Fundamental Trade-offs Between Information Flow in Single Cells and Cellular Populations

Suderman R, Bachman JA, Smith A, Sorger PK, Deeds EJ. Fundamental trade-offs between information flow in single cells and cellular populations. Proceedings of the National Academy of Sciences of the United States of America. 2017 May 30;114(22):5755–5760. PMID: 28500273; PMCID: 5465904 Abstract

Signal transduction networks allow eukaryotic cells to make decisions based on information about […]

Deletion of the MAD2L1 Spindle Assembly Checkpoint Gene is Tolerated in Mouse Models of Acute T-cell Lymphoma and Hepatocellular Carcinoma

Foijer F, Albacker LA, Bakker B, Spierings DC, Yue Y, Xie SZ, Davis SH, Lutum-Jehle A, Takemoto D, Hare B, Furey B, Bronson RT, Lansdorp PM, Bradley A, Sorger PK. Deletion of the MAD2L1 spindle assembly checkpoint gene is tolerated in mouse models of acute T-cell lymphoma and hepatocellular carcinoma. eLife [Internet]. 2017 Mar 20;6. […]

Structure-guided Development of Covalent TAK1 Inhibitors

Tan L, Gurbani D, Weisberg EL, Hunter JC, Li L, Jones DS, Ficarro SB, Mowafy S, Tam CP, Rao S, Du G, Griffin JD, Sorger PK, Marto JA, Westover KD, Gray NS. Structure-guided development of covalent TAK1 inhibitors. Bioorganic & medicinal chemistry. 2017 Feb 1;25(3):838–846. PMID: 28011204; PMCID: 5484537 Abstract

TAK1 (transforming growth factor-beta-activated kinase […]

Adaptive Resistance of Melanoma Cells to RAF Inhibition via Reversible Induction of a Slowly Dividing de-differentiated State

Fallahi-Sichani M, Becker V, Izar B, Baker GJ, Lin JR, Boswell SA, Shah P, Rotem A, Garraway LA, Sorger PK. Adaptive resistance of melanoma cells to RAF inhibition via reversible induction of a slowly dividing de-differentiated state. Molecular systems biology. 2017 Jan 9;13(1):905. PMID: 28069687; PMCID: 5248573 Abstract

Treatment of BRAF-mutant melanomas with MAP kinase […]

Studies of TAK1-centered Polypharmacology with Novel Covalent TAK1 Inhibitors

Tan L, Gurbani D, Weisberg EL, Jones DS, Rao S, Singer WD, Bernard FM, Mowafy S, Jenney A, Du G, Nonami A, Griffin JD, Lauffenburger DA, Westover KD, Sorger PK, Gray NS. Studies of TAK1-centered polypharmacology with novel covalent TAK1 inhibitors. Bioorganic & medicinal chemistry [Internet]. 2016 Dec 7; PMID: 28038940; PMCID: 5484535 Abstract

Targeted […]

Cyclic Immunofluorescence (CycIF), A Highly Multiplexed Method for Single-cell Imaging

Lin JR, Fallahi-Sichani M, Chen JY, Sorger PK. Cyclic Immunofluorescence (CycIF), A Highly Multiplexed Method for Single-cell Imaging. Current protocols in chemical biology. 2016 Dec 7;8(4):251–264. PMID: 27925668; PMCID: 5233430 Abstract

Cyclic Immunofluorescence (CycIF) is a public-domain method for performing highly multiplexed immunofluorescence imaging using a conventional epifluorescence microscope. It uses simple reagents and existing […]

Profiling Drugs for Rheumatoid Arthritis that Inhibit Synovial Fibroblast Activation

Jones DS, Jenney AP, Swantek JL, Burke JM, Lauffenburger DA, Sorger PK. Profiling drugs for rheumatoid arthritis that inhibit synovial fibroblast activation. Nature chemical biology. 2017 Jan 1;13(1):38–45. PMID: 27820799; PMCID: 5372219 Abstract

Activation of synovial fibroblasts (SFs) contributes to rheumatoid arthritis (RA) by damaging synovial membranes and generating inflammatory cytokines that recruit immune cells […]

L1000CDS2: LINCS L1000 Characteristic Direction Signatures Search Engine

Duan Q, Reid SP, Clark NR, Wang Z, Fernandez NF, Rouillard AD, Readhead B, Tritsch SR, Hodos R, Hafner M, Niepel M, Sorger PK, Dudley JT, Bavari S, Panchal RG, Ma’ayan A. L1000CDS2: LINCS L1000 characteristic direction signatures search engine. NPJ systems biology and applications [Internet]. 2016 Aug 1;2. PMID: 28413689; PMCID: 5389891 Abstract

The […]

Conservation of Protein Abundance Patterns Reveals the Regulatory Architecture of the EGFR-MAPK Pathway

Shi T, Niepel M, McDermott JE, Gao Y, Nicora CD, Chrisler WB, Markillie LM, Petyuk VA, Smith RD, Rodland KD, Sorger PK, Qian WJ, Wiley HS. Conservation of Protein Abundance Patterns Reveals the Regulatory Architecture of the EGFR-MAPK Pathway. Sci Signal. 2016;9(436):rs6. Epub 2016/07/14. doi: 10.1126/scisignal.aaf0891. PMID: 27405981; PMCID: PMC5036860. Abstract

Various genetic mutations associated […]

Growth Rate Inhibition Metrics Correct for Confounders in Measuring Sensitivity to Cancer Drugs

Hafner M, Niepel M, Chung M, Sorger PK. Growth Rate Inhibition Metrics Correct for Confounders in Measuring Sensitivity to Cancer Drugs. Nat Methods. 2016;13(6):521-7. Epub 2016/05/03. doi: 10.1038/nmeth.3853. PMID: 27135972; PMCID: PMC4887336. Abstract

Drug sensitivity and resistance are conventionally quantified by IC50 or Emax values, but these metrics are highly sensitive to the number of […]