TIMER: A web server for comprehensive analysis of tumor-infiltrating immune cells

Taiwen Li; Jingyu Fan; Binbin Wang; Nicole Traugh; Qianming Chen; Jun S. Liu; Bo Li; X. Shirley Liu

doi:10.1158/0008-5472.CAN-17-0307

TIMER: A web server for comprehensive analysis of tumor-infiltrating immune cells

Taiwen Li, Jingyu Fan, Binbin Wang, Nicole Traugh, Qianming Chen, Jun S. Liu, Bo Li, X. Shirley Liu

Research output: Contribution to journal › Article › peer-review

3526 Scopus citations

Abstract

Recent clinical successes of cancer immunotherapy necessitate the investigation of the interaction between malignant cells and the host immune system. However, elucidation of complex tumor-immune interactions presents major computational and experimental challenges. Here, we present Tumor Immune Estimation Resource (TIMER; cistrome.shinyapps. io/timer) to comprehensively investigate molecular characterization of tumor-immune interactions. Levels of six tumor-infiltrating immune subsets are precalculated for 10, 897 tumors from 32 cancer types. TIMER provides 6 major analytic modules that allow users to interactively explore the associations between immune infiltrates and a wide spectrum of factors, including gene expression, clinical outcomes, somatic mutations, and somatic copy number alterations. TIMER provides a user-friendly web interface for dynamic analysis and visualization of these associations, which will be of broad utilities to cancer researchers. Cancer Res; 77(21); e108-10.

Original language	English (US)
Pages (from-to)	e108-e110
Journal	Cancer research
Volume	77
Issue number	21
DOIs	https://doi.org/10.1158/0008-5472.CAN-17-0307
State	Published - Nov 1 2017

ASJC Scopus subject areas

Oncology
Cancer Research

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10.1158/0008-5472.CAN-17-0307

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title = "TIMER: A web server for comprehensive analysis of tumor-infiltrating immune cells",

abstract = "Recent clinical successes of cancer immunotherapy necessitate the investigation of the interaction between malignant cells and the host immune system. However, elucidation of complex tumor-immune interactions presents major computational and experimental challenges. Here, we present Tumor Immune Estimation Resource (TIMER; cistrome.shinyapps. io/timer) to comprehensively investigate molecular characterization of tumor-immune interactions. Levels of six tumor-infiltrating immune subsets are precalculated for 10, 897 tumors from 32 cancer types. TIMER provides 6 major analytic modules that allow users to interactively explore the associations between immune infiltrates and a wide spectrum of factors, including gene expression, clinical outcomes, somatic mutations, and somatic copy number alterations. TIMER provides a user-friendly web interface for dynamic analysis and visualization of these associations, which will be of broad utilities to cancer researchers. Cancer Res; 77(21); e108-10.",

author = "Taiwen Li and Jingyu Fan and Binbin Wang and Nicole Traugh and Qianming Chen and Liu, {Jun S.} and Bo Li and Liu, {X. Shirley}",

note = "Funding Information: This work was funded by grants from the National Natural Science Foundation of China 31329003, 81621062, 81520108009, and NIH U01 CA180980, as well as support from the Dana-Farber Cancer Institute. Publisher Copyright: {\textcopyright} 2017 American Association for Cancer Research.",

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doi = "10.1158/0008-5472.CAN-17-0307",

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AU - Chen, Qianming

AU - Liu, Jun S.

AU - Li, Bo

AU - Liu, X. Shirley

N1 - Funding Information: This work was funded by grants from the National Natural Science Foundation of China 31329003, 81621062, 81520108009, and NIH U01 CA180980, as well as support from the Dana-Farber Cancer Institute. Publisher Copyright: © 2017 American Association for Cancer Research.

PY - 2017/11/1

Y1 - 2017/11/1

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TIMER: A web server for comprehensive analysis of tumor-infiltrating immune cells

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