Literature DB >> 34903605

A pan-cancer immunogenomic atlas for immune checkpoint blockade immunotherapy.

Jing Yang1, Shilin Zhao2, Jing Wang3, Quanhu Sheng4, Qi Liu5, Yu Shyr4.   

Abstract

The ability to identify robust genomic signatures that predict response to immune checkpoint blockade is restricted by limited sample sizes and ungeneralizable performance across cohorts. To address these challenges, we established Cancer-Immu (http://bioinfo.vanderbilt.edu/database/Cancer-Immu/) a comprehensive platform that integrates large-scale multidimensional omics data, including genetic, bulk, and single-cell transcriptomic, proteomic, and dynamic genomic profiles, with clinical phenotypes to explore consistent and rare immunogenomic connections. Currently Cancer-Immu has incorporated data for 3,652 samples for 16 cancer types. It provides easy access to immunogenomic data and empowers researchers to translate omics datasets into biological insights and clinical applications.

Entities:  

Year:  2021        PMID: 34903605      PMCID: PMC9189237          DOI: 10.1158/0008-5472.CAN-21-2335

Source DB:  PubMed          Journal:  Cancer Res        ISSN: 0008-5472            Impact factor:   13.312


  14 in total

Review 1.  Incidence of Pneumonitis With Use of Programmed Death 1 and Programmed Death-Ligand 1 Inhibitors in Non-Small Cell Lung Cancer: A Systematic Review and Meta-Analysis of Trials.

Authors:  Monica Khunger; Sagar Rakshit; Vinay Pasupuleti; Adrian V Hernandez; Peter Mazzone; James Stevenson; Nathan A Pennell; Vamsidhar Velcheti
Journal:  Chest       Date:  2017-05-10       Impact factor: 9.410

2.  TIMER: A Web Server for Comprehensive Analysis of Tumor-Infiltrating Immune Cells.

Authors:  Taiwen Li; Jingyu Fan; Binbin Wang; Nicole Traugh; Qianming Chen; Jun S Liu; Bo Li; X Shirley Liu
Journal:  Cancer Res       Date:  2017-11-01       Impact factor: 12.701

3.  Integrating single-cell transcriptomic data across different conditions, technologies, and species.

Authors:  Andrew Butler; Paul Hoffman; Peter Smibert; Efthymia Papalexi; Rahul Satija
Journal:  Nat Biotechnol       Date:  2018-04-02       Impact factor: 54.908

4.  Pan-tumor genomic biomarkers for PD-1 checkpoint blockade-based immunotherapy.

Authors:  Razvan Cristescu; Robin Mogg; Mark Ayers; Andrew Albright; Erin Murphy; Jennifer Yearley; Xinwei Sher; Xiao Qiao Liu; Hongchao Lu; Michael Nebozhyn; Chunsheng Zhang; Jared K Lunceford; Andrew Joe; Jonathan Cheng; Andrea L Webber; Nageatte Ibrahim; Elizabeth R Plimack; Patrick A Ott; Tanguy Y Seiwert; Antoni Ribas; Terrill K McClanahan; Joanne E Tomassini; Andrey Loboda; David Kaufman
Journal:  Science       Date:  2018-10-12       Impact factor: 47.728

5.  Profiling Tumor Infiltrating Immune Cells with CIBERSORT.

Authors:  Binbin Chen; Michael S Khodadoust; Chih Long Liu; Aaron M Newman; Ash A Alizadeh
Journal:  Methods Mol Biol       Date:  2018

6.  Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response.

Authors:  Peng Jiang; Shengqing Gu; Deng Pan; Jingxin Fu; Avinash Sahu; Xihao Hu; Ziyi Li; Nicole Traugh; Xia Bu; Bo Li; Jun Liu; Gordon J Freeman; Myles A Brown; Kai W Wucherpfennig; X Shirley Liu
Journal:  Nat Med       Date:  2018-08-20       Impact factor: 53.440

7.  Robust enumeration of cell subsets from tissue expression profiles.

Authors:  Aaron M Newman; Chih Long Liu; Michael R Green; Andrew J Gentles; Weiguo Feng; Yue Xu; Chuong D Hoang; Maximilian Diehn; Ash A Alizadeh
Journal:  Nat Methods       Date:  2015-03-30       Impact factor: 28.547

8.  Dynamic metrics-based biomarkers to predict responders to anti-PD-1 immunotherapy.

Authors:  Can Liu; Hua He; Xiaobing Li; Maureen A Su; Yanguang Cao
Journal:  Br J Cancer       Date:  2018-12-27       Impact factor: 7.640

9.  Meta-analysis of tumor- and T cell-intrinsic mechanisms of sensitization to checkpoint inhibition.

Authors:  Kevin Litchfield; James L Reading; Clare Puttick; Krupa Thakkar; Chris Abbosh; Robert Bentham; Thomas B K Watkins; Rachel Rosenthal; Dhruva Biswas; Andrew Rowan; Emilia Lim; Maise Al Bakir; Virginia Turati; José Afonso Guerra-Assunção; Lucia Conde; Andrew J S Furness; Sunil Kumar Saini; Sine R Hadrup; Javier Herrero; Se-Hoon Lee; Peter Van Loo; Tariq Enver; James Larkin; Matthew D Hellmann; Samra Turajlic; Sergio A Quezada; Nicholas McGranahan; Charles Swanton
Journal:  Cell       Date:  2021-01-27       Impact factor: 41.582

10.  Harmonization of Tumor Mutational Burden Quantification and Association With Response to Immune Checkpoint Blockade in Non-Small-Cell Lung Cancer.

Authors:  Natalie I Vokes; David Liu; Biagio Ricciuti; Elizabeth Jimenez-Aguilar; Hira Rizvi; Felix Dietlein; Meng Xiao He; Claire A Margolis; Haitham A Elmarakeby; Jeffrey Girshman; Anika Adeni; Francisco Sanchez-Vega; Nikolaus Schultz; Suzanne Dahlberg; Ahmet Zehir; Pasi A Jänne; Mizuki Nishino; Renato Umeton; Lynette M Sholl; Eliezer M Van Allen; Matthew D Hellmann; Mark M Awad
Journal:  JCO Precis Oncol       Date:  2019-11-12
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  1 in total

1.  PTBPs: An immunomodulatory-related prognostic biomarker in pan-cancer.

Authors:  Chen Chen; Anquan Shang; Yuting Gao; Jingjuan Huang; Gege Liu; William C Cho; Dong Li
Journal:  Front Mol Biosci       Date:  2022-08-23
  1 in total

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