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: June 2016

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1. Of microneedles and ultrasound: Physical modes of gastrointestinal macromolecule delivery. Schoellhammer CM, Langer R, Traverso G. Tissue Barriers. pubmed:27358752;  doi:10.1080/21688370.2016.1150235

2. Physical and mechanical properties of PLA, and their functions in widespread applications - A comprehensive review. Farah S, Anderson DG, Langer R. Adv Drug Deliv Rev. pubmed:27356150;  doi:10.1016/j.addr.2016.06.012

3. Magnetic Multivalent Trehalose Glycopolymer Nanoparticles for the Detection of Mycobacteria. Chen X, Wu B, Jayawardana KW, Hao N, Jayawardena HS, Langer R, Jaklenec A, Yan M. Adv Healthc Mater. pubmed:27283385;  doi:10.1002/adhm.201600071

4. RNAi targeting multiple cell adhesion molecules reduces immune cell recruitment and vascular inflammation after myocardial infarction. Sager HB, Dutta P, Dahlman JE, Hulsmans M, Courties G, Sun Y, Heidt T, Vinegoni C, Borodovsky A, Fitzgerald K, Wojtkiewicz GR, Iwamoto Y, Tricot B, Khan OF, Kauffman KJ, Xing Y, Shaw TE, Libby P, Langer R, Weissleder R, Swirski FK, Anderson DG, Nahrendorf M. Sci Transl Med. pubmed:27280687;  doi:10.1126/scitranslmed.aaf1435

5. Chondrogenesis by bone marrow-derived mesenchymal stem cells grown in chondrocyte-conditioned medium for auricular reconstruction. Zhao X, Hwang NS, Bichara DA, Saris DB, Malda J, Vacanti JP, Pomerantseva I, Sundback CA, Langer R, Anderson DG, Randolph MA. J Tissue Eng Regen Med. pubmed:27256796;  doi:10.1002/term.2171

6. Synthetic Morphogenesis. Teague BP, Guye P, Weiss R. Cold Spring Harb Perspect Biol. pubmed:27270296;  doi:10.1101/cshperspect.a023929

7. Mechanical properties of the superficial biofilm layer determine the architecture of biofilms. Kundukad B, Seviour T, Liang Y, Rice SA, Kjelleberg S, Doyle PS. Soft Matter. pubmed:27273453;  doi:10.1039/c6sm00687f

8. Core-Shell Composite Hydrogels for Controlled Nanocrystal Formation and Release of Hydrophobic Active Pharmaceutical Ingredients. Badruddoza AZ, Godfrin PD, Myerson AS, Trout BL, Doyle PS. Adv Healthc Mater. pubmed:27249402;  doi:10.1002/adhm.201600266

9. Translocation dynamics of knotted polymers under a constant or periodic external field. Narsimhan V, Renner CB, Doyle PS. Soft Matter. pubmed:27181288;  doi:10.1039/c6sm00545d

10. The polymer physics of single DNA confined in nanochannels. Dai L, Renner CB, Doyle PS. Adv Colloid Interface Sci. pubmed:26782150;  doi:10.1016/j.cis.2015.12.002

11. Engineering Periodic shRNA for Enhanced Silencing Efficacy. Wu C, Shopsowitz KE, Hammond PT. Mol Ther. pubmed:27053374;  doi:10.1038/mt.2016.69

12. Governing principles of alginate microparticle synthesis with centrifugal forces. Eral HB, Safai ER, Keshavarz B, Kim JJ, Lee J, Doyle PS. Langmuir. pubmed:27311392;  doi:10.1021/acs.langmuir.6b00806

13. Engineering a perfusable 3D human liver platform from iPS cells. Schepers A, Li C, Chhabra A, Seney BT, Bhatia S. Lab Chip. pubmed:27296616;  doi:10.1039/c6lc00598e

14. First In Vivo Testing of Compounds Targeting Group 3 Medulloblastomas Using an Implantable Microdevice as a New Paradigm for Drug Development. Jonas O, Calligaris D, Methuku KR, Poe MM, Francois JP, Tranghese F, Changelian A, Sieghart W, Ernst M, Krummel DA, Cook JM, Pomeroy SL, Cima M, Agar NY, Langer R, Sengupta S. J Biomed Nanotechnol. pubmed:27319222;  

15. Pathway-based network modeling finds hidden genes in shRNA screen for regulators of acute lymphoblastic leukemia. Wilson JL, Dalin S, Gosline S, Hemann M, Fraenkel E, Lauffenburger DA. Integr Biol (Camb). pubmed:27315426;  doi:10.1039/c6ib00040a

16. Quantitative Phosphoproteomics Reveals Wee1 Kinase as a Therapeutic Target in a Model of Proneural Glioblastoma. Lescarbeau RS, Lei L, Bakken KK, Sims PA, Sarkaria JN, Canoll P, White FM. Mol Cancer Ther. pubmed:27196784;  doi:10.1158/1535-7163.MCT-15-0692-T

17. Methods for the Analysis of Protein Phosphorylation-Mediated Cellular Signaling Networks. White FM, Wolf-Yadlin A. Annu Rev Anal Chem (Palo Alto Calif). pubmed:27049636;  doi:10.1146/annurev-anchem-071015-041542

18. RBPJ Controls Development of Pathogenic Th17 Cells by Regulating IL-23 Receptor Expression. Meyer Zu Horste G, Wu C, Wang C, Cong L, Pawlak M, Lee Y, Elyaman W, Xiao S, Regev A, Kuchroo VK. Cell Rep. pubmed:27346359;  doi:10.1016/j.celrep.2016.05.088

19. C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector. Abudayyeh OO, Gootenberg JS, Konermann S, Joung J, Slaymaker IM, Cox DB, Shmakov S, Makarova KS, Semenova E, Minakhin L, Severinov K, Regev A, Lander ES, Koonin EV, Zhang F. Science. pubmed:27256883;  doi:10.1126/science.aaf5573

20. Single-cell variability guided by microRNAs. Garg S, Sharp PA. Science. pubmed:27313022;  doi:10.1126/science.aag1097

21. Targeting Epstein-Barr virus transformed B lymphoblastoid cells using antibodies with T cell receptor-like specificities. Lai J, Tan WJ, Too CT, Choo JA, Wong LH, Bte Mustafa F, Srinivasan N, Lim AP, Zhong Y, Gascoigne NR, Hanson BJ, Chan SH, Chen J, MacAry PA. Blood. pubmed:27338099;  doi:10.1182/blood-2016-03-707836

22. Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability. Yassour M, Vatanen T, Siljander H, Hamalainen AM, Harkonen T, Ryhanen SJ, Franzosa EA, Vlamakis H, Huttenhower C, Gevers D, Lander ES, Knip M, Xavier RJ. Sci Transl Med. pubmed:27306663;  doi:10.1126/scitranslmed.aad0917

23. Direct Identification of Hundreds of Expression-Modulating Variants using a Multiplexed Reporter Assay. Tewhey R, Kotliar D, Park DS, Liu B, Winnicki S, Reilly SK, Andersen KG, Mikkelsen TS, Lander ES, Schaffner SF, Sabeti PC. Cell. pubmed:27259153;  doi:10.1016/j.cell.2016.04.027

24. Diagnostic Yield of Sequencing Familial Hypercholesterolemia Genes in Patients with Severe Hypercholesterolemia. Khera AV, Won HH, Peloso GM, Lawson KS, Bartz TM, Deng X, van Leeuwen EM, Natarajan P, Emdin CA, Bick AG, Morrison AC, Brody JA, Gupta N, Nomura A, Kessler T, Duga S, Bis JC, van Duijn CM, Cupples LA, Psaty B, Rader DJ, Danesh J, Schunkert H, McPherson R, Farrall M, Watkins H, Lander E, Wilson JG, Correa A, Boerwinkle E, Merlini PA, Ardissino D, Saleheen D, Gabriel S, Kathiresan S. J Am Coll Cardiol. pubmed:27050191;  doi:10.1016/j.jacc.2016.03.520

25. Parallel evolution of male germline epigenetic poising and somatic development in animals. Lesch BJ, Silber SJ, McCarrey JR, Page DC. Nat Genet. pubmed:27294618;  doi:10.1038/ng.3591

26. Recent advances in sortase-catalyzed ligation methodology. Antos JM, Truttmann MC, Ploegh HL. Curr Opin Struct Biol. pubmed:27318815;  doi:10.1016/j.sbi.2016.05.021

27. Longitudinal multiparameter assay of lymphocyte interactions from onset by microfluidic cell pairing and culture. Dura B, Servos MM, Barry RM, Ploegh HL, Dougan SK, Voldman J. Proc Natl Acad Sci U S A. pubmed:27303033;  doi:10.1073/pnas.1515364113

28. Capitalizing on convergence for health care. Sharp P, Jacks T, Hockfield S. Science. pubmed:27339972;  doi:10.1126/science.aag2350

29. A Long Noncoding RNA lincRNA-EPS Acts as a Transcriptional Brake to Restrain Inflammation. Atianand MK, Hu W, Satpathy AT, Shen Y, Ricci EP, Alvarez-Dominguez JR, Bhatta A, Schattgen SA, McGowan JD, Blin J, Braun JE, Gandhi P, Moore MJ, Chang HY, Lodish HF, Caffrey DR, Fitzgerald KA. Cell. pubmed:27315481;  doi:10.1016/j.cell.2016.05.075

30. Efficient CRISPR-Cas9 mediated gene disruption in primary erythroid progenitor cells. Li H, Shi J, Huang NJ, Pishesha N, Natarajan A, Eng JC, Lodish HF. Haematologica. pubmed:26969085;  doi:10.3324/haematol.2015.135723

31. The resurgence of NAD(+). Guarente L. Science. pubmed:27313027;  doi:10.1126/science.aag1718

32. mTORC1 and SIRT1 Cooperate to Foster Expansion of Gut Adult Stem Cells during Calorie Restriction. Igarashi M, Guarente L. Cell. pubmed:27345368;  doi:10.1016/j.cell.2016.05.044

33. Aneuploidy impairs hematopoietic stem cell fitness and is selected against in regenerating tissues in vivo. Pfau SJ, Silberman RE, Knouse KA, Amon A. Genes Dev. pubmed:27313317;  doi:10.1101/gad.278820.116

34. Nutrient Control of Yeast Gametogenesis Is Mediated by TORC1, PKA and Energy Availability. Weidberg H, Moretto F, Spedale G, Amon A, van Werven FJ. PLoS Genet. pubmed:27272508;  doi:10.1371/journal.pgen.1006075

35. Longer lifespan in male mice treated with a weakly estrogenic agonist, an antioxidant, an alpha-glucosidase inhibitor or a Nrf2-inducer. Strong R, Miller RA, Antebi A, Astle CM, Bogue M, Denzel MS, Fernandez E, Flurkey K, Hamilton KL, Lamming DW, Javors MA, de Magalhaes JP, Marinez PA, McCord JM, Miller BF, Muller M, Nelson JF, Ndukum J, Rainger GE, Richardson A, Sabatini DM, Salmon AB, Simpkins JW, Steegenga WT, Nadon NL, Harrison DE. Aging Cell. pubmed:27312235;  doi:10.1111/acel.12496

36. InterFeriNg with Acetgammalation: Stress-Levels of Acetate Improve Memory T Cell Function. Lewis CA, Vander Heiden MG. Immunity. pubmed:27332725;  doi:10.1016/j.immuni.2016.06.004

37. Targeting MTHFD2 in acute myeloid leukemia. Pikman Y, Puissant A, Alexe G, Furman A, Chen LM, Frumm SM, Ross L, Fenouille N, Bassil CF, Lewis CA, Ramos A, Gould J, Stone RM, DeAngelo DJ, Galinsky I, Clish CB, Kung AL, Hemann MT, Vander Heiden MG, Banerji V, Stegmaier K. J Exp Med. pubmed:27325891;  doi:10.1084/jem.20151574

38. Metabolomic Biomarkers of Prostate Cancer: Prediction, Diagnosis, Progression, Prognosis, and Recurrence. Kelly RS, Vander Heiden MG, Giovannucci E, Mucci LA. Cancer Epidemiol Biomarkers Prev. pubmed:27197278;  doi:10.1158/1055-9965.EPI-15-1223

39. A PHGDH inhibitor reveals coordination of serine synthesis and one-carbon unit fate. Pacold ME, Brimacombe KR, Chan SH, Rohde JM, Lewis CA, Swier LJ, Possemato R, Chen WW, Sullivan LB, Fiske BP, Cho S, Freinkman E, Birsoy K, Abu-Remaileh M, Shaul YD, Liu CM, Zhou M, Koh MJ, Chung H, Davidson SM, Luengo A, Wang AQ, Xu X, Yasgar A, Liu L, Rai G, Westover KD, Vander Heiden MG, Shen M, Gray NS, Boxer MB, Sabatini DM. Nat Chem Biol. pubmed:27110680;  doi:10.1038/nchembio.2070

40. Circulating Metabolites and Survival Among Patients With Pancreatic Cancer. Yuan C, Clish CB, Wu C, Mayers JR, Kraft P, Townsend MK, Zhang M, Tworoger SS, Bao Y, Qian ZR, Rubinson DA, Ng K, Giovannucci EL, Ogino S, Stampfer MJ, Gaziano JM, Ma J, Sesso HD, Anderson GL, Cochrane BB, Manson JE, Torrence ME, Kimmelman AC, Amundadottir LT, Vander Heiden MG, Fuchs CS, Wolpin BM. J Natl Cancer Inst. pubmed:26755275;  doi:10.1093/jnci/djv409

41. Defining the Essential Function of Yeast Hsf1 Reveals a Compact Transcriptional Program for Maintaining Eukaryotic Proteostasis. Solis EJ, Pandey JP, Zheng X, Jin DX, Gupta PB, Airoldi EM, Pincus D, Denic V. Mol Cell. pubmed:27320198;  doi:10.1016/j.molcel.2016.05.014

42. Versatile in vivo regulation of tumor phenotypes by dCas9-mediated transcriptional perturbation. Braun CJ, Bruno PM, Horlbeck MA, Gilbert LA, Weissman JS, Hemann MT. Proc Natl Acad Sci U S A. pubmed:27325776;  doi:10.1073/pnas.1600582113

43. Neutrophils suppress intraluminal NK-mediated tumor cell clearance and enhance extravasation of disseminated carcinoma cells. Spiegel A, Brooks MW, Houshyar S, Reinhardt F, Ardolino M, Fessler E, Chen MB, Krall JA, DeCock J, Zervantonakis IK, Iannello A, Iwamoto Y, Cortez-Retamozo V, Kamm RD, Pittet MJ, Raulet DH, Weinberg RA. Cancer Discov. pubmed:27072748;  doi:10.1158/2159-8290.CD-15-1157