CPCM Publications

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2020

Bruno PM, Lu M, Dennis KA, Inam H, Moore CJ, Sheehe J, Elledge SJ, Hemann MT, Pritchard JR. 2020. The primary mechanism of cytotoxicity of the chemotherapeutic agent CX-5461 is topoisomerase II poisoning. PNAS 117: 4053–4060.

Chen A, Koehler AN. 2020. Transcription factor inhibition: Lessons learned and emerging targets. Trends in Molecular Medicine 26: P508-518.

Kong YW, Dreaden EC, Morandell S, Zhou W, Dhara SS, Sriram G, Lam FC, Patterson JC, Quadir M, Dinh A, Shopsowitz KE, Varmeh S, Yilmaz ÖH, Lippard SJ, Reinhardt HC, Hemann MT, Hammond PT, Yaffe MB. 2020. Enhancing chemotherapy response through augmented synthetic lethality by co-targeting nucleotide excision repair and cell-cycle checkpoints. Nature Communications 11:4124. 

Krismer K, Bird MA, Varmeh S, Handly ED, Gattinger A, Bernwinkler T, Anderson DA, Heinzel A, Joughin BA, Kong YW, Cannell IG, Yaffe MB. 2020. Transite: A Computational Motif-Based Analysis Platform That Identifies RNA-Binding Proteins Modulating Changes in Gene Expression. Cell Reports 32.

Lam FC, Kong YW, Huang Q, Vu Han T-L, Maffa AD, Kasper EM, Yaffe MB. 2020. BRD4 prevents the accumulation of R-loops and protects against transcription–replication collision events and DNA damage. Nat Commun 11:4083.

Lau AN, Li Z, Danai LV, Westermark AM, Darnell AM, Ferreira R, Gocheva V, Sivanand S, Lien EC, Sapp KM, Mayers JR, Biffi G, Chin CR, Davidson SM, Tuveson DA, Jacks T, Matheson NJ, Yilmaz O, Vander Heiden MG. 2020. Dissecting cell type-specific metabolism in pancreatic ductal adenocarcinoma. eLife 9:e56782.

Lau AN, Vander Heiden MG. 2020. Metabolism in the tumor microenvironment. Annual Review of Cancer Biology 4: 17–40.

Lim DC, Joukov V, Rettenmaier TJ, Kumagai A, Dunphy WG, Wells JA, Yaffe MB. 2020. Redox priming promotes Aurora A activation during mitosis. Sci Signal 13.

Liu VM, Howell AJ, Hosios AM, Li Z, Israelsen WJ, Vander Heiden MG. 2020. Cancer-associated mutations in human pyruvate kinase M2 impair enzyme activity. FEBS Letters 594:646-664.

Mu L, Kang JH, Olcum S, Payer KR, Calistri NL, Kimmerling RJ, Manalis SR, Miettinen TP. 2020. Mass measurements during lymphocytic leukemia cell polyploidization decouple cell cycle- and cell size-dependent growth. PNAS June 24. 

Ngo B, Kim E, Osorio-Vasquez V, Doll S, Bustraan S, Liang RJ, Luengo A, Davidson SM, Ali A, Ferraro GB, Fischer GM, Eskandari R, Kang DS, Ni J, Plasger A, Rajasekhar VK, Kastenhuber ER, Bacha S, Sriram RK, Stein BD, Bakhoum SF, Snuderl M, Cotzia P, Healey JH, Mainolfi N, Suri V, Friedman A, Manfredi M, Sabatini DM, Jones DR, Yu M, Zhao JJ, Jain RK, Keshari KR, Davies MA, Vander Heiden MG, Hernando E, Mann M, Cantley LC, Pacold ME. 2020. Limited Environmental Serine and Glycine Confer Brain Metastasis Sensitivity to PHGDH Inhibition. Cancer Discov.

Quinnell SP, Leifer BS, Nestor ST, Tan K, Sheehy DF, Ceo L, Doyle SK, Koehler AN, Vegas AJ. 2020. A Small-Molecule Inhibitor to the Cytokine Interleukin-4. ACS Chem Biol

Raman R, Rousseau EB, Wade M, Tong A, Cotler MJ, Kuang J, Lugo AA, Zhang E, Graybiel AM, White FM, Langer R, Cima MJ. 2020. Platform for micro-invasive membrane-free biochemical sampling of brain interstitial fluid. Science Advances 6:eabb0657.

Sivanand S, Vander Heiden MG. 2020. Emerging roles for branched-chain amino acid metabolism in cancer. Cancer Cell 37, 147-156.

Stopfer LE, Mesfin JM, Joughin BA, Lauffenburger DA, White FM. 2020. Multiplexed relative and absolute quantitative immunopeptidomics reveals MHC I repertoire alterations induced by CDK4/6 inhibition. Nat Commun 11:2760. 

van Gastel N, Spinelli JB, Sharda A, Schajnovitz A, Baryawno N, Rhee C, Oki T, Grace E, Soled HJ, Milosevic J, Sykes DB, Hsu PP, Vander Heiden MG, Vidoudez C, Trauger SA, Haigis MC, Scadden DT. 2020. Induction of a Timed Metabolic Collapse to Overcome Cancer Chemoresistance. Cell Metabolism 32:391-403.e6.

2019

Babic A, Rosenthal MH, Bamlet WR, Takahashi N, Sugimoto M, Danai LV, Morales-Oyarvide V, Khalaf N, Dunne RF, Brais LK,Welch MW, Zellers CL, Dennis C, Rifai N, Prado CM, Caan B, Sundaresan TK, Meyerhardt JA, Kulke MH, Clish CB, Ng K, Vander Heiden MG, Petersen GM, Wolpin BM. 2019. Post diagnosis loss of skeletal muscle, but not adipose tissue, is associated with shorter survival of patients with advanced pancreatic cancer. Cancer Epidemiol Biomarkers Prev 28: 2062-2069.

Barrett CD, Moore HB, Kong Y, Chapman MP, Sriram G, Lim D, Moore EE, Yaffe MB. 2019. Tranexamic acid mediates proinflammatory and anti-inflammatory signaling via complement C5a regulation in a plasminogen activator–dependent manner. Journal of Trauma and Acute Care Surgery 86: 101–107.

Chen J-K, Yaffe MB. 2019. Atlas Drugged. Cell 177: 803–805.

Dalin S, Sullivan MR, Lau AN, Grauman-Boss B, Mueller HS, Kreidl E, Fenoglio S, Luengo A, Lees JA, Heiden MG, Lauffenburger DA, Hemann MT. 2019. Deoxycytidine Release from Pancreatic Stellate Cells Promotes Gemcitabine Resistance. Cancer Res 79: 5723-5733.

Diehl FF, Lewis CA, Fiske BP, Vander Heiden MG. 2019. Cellular redox state constrains serine synthesis and nucleotide production to impact cell proliferation. Nat Metab 1: 861–867.

Dittmann A, Kennedy NJ, Soltero NL, Morshed N, Mana MD, Yilmaz ÖH, Davis RJ, White FM. 2019. High‐fat diet in a mouse insulin‐resistant model induces widespread rewiring of the phosphotyrosine signaling network. Molecular Systems Biology 15 (8):e8849.

Jaeger AM, Stopfer L, Lee S, Gaglia G, Sandel D, Santagata S, Lin NU, Trepel JB, White FM, Jacks T, Lindquist S, Whitesell L. 2019. Rebalancing protein homeostasis enhances tumor antigen presentation. Clin Cancer Res 25: 6392-6405.

Li L, Ng SR, Colón CI, Drapkin BJ, Hsu PP, Li Z, Nabel CS, Lewis CA, Romero R, Mercer KL, et al. 2019. Identification of DHODH as a therapeutic target in small cell lung cancer. Science Translational Medicine 11

Lien EC, Vander Heiden MG. 2019. A framework for examining how diet impacts tumour metabolism. Nat Rev Cancer 19: 651-661.

Liu VM, Howell AJ, Hosios AM, Li Z, Israelsen WJ, Heiden MGV. 2019. Cancer-associated mutations in human pyruvate kinase M2 impair enzyme activity. FEBS Letters 594: 646-664.

Lossos C, Liu Y, Kolb KE, Christie AL, Scoyk A van, Prakadan SM, Shigemori K, Stevenson KE, Morrow S, Plana OD, Fraser C, Jones KL, Liu H, Pallasch CP, Modiste R, Nguyen QD, Craig JW, Morgan EA, Vega F, Aster JC, Sarosiek KA, Shalek AK, Hemann MT, Weinstock DM. 2019. Mechanisms of lymphoma clearance induced by high-dose alkylating agents. Cancer Discov 9(7):944-961

Luengo A, Abbott KL, Davidson SM, Hosios AM, Faubert B, Chan SH, Freinkman E, Zacharias LG, Mathews TP, Clish CB, et al. 2019. Reactive metabolite production is a targetable liability of glycolytic metabolism in lung cancer. Nat Commun 10: 5604.

Mattaini KR, Sullivan MR, Lau AN, Fiske BP, Bronson RT, Vander Heiden MG. 2019. Increased PHGDH expression promotes aberrant melanin accumulation. BMC Cancer 19: 723.

Miller CJ, Lou HJ, Simpson C, Kooij B van de, Ha BH, Fisher OS, Pirman NL, Boggon TJ, Rinehart J, Yaffe MB, et al. 2019. Comprehensive profiling of the STE20 kinase family defines features essential for selective substrate targeting and signaling output. PLOS Biology 17: e2006540.

Patterson JC, Joughin BA, Kooij B van de, Lim DC, Lauffenburger DA, Yaffe MB. 2019. ROS and Oxidative Stress Are Elevated in Mitosis during Asynchronous Cell Cycle Progression and Are Exacerbated by Mitotic Arrest. Cell System (2):163.

Patterson JC, Joughin BA, Prota AE, Mühlethaler T, Jonas OH, Whitman MA, Varmeh S, Chen S, Balk SP, Steinmetz MO, Lauffenburger DA, Yaffe MB. 2019. VISAGE Reveals a Targetable Mitotic Spindle Vulnerability in Cancer Cells. Cell Systems 9 (1):74.

Rohani N, Hao L, Alexis MS, Joughin BA, Krismer K, Moufarrej MN, Soltis AR, Lauffenburger DA, Yaffe MB, Burge CB, Bhatia SN, Gertler FB. 2019. Acidification of tumor at stromal boundaries drives transcriptome alterations associated with aggressive phenotypes. Cancer Res 79 (8):1952.

Schwill M, Tamaskovic R, Gajadhar AS, Kast F, White FM, Plückthun A. 2019. Systemic analysis of tyrosine kinase signaling reveals a common adaptive response program in a HER2-positive breast cancer. Sci Signal 12 (565): eaau2875.

Struntz NB, Chen A, Deutzmann A, Wilson RM, Stefan E, Evans HL, Ramirez MA, Liang T, Caballero F, Wildschut MHE, Neel DV, Freeman DB, Pop MS, McConkey M, Muller S, Curtin BH, Tseng H, Frombach KR, Butty VL, Levine SS, Feau C, Elmiligy S, Hong JA, Lewis TA, Vetere A, Clemons PA, Malstrom SE, Ebert BL, Lin CY, Felsher DW, Koehler AN. 2019. Stabilization of the Max Homodimer with a Small Molecule Attenuates Myc-Driven Transcription. Cell Chemical Biology 26 (5):711.

Sullivan MR, Danai LV, Lewis CA, Chan SH, Gui DY, Kunchok T, Dennstedt EA, Vander Heiden MG, Muir A. 2019. Quantification of microenvironmental metabolites in murine cancers reveals determinants of tumor nutrient availability. eLife 8: e44235.

Sullivan MR, Mattaini KR, Dennstedt EA, Nguyen AA, Sivanand S, Reilly MF, Meeth K, Muir A, Darnell AM, Bosenberg MW, et al. 2019. Increased Serine Synthesis Provides an Advantage for Tumors Arising in Tissues Where Serine Levels Are Limiting. Cell Metabolism (19) 30125-1.

Sullivan MR, Vander Heiden MG. 2019. Determinants of nutrient limitation in cancer. Critical Reviews in Biochemistry and Molecular Biology 54 (3): 193–207.

van de Kooij B, Creixell P, van Vlimmeren A, Joughin BA, Miller CJ, Haider N, Simpson CD, Linding R, Stambolic V, Turk BE, et al. 2019. Comprehensive substrate specificity profiling of the human Nek kinome reveals unexpected signaling outputs eds. M.C. Frame and J.A. Cooper. eLife 8: e44635.

Wojtaszek JL, Chatterjee N, Najeeb J, Ramos A, Lee M, Bian K, Xue JY, Fenton BA, Park H, Li D, et al. 2019. A Small Molecule Targeting Mutagenic Translesion Synthesis Improves Chemotherapy. Cell 178: 152-159.

Yaffe MB. 2019. Why geneticists stole cancer research even though cancer is primarily a signaling disease. Sci Signal 12 (565): eaaw3483.

 

2018

Barrett CD, Hsu AT, Ellson CD, Y.Miyazawa B, Kong Y-W, Greenwood JD, Dhara S, Neal MD, Sperry JL, Park MS, et al. 2018. Blood clotting and traumatic injury with shock mediates complement-dependent neutrophil priming for extracellular ROS, ROS-dependent organ injury and coagulopathy. Clinical & Experimental Immunology 194: 103.

Creixell P, Pandey JP, Palmeri A, Bhattacharyya M, Creixell M, Ranganathan R, Pincus D, Yaffe MB. 2018. Hierarchical Organization Endows the Kinase Domain with Regulatory Plasticity. Cell Systems 7 (4): 371.

Danai LV, Babic A, Rosenthal MH, Dennstedt EA, Muir A, Lien EC, Mayers JR, Tai K, Lau AN, Jones-Sali P, et al. 2018. Altered exocrine function can drive adipose wasting in early pancreatic cancer. Nature 558 (7711):600.

Dexter JP, Ward PS, Dasgupta T, Hosios AM, Gunawardena J, Heiden MGV. 2018. Lack of evidence for substrate channeling or flux between wildtype and mutant isocitrate dehydrogenase to produce the oncometabolite 2-hydroxyglutarate. J Biol Chem. 293 (52): 20051.

Hillis AL, Lau AN, Devoe CX, Dayton TL, Danai LV, Di Vizio D, Vander Heiden MG. 2018. PKM2 is not required for pancreatic ductal adenocarcinoma. Cancer & Metabolism 6: 17.

Krismer K, Varmeh S, Bird MA, Gattinger A, Kong YW, Bernwinkler T, Anderson DA, Heinzel A, Joughin BA, Cannell IG, et al. 2018. Transite: A computational motif-based analysis platform that identifies RNA-binding proteins modulating changes in gene expression. bioRxiv 416743.

Lam FC, Morton SW, Wyckoff J, Vu Han T-L, Hwang MK, Maffa A, Balkanska-Sinclair E, Yaffe MB, Floyd SR, Hammond PT. 2018. Enhanced efficacy of combined temozolomide and bromodomain inhibitor therapy for gliomas using targeted nanoparticles. Nature Communications 9 (1):1991.

Leifer BS, Doyle SK, Richters A, Evans HL, Koehler AN. 2018. Chapter Nine - An Array-Based Ligand Discovery Platform for Proteins With Short Half-Lives. In Methods in Enzymology (ed. C.A. Lesburg), Vol. 610 of Modern Approaches in Drug Discovery, pp. 191–218.

Muir A, Danai LV, Heiden MGV. 2018. Microenvironmental regulation of cancer cell metabolism: implications for experimental design and translational studies. Disease Models & Mechanisms 11 (8): dmm035758.

Muir A, Vander Heiden MG. 2018. The nutrient environment affects therapy. Science 360: 962–963.

Rothenberg DA, Taliaferro JM, Huber SM, Begley TJ, Dedon PC, White FM. 2018. A Proteomics Approach to Profiling the Temporal Translational Response to Stress and Growth. iScience 9: 367–381.

Suarez-Lopez L, Sriram G, Kong YW, Morandell S, Merrick KA, Hernandez Y, Haigis KM, Yaffe MB. 2018. MK2 contributes to tumor progression by promoting M2 macrophage polarization and tumor angiogenesis. PNAS 115 (18):e4236.

Sullivan LB, Luengo A, Danai LV, Bush LN, Diehl FF, Hosios AM, Lau AN, Elmiligy S, Malstrom S, Lewis CA, Vander Heiden MG. 2018. Aspartate is an endogenous metabolic limitation for tumour growth. Nature Cell Biology 20 (7):782.