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Erschienen in: Cancer Immunology, Immunotherapy 6/2020

09.03.2020 | Letter to the Editors

ESTIMATE algorithm is not appropriate for inferring tumor purity and stromal and immune cell admixture in hematopoietic or stromal tumors

verfasst von: Qiang Liu, Yi Fang, Jing Wang

Erschienen in: Cancer Immunology, Immunotherapy | Ausgabe 6/2020

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Excerpt

With great interest, we have read the recent article entitled “Identification of prognostic genes in the acute myeloid leukemia immune microenvironment based on TCGA data analysis” [1] (by Yan et al. Cancer Immunol Immunother (2019) 68: 1971), which tried to identify key microenvironment-related genes correlated with prognosis of acute myeloid leukemia by analyzing publicly available gene expression data. The authors calculated immune/stromal scores for all acute myeloid leukemia (AML) patients based on Estimation of STromal and Immune cells in Malignant Tumors using Expression data (ESTIMATE) algorithm, and they found that their calculated immune and stromal scores were associated with the subtype classification of AML patients. Next, the authors identified differentially expressed genes according to immune scores and stromal scores, and further found that key genes seem to have prognostic value for AML patients. Although we appreciate efforts of the authors for data analysis and collection, some evident mistakes were found out in this article. …
Literatur
1.
Zurück zum Zitat Yan H, Qu J, Cao W, Liu Y, Zheng G, Zhang E, Cai Z (2019) Identification of prognostic genes in the acute myeloid leukemia immune microenvironment based on TCGA data analysis. Cancer Immunol Immunother 68:1971–1978CrossRef Yan H, Qu J, Cao W, Liu Y, Zheng G, Zhang E, Cai Z (2019) Identification of prognostic genes in the acute myeloid leukemia immune microenvironment based on TCGA data analysis. Cancer Immunol Immunother 68:1971–1978CrossRef
2.
Zurück zum Zitat Yoshihara K, Shahmoradgoli M, Martínez E et al (2013) Inferring tumour purity and stromal and immune cell admixture from expression data. Nat Commun 4:2612CrossRef Yoshihara K, Shahmoradgoli M, Martínez E et al (2013) Inferring tumour purity and stromal and immune cell admixture from expression data. Nat Commun 4:2612CrossRef
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Zurück zum Zitat Shah N, Wang P, Wongvipat J et al (2017) Regulation of the glucocorticoid receptor via a BET-dependent enhancer drives antiandrogen resistance in prostate cancer. Elife 6:e27861CrossRef Shah N, Wang P, Wongvipat J et al (2017) Regulation of the glucocorticoid receptor via a BET-dependent enhancer drives antiandrogen resistance in prostate cancer. Elife 6:e27861CrossRef
Metadaten
Titel
ESTIMATE algorithm is not appropriate for inferring tumor purity and stromal and immune cell admixture in hematopoietic or stromal tumors
verfasst von
Qiang Liu
Yi Fang
Jing Wang
Publikationsdatum
09.03.2020
Verlag
Springer Berlin Heidelberg
Erschienen in
Cancer Immunology, Immunotherapy / Ausgabe 6/2020
Print ISSN: 0340-7004
Elektronische ISSN: 1432-0851
DOI
https://doi.org/10.1007/s00262-020-02526-7

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