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CIBERSORTx analysis

BJ Bojana Jovanović
DT Daniel Temko
LS Laura E. Stevens
MS Marco Seehawer
AF Anne Fassl
KM Katherine Murphy
JA Jayati Anand
KG Kodie Garza
AG Anushree Gulvady
XQ Xintao Qiu
NH Nicholas W. Harper
VD Veerle W. Daniels
HX Huang Xiao-Yun
JG Jennifer Y. Ge
MA Maša Alečković
JP Jason Pyrdol
KH Kunihiko Hinohara
SE Shawn B. Egri
MP Malvina Papanastasiou
RV Raga Vadhi
AF Alba Font-Tello
RW Robert Witwicki
GP Guillermo Peluffo
AT Anne Trinh
SS Shaokun Shu
BD Benedetto Diciaccio
ME Muhammad B. Ekram
AS Ashim Subedee
ZH Zachary T. Herbert
KW Kai W. Wucherpfennig
AL Anthony G. Letai
JJ Jacob D. Jaffe
PS Piotr Sicinski
MB Myles Brown
DD Deborah Dillon
HL Henry W. Long
FM Franziska Michor
KP Kornelia Polyak
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The CIBERSORTx web portal (https://cibersortx.stanford.edu/) was used to run CIBERSORTx in “Impute Cell Fractions” mode. The tool was run using the provided LM22 signature matrix in conjunction with the TCGA TNBC FPKM data. “B-mode” batch correction was used based on the LM22 source GEP file, with quantile normalization disabled. 100 permutations were used for significance testing.

Copyright and License information:  ©2023
This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

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