Publications
Last updated January 30, 2020
Phase II Preprints
| Vemulapalli, V., Chylek, L., Erickson, A., LaRochelle, J., Subramanian, K., Mohseni, M., LaMarche, M., Acker, M.G., Sorger, P.K., Gygi, S.P., and Blacklow, S.C. (2019). Time resolved quantitative phosphoproteomics reveals distinct patterns of SHP2 dependence in EGFR signaling. bioRvix https://www.biorxiv.org/content/10.1101/598664v2 | |
| Russell, D.P.W., and Sorger, P.K. (2019) Maintaining the provenance of microscopy metadata using OMERO.forms software. bioRxiv. https://www.biorxiv.org/content/early/2017/02/16/109199 |
Phase II Publications
| Li, Z., Pinch, B.J., Olson, C.M., Donovan, K.A., Nowak, R.P., Mills, C.E., Scott, D.A., Doctor, Z.M., Eleuteri, N.A., Chung, M., Sorger. P.K., Fischer, E.S., and Gray, N.S. (2020). Development and Characterization of a Wee1 Kinase Degrader. Cell Chem Biol. pii: S2451-9456(19)30358-7. doi:10.1016/j.chembiol.2019.10.013 PMID:31735695 | ||
| Chopra, S.S., Jenney, A., Palmer, A., Niepel, M., Chung, M., Mills, C., Sivakumaren, S.C., Liu, Q., Chen, J.-Y., Yapp, C., Asara, J.M., Gray, N.S., and Sorger, P.K. (2019) Combined inhibition of mTOR and PIKKs exploits replicative and checkpoint vulnerabilities to induce death of PI3K-activated triple-negative breast cancer cells. Cell Syst. 10(1):66-81.e11. doi:10.1016/j.cels.2019.11.001 PMID:31812693 | Explore | |
| Niepel, M., Hafner, M., Mills, C.E., Subramanian, K., Williams, E.H., Chung, M., Gaudio, B., Barrette, A.M., Stern, A.D., Hu, B., Korkola, J.E., LINCS Consortium, Gray, J.W., Birtwistle, M.R., Heiser, L.M., and Sorger, P.K. (2019). A Multi-center Study on the Reproducibility of Drug-Response Assays in Mammalian Cell Lines. Cell Syst. 9(1):35-48.e5. doi:10.1016/j.cels.2019.06.005 PMID:31302153 | Explore | |
| Pavkovic, M., Pantano, L., Gerlach, C.V., Brutus, S., Boswell, S.A., Everley, R.A., Shah, J.V., Sui, S.H., and Vaidya, V.S. (2019) Multi omics analysis of fibrotic kidneys in two mouse models. Sci Data 6(1):92. doi:10.1038/s41597-019-0095-5 PMID:31201317 | ||
| Hafner, M., Mills, C.E., Subramanian, K., Chen, C., Chung, M., Boswell, S.A., Everley, R.A., Liu, C., Walmsley, C.S., Juric, D., and Sorger, P.K. (2019) Multiomics profiling establishes the polypharmacology of FDA-approved CDK4/6 inhibitors and the potential for differential clinical activity. Cell Chem Biol. pii: S2451-9456(19)30174-6. doi:10.1016/j.chembiol.2019.05.005. | Explore | |
| Wang, H., Sheehan, R.P., Palmer, A.C., Everley, R.A., Boswell, S.A., Ron-Harel, N., Holton, K.M., Jacobson, C.A., Erickson, A., Maliszewski, L., Haigis, M.C., and Sorger, P.K. (2019). Adaptation of Human iPSC-Derived Cardiomyocytes to Tyrosine Kinase Inhibitors Reduces Acute Cardiotoxicity via Metabolic Reprogramming. Cell Syst pii: S2405-4712(19)30079-1. doi:10.1016/j.cels.2019.03.009 PMID:31078528 | Explore | |
| Rao, S., Gurbani, D., Du, G., Everley, R.A., Browne, C.M., Chaikuad, A., Li, T., Schröder, M., Gondi, S., Ficarro, S.B., Sim T., Kim, N.D., Berberich, M.J., Knapp, S., Marto, J.A., Westover, K.D., Sorger, P.K., Gray, N.S. (2019). Leveraging Compound Promiscuity to Identify Targetable Cysteines within the Kinome. Cell Chem Biol. pii: S2451-9456(19)30076-5. doi:10.1016/j.chembiol.2019.02.021 PMID:30982749. | ||
| Moret, N., Clark, N.A., Hafner, M., Wang, Y., Lounkine, E., Medvedovic, M., Wang, J., Gray, N., Jenkins, J., and Sorger, P.K. (2018) Cheminformatics tools for analyzing and designing optimized small molecule libraries. Cell Chem Biol 16;26(5):765-777.e3. doi:10.1016/j.chembiol.2019.02.018 [Epub ahead of print] PMID:30956147 PMCID:PMC6526536 | Explore | |
| Ferguson. F.M., Doctor, Z.M., Ficarro, S.B., Browne, C.M., Marto, J.A., Johnson, J.L., Yaron, T.M., Cantley, L.C., Kim, N.D., Sim, T., Berberich, M.J., Kalocsay, M., Sorger, P.K., and Gray, N.S. (2019) Discovery of Covalent CDK14 Inhibitors with Pan-TAIRE Family Specificity. Cell Chem Biol. pii: S2451-9456(19)30070-4. doi:10.1016/j.chembiol.2019.02.015 PMID:30930164 | ||
| Olson, C.M., Liang, Y., Leggett, A., Park, W.D., Li, L., Mills, C.E., Elsarrag, S.Z., Ficarro, S.B., Zhang, T., Düster, R., Geyer, M., Sim, T., Marto, J.A., Sorger, P.K., Westover, K.D., Lin, C.Y., Kwiatkowski, N., and Gray, N.S. (2019) Development of a selective CDK7 covalent inhibitor reveals predominant cell-cycle phenotype. Cell Chem Biol. pii: S2451-9456(19)30067-4. doi:10.1016/j.chembiol.2019.02.012 PMID:30905681 | ||
| Graim, K., Friedl, V., Houlahan, K.E., and Stuart, J.M. (2019) PLATYPUS: A Multiple-View Learning Predictive Framework for Cancer Drug Sensitivity Prediction. Pac Symp Biocomput. 24:136-147. PMID:30864317 PMCID:PMC6417802 | ||
| Rao, S., Du, G., Hafner, M., Subramanian, K., Sorger, P.K., and Gray, N.S. (2019) A multi-targeted probe-based strategy to identify signaling vulnerabilities in cancers. J Biol Chem. pii: jbc.RA118.006805. doi:10.1074/jbc.RA118.006805. PMID:30858179 PMCID:PMC6544847 | ||
| Song, Y., Subramanian, K., Berberich, M.J., Rodriguez, S., Latorre, I.J., Luria, C.M., Everley, R., Albers, M.W., Mitchison, T.J., and Sorger, P.K. (2019) A dynamic view of the proteomic landscape during differentiation of ReNcell VM cells, an immortalized human neural progenitor line. Scientific Data. 6: 190016. doi:10.1038/sdata.2019.16 PMID:30778261 PMCID:PMC6380223 | Explore | |
| Browne, C.M., Jiang, B., Ficarro, S.B., Doctor, Z.M., Johnson, J.L., Card, J.D., Sivakumaren, S.C., Alexander, W.M., Yaron, T.M., Murphy, C.J., Kwiatkowski, N.P., Zhang, T., Cantley, L.C., Gray, N.S., and Marto, J.A. (2019) A Chemoproteomic Strategy for Direct and Proteome-Wide Covalent Inhibitor Target-Site Identification.J Am Chem Soc. 141(1):191-203. doi:10.1021/jacs.8b07911 PMID:30518210 PMCID:PMC6487859 | ||
| Lizotte, P.H., Hong, R.L., Luster, T.A., Cavanaugh, M.E., Taus, L.J., Wang, S., Dhaneshwar, A., Mayman, N., Yang, A., Kulkarni, M., Badalucco, L., Fitzpatrick, E., Kao, H.F., Kuraguchi, M., Bittinger, M., Kirschmeier, P.T., Gray, N.S., Barbie, D.A., Jänne, P.A. (2018)A High-Throughput Immune-Oncology Screen Identifies EGFR Inhibitors as Potent Enhancers of Antigen-Specific Cytotoxic T-lymphocyte Tumor Cell Killing. Cancer Immunol Res. 6(12):1511-1523. doi:10.1158/2326-6066.CIR-18-0193 PMID:30242021 | ||
| Wang, J., Erazo, T., Ferguson, F.M., Buckley, D.L., Gomez, N., Muñoz-Guardiola, P., Diéguez-Martínez, N., Deng, X., Hao, M., Massefski, W., Fedorov, O., Offei-Addo, N.K., Park, P.M., Dai, L., DiBona, A., Becht, K., Kim, N.D., McKeown, M.R., Roberts, J.M., Zhang, J., Sim, T., Alessi, D.R., Bradner, J.E., Lizcano, J.M., Blacklow, S.C., Qi, J., Xu, X., and Gray, N.S. (2018) Structural and Atropisomeric Factors Governing the Selectivity of Pyrimido-benzodiazipinones as Inhibitors of Kinases and Bromodomains. ACS Chem Biol. 13(9):2438-2448. doi:10.1021/acschembio.7b00638 PMID:30102854 PMCID:PMC6333101 | ||
| Lin, J.-R., Izar, B., Mei, S., Wang, S., Shah, P., Yapp, C., Santagata, S., and Sorger, P. (2018) Highly multiplexed immunofluorescence imaging of human tissues and tumors using t-CyCIF and conventional optical microscopes. eLife. 7: e31657. doi:10.7554/eLife.31657 PMID:29993362 PMCID:PMC6075866 | Explore | |
| Sampattavanich, S., Steiert, B., Kramer, B.A., Gyori, B.M., Albeck, J.G., and Sorger, P.K. (2018) Encoding Growth Factor Identity in the Temporal Dynamics of FOXO3 under the Combinatorial Control of ERK and AKT Kinases. Cell Syst. 6:1-15. doi:10.1016/j.cels.2018.05.004 PMID:29886111 PMCID:PMC6322215 [Available on 2019-06-27] | Explore | |
| Koch, P.D., Miller, H.R., Yu, G., Tallarico, J.A., Sorger, P.K., Wang, Y., Feng, Y., Thomas, J.R., Ross, N.T., and Mitchison, T. (2018) A High Content Screen in Macrophages Identifies Small Molecule Modulators of STING-IRF3 and NFkB Signaling. ACS Chem Biol. 13(4):1066-1081. doi:10.1021/acschembio.7b01060 PMID:29553248 PMCID:PMC5996755 | ||
| Berberich, M.J., Paulo, J.A., Everley, R.A. (2018) MS3-IDQ: Utilizing MS3 Spectra beyond Quantification Yields Increased Coverage of the Phosphoproteome in Isobaric Tag Experiments. J Proteome Res. 17(4):1741-1747. doi:10.1021/acs.jproteome.8b00006 PMID:29461835 PMCID:PMC5984591 | ||
| Jones, D.S., Jenney, A.P., Joughin, B.A., Sorger, P.K., and Lauffenburger, D. (2018) Inflammatory but not mitogenic contexts prime synovial fibroblasts for compensatory signaling responses to p38 inhibition. Sci Signal. 11(520): eaal1601. doi:10.1126/scisignal.aal1601 PMID:29511118 PMCID:PMC5978689 | ||
| Coy, S., Rashid, R., Lin, J.R., Du, Z., Donson, A.M., Hankinson, T.C., Foreman, N.K., Manley, P.E., Kieran, M.W., Reardon, D.A., Sorger, P.K., and Santagata, S. (2018) Multiplexed Immunofluorescence Reveals Potential PD-1/PD-L1 Pathway Vulnerabilities in Craniopharyngioma. Neuro Oncol. doi:10.1093/neuonc/noy035. PMID:29509940 PMCID:PMC6280314 | ||
| Keenan, A.B., Jenkins, S.L., Jagodnik, K.M., Koplev, S., He, E., et al. (2017) The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level cataloging of human cells response to perturbations. Cell Syst. pii S2405-4712(17):30490-8. doi:10.1016/j.cels.2017.11.001 PMID:29199020 PMCID:PMC5799026 | ||
| Hafner, M., Heiser, L.M., Williams, E.H., Niepel, M., Wang, N.J., Korkola, J.E., Gray, J.W., and Sorger, P.K. (2017) Quantification of sensitivity and resistance of breast cancer cell lines to anti-cancer drugs using GR metrics. Sci Data. 4:170166. doi:10.1038/sdata.2017.166 PMID:29112189 PMCID:PMC5674849 | ||
| Newton, Y., Novak, A.M., Swatloski, T., McColl, D.C., Chopra, S., Graim, K., Weinstein, A.S., Baertsch, R., Salama, S.R., Ellrott, K., Chopra, M., Goldstein, T.C., Haussler, D., Morozova, O., Stuart, J.M. (2017) TumorMap: Exploring the molecular similarities of cancer samples in an interactive portal. Cancer Res. pii 77(21):e111-e114. doi:10.1158/0008-5472.CAN-17-0580 PMID:29092953 PMCID:PMC5751940 | ||
| Niepel, M., Hafner, M., Duan, Q., Wang, Z., Paull, E.O., Chung, M., Lu, X., Stuart, J.M., Golub, T.R., Subramanian, A., Ma’ayan, A., and Sorger, P.K. (2017) Common and cell-type specific responses to anti-cancer drugs revealed by high throughput transcript profiling. Nat Commun. 8(1):1186. doi:10.1038/s41467-017-01383-w PMID:29084964 PMCID:PMC5662764 | ||
| Clark, N.A., Hafner, M., Kouril, M., Williams, E.H., Muhlich, J.L., Pilarczyk, M., Niepel, M., Sorger, P.K., and Medvedovic, M. (2017) GRcalculator: an online tool for calculating and mining drug-response data. BMC Cancer. 17(1):698. doi:10.1186/s12885-017-3689-3 PMID:29065900 PMCID:PMC5655815 | ||
| Gönen, M., Weir, B.A., Cowley, G.S., Vazquez, F., Guan, Y., et al. (2017) A community challenge for inferring genetic predictors of gene essentialities through analysis of a functional screen of cancer cell lines. Cell Syst. S2405-4712(17):30392-7. doi:10.1016/j.cels.2017.09.004 PMID:28988802 NIHMSID 939327 | ||
| Werbin, J.L., Avendano, M.S., Becker, V., Jungmann, R., Yin, P., Danuser, G., and Sorger, P.K. (2017) Multiplexed Exchange-PAINT imaging reveals ligand-dependent EGFR and Met interactions in the plasma membrane. Sci Rep. 7(1):12150. doi:10.1038/s41598-017-12257-y PMID:28939861 PMCID:PMC5610318 | Explore | |
| Ferguson, F.M., Doctor, Z.M., Chaikuad, A., Sim, T., Kim, N.D., Knapp, S., Gray, N.S. (2017) Characterization of a highly selective inhibitor of the Aurora kinases. Bioorg Med Chem Lett. 27(18):4405-4408. doi:10.1016/j.bmcl.2017.08.016 PMID:28818446 | ||
| Hafner, M., Niepel, M., Subramanian, K., and Sorger, P.K. (2017) Designing drug response experiments and quantifying their results. Curr Protoc Chem Biol. 9(2):96-116. doi:10.1002/cpch.19 PMID:28628201 | ||
| Niepel, M., Hafner, M., Chung, M., and Sorger, P.K. (2017) Measuring cancer drug sensitivity and resistance in cultured cells. Curr Protoc Chem Biol. 19;9(2):55-74. doi:10.1002/cpch.21. PMID:28628199 PMCID:PMC5538315 | ||
| Hafner, M., Niepel, M., and Sorger, P.K. (2017) Alternative drug sensitivity metrics improve preclinical cancer pharmacogenomics. Nat Biotechnol. 35(6):500-502. doi:10.1038/nbt.3882 PMID:28591115 PMCID:PMC5668135 | ||
| Graim, K., Liu, T.T., Achrol, A.S., Paull, E.O., Newton, Y., Chang, S.D., Harsh IV, G.R., Cordero, S.P., Rubin, D.L., and Stuart, J.M. (2017) Revealing cancer subtypes with higher-order correlations applied to imaging and omics data. BMC Med Genomics. 10(1):20. doi:10.1186/s12920-017-0256-3 PMID:28359308 PMCID:PMC5374737 | ||
| Tan, L., Gurbani, D., Weisberg, E.L., Jones, D.S., Rao, S., Singer, W.D., Bernard, F.M., Mowafy, S., Jenney, A., Du, G., Nonami, A., Griffin, J.D., Lauffenburger, D.A., Westover, K.D., Sorger, P.K., and Gray, N.S. (2017) Studies of TAK1-centered polypharmacology with novel covalent TAK1 inhibitors. Bioorg Med Chem. 25(4):1320-1328. doi:10.1016/j.bmc.2016.11.034 PMID:28038940 | ||
| Everley, R.A., Huttlin, E.L., Erickson, A.R., Beausoleil, S.A., and Gygi, S.P. (2016) Neutral loss is a very common occurrence in phosphotyrosine-containing peptides labeled with isobaric tags. J Proteome Res. 16(2):1069-1076. doi:10.1021/acs.jproteome.6b00487 PMID:27978624 | Explore | |
| Tan, L., Gurbani, D., Weisberg, E.L., Hunter, J.C., Li, L., Jones, D.S., Ficarro, S.B., Mowafy, S., Tam, C.P., Rao, S., Du, G., Griffin, J.D., Sorger, P.K., Marto, J.A., Westover, K.D., and Gray, N.S. (2017) Structure-guided development of covalent TAK1 inhibitors. Bioorg Med Chem. 25(3):838-846. doi:10.1016/j.bmc.2016.11.035 PMID:28011204 PMCID:PMC5484537 | ||
| Erickson, B.K., Rose, C.M., Braun, C.R., Erickson, A.R., Knott, J., McAlister, G.C., Wühr, M., Paulo, J.A., Everley, R.A., and Gygi, S.P. (2017) A Strategy to Combine Sample Multiplexing with Targeted Proteomics Assays for High-Throughput Protein Signature Characterization. Mol Cell. 65(2):361-370. doi:10.1016/j.molcel.2016.12.005 PMID:28065596 PMCID:PMC5250569 |
Explore | |
| Fallahi-Sichani, M., Becker, V., Izar, B., Baker, G.J., Lin, J.R., Boswell, S.A., Shah, P., Rotem, A., Garraway, L.A., and Sorger, P.K. (2017) Adaptive resistance of melanoma cells to RAF inhibition via reversible induction of a slowly dividing de‐differentiated state. Mol Syst Biol. 13(1):905. doi:10.15252/msb.20166796 PMID:28069687 PMCID:PMC5248573 | Explore | |
| Jones, D.S., Jenney, A.P., Swantek, J.L., Burke, J.M., Lauffenburger, D.A., and Sorger, P.K. (2017) Profiling drugs for rheumatoid arthritis that inhibit synovial fibroblast activation. Nat Chem Biol. 13(1):38-45. doi:10.1038/nchembio.2211 PMID:27820799 PMCID:PMC5372219 | Explore | |
| Lin, J.R., Fallahi-Sichani, M., Chen, J.Y., and Sorger, P.K. (2016) Cyclic Immunofluorescence (CycIF), a highly multiplexed method for single-cell imaging. Curr Protoc Chem Biol. 8(4):251-264. doi:10.1002/cpch.14 PMID:27925668 PMCID:PMC5233430 | Explore | |
| Shi, T., Niepel, M., McDermott, J.E., Gao, Y., Nicora, C.D., Chrisler, W.B., Markillie, L.M., Petyuk, V.A., Smith, R.D., Rodland, K.D., Sorger, P.K., Qian, W.J., and Wiley, H.S. (2016) Conservation of protein abundance patterns reveals the regulatory architecture of the EGFR-MAPK pathway. Sci Signal. 9(436):rs6. doi:10.1126/scisignal.aaf0891 PMID:27405981 PMCID:PMC5036860 | ||
| Chong, C.R., Bahcall, M., Capelletti, M., Kosaka, T., Ercan, D., Sim, T., Sholl, L.M., Nishino, M., Johnson, B.E., Gray, N.S., and Jänne, P.A. (2019). Identification of Existing Drugs That Effectively Target NTRK1 and ROS1 Rearrangements in Lung Cancer. Clin Cancer Res 23(1):204-213. doi:10.1158/1078-0432.CCR-15-1601 PMID:27370605 PMCID:PMC5203969 | ||
| Hafner, M., Niepel, M., Chung, M., and Sorger, P.K. (2016) Growth rate inhibition metrics correct for confounders in measuring sensitivity to cancer drugs. Nat Methods. 13(6):521-527. doi:10.1038/nmeth.3853 PMID:27135972 PMCID:PMC4887336 | Explore | |
| Sokolov, A., Carlin, D.E., Paull, E.O., Baertsch, R., and Stuart, J.M. (2016) Pathway-Based Genomics Prediction using Generalized Elastic Net. PLoS Comput Biol. 12(3):e10004790. doi:10.1371/journal.pcbi.1004790 PMID:26960204 PMCID:PMC4784899 | ||
| Sokolov, A., Paull, E.O., and Stuart, J.M. (2016) One-class detection of cell states in tumor subtypes. Pac Symp Biocomput. 21:405-16. PMID:26776204 PMCID:PMC4856035 | ||
| Lin, J.-R., Fallahi-Sichani, M., and Sorger, P.K. (2015) Highly multiplexed imaging of single cells using a high-throughput cyclic immunofluorescence method. Nat Commun. 6:8390. doi:10.1038/ncomms9390 PMID:26399630 PMCID:PMC4587398 | Explore | |
| Roux, J., Hafner, M., Bandara, S., Sims, J.J., Hudson, H., Chai, D.H., and Sorger, P.K. (2015) Fractional killing arises from cell-to-cell variability in overcoming a caspase activity threshold. Mol Syst Biol. 11:803. doi:10.15252/msb.20145584 PMID:25953765 PMCID:PMC4461398 | Explore | |
| Fallahi-Sichani, M., Moerke, N.J., Niepel, M., Zhang, T., Gray, N.S., and Sorger, P.K. (2015) Systematic analysis of BRAFV600E melanomas reveals a role for JNK/c-Jun pathway in adaptive resistance to drug-induced apoptosis. Mol Syst Biol. 11(3):797. doi:10.15252/msb.20145877 PMID:25814555 PMCID:PMC4380931 | Explore | |
Featured Pilot Phase Publications
| Farshidfar, F., Zheng, S., Gingras, M.C., Newton, Y., Shih, J., et al. Integrative Genomic Analysis of Cholangiocarcinoma Identifies Distinct IDH-Mutant Molecular Profiles. Cell Rep. 18(11):2780-2794. doi:10.1016/j.celrep.2017.02.033 PMID:28297679 PMCID:PMC5493145 | |
| Duan, Q., Flynn, C., Niepel, M., Hafner, M., Muhlich, J.L., Fernandez, N.F., Rouillard, A.D., Tan, C.M., Chen, E.Y., Golub, T.R., Sorger, P.K., Subramanian, A., and Ma’ayan, A. (2014) LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures. Nucleic Acids Res. 42:W449-60. doi:10.1093/nar/gku476 PMID:24906883 PMCID:PMC4086130 | |
| Vempati, U.D., Chung, C., Mader, C., Koleti, A., Datar, N., Vidović, D., Wrobel, D., Erickson, S., Muhlich, J.L., Berriz, G., Benes, C.H., Subramanian, A., Pillai, A., Shamu, C.E., and Schürer, S.C. (2014) Metadata Standard and Data Exchange Specifications to Describe, Model, and Integrate Complex and Diverse High-Throughput Screening Data from the Library of Integrated Network-based Cellular Signatures (LINCS). J Biomol Screen. 19:803-816. doi:10.1177/1087057114522514 PMID:24518066 | |
| Niepel, M., Hafner, M., Pace, E.A., Chung, M., Chai, D.H., Zhou, L., Muhlich, J.L., Schoeberl, B., and Sorger, P.K. (2014) Analysis of growth factor signaling in genetically diverse breast cancer lines. BMC Biol. 12:20. doi:10.1186/1741-7007-12-20 PMID:24655548 PMCID:PMC4234128 | Explore |
| Tang, Y. (2014) A one-step imaging assay to monitor cell cycle state and apoptosis in mammalian cells. Curr Protoc Chem Biol. 6(1):1-5. doi:10.1002/9780470559277.ch130140 PMID:24652619 PMCID:PMC4016950 | Explore |
| Paull, E.O., Carlin, D.E., Niepel, M., Sorger, P.K., Haussler, D., and Stuart, J.M. (2013) Discovering causal pathways linking genomic events to transcriptional states using Tied Diffusion Through Interacting Events (TieDIE). Bioinformatics. 29:2757–2764. doi:10.1093/bioinformatics/btt471 PMID:23986566 PMCID:PMC3799471 | Explore |
| Fallahi-Sichani, M., Honarnejad, S., Heiser, L.M., Gray, J.W. & Sorger, P.K. (2013) Metrics other than potency reveal systematic variation in responses to cancer drugs. Nat Chem Biol. 9:708–714. doi:10.1038/nchembio.1337 PMID:24013279 PMCID:PMC3947796 | Explore |
| Tang, Y., Xie, T., Florian, S., Moerke, N., Shamu, C., Benes, C., and Mitchison, T.J. (2013) Differential Determinants of Cancer Cell Insensitivity to Antimitotic Drugs Discriminated by a One-Step Cell Imaging Assay. J Biomol Screen. 18:1062-71. doi:10.1177/1087057113493804 PMID:23788527 PMCID:PMC3783590 | Explore |
| Niepel, M., Hafner, M., Pace, E.A., Chung, M., Chai, D.H., Zhou, L., Schoeberl, B., and Sorger, P.K. (2013) Profiles of Basal and Stimulated Receptor Signaling Networks Predict Drug Response in Breast Cancer Lines. Sci Signal. 6:ra84. doi:10.1126/scisignal.2004379 PMID:24065145 PMCID:PMC3845839 | Explore |
| McAllister, F.E., Niepel, M., Haas, W., Huttlin, E., Sorger, P.K., and Gygi, S.P. (2013) Mass Spectrometry Based Method to Increase Throughput for Kinome Analyses Using ATP Probes. Anal Chem. 85:4666–4674. doi:10.1021/ac303478g PMID:23607489 PMCID:PMC3771683 | Explore |
| Sansone, S.A., Rocca-Serra, P., Field, D., Maguire, E., Taylor, C., Hofmann, O., Fang, H., Neumann, S., Tong, W., Amaral-Zettler, L., Begley, K., Booth, T., Bougueleret, L., Burns, G., Chapman, B., Clark, T., Coleman, L.A., Copeland, J., Das, S., de Daruvar, A., de Matos, P., Dix, I., Edmunds, S., Evelo, C.T., Forster, M.J., Gaudet, P., Gilbert, J., Goble, C., Griffin, J.L., Jacob, D., Kleinjans, J. Harland, L., Haug, K., Hermjakob, H., Ho Sui, S.J., Laederach, A., Liang, S., Marshall, S., McGrath, A., Merrill, E., Reilly, D., Roux, M., Shamu, C.E., Shang, C.A., Steinbeck, C., Trefethen, A., Williams-Jones, B., Wolstencroft, K., Xenarios, I., and Hide, W. (2012) Toward interoperable bioscience data. Nat Genet. 44:121–126. doi:10.1038/ng.1054 PMID:22281772 PMCID:PMC3428019 |
See the complete list of HMS LINCS Pilot Phase publications and other related publications here.