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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 2019

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1. Partial FMRP expression is sufficient to normalize neuronal hyperactivity in Fragile X neurons. Graef JD, Wu H, Ng C, Sun C, Villegas V, Qadir D, Jesseman K, Warren ST, Jaenisch R, Cacace A, Wallace O. Eur J Neurosci. pubmed:31880363;  doi:10.1111/ejn.14660

2. Exon-Mediated Activation of Transcription Starts. Fiszbein A, Krick KS, Begg BE, Burge CB. Cell. pubmed:31787377;  doi:10.1016/j.cell.2019.11.002

3. Reactive metabolite production is a targetable liability of glycolytic metabolism in lung cancer. Luengo A, Abbott KL, Davidson SM, Hosios AM, Faubert B, Chan SH, Freinkman E, Zacharias LG, Mathews TP, Clish CB, DeBerardinis RJ, Lewis CA, Vander Heiden MG. Nat Commun. pubmed:31811141;  doi:10.1038/s41467-019-13419-4

4. Mammalian germ cells are determined after PGC colonization of the nascent gonad. Nicholls PK, Schorle H, Naqvi S, Hu YC, Fan Y, Carmell MA, Dobrinski I, Watson AL, Carlson DF, Fahrenkrug SC, Page DC. Proc Natl Acad Sci U S A. pubmed:31754036;  doi:10.1073/pnas.1910733116

5. Single-Cell Profiles of Retinal Ganglion Cells Differing in Resilience to Injury Reveal Neuroprotective Genes. Tran NM, Shekhar K, Whitney IE, Jacobi A, Benhar I, Hong G, Yan W, Adiconis X, Arnold ME, Lee JM, Levin JZ, Lin D, Wang C, Lieber CM, Regev A, He Z, Sanes JR. Neuron. pubmed:31784286;  doi:10.1016/j.neuron.2019.11.006

6. Toward a Common Coordinate Framework for the Human Body. Rood JE, Stuart T, Ghazanfar S, Biancalani T, Fisher E, Butler A, Hupalowska A, Gaffney L, Mauck W, Eraslan G, Marioni JC, Regev A, Satija R. Cell. pubmed:31835027;  doi:10.1016/j.cell.2019.11.019

7. Agrin in the Muscularis Mucosa Serves as a Biomarker Distinguishing Hyperplastic Polyps from Sessile Serrated Lesions. Rickelt S, Condon C, Mana M, Whittaker C, Pfirschke C, Roper J, Patil DT, Brown I, Mattia AR, Zukerberg L, Zhao Q, Chetty R, Lauwers GY, Neyaz A, Leijssen LGJ, Boylan K, Yilmaz OH, Deshpande V, Hynes RO. Clin Cancer Res. pubmed:31852835;  doi:10.1158/1078-0432.CCR-19-2898

8. ASCL1 is a MYCN- and LMO1-dependent member of the adrenergic neuroblastoma core regulatory circuitry. Wang L, Tan TK, Durbin AD, Zimmerman MW, Abraham BJ, Tan SH, Ngoc PCT, Weichert-Leahey N, Akahane K, Lawton LN, Rokita JL, Maris JM, Young RA, Look AT, Sanda T. Nat Commun. pubmed:31819055;  doi:10.1038/s41467-019-13515-5

9. Tumour Dormancy and Reawakening: Opportunities and Challenges. Boire A, Coffelt SB, Quezada SA, Vander Heiden MG, Weeraratna AT. Trends Cancer. pubmed:31813453;  doi:10.1016/j.trecan.2019.10.010

10. IL-33 Signaling Alters Regulatory T Cell Diversity in Support of Tumor Development. Li A, Herbst RH, Canner D, Schenkel JM, Smith OC, Kim JY, Hillman M, Bhutkar A, Cuoco MS, Rappazzo CG, Rogers P, Dang C, Jerby-Arnon L, Rozenblatt-Rosen O, Cong L, Birnbaum M, Regev A, Jacks T. Cell Rep. pubmed:31801068;  doi:10.1016/j.celrep.2019.10.120

11. Integrative molecular and clinical modeling of clinical outcomes to PD1 blockade in patients with metastatic melanoma. Liu D, Schilling B, Liu D, Sucker A, Livingstone E, Jerby-Amon L, Zimmer L, Gutzmer R, Satzger I, Loquai C, Grabbe S, Vokes N, Margolis CA, Conway J, He MX, Elmarakeby H, Dietlein F, Miao D, Tracy A, Gogas H, Goldinger SM, Utikal J, Blank CU, Rauschenberg R, von Bubnoff D, Krackhardt A, Weide B, Haferkamp S, Kiecker F, Izar B, Garraway L, Regev A, Flaherty K, Paschen A, Van Allen EM, Schadendorf D. Nat Med. pubmed:31792460;  doi:10.1038/s41591-019-0654-5

12. Activity-by-contact model of enhancer-promoter regulation from thousands of CRISPR perturbations. Fulco CP, Nasser J, Jones TR, Munson G, Bergman DT, Subramanian V, Grossman SR, Anyoha R, Doughty BR, Patwardhan TA, Nguyen TH, Kane M, Perez EM, Durand NC, Lareau CA, Stamenova EK, Aiden EL, Lander ES, Engreitz JM. Nat Genet. pubmed:31784727;  doi:10.1038/s41588-019-0538-0

13. Human iPSC-derived microglia assume a primary microglia-like state after transplantation into the neonatal mouse brain. Svoboda DS, Barrasa MI, Shu J, Rietjens R, Zhang S, Mitalipova M, Berube P, Fu D, Shultz LD, Bell GW, Jaenisch R. Proc Natl Acad Sci U S A. pubmed:31772018;  doi:10.1073/pnas.1913541116

14. Early epigenomic and transcriptional changes reveal Elk-1 transcription factor as a therapeutic target in Huntington's disease. Yildirim F, Ng CW, Kappes V, Ehrenberger T, Rigby SK, Stivanello V, Gipson TA, Soltis AR, Vanhoutte P, Caboche J, Housman DE, Fraenkel E. Proc Natl Acad Sci U S A. pubmed:31744868;  doi:10.1073/pnas.1908113116

15. Editing the Epigenome to Tackle Brain Disorders. Liu XS, Jaenisch R. Trends Neurosci. pubmed:31706628;  doi:10.1016/j.tins.2019.10.003

16. Postdiagnosis Loss of Skeletal Muscle, but Not Adipose Tissue, Is Associated with Shorter Survival of Patients with Advanced Pancreatic Cancer. 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. Cancer Epidemiol Biomarkers Prev. pubmed:31533940;  doi:10.1158/1055-9965.EPI-19-0370

17. An N-Heterocyclic Carbene Derived Distonic Radical Cation. Gallagher N, Ye HZ, Lopez J, Zhu Y, Van Voorhis T, Shao-Horn Y, Johnson JA. Angew Chem Int Ed Engl. pubmed:31825136;  doi:10.1002/anie.201915534

18. Tailored silyl ether monomers enable backbone-degradable polynorbornene-based linear, bottlebrush and star copolymers through ROMP. Shieh P, Nguyen HV, Johnson JA. Nat Chem. pubmed:31659310;  doi:10.1038/s41557-019-0352-4

19. TCR sequencing paired with massively parallel 3' RNA-seq reveals clonotypic T cell signatures. Tu AA, Gierahn TM, Monian B, Morgan DM, Mehta NK, Ruiter B, Shreffler WG, Shalek AK, Love JC. Nat Immunol. pubmed:31745340;  doi:10.1038/s41590-019-0544-5

20. Targeting liver stage malaria with metformin. Vera IM, Grilo Ruivo MT, Lemos Rocha LF, Marques S, Bhatia SN, Mota MM, Mancio-Silva L. JCI Insight. pubmed:31852843;  doi:10.1172/jci.insight.127441

21. Pericytes Contribute to Dysfunction in a Human 3D Model of Placental Microvasculature through VEGF-Ang-Tie2 Signaling. Haase K, Gillrie MR, Hajal C, Kamm RD. Adv Sci (Weinh). pubmed:31832308;  doi:10.1002/advs.201900878

22. Injectable Polymer-Nanoparticle Hydrogels for Local Immune Cell Recruitment. Fenton OS, Tibbitt MW, Appel EA, Jhunjhunwala S, Webber MJ, Langer R. Biomacromolecules. pubmed:31682423;  doi:10.1021/acs.biomac.9b01129

23. Biocompatible near-infrared quantum dots delivered to the skin by microneedle patches record vaccination. McHugh KJ, Jing L, Severt SY, Cruz M, Sarmadi M, Jayawardena HSN, Perkinson CF, Larusson F, Rose S, Tomasic S, Graf T, Tzeng SY, Sugarman JL, Vlasic D, Peters M, Peterson N, Wood L, Tang W, Yeom J, Collins J, Welkhoff PA, Karchin A, Tse M, Gao M, Bawendi MG, Langer R, Jaklenec A. Sci Transl Med. pubmed:31852802;  doi:10.1126/scitranslmed.aay7162

24. A once-a-month oral contraceptive. Kirtane AR, Hua T, Hayward A, Bajpayee A, Wahane A, Lopes A, Bensel T, Ma L, Stanczyk FZ, Brooks S, Gwynne D, Wainer J, Collins J, Tamang SM, Langer R, Traverso G. Sci Transl Med. pubmed:31801885;  doi:10.1126/scitranslmed.aay2602

25. Glucose-Responsive Nanoparticles for Rapid and Extended Self-Regulated Insulin Delivery. Volpatti LR, Matranga MA, Cortinas AB, Delcassian D, Daniel KB, Langer R, Anderson DG. ACS Nano. pubmed:31765558;  doi:10.1021/acsnano.9b06395

26. Advancing CRISPR-Based Programmable Platforms beyond Genome Editing in Mammalian Cells. Higashikuni Y, Lu TK. ACS Synth Biol. pubmed:31751114;  doi:10.1021/acssynbio.9b00297

27. Microphysiological systems. Hickman JJ, Huh D, Kamm RD. APL Bioeng. pubmed:31673671;  doi:10.1063/1.5130170

28. Thermally and pH-responsive gelation of nanoemulsions stabilized by weak acid surfactants. Cheng LC, Hashemnejad SM, Zarket B, Muthukrishnan S, Doyle PS. J Colloid Interface Sci. pubmed:31874310;  doi:10.1016/j.jcis.2019.12.054