The David H. Koch Institute for Integrative Cancer Research at MITThe David H. Koch Institute for Integrative Cancer Research at MIT

Massachusetts Institute of Technology

National Cancer Institute Cancer Center

Science + Engineering... Conquering Cancer Together

Progress: December 2013

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Publications Citing Koch Institute Faculty Members

1. In vivo targeting of adoptively transferred T-cells with antibody- and cytokine-conjugated liposomes. Zheng Y, Stephan M, Gai SA, Abraham W, Shearer A, Irvine DJ. J Control Release. pubmed:23770010;  doi:10.1016/j.jconrel.2013.05.037

2. Vascular Endothelial Growth Factor and Platelet Factor 4 Inputs Modulate Human Microvascular Endothelial Signaling in a Three-Dimensional Matrix Migration Context. Hang TC, Tedford NC, Reddy RJ, Rimchala T, Wells A, White FM, Kamm RD, Lauffenburger DA. Mol Cell Proteomics. pubmed:24023389;  doi:10.1074/mcp.M113.030528

3. In vivo silencing of the transcription factor IRF5 reprograms the macrophage phenotype and improves infarct healing. Courties G, Heidt T, Sebas M, Iwamoto Y, Jeon D, Truelove J, Tricot B, Wojtkiewicz G, Dutta P, Sager HB, Borodovsky A, Novobrantseva T, Klebanov B, Fitzgerald K, Anderson DG, Libby P, Swirski FK, Weissleder R, Nahrendorf M. J Am Coll Cardiol. pubmed:24361318;  doi:10.1016/j.jacc.2013.11.023

4. Vaccine delivery with microneedle skin patches in nonhuman primates. Demuth PC, Li AV, Abbink P, Liu J, Li H, Stanley KA, Smith KM, Lavine CL, Seaman MS, Kramer JA, Miller AD, Abraham W, Suh H, Elkhader J, Hammond PT, Barouch DH, Irvine DJ. Nat Biotechnol. pubmed:24316643;  doi:10.1038/nbt.2759

5. Microfluidic Platform for Combinatorial Synthesis and Optimization of Targeted Nanoparticles for Cancer Therapy. Valencia PM, Pridgen EM, Rhee M, Langer R, Farokhzad OC, Karnik R. ACS Nano. pubmed:24215426;  doi:10.1021/nn403370e

6. A photo-triggered layered surface coating producing reactive oxygen species. Gabriel D, Monteiro IP, Huang D, Langer R, Kohane DS. Biomaterials. pubmed:24074838;  doi:10.1016/j.biomaterials.2013.09.021

7. Measuring single cell mass, volume, and density with dual suspended microchannel resonators. Bryan AK, Hecht VC, Shen W, Payer K, Grover WH, Manalis SR. Lab Chip. pubmed:24296901;  doi:10.1039/c3lc51022k

8. Determination of 35 cell surface antigen levels in malignant pleural effusions identifies CD24 as a marker of disseminated tumor cells. Yao X, Labelle M, Lamb CR, Dugan JM, Williamson CA, Spencer DR, Christ KR, Keating RO, Lee WD, Paradis GA, Begum S, Hynes RO, Wittrup KD. Int J Cancer. pubmed:23775727;  doi:10.1002/ijc.28312

9. A catalytic independent function of the deubiquitinating enzyme USP14 regulates hippocampal short-term synaptic plasticity and vesicle number. Walters BJ, Hallengren JJ, Theile CS, Ploegh HL, Wilson SM, Dobrunz LE. J Physiol. pubmed:24218545;  doi:10.1113/jphysiol.2013.266015

10. Distal enhancers: new insights into heart development and disease. Wamstad JA, Wang X, Demuren OO, Boyer LA. Trends Cell Biol. pubmed:24321408;  doi:10.1016/j.tcb.2013.10.008

11. 3' UTR-isoform choice has limited influence on the stability and translational efficiency of most mRNAs in mouse fibroblasts. Spies N, Burge CB, Bartel DP. Genome Res. pubmed:24072873;  doi:10.1101/gr.156919.113

12. Tumor suppressor functions of Dnmt3a and Dnmt3b in the prevention of malignant mouse lymphopoiesis. Peters SL, Hlady RA, Opavska J, Klinkebiel D, Pirruccello SJ, Talmon GA, Sharp JG, Wu L, Jaenisch R, Simpson MA, Karpf AR, Opavsky R. Leukemia. pubmed:24292811;  doi:10.1038/leu.2013.364

13. High-Resolution Mapping Reveals a Conserved, Widespread, Dynamic mRNA Methylation Program in Yeast Meiosis. Schwartz S, Agarwala SD, Mumbach MR, Jovanovic M, Mertins P, Shishkin A, Tabach Y, Mikkelsen TS, Satija R, Ruvkun G, Carr SA, Lander ES, Fink GR, Regev A. Cell. pubmed:24269006;  doi:10.1016/j.cell.2013.10.047

14. Genome-wide analyses implicate 33 loci in heritable dog osteosarcoma, including regulatory variants near CDKN2A/B. Karlsson EK, Sigurdsson S, Ivansson E, Thomas R, Elvers I, Wright J, Howald C, Tonomura N, Perloski M, Swofford R, Biagi T, Fryc S, Anderson N, Courtay-Cahen C, Youell L, Ricketts SL, Mandlebaum S, Rivera P, von Euler H, Kisseberth WC, London CA, Lander ES, Couto G, Comstock K, Starkey MP, Modiano JF, Breen M, Lindblad-Toh K. Genome Biol. pubmed:24330828;  doi:10.1186/gb-2013-14-12-r132

15. Impaired Autophagy in the Lipid-Storage Disorder Niemann-Pick Type C1 Disease. Sarkar S, Carroll B, Buganim Y, Maetzel D, Ng AH, Cassady JP, Cohen MA, Chakraborty S, Wang H, Spooner E, Ploegh H, Gsponer J, Korolchuk VI, Jaenisch R. Cell Rep. pubmed:24290752;  doi:10.1016/j.celrep.2013.10.042

16. Discovery and characterization of super-enhancer-associated dependencies in diffuse large B cell lymphoma. Chapuy B, McKeown MR, Lin CY, Monti S, Roemer MG, Qi J, Rahl PB, Sun HH, Yeda KT, Doench JG, Reichert E, Kung AL, Rodig SJ, Young RA, Shipp MA, Bradner JE. Cancer Cell. pubmed:24332044;  doi:10.1016/j.ccr.2013.11.003

17. Cloning Expeditions: Risky but Rewarding. Lodish H. Mol Cell Biol. pubmed:24061478;  doi:10.1128/MCB.01111-13

18. A CREB3-ARF4 signalling pathway mediates the response to Golgi stress and susceptibility to pathogens. Reiling JH, Olive AJ, Sanyal S, Carette JE, Brummelkamp TR, Ploegh HL, Starnbach MN, Sabatini DM. Nat Cell Biol. pubmed:24185178;  doi:10.1038/ncb2865

19. SIRT1 and other sirtuins in metabolism. Chang HC, Guarente L. Trends Endocrinol Metab. pubmed:24388149;  doi:10.1016/j.tem.2013.12.001

20. Meiosis I: when chromosomes undergo extreme makeover. Miller MP, Amon A, Unal E. Curr Opin Cell Biol. pubmed:23916768;  doi:10.1016/

21. Centromere proteins CENP-C and CAL1 functionally interact in meiosis for centromere clustering, pairing, and chromosome segregation. Unhavaithaya Y, Orr-Weaver TL. Proc Natl Acad Sci U S A. pubmed:24248385;  doi:10.1073/pnas.1320074110

22. Mapping differential interactomes by affinity purification coupled with data-independent mass spectrometry acquisition. Lambert JP, Ivosev G, Couzens AL, Larsen B, Taipale M, Lin ZY, Zhong Q, Lindquist S, Vidal M, Aebersold R, Pawson T, Bonner R, Tate S, Gingras AC. Nat Methods. pubmed:24162924;  doi:10.1038/nmeth.2702