Binbin Wang

TL;DR: Tumor Immune Estimation Resource (TIMER) is presented to comprehensively investigate molecular characterization of tumor-immune interactions and provides a user-friendly web interface for dynamic analysis and visualization of these associations, which will be of broad utilities to cancer researchers.

TL;DR: Tumor Immune Single Cell Hub is presented, a large-scale curated database that integrates single-cell transcriptomic profiles of nearly 2 million cells from 76 high-quality tumor datasets across 27 cancer types and provides a user-friendly interface for systematically visualizing, searching and downloading gene expression atlas in the TME from multiple cancer types, enabling fast, flexible and comprehensive exploration of the Tme.

TL;DR: A computational method to infer the complementarity-determining region 3 (CDR3) sequences of tumor-infiltrating T cells in 9,142 RNA-seq samples across 29 cancer types has the potential to simultaneously identify immunogenic neoantigens and tumor-reactive T cell clonotypes.

TL;DR: This protocol explains how to use MAGeCKFlute to perform quality control (QC), normalization, batch effect removal, copy-number bias correction, gene hit identification and downstream functional enrichment analysis for CRISPR screens.

TL;DR: The systematic integration and modeling of over 10,000 tumor molecular profiles from The Cancer Genome Atlas with over 23,000 ChIP-seq and chromatin accessibility profiles from the Cistrome collection reveals novel insights from integrative analyses combining chromatin profiles with tumor Molecular profiles.