
; Chung G
; Silber A
; Sanft T
; Hofstatter E
; Mougalian S
; Abu-Khalaf M
; Platt J
; Shi W
; Gershkovich P
; Hatzis C
; Pusztai L
Oncotarget
2016[Apr]; 7
(16
): 22064-76
PMID26980737
show ga
Interpretation of complex cancer genome data, generated by tumor target profiling
platforms, is key for the success of personalized cancer therapy. How to draw
therapeutic conclusions from tumor profiling results is not standardized and may
vary among commercial and academically-affiliated recommendation tools. We
performed targeted sequencing of 315 genes from 75 metastatic breast cancer
biopsies using the FoundationOne assay. Results were run through 4 different web
tools including the Drug-Gene Interaction Database (DGidb), My Cancer Genome
(MCG), Personalized Cancer Therapy (PCT), and cBioPortal, for drug and clinical
trial recommendations. These recommendations were compared amongst each other and
to those provided by FoundationOne. The identification of a gene as targetable
varied across the different recommendation sources. Only 33% of cases had 4 or
more sources recommend the same drug for at least one of the usually several
altered genes found in tumor biopsies. These results indicate further development
and standardization of broadly applicable software tools that assist in our
therapeutic interpretation of genomic data is needed. Existing algorithms for
data acquisition, integration and interpretation will likely need to incorporate
artificial intelligence tools to improve both content and real-time status.