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: May 2015

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1. Guiding Principles in the Design of Molecular Bioconjugates for Vaccine Applications. Liu H, Irvine DJ. Bioconjug Chem.pubmed:25822926;  doi:10.1021/acs.bioconjchem.5b00103

2. High-throughput protease activity cytometry reveals dose-dependent heterogeneity in PMA-mediated ADAM17 activation. Wu L, Claas AM, Sarkar A, Lauffenburger DA, Han J. Integr Biol (Camb)pubmed:25832727;  doi:10.1039/c5ib00019j

3. Identification of drug-specific pathways based on gene expression data: application to drug induced lung injury. Melas IN, Sakellaropoulos T, Iorio F, Alexopoulos LG, Loh WY, Lauffenburger DA, Saez-Rodriguez J, Bai JP. Integr Biol (Camb)pubmed:25932872;  doi:10.1039/c4ib00294f

4. Minor changes in expression of the mismatch repair protein MSH2 exert a major impact on glioblastoma response to temozolomide. McFaline-Figueroa JL, Braun CJ, Stanciu M, Nagel ZD, Mazzucato P, Sangaraju D, Cerniauskas E, Barford K, Vargas A, Chen Y, Tretyakova N, Lees JA, Hemann MT, White FM, Samson LD. Cancer Respubmed:26025730;  doi:10.1158/0008-5472.CAN-14-3616

5. Regenerating the cell resistance of micromolded PEG hydrogels. Heath DE, Sharif AR, Ng CP, Rhoads MG, Griffith LG, Hammond PT, Chan-Park MB.Lab Chippubmed:25813089;  doi:10.1039/c4lc01416b

6. A plug-and-play ratiometric pH-sensing nanoprobe for high-throughput investigation of endosomal escape. Deng ZJ, Morton SW, Bonner DK, Gu L, Ow H, Hammond PT. Biomaterialspubmed:25771015;  doi:10.1016/j.biomaterials.2015.02.013

7. Engineered bromodomains to explore the acetylproteome. Bryson BD, Rosario AM, Gootenberg J, Yaffe MB, White FM. Proteomics.pubmed:25641834;  doi:10.1002/pmic.201400401

8. Improving the capacity of sodium ion battery using virus-templated nano-structured composite cathode. Moradi M, Li Z, Qi J, Xing W, Xiang K, Chiang YM, Belcher AM. Nano Lettpubmed:25811762;  doi:10.1021/nl504676v

9. Programmable probiotics for detection of cancer in urine. Danino T, Prindle A, Kwong GA, Skalak M, Li H, Allen K, Hasty J, Bhatia SN. Sci Transl Med.pubmed:26019220;  doi:10.1126/scitranslmed.aaa3519

10. The Aryl Hydrocarbon Receptor is a Critical Regulator of Tissue Factor Stability and an Antithrombotic Target in Uremia. Shivanna S, Kolandaivelu K, Shashar M, Belghasim M, Al-Rabadi L, Balcells M, Zhang A, Weinberg J, Francis J, Pollastri MP, Edelman ER, Sherr DH, Chitalia VC. J Am Soc Nephrolpubmed:26019318;  doi:10.1681/ASN.2014121241

11. William Heberden and reverse translation. Edelman ER, LaMarco K. Sci Transl Medpubmed:25972000;  doi:10.1126/scitranslmed.aaa2250

12. c-Cbl regulates nuclear beta-catenin and angiogenesis through its Wnt-mediated phosphorylation. Shivanna S, Harrold I, Shashar M, Meyer R, Kiang C, Francis J, Zhao Q, Feng H, Edelman ER, Rahimi N, Chitalia VC. J Biol Chempubmed:25784557;  doi:10.1074/jbc.M114.616623

13. miRNAs in atherosclerotic plaque initiation, progression, and rupture. Andreou I, Sun X, Stone PH, Edelman ER, Feinberg MW. Trends Mol Med.pubmed:25771097;  doi:10.1016/j.molmed.2015.02.003

14. Monocyte-endothelial cell interactions in the regulation of vascular sprouting and liver regeneration in mouse. Melgar-Lesmes P, Edelman ER. J Hepatolpubmed:26022689;  doi:10.1016/j.jhep.2015.05.011

15. Engineering precision. Traverso G, Langer R. Sci Transl Medpubmed:26019214;  doi:10.1126/scitranslmed.aab1943

16. Dendrimer-inspired nanomaterials for the in vivo delivery of siRNA to lung vasculature. Khan OF, Zaia EW, Jhunjhunwala S, Xue W, Cai W, Yun DS, Barnes C, Dahlman JE, Dong Y, Pelet JM, Webber MJ, Tsosie J, Jacks T, Langer R, Anderson DG. Nano Lettpubmed:25789998;  doi:10.1021/nl5048972

17. Functional inflammatory profiles distinguish myelin-reactive T cells from patients with multiple sclerosis. Cao Y, Goods BA, Raddassi K, Nepom GT, Kwok WW, Love JC, Hafler DA. Sci Transl Medpubmed:25972006;  doi:10.1126/scitranslmed.aaa8038

18. A new TLR2 agonist promotes cross-presentation by mouse and human antigen presenting cells. Santone M, Aprea S, Wu TY, Cooke MP, Mbow ML, Valiante NM, Rush JS, Dougan S, Avalos A, Ploegh H, De Gregorio E, Buonsanti C, D'Oro U. Hum Vaccin Immunother.pubmed:26024409;  doi:10.1080/21645515.2015.1027467

19. SCARB2/LIMP-2 Regulates IFN Production of Plasmacytoid Dendritic Cells by Mediating Endosomal Translocation of TLR9 and Nuclear Translocation of IFN Regulatory Factor 7. Guo H, Zhang J, Zhang X, Wang Y, Yu H, Yin X, Li J, Du P, Plumas J, Chaperot L, Chen J, Su L, Liu Y, Zhang L.J Immunolpubmed:25862818;  doi:10.4049/jimmunol.1402312

20. Increasing the efficiency of precise genome editing with CRISPR-Cas9 by inhibition of nonhomologous end joining. Maruyama T, Dougan SK, Truttmann MC, Bilate AM, Ingram JR, Ploegh HL. Nat Biotechnolpubmed:25798939;  doi:10.1038/nbt.3190

21. Periodic retinoic acid-STRA8 signaling intersects with periodic germ-cell competencies to regulate spermatogenesis. Endo T, Romer KA, Anderson EL, Baltus AE, de Rooij DG, Page DC. Proc Natl Acad Sci U S Apubmed:25902548;  doi:10.1073/pnas.1505683112

22. Noninvasive imaging of immune responses. Rashidian M, Keliher EJ, Bilate AM, Duarte JN, Wojtkiewicz GR, Jacobsen JT, Cragnolini J, Swee LK, Victora GD, Weissleder R, Ploegh HL. Proc Natl Acad Sci U S Apubmed:25902531;  doi:10.1073/pnas.1502609112

23. 1 Keynote address by Nobel Laureate Phillip A. Sharp the 21st century opened with a revolution in RNA biology. Sharp PA. J Biomol Struct Dyn.pubmed:26103212;  doi:10.1080/07391102.2015.1032624

24. De Novo Reconstruction of Adipose Tissue Transcriptomes Reveals Long Non-coding RNA Regulators of Brown Adipocyte Development. Alvarez-Dominguez JR, Bai Z, Xu D, Yuan B, Lo KA, Yoon MJ, Lim YC, Knoll M, Slavov N, Chen S, Peng C, Lodish HF, Sun L. Cell Metab.pubmed:25921091;  doi:10.1016/j.cmet.2015.04.003

25. Genome-wide association study follow-up identifies cyclin A2 as a regulator of the transition through cytokinesis during terminal erythropoiesis. Ludwig LS, Cho H, Wakabayashi A, Eng JC, Ulirsch JC, Fleming MD, Lodish HF, Sankaran VG. Am J Hematolpubmed:25615569;  doi:10.1002/ajh.23952

26. The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3. McHugh CA, Chen CK, Chow A, Surka CF, Tran C, McDonel P, Pandya-Jones A, Blanco M, Burghard C, Moradian A, Sweredoski MJ, Shishkin AA, Su J, Lander ES, Hess S, Plath K, Guttman M. Nature.pubmed:25915022;  doi:10.1038/nature14443

27. The Dynamics of Eukaryotic Replication Initiation: Origin Specificity, Licensing, and Firing at the Single-Molecule Level. Duzdevich D, Warner MD, Ticau S, Ivica NA, Bell SP, Greene EC. Mol Cellpubmed:25921072;  doi:10.1016/j.molcel.2015.03.017

28. Acyl-CoA Dehydrogenase Drives Heat Adaptation by Sequestering Fatty Acids. Ma DK, Li Z, Lu AY, Sun F, Chen S, Rothe M, Menzel R, Sun F, Horvitz HR. Cellpubmed:25981666;  doi:10.1016/j.cell.2015.04.026

29. The cytoplasmic prolyl-tRNA synthetase of the malaria parasite is a dual-stage target of febrifugine and its analogs. Herman JD, Pepper LR, Cortese JF, Estiu G, Galinsky K, Zuzarte-Luis V, Derbyshire ER, Ribacke U, Lukens AK, Santos SA, Patel V, Clish CB, Sullivan WJJr, Zhou H, Bopp SE, Schimmel P, Lindquist S, Clardy J, Mota MM, Keller TL, Whitman M, Wiest O, Wirth DF, Mazitschek R. Sci Transl Med.pubmed:25995223;  doi:10.1126/scitranslmed.aaa3575

30. Polyploidy. Frawley LE, Orr-Weaver TL. Curr Biolpubmed:25942544;  doi:10.1016/j.cub.2015.03.037

31. Aneuploid proliferation defects in yeast are not driven by copy number changes of a few dosage-sensitive genes. Bonney ME, Moriya H, Amon A.Genes Devpubmed:25934502;  doi:10.1101/gad.261743.115

32. Modulation of extrasynaptic NMDA receptors by synaptic and tonic zinc. Anderson CT, Radford RJ, Zastrow ML, Zhang DY, Apfel UP, Lippard SJ, Tzounopoulos T. Proc Natl Acad Sci U S Apubmed:25947151;  doi:10.1073/pnas.1503348112

33. Cell Cycle Control by the Master Regulator CtrA in Sinorhizobium meliloti. Pini F, De Nisco NJ, Ferri L, Penterman J, Fioravanti A, Brilli M, Mengoni A, Bazzicalupo M, Viollier PH, Walker GC, Biondi EG. PLoS Genetpubmed:25978424;  doi:10.1371/journal.pgen.1005232

34. Kinetics and Role of Plasma Matrix Metalloproteinase-9 Expression in Acute Lung Injury and the Acute Respiratory Distress Syndrome. Hsu AT, Barrett CD, George DeBusk M, Ellson CD, Gautam S, Talmor DS, Gallagher DC, Yaffe MB. Shockpubmed:26009816;  doi:10.1097/SHK.0000000000000386