Progress: March 2013

Return to Progress index

Publications Citing Koch Institute Faculty Members

1. Transgenerational epigenetic inheritance: how important is it?. Grossniklaus U, Kelly B, Ferguson-Smith AC, Pembrey M, Lindquist S. Nat Rev Genet. pubmed:23416892;  doi:10.1038/nrg3435

2. Heritable remodeling of yeast multicellularity by an environmentally responsive prion. Holmes DL, Lancaster AK, Lindquist S, Halfmann R. Cell. pubmed:23540696;  doi:10.1016/j.cell.2013.02.026

3. Immunology Guilty by association. Joshi NS, Jacks T. Science. pubmed:23471395;  doi:10.1126/science.1235528

4. Different Roles for Tet1 and Tet2 Proteins in Reprogramming-Mediated Erasure of Imprints Induced by EGC Fusion. Piccolo FM, Bagci H, Brown KE, Landeira D, Soza-Ried J, Feytout A, Mooijman D, Hajkova P, Leitch HG, Tada T, Kriaucionis S, Dawlaty MM, Jaenisch R, Merkenschlager M, Fisher AG. Mol Cell. pubmed:23453809;  doi:10.1016/j.molcel.2013.01.032

5. Conformational Isomerism of -[Pt(NHCH)I] and the Classical Wernerian Chemistry of [Pt(NHCH)]X (X = Cl, Br, I). Johnstone TC, Lippard SJ. Polyhedron. pubmed:23554544;  doi:10.1016/j.poly.2012.08.010

6. Detection of nitric oxide and nitroxyl with benzoresorufin-based fluorescent sensors. Apfel UP, Buccella D, Wilson JJ, Lippard SJ. Inorg Chem. pubmed:23461436;  doi:10.1021/ic302793w

7. Photoluminescent DNA binding and cytotoxic activity of a platinum(II) complex bearing a tetradentate beta-diketiminate ligand. Hope JM, Wilson JJ, Lippard SJ. Dalton Trans. pubmed:23143731;  doi:10.1039/c2dt32462h

8. Rapalogs and mTOR inhibitors as anti-aging therapeutics. Lamming DW, Ye L, Sabatini DM, Baur JA. J Clin Invest. pubmed:23454761;  doi:10.1172/JCI64099

9. Alkyladenine DNA glycosylase (AAG) localizes to mitochondria and interacts with mitochondrial single-stranded binding protein (mtSSB). van Loon B, Samson LD. DNA Repair (Amst). pubmed:23290262;  doi:10.1016/j.dnarep.2012.11.009

10. Zinc released from olfactory bulb glomeruli by patterned electrical stimulation of the olfactory nerve. Blakemore LJ, Tomat E, Lippard SJ, Trombley PQ. Metallomics. pubmed:23392381;  doi:10.1039/c3mt20158a

11. Snx3 regulates recycling of the transferrin receptor and iron assimilation. Chen C, Garcia-Santos D, Ishikawa Y, Seguin A, Li L, Fegan KH, Hildick-Smith GJ, Shah DI, Cooney JD, Chen W, King MJ, Yien YY, Schultz IJ, Anderson H, Dalton AJ, Freedman ML, Kingsley PD, Palis J, Hattangadi SM, Lodish HF, Ward DM, Kaplan J, Maeda T, Ponka P, Paw BH. Cell Metab. pubmed:23416069;  doi:10.1016/j.cmet.2013.01.013

12. Computer aided manual validation of mass spectrometry-based proteomic data. Curran TG, Bryson BD, Reigelhaupt M, Johnson H, White FM. Methods. pubmed:23500044;  doi:10.1016/j.ymeth.2013.03.004

13. Phosphotyrosine Profiling of NSCLC Cells in Response to EGF and HGF Reveals Network Specific Mediators of Invasion. Johnson H, Lescarbeau RS, Gutierrez JA, White FM. J Proteome Res. pubmed:23438512;  doi:10.1021/pr301192t

14. Single-cell microarray enables high-throughput evaluation of DNA double-strand breaks and DNA repair inhibitors. Weingeist DM, Ge J, Wood DK, Mutamba JT, Huang Q, Rowland EA, Yaffe MB, Floyd S, Engelward BP. Cell Cycle. pubmed:23422001;  doi:10.4161/cc.23880

15. Glucose metabolism impacts the spatiotemporal onset and magnitude of HSC induction in vivo. Harris JM, Esain V, Frechette GM, Harris LJ, Cox AG, Cortes M, Garnaas MK, Carroll KJ, Cutting CC, Khan T, Elks PM, Renshaw SA, Dickinson BC, Chang CJ, Murphy MP, Paw BH, Vander Heiden MG, Goessling W, North TE. Blood. pubmed:23341543;  doi:10.1182/blood-2012-12-471201

16. Endothelial cell phenotypic behaviors cluster into dynamic state transition programs modulated by angiogenic and angiostatic cytokines. Rimchala T, Kamm RD, Lauffenburger DA. Integr Biol (Camb). pubmed:23303249;  doi:10.1039/c2ib20090b

17. Evaluation of osteoconductive scaffolds in the canine femoral multi-defect model. Luangphakdy V, Walker E, Shinohara K, Pan H, Hefferan T, Bauer TW, Stockdale L, Saini S, Dadsetan M, Runge MB, Vasanji A, Griffith L, Yaszemski M, Muschler GF. Tissue Eng Part A. pubmed:23215980;  doi:10.1089/ten.TEA.2012.0289

18. A Stiff Injectable Biodegradable Elastomer. Mizrahi B, Shankarappa SA, Hickey JM, Dohlman JC, Timko BP, Whitehead KA, Lee JJ, Langer R, Anderson DG, Kohane DS. Adv Funct Mater. pubmed:23667350;  doi:10.1002/adfm.201202433

19. Polymeric nanoparticle PET/MR imaging allows macrophage detection in atherosclerotic plaques. Majmudar MD, Yoo J, Keliher EJ, Truelove JJ, Iwamoto Y, Sena B, Dutta P, Borodovsky A, Fitzgerald K, Di Carli MF, Libby P, Anderson DG, Swirski FK, Weissleder R, Nahrendorf M. Circ Res. pubmed:23300273;  doi:10.1161/CIRCRESAHA.111.300576

20. BCL2A1 is a lineage-specific antiapoptotic melanoma oncogene that confers resistance to BRAF inhibition. Haq R, Yokoyama S, Hawryluk EB, Jonsson GB, Frederick DT, McHenry K, Porter D, Tran TN, Love KT, Langer R, Anderson DG, Garraway LA, Duncan LM, Morton DL, Hoon DS, Wargo JA, Song JS, Fisher DE. Proc Natl Acad Sci U S A. pubmed:23447565;  doi:10.1073/pnas.1205575110

21. Fully Biodegradable Airway Stents Using Amino Alcohol-Based Poly(ester amide) Elastomers. Wang J, Boutin KG, Abdulhadi O, Personnat LD, Shazly T, Langer R, Channick CL, Borenstein JT. Adv Healthc Mater. pubmed:23526787;  doi:10.1002/adhm.201200348

22. Lipidoid-Coated Iron Oxide Nanoparticles for Efficient DNA and siRNA delivery. Jiang S, Eltoukhy AA, Love KT, Langer R, Anderson DG. Nano Lett. pubmed:23394319;  doi:10.1021/nl304287a

23. Degradable terpolymers with alkyl side chains demonstrate enhanced gene delivery potency and nanoparticle stability. Eltoukhy AA, Chen D, Alabi CA, Langer R, Anderson DG. Adv Mater. pubmed:23293063;  doi:10.1002/adma.201204346

24. Modular 'click-in-emulsion' bone-targeted nanogels. Heller DA, Levi Y, Pelet JM, Doloff JC, Wallas J, Pratt GW, Jiang S, Sahay G, Schroeder A, Schroeder JE, Chyan Y, Zurenko C, Querbes W, Manzano M, Kohane DS, Langer R, Anderson DG. Adv Mater. pubmed:23280931;  doi:10.1002/adma.201202881

25. Three-dimensional elastomeric scaffolds designed with cardiac-mimetic structural and mechanical features. Neal RA, Jean A, Park H, Wu PB, Hsiao J, Engelmayr GCJr, Langer R, Freed LE. Tissue Eng Part A. pubmed:23190320;  doi:10.1089/ten.tea.2012.0330

26. Dysfunctional endothelial cells directly stimulate cancer inflammation and metastasis. Franses JW, Drosu NC, Gibson WJ, Chitalia VC, Edelman ER. Int J Cancer. pubmed:23463345;  doi:10.1002/ijc.28146

27. Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging. Rhee HW, Zou P, Udeshi ND, Martell JD, Mootha VK, Carr SA, Ting AY. Science. pubmed:23371551;  doi:10.1126/science.1230593

28. A series of anti-CEA/anti-DOTA bispecific antibody formats evaluated for pre-targeting: comparison of tumor uptake and blood clearance. Yazaki PJ, Lee B, Channappa D, Cheung CW, Crow D, Chea J, Poku E, Li L, Andersen JT, Sandlie I, Orcutt KD, Wittrup KD, Shively JE, Raubitschek A, Colcher D. Protein Eng Des Sel. pubmed:23175797;  doi:10.1093/protein/gzs096

29. Convolution of chemoattractant secretion rate, source density, and receptor desensitization direct diverse migration patterns in leukocytes. Wang Y, Irvine DJ. Integr Biol (Camb). pubmed:23392181;  doi:10.1039/c3ib20249f

30. Localized immunotherapy via liposome-anchored Anti-CD137 + IL-2 prevents lethal toxicity and elicits local and systemic antitumor immunity. Kwong B, Gai SA, Elkhader J, Wittrup KD, Irvine DJ. Cancer Res. pubmed:23436794;  doi:10.1158/0008-5472.CAN-12-3343

31. Lessons from the cancer genome. Garraway LA, Lander ES. Cell. pubmed:23540688;  doi:10.1016/j.cell.2013.03.002

32. Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration. Thorvaldsdottir H, Robinson JT, Mesirov JP. Brief Bioinform. pubmed:22517427;  doi:10.1093/bib/bbs017

33. T-cell death following immune activation is mediated by mitochondria-localized SARM. Panneerselvam P, Singh LP, Selvarajan V, Chng WJ, Ng SB, Tan NS, Ho B, Chen J, Ding JL. Cell Death Differ. pubmed:23175186;  doi:10.1038/cdd.2012.144

34. Sialylneolacto-N-tetraose c (LSTc)-bearing Liposomal Decoys Capture Influenza A Virus. Hendricks GL, Weirich KL, Viswanathan K, Li J, Shriver ZH, Ashour J, Ploegh HL, Kurt-Jones EA, Fygenson DK, Finberg RW, Comolli JC, Wang JP. J Biol Chem. pubmed:23362274;  doi:10.1074/jbc.M112.437202

35. SIRT1 regulates differentiation of mesenchymal stem cells by deacetylating beta-catenin. Simic P, Zainabadi K, Bell E, Sykes DB, Saez B, Lotinun S, Baron R, Scadden D, Schipani E, Guarente L. EMBO Mol Med. pubmed:23364955;  doi:10.1002/emmm.201201606

36. Cinnamides as selective small-molecule inhibitors of a cellular model of breast cancer stem cells. Germain AR, Carmody LC, Nag PP, Morgan B, Verplank L, Fernandez C, Donckele E, Feng Y, Perez JR, Dandapani S, Palmer M, Lander ES, Gupta PB, Schreiber SL, Munoz B. Bioorg Med Chem Lett. pubmed:23403082;  doi:10.1016/j.bmcl.2013.01.025

37. Mutations causing medullary cystic kidney disease type 1 lie in a large VNTR in MUC1 missed by massively parallel sequencing. Kirby A, Gnirke A, Jaffe DB, Baresova V, Pochet N, Blumenstiel B, Ye C, Aird D, Stevens C, Robinson JT, Cabili MN, Gat-Viks I, Kelliher E, Daza R, DeFelice M, Hulkova H, Sovova J, Vylet'al P, Antignac C, Guttman M, Handsaker RE, Perrin D, Steelman S, Sigurdsson S, Scheinman SJ, Sougnez C, Cibulskis K, Parkin M, Green T, Rossin E, Zody MC, Xavier RJ, Pollak MR, Alper SL, Lindblad-Toh K, Gabriel S, Hart PS, Regev A, Nusbaum C, Kmoch S, Bleyer AJ, Lander ES, Daly MJ. Nat Genet. pubmed:23396133;  doi:10.1038/ng.2543

38. Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Cibulskis K, Lawrence MS, Carter SL, Sivachenko A, Jaffe D, Sougnez C, Gabriel S, Meyerson M, Lander ES, Getz G. Nat Biotechnol. pubmed:23396013;  doi:10.1038/nbt.2514

39. The genetic landscape of high-risk neuroblastoma. Pugh TJ, Morozova O, Attiyeh EF, Asgharzadeh S, Wei JS, Auclair D, Carter SL, Cibulskis K, Hanna M, Kiezun A, Kim J, Lawrence MS, Lichenstein L, McKenna A, Pedamallu CS, Ramos AH, Shefler E, Sivachenko A, Sougnez C, Stewart C, Ally A, Birol I, Chiu R, Corbett RD, Hirst M, Jackman SD, Kamoh B, Khodabakshi AH, Krzywinski M, Lo A, Moore RA, Mungall KL, Qian J, Tam A, Thiessen N, Zhao Y, Cole KA, Diamond M, Diskin SJ, Mosse YP, Wood AC, Ji L, Sposto R, Badgett T, London WB, Moyer Y, Gastier-Foster JM, Smith MA, Auvil JM, Gerhard DS, Hogarty MD, Jones SJ, Lander ES, Gabriel SB, Getz G, Seeger RC, Khan J, Marra MA, Meyerson M, Maris JM. Nat Genet. pubmed:23334666;  doi:10.1038/ng.2529

40. The Role of miRNAs in Regulating Gene Expression Networks. Gurtan AM, Sharp PA. J Mol Biol. pubmed:23500488;  doi:10.1016/j.jmb.2013.03.007

41. Transcriptional regulation and its misregulation in disease. Lee TI, Young RA. Cell. pubmed:23498934;  doi:10.1016/j.cell.2013.02.014