Publications

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2014


Amamoto, R., Arlotta, P. Development-Inspired Reprogramming of the Central Nervous System. Science. In preparation. Science. 2014 Jan 31;343(6170):1239882. doi: 10.1126/science.1239882. PMID: 24482482


Gornstein E, Schwarz TL. The paradox of paclitaxel neurotoxicity: Mechanisms and unanswered questions. Neuropharmacology. 2014 Jan;76 Pt A:175-83. doi: 10.1016/j.neuropharm.2013.08.016. Epub 2013 Aug 24. PMID: 23978385


Okada Y, Wu D, Trynka G, Raj T, Terao C, Ikari K, Kochi Y, Ohmura K, Suzuki A, Yoshida S, Graham RR, Manoharan A, Ortmann W, Bhangale T, Denny JC, Carroll RJ, Eyler AE, Greenberg JD, Kremer JM, Pappas DA, Jiang L, Yin J, Ye L, Su DF, Yang J, Xie G, Keystone E, Westra HJ, Esko T, Metspalu A, Zhou X, Gupta N, Mirel D, Stahl EA, Diogo D, Cui J, Liao K, Guo MH, Myouzen K, Kawaguchi T, Coenen MJ, van Riel PL, van de Laar MA, Guchelaar HJ, Huizinga TW, Dieudé P, Mariette X, Bridges SL Jr, Zhernakova A, Toes RE, Tak PP, Miceli-Richard C, Bang SY, Lee HS, Martin J, Gonzalez-Gay MA, Rodriguez-Rodriguez L, Rantapää-Dahlqvist S, Arlestig L, Choi HK, Kamatani Y, Galan P, Lathrop M; RACI consortium; GARNET consortium, Eyre S, Bowes J, Barton A, de Vries N, Moreland LW, Criswell LA, Karlson EW, Taniguchi A, Yamada R, Kubo M, Liu JS, Bae SC, Worthington J, Padyukov L, Klareskog L, Gregersen PK, Raychaudhuri S, Stranger BE, De Jager PL, Franke L, Visscher PM, Brown MA, Yamanaka H, Mimori T, Takahashi A, Xu H, Behrens TW, Siminovitch KA, Momohara S, Matsuda F, Yamamoto K, Plenge RM. Genetics of rheumatoid arthritis contributes to biology and drug discovery. Nature. 2014 Feb 20;506(7488):376-81. doi: 10.1038/nature12873. Epub 2013 Dec 25. PMID: 24390342 PMCID: PMC3944098


Bröcker MJ, Ho JM, Church GM, Söll D, O'Donoghue P. Recoding the genetic code with selenocysteine. Angew Chem Int Ed Engl. 2014 Jan 3;53(1):319-23. doi: 10.1002/anie.201308584. PMID: 24511637


Colak S, Zimberlin CD, Fessler E, Hogdal L, Prasetyanti PR, Grandela CM, Letai A, Medema JP. Decreased mitochondrial priming determines chemoresistance of colon cancer stem cells. Cell Death Differ. 2014 Mar 28. doi: 10.1038/cdd.2014.37. [Epub ahead of print] PMID: 24682005


Yang L, Mali P, Kim-Kiselak C, Church G. CRISPR-Cas-Mediated Targeted Genome Editing in Human Cells. Methods Mol Biol. 2014;1114:245-67. doi: 10.1007/978-1-62703-761-7_16. PMID: 24557908


David LA, Maurice CF, Carmody RN, Gootenberg DB, Button JE, Wolfe BE, Ling AV, Devlin AS, Varma Y, Fischbach MA, Biddinger SB, Dutton RJ, Turnbaugh PJ. Diet rapidly and reproducibly alters the human gut microbiome. Nature. 2014 Jan 23;505(7484):559-63. doi: 10.1038/nature12820. Epub 2013 Dec 11. PMID: 24336217 PMCID: PMC3957428


Raiser DM, Narla A, Ebert BL. The emerging importance of ribosomal dysfunction in the pathogenesis of hematologic disorders. Leuk Lymphoma. 2014 Mar;55(3):491-500. doi: 10.3109/10428194.2013.812786. Epub 2013 Aug 28. PMID: 23863123


Berger AH, Imielinski M, Duke F, Wala J, Kaplan N, Shi GX, Andres DA, Meyerson M. Oncogenic RIT1 mutations in lung adenocarcinoma. Oncogene. 2014 Jan 27. doi: 10.1038/onc.2013.581. [Epub ahead of print] PMID: 24469055


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2013


Amamoto, R., Arlotta, P. Reshaping the Brain: Direct Lineage Conversion in the Nervous System. F1000Prime Rep. 2013 Sep 2;5:33. eCollection 2013. PMID: 24049637 PMCID: PMC3768326 read article


Su X, Arellano-Santoyo H, Portran D, Gaillard J, Vantard M, Thery M, Pellman D. Microtubule-sliding activity of a kinesin-8 promotes spindle assembly and spindle-length control. Nat Cell Biol. 2013 Aug;15(8):948-57. doi: 10.1038/ncb2801. Epub 2013 Jul 14. PMID:23851487 PMCID: PMC3767134 read article


Kim SG, Buel GR, and Blenis J. 2013. Nutrient regulation of the mTOR Complex 1 signaling pathway. Mol Cells. 2013 Jun;35(6):463-73. doi: 10.1007/s10059-013-0138-2. Epub 2013 May 20. PMID: 23694989 PMCID: PMC3887879


Buel GR, Kim SG, and Blenis J. 2013. mTORC1 Signaling Aids in CADalyzing Pyrimidine Biosynthesis. Cell Metab. 2013 May 7;17(5):633-5. doi: 10.1016/j.cmet.2013.04.018. PMID: 23663734


Kim SG, Hoffman GR, Poulogiannis G, Buel GR, Jang YJ, Lee KW, Kim BY, Erikson RL, Cantley LC, Choo AY, and Blenis J. 2013. Metabolic stress controls mTORC1 lysosomal localization and dimerization by regulating the TTT-RUVBL1/2 complex. Mol Cell. 2013 Jan 10;49(1):172-85. doi: 10.1016/j.molcel.2012.10.003. Epub 2012 Nov 8. PMID: 23142078 PMCID: PMC3545014
 read article


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. Glucose metabolism impacts the spatiotemporal onset and magnitude of HSC induction in vivo. Blood. 2013 Mar 28;121(13):2483-93. doi: 10.1182/blood-2012-12-471201. Epub 2013 Jan 22. PMID: 23341543 PMCID: PMC3612858 read article


Jemielity S, Wang JJ, Chan YK, Ahmed AA, Li W, Monahan S, Bu X, Farzan M, Freeman GJ, Umetsu DT, Dekruyff RH, Choe H. TIM-family proteins promote infection of multiple enveloped viruses through virion-associated phosphatidylserine. PLoS Pathog. 2013 Mar;9(3):e1003232. doi: 10.1371/journal.ppat.1003232. Epub 2013 Mar 28. PMID:23555248. PMCID:PMC3610696. read article


Buchwalter G, Hickey MM, Cromer A, Selfors LM, Gunawardane RN, Frishman J, Jeselsohn R, Lim E, Chi D, Fu X, Schiff R, Brown M, Brugge JS. PDEF Promotes Luminal Differentiation and Acts as a Survival Factor for ER-Positive Breast Cancer Cells. Cancer Cell. 2013 Jun 10;23(6):753-67. doi: 10.1016/j.ccr.2013.04.026. PMID:23764000. PMCID:PMC3711136.


Ciarlo CA, Zon LI. A model for primary melanoma of the CNS implicates NRAS. Cancer Discov. 2013 Apr;3(4):382-3. doi: 10.1158/2159-8290.CD-13-0076. PMID: 23580282


Kung J, Colognori D, Lee J. (2013) Long noncoding RNAs: past, present, and future. Genetics. 2013 Mar;193(3):651-69. doi: 10.1534/genetics.112.146704. PMID: 23463798. PMCID:PMC3583990. read article


Ziller MJ, Gu H, Müller F, Donaghey J, Tsai LT, Kohlbacher O, De Jager PL, Rosen ED, Bennett DA, Bernstein BE, Gnirke A, Meissner A. Charting a dynamic DNA methylation landscape of the human genome. Nature. 2013 Aug 22;500(7463):477-81. doi: 10.1038/nature12433. Epub 2013 Aug 7. PMID: 23925113 PMCID: PMC3821869 read article


CA. Gifford*, MJ. Ziller*, H Gu, C Trapnell, J Donaghey, A Tsankov, AK. Shalek, DR Kelley, R Issner, X Zhang, M Coyne, JL Fostel, L Holmes, J Meldrim, C Epstein, H Park, A Regev, O Kohlbacher, J Rinn, A Gnirke, BE Bernstein and A Meissner. Transcriptional and Epigenetic Dynamics During Specification of Human Embryonic Stem Cells. Cell. 2013 May 23;153(5):1149-63. doi: 10.1016/j.cell.2013.04.037. Epub 2013 May 9. PMID: 23664763 PMCID: PMC3709577


Zangi L, Lui KO, von Gise A, Ma Q, Ebina W, Ptaszek LM, Später D, Xu H, Tabebordbar M, Gorbatov R, Sena B, Nahrendorf M, Briscoe DM, Li RA, Wagers AJ, Rossi DJ, Pu WT, Chien KR. Modified mRNA directs the fate of heart progenitor cells and induces vascular regeneration after myocardial infarction. Nat Biotechnol. 2013 Oct;31(10):898-907. doi: 10.1038/nbt.2682. Epub 2013 Sep 8. PMID: 24013197


Torella JP, Ford TJ, Kim SN, Chen AM, Way JC, Silver PA. Tailored fatty acid synthesis via dynamic control of fatty acid elongation. Proc Natl Acad Sci U S A. 2013 Jul 9;110(28):11290-5. doi: 10.1073/pnas.1307129110. Epub 2013 Jun 24. PMID: 23798438 PMCID: PMC3710846 read article


Froberg JE, Yang L, Lee JT. Guided by RNAs: X-inactivation as a model for lncRNA function. J Mol Biol. 2013 Oct 9;425(19):3698-706. doi: 10.1016/j.jmb.2013.06.031. Epub 2013 Jun 28. PMID: 23816838 PMCID: PMC3771680


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. Glucose metabolism impacts the spatiotemporal onset and magnitude of HSC induction in vivo. Blood. 2013 Mar 28;121(13):2483-93. doi: 10.1182/blood-2012-12-471201. Epub 2013 Jan 22. PMID: 23341543 PMCID: PMC3612858 read article


Laurent G, German NJ, Saha AK, de Boer VC, Davies M, Koves TR, Dephoure N, Fischer F, Boanca G, Vaitheesvaran B, Lovitch SB, Sharpe AH, Kurland IJ, Steegborn C, Gygi SP, Muoio DM, Ruderman NB, Haigis MC. SIRT4 coordinates the balance between lipid synthesis and catabolism by repressing malonyl CoA decarboxylase. Mol Cell. 2013 Jun 6;50(5):686-98. doi: 10.1016/j.molcel.2013.05.012. PMID: 23746352 PMCID: PMC3721068


Jeong SM, Xiao C, Finley LW, Lahusen T, Souza AL, Pierce K, Li YH, Wang X, Laurent G, German NJ, Xu X, Li C, Wang RH, Lee J, Csibi A, Cerione R, Blenis J, Clish CB, Kimmelman A, Deng CX, Haigis MC. SIRT4 has tumor-suppressive activity and regulates the cellular metabolic response to DNA damage by inhibiting mitochondrial glutamine metabolism. Cancer Cell. 2013 Apr 15;23(4):450-63. doi: 10.1016/j.ccr.2013.02.024. Epub 2013 Apr 4. PMID: 23562301 PMCID: PMC3650305


Yang MH, Laurent G, Bause AS, Spang R, German N, Haigis MC, Haigis KM. HDAC6 and SIRT2 regulate the acetylation state and oncogenic activity of mutant K-RAS. Mol Cancer Res. 2013 Sep;11(9):1072-7. doi: 10.1158/1541-7786.MCR-13-0040-T. Epub 2013 May 30. PMID: 23723075 PMCID: PMC3778089


Abazeed ME, Adams DJ, Hurov KE, Tamayo P, Creighton CJ, Sonkin D, Giacomelli AO, Du C, Fries DF, Wong KK, Mesirov JP, Loeffler JS, Schreiber SL, Hammerman PS, Meyerson M. Integrative radiogenomic profiling of squamous cell lung cancer. Cancer Res. 2013 Oct 15;73(20):6289-98. doi: 10.1158/0008-5472.CAN-13-1616. Epub 2013 Aug 26. PMID: 23980093 PMCID: PMC3856255


Hagerstrand D, Tong A, Schumacher SE, Ilic N, Shen RR, Cheung HW, Vazquez F, Shrestha Y, Kim SY, Giacomelli AO, Rosenbluh J, Schinzel AC, Spardy NA, Barbie DA, Mermel CH, Weir BA, Garraway LA, Tamayo P, Mesirov JP, Beroukhim R, Hahn WC. Systematic interrogation of 3q26 identifies TLOC1 and SKIL as cancer drivers. Cancer Discov. 2013 Sep;3(9):1044-57. doi: 10.1158/2159-8290.CD-12-0592. Epub 2013 Jun 13. PMID: 23764425 PMCID: PMC3770815


Grossman SR, Andersen KG, Shlyakhter I, Tabrizi S, Winnicki S, Yen A, Park DJ, Griesemer D, Karlsson EK, Wong SH, Cabili M, Adegbola RA, Bamezai RN, Hill AV, Vannberg FO, Rinn JL; 1000 Genomes Project, Lander ES, Schaffner SF, Sabeti PC. Identifying recent adaptations in large-scale genomic data. Cell. 2013 Feb 14;152(4):703-13. doi: 10.1016/j.cell.2013.01.035. PMID: 23415221 PMCID: PMC3674781 read article


Guo MH, Stoler J, Lui J, Nilsson O, Bianchi DW, Hirschhorn JN, Dauber A. Redefining the progeroid form of Ehlers-Danlos syndrome: report of the fourth patient with B4GALT7 deficiency and review of the literature. Am J Med Genet A. 2013 Oct;161(10):2519-27. doi: 10.1002/ajmg.a.36128. Epub 2013 Aug 16. PMID: 23956117
PMCID: PMC3788078


Hinshaw SM, Harrison SC. An Iml3-Chl4 heterodimer links the core centromere to factors required for accurate chromosome segregation. Cell Rep. 2013 Oct 17;5(1):29-36. doi: 10.1016/j.celrep.2013.08.036. Epub 2013 Sep 26. PMID:24075991 PMCID:PMC3888643


Hogdal LJ, Letai A. BCL-2 inhibition: stemming the tide of myeloid malignancies. Cell Stem Cell. 2013 Mar 7;12(3):269-70. doi: 10.1016/j.stem.2013.02.006. PMID: 23472867 PMCID: PMC3705714 read article


Gu X, Yu JJ, Ilter D, Blenis N, Henske EP, Blenis J. Integration of mTOR and estrogen-ERK2 signaling in lymphangioleiomyomatosis pathogenesis. Proc Natl Acad Sci U S A. 2013 Sep 10;110(37):14960-5. doi: 10.1073/pnas.1309110110. Epub 2013 Aug 27. PMID: 23983265 PMCID: PMC3773757 read article


Li CM, Chen G, Dayton TL, Kim-Kiselak C, Hoersch S, Whittaker CA, Bronson RT, Beer DG, Winslow MM, Jacks T. Differential Tks5 isoform expression contributes to metastatic invasion of lung adenocarcinoma. Genes Dev. 2013 Jul 15;27(14):1557-67. doi: 10.1101/gad.222745.113. PMID: 23873940 PMCID: PMC3731545 read article


Yang L, Guell M, Byrne S, Yang JL, De Los Angeles A, Mali P, Aach J, Kim-Kiselak C, Briggs AW, Rios X, Huang PY, Daley G, Church G. Optimization of scarless human stem cell genome editing. PMID: 23907390 PMCID: PMC3799423 read article


Oksenych V, Kumar V, Liu X, Guo C, Schwer B, Zha S, Alt FW. Functional redundancy between the XLF and DNA-PKcs DNA repair factors in V(D)J recombination and nonhomologous DNA end joining. Proc Natl Acad Sci U S A. 2013 Feb 5;110(6):2234-9. doi: 10.1073/pnas.1222573110. Epub 2013 Jan 23. PMID: 23345432 PMCID: PMC3568359 read article


Kung JT, Colognori D, Lee JT. Long noncoding RNAs: past, present, and future.Genetics. 2013 Mar;193(3):651-69. doi: 10.1534/genetics.112.146704. PMID: 23463798 PMCID: PMC3583990 read article


Kung JT, Lee JT. RNA in the loop. Dev Cell. 2013 Mar 25;24(6):565-7. doi: 10.1016/j.devcel.2013.03.009. PMID: 23537627 PMCID: PMC3777248 read article


Lee RS, Roberts CW. Rhabdoid tumors: an initial clue to the role of chromatin remodeling in cancer. Brain Pathol. 2013 Mar;23(2):200-5. doi: 10.1111/bpa.12021. PMID: 23432645


Lawrence MS, Stojanov P, Polak P, Kryukov GV, Cibulskis K, Sivachenko A, Carter SL, Stewart C, Mermel CH, Roberts SA, Kiezun A, Hammerman PS, McKenna A, Drier Y, Zou L, Ramos AH, Pugh TJ, Stransky N, Helman E, Kim J, Sougnez C, Ambrogio L, Nickerson E, Shefler E, Cortés ML, Auclair D, Saksena G, Voet D, Noble M, Dicara D, Lin P, Lichtenstein L, Heiman DI, Fennell T, Imielinski M, Hernandez B, Hodis E, Baca S, Dulak AM, Lohr J, Landau D-A, Wu CJ, Melendez-Zajgla J, Hidalgo-Miranda A, Koren A, McCarroll SA, Mora J, Lee RS, Crompton B, Onofrio R, Parkin M, Winckler W, Ardlie K, Gabriel SB, Roberts CWM, Biegel JA, Stegmaier K, Bass AJ, Garraway LA, Meyerson M, Golub TR, Gordenin DA, Sunyaev S, Lander ES, Getz G. Mutational heterogeneity in cancer and the search for new cancer-associated genes. Nature. 2013 Jul 11;499(7457):214-8. doi: 10.1038/nature12213. Epub 2013 Jun 16. PMID: 23770567 PMCID: PMC3919509 read article


Lim ET, Raychaudhuri S, Sanders SJ, Stevens C, Sabo A, MacArthur DG, Neale BM, Kirby A, Ruderfer DM, Fromer M, Lek M, Liu L, Flannick J, Ripke S, Nagaswamy U, Muzny D, Reid JG, Hawes A, Newsham I, Wu Y, Lewis L, Dinh H, Gross S, Wang LS, Lin CF, Valladares O, Gabriel SB, dePristo M, Altshuler DM, Purcell SM; NHLBI Exome Sequencing Project, State MW, Boerwinkle E, Buxbaum JD, Cook EH, Gibbs RA, Schellenberg GD, Sutcliffe JS, Devlin B, Roeder K, Daly MJ. Rare complete knockouts in humans: population distribution and significant role in autism spectrum disorders. Neuron. 2013 Jan 23;77(2):235-42. doi: 10.1016/j.neuron.2012.12.029. PMID: 23352160 PMCID: PMC3613849 read article


He X, Sanders SJ, Liu L, De Rubeis S, Lim ET, Sutcliffe JS, Schellenberg GD, Gibbs RA, Daly MJ, Buxbaum JD, State MW, Devlin B, Roeder K. Integrated model of de novo and inherited genetic variants yields greater power to identify risk genes. PLoS Genet. 2013;9(8):e1003671. doi: 10.1371/journal.pgen.1003671. Epub 2013 Aug 15. PMID: 23966865 PMCID: PMC3744441 read article


Yu TW, Chahrour MH, Coulter ME, Jiralerspong S, Okamura-Ikeda K, Ataman B, Schmitz-Abe K, Harmin DA, Adli M, Malik AN, D'Gama AM, Lim ET, Sanders SJ, Mochida GH, Partlow JN, Sunu CM, Felie JM, Rodriguez J, Nasir RH, Ware J, Joseph RM, Hill RS, Kwan BY, Al-Saffar M, Mukaddes NM, Hashmi A, Balkhy S, Gascon GG, Hisama FM, LeClair E, Poduri A, Oner O, Al-Saad S, Al-Awadi SA, Bastaki L, Ben-Omran T, Teebi AS, Al-Gazali L, Eapen V, Stevens CR, Rappaport L, Gabriel SB, Markianos K, State MW, Greenberg ME, Taniguchi H, Braverman NE, Morrow EM, Walsh CA. Using whole-exome sequencing to identify inherited causes of autism. Neuron. 2013 Jan 23;77(2):259-73. doi: 10.1016/j.neuron.2012.11.002. PMID: 23352163 PMCID: PMC3694430 read article


Liu L, Sabo A, Neale BM, Nagaswamy U, Stevens C, Lim E, Bodea CA, Muzny D, Reid JG, Banks E, Coon H, Depristo M, Dinh H, Fennel T, Flannick J, Gabriel S, Garimella K, Gross S, Hawes A, Lewis L, Makarov V, Maguire J, Newsham I, Poplin R, Ripke S, Shakir K, Samocha KE, Wu Y, Boerwinkle E, Buxbaum JD, Cook EH Jr, Devlin B, Schellenberg GD, Sutcliffe JS, Daly MJ, Gibbs RA, Roeder K. Analysis of rare, exonic variation amongst subjects with autism spectrum disorders and population controls. PLoS Genet. 2013 Apr;9(4):e1003443. doi: 10.1371/journal.pgen.1003443. Epub 2013 Apr 11. PMID: 23593035 PMCID: PMC3623759 read article


Margolin DH, Kousi M, Chan YM, Lim ET, Schmahmann JD, Hadjivassiliou M, Hall JE, Adam I, Dwyer A, Plummer L, Aldrin SV, O'Rourke J, Kirby A, Lage K, Milunsky A, Milunsky JM, Chan J, Hedley-Whyte ET, Daly MJ, Katsanis N, Seminara SB. Ataxia, dementia, and hypogonadotropism caused by disordered ubiquitination. N Engl J Med. 2013 May 23;368(21):1992-2003. doi: 10.1056/NEJMoa1215993. Epub 2013 May 8. PMID: 23656588 PMCID: PMC3738065 read article


Mannstadt M, Harris M, Bravenboer B, Chitturi S, Dreijerink KM, Lambright DG, Lim ET, Daly MJ, Gabriel S, Jüppner H. Germline mutations affecting Gα11 in hypoparathyroidism. N Engl J Med. 2013 Jun 27;368(26):2532-4. doi: 10.1056/NEJMc1300278. PMID: 23802536 PMCID: PMC3750735 read article


Liu LY, Fox CS, North TE, Goessling W. Functional validation of GWAS gene candidates for abnormal liver function during zebrafish liver development. Dis Model Mech. 2013 Sep;6(5):1271-8. doi: 10.1242/dmm.011726. Epub 2013 Jun 27. PMID: 23813869 PMCID: PMC3759346 read article


Morgan AM, Lo J, Fisher DE. How does pheomelanin synthesis contribute to melanomagenesis?: Two distinct mechanisms could explain the carcinogenicity of pheomelanin synthesis. Bioessays. 2013 Aug;35(8):672-6. doi: 10.1002/bies.201300020. Epub 2013 May 7. PMID: 23650156


Doan T, Coleman J, Marquis KA, Meeske AJ, Burton BM, Karatekin E, Rudner DZ. FisB mediates membrane fission during sporulation in Bacillus subtilis. Genes Dev. 2013 Feb 1;27(3):322-34. doi: 10.1101/gad.209049.112. PMID: 23388828 PMCID: PMC3576517 read article


Son J, Lyssiotis CA, Ying H, Wang X, Hua S, Ligorio M, Perera RM, Ferrone CR, Mullarky E, Shyh-Chang N, Kang Y, Fleming JB, Bardeesy N, Asara JM, Haigis MC, DePinho RA, Cantley LC, Kimmelman AC. Glutamine supports pancreatic cancer growth through a KRAS-regulated metabolic pathway. Nature. 2013 Apr 4;496(7443):101-5. doi: 10.1038/nature12040. Epub 2013 Mar 27. PMID: 23535601 PMCID: PMC3656466
 read article


Lienert F, Torella JP, Chen JH, Norsworthy M, Richardson RR, Silver PA. Two- and three-input TALE-based AND logic computation in embryonic stem cells. Nucleic Acids Res. 2013 Nov;41(21):9967-75. doi: 10.1093/nar/gkt758. Epub 2013 Aug 27. PMID: 23982518 PMCID: PMC3834826 read article


McLaughlin SK, Olsen SN, Dake B, De Raedt T, Lim E, Bronson RT, Beroukhim R, Polyak K, Brown M, Kuperwasser C, Cichowski K. The RasGAP gene, RASAL2, is a tumor and metastasis suppressor. Cancer Cell. 2013 Sep 9;24(3):365-78. doi: 10.1016/j.ccr.2013.08.004. PMID: 24029233 PMCID: PMC3822334


Pasquina LW, Santa Maria JP, Walker S. Teichoic acid biosynthesis as an antibiotic target. Curr Opin Microbiol. 2013 Oct;16(5):531-7. doi: 10.1016/j.mib.2013.06.014. Epub 2013 Jul 31. PMID: 23916223 PMCID: PMC3834221


Perry KJ, Higgins DE. A differential fluorescence-based genetic screen identifies Listeria monocytogenes determinants required for intracellular replication. J Bacteriol. 2013 Aug;195(15):3331-40. doi: 10.1128/JB.00210-13. Epub 2013 May 17. PMID: 23687268 PMCID: PMC3719552  read article


Snuderl M, Batista A, Kirkpatrick ND, Ruiz de Almodovar C, Riedemann L, Walsh EC, Anolik R, Huang Y, Martin JD, Kamoun W, Knevels E, Schmidt T, Farrar CT, Vakoc BJ, Mohan N, Chung E, Roberge S, Peterson T, Bais C, Zhelyazkova BH, Yip S, Hasselblatt M, Rossig C, Niemeyer E, Ferrara N, Klagsbrun M, Duda DG, Fukumura D, Xu L, Carmeliet P, Jain RK. Targeting placental growth factor/neuropilin 1 pathway inhibits growth and spread of medulloblastoma. Cell. 2013 Feb 28;152(5):1065-76. doi: 10.1016/j.cell.2013.01.036. PMID: 23452854 PMCID: PMC3587980 read article


Abyzov A1, Iskow R, Gokcumen O, Radke DW, Balasubramanian S, Pei B, Habegger L; 1000 Genomes Project Consortium, Lee C, Gerstein M. Analysis of variable retroduplications in human populations suggests coupling of retrotransposition to cell division. Genome Res. 2013 Dec;23(12):2042-52. doi: 10.1101/gr.154625.113. Epub 2013 Sep 11. PMID: 24026178 PMCID: PMC3847774
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Ricoult SJ, Manning BD. The multifaceted role of mTORC1 in the control of lipid metabolism. EMBO Rep. 2013 Mar 1;14(3):242-51. doi: 10.1038/embor.2013.5. Epub 2012 Feb 12. PMID: 23399656 PMCID: PMC3589096 read article


Howell JJ, Ricoult SJ, Ben-Sahra I, Manning BD. A growing role for mTOR in promoting anabolic metabolism. Biochem Soc Trans. 2013 Aug;41(4):906-12. doi: 10.1042/BST20130041. PMID: 23863154


White R, Rose K, Zon L. Zebrafish cancer: the state of the art and the path forward. Nat Rev Cancer. 2013 Sep;13(9):624-36. doi: 10.1038/nrc3589. PMID: 23969693


Liu L, Sabo A, Neale BM, Nagaswamy U, Stevens C, Lim E, Bodea CA, Muzny D, Reid JG, Banks E, Coon H, Depristo M, Dinh H, Fennel T, Flannick J, Gabriel S, Garimella K, Gross S, Hawes A, Lewis L, Makarov V, Maguire J, Newsham I, Poplin R, Ripke S, Shakir K, Samocha KE, Wu Y, Boerwinkle E, Buxbaum JD, Cook EH Jr, Devlin B, Schellenberg GD, Sutcliffe JS, Daly MJ, Gibbs RA, Roeder K. Analysis of rare, exonic variation amongst subjects with autism spectrum disorders and population controls. PLoS Genet. 2013 Apr;9(4):e1003443. doi: 10.1371/journal.pgen.1003443. Epub 2013 Apr 11. PMID: 23593035 PMCID: PMC3623759 read article


Verzi MP, Shin H, San Roman AK, Liu XS, Shivdasani RA. Intestinal master transcription factor CDX2 controls chromatin access for partner transcription factor binding. Mol Cell Biol. 2013 Jan;33(2):281-92. doi: 10.1128/MCB.01185-12. Epub 2012 Nov 5. PMID: 23129810 PMCID: PMC3554120 read article


Sarkar A, Hochedlinger K. The sox family of transcription factors: versatile regulators of stem and progenitor cell fate. Cell Stem Cell. 2013 Jan 3;12(1):15-30. doi: 10.1016/j.stem.2012.12.007. PMID: 23290134 PMCID: PMC3608206 read article


Emerling BM, Hurov JB, Poulogiannis G, Tsukazawa KS, Choo-Wing R, Wulf GM, Bell EL, Shim HS, Lamia KA, Rameh LE, Bellinger G, Sasaki AT, Asara JM, Yuan X, Bullock A, Denicola GM, Song J, Brown V, Signoretti S, Cantley LC. Depletion of a putatively druggable class of phosphatidylinositol kinases inhibits growth of p53-null tumors. Cell. 2013 Nov 7;155(4):844-57. doi: 10.1016/j.cell.2013.09.057. PMID: 24209622


Tabebordbar M, Wang ET, Wagers AJ. Skeletal muscle degenerative diseases and strategies for therapeutic muscle repair. Annu Rev Pathol. 2013 Jan 24;8:441-75. doi: 10.1146/annurev-pathol-011811-132450. Epub 2012 Nov 1. PMID: 23121053


Xu C, Tabebordbar M, Iovino S, Ciarlo C, Liu J, Castiglioni A, Price E, Liu M, Barton ER, Kahn CR, Wagers AJ, Zon LI. A zebrafish embryo culture system defines factors that promote vertebrate myogenesis across species. Cell. 2013 Nov 7;155(4):909-21. doi: 10.1016/j.cell.2013.10.023. PMID: 24209627 PMCID: PMC3902670


Tang JC, Szikra T, Kozorovitskiy Y, Teixiera M, Sabatini BL, Roska B, Cepko CL. A nanobody-based system using fluorescent proteins as scaffolds for cell-specific gene manipulation. Cell. 2013 Aug 15;154(4):928-39. doi: 10.1016/j.cell.2013.07.021. PMID: 23953120


Thomas MP, Lieberman J. Live or let die: posttranscriptional gene regulation in cell stress and cell death. Immunol Rev. 2013 May;253(1):237-52. doi: 10.1111/imr.12052. PMID: 23550650


Shyh-Chang N1, Zhu H, Yvanka de Soysa T, Shinoda G, Seligson MT, Tsanov KM, Nguyen L, Asara JM, Cantley LC, Daley GQ. Lin28 enhances tissue repair by reprogramming cellular metabolism. Cell. 2013 Nov 7;155(4):778-92. doi: 10.1016/j.cell.2013.09.059. PMID: 24209617 PMCID: PMC3917449


Tseng WA, Thein T, Kinnunen K, Lashkari K, Gregory MS, D'Amore PA, Ksander BR. NLRP3 inflammasome activation in retinal pigment epithelial cells by lysosomal destabilization: implications for age-related macular degeneration. Invest Ophthalmol Vis Sci. 2013 Jan 7;54(1):110-20. doi: 10.1167/iovs.12-10655. PMID: 23221073 PMCID: PMC3544415 read article


Xu J, Bauer DE, Kerenyi MA, Vo TD, Hou S, Hsu YJ, Yao H, Trowbridge JJ, Mandel G, Orkin SH. Corepressor-dependent silencing of fetal hemoglobin expression by BCL11A. Proc Natl Acad Sci U S A. 2013 Apr 16;110(16):6518-23. doi: 10.1073/pnas.1303976110. Epub 2013 Apr 1. PMID: 23576758 PMCID: PMC3631619 read article


Zack TI, Schumacher SE, Carter SL, Cherniack AD, Saksena G, Tabak B, Lawrence MS, Zhang CZ, Wala J, Mermel CH, Sougnez C, Gabriel SB, Hernandez B, Shen H, Laird PW, Getz G, Meyerson M, Beroukhim R. Pan-cancer patterns of somatic copy number alteration. Nat Genet. 2013 Sep 26;45(10):1134-1140. doi: 10.1038/ng.2760. [Epub ahead of print] PMID: 24071852 PMCID: PMC3966983


Wang SR, Carmichael H, Andrew SF, Miller TC, Moon JE, Derr MA, Hwa V, Hirschhorn JN, Dauber A. Large-scale pooled next-generation sequencing of 1077 genes to identify genetic causes of short stature. J Clin Endocrinol Metab. 2013 Aug;98(8):E1428-37. doi: 10.1210/jc.2013-1534. Epub 2013 Jun 14. PMID: 23771920 PMCID: PMC3733853


Yang L, Guell M, Byrne S, Yang JL, De Los Angeles A, Mali P, Aach J, Kim-Kiselak C, Briggs AW, Rios X, Huang PY, Daley G, Church G. Optimization of scarless human stem cell genome editing. Nucleic Acids Res. 2013 Oct;41(19):9049-61. doi: 10.1093/nar/gkt555. Epub 2013 Jul 31. PMID: 23907390 PMCID: PMC3799423 read article


Walker SR, Nelson EA, Yeh JE, Pinello L, Yuan GC, Frank DA. STAT5 outcompetes STAT3 to regulate the expression of the oncogenic transcriptional modulator BCL6. Mol Cell Biol. 2013 Aug;33(15):2879-90. doi: 10.1128/MCB.01620-12. Epub 2013 May 28. PMID: 23716595 PMCID: PMC3719667 read article


Yeh JE, Toniolo P2, Frank DA. JAK2-STAT5 signaling: A novel mechanism of resistance to targeted PI3K/mTOR inhibition. JAKSTAT. 2013 Oct 1;2(4):e24635. doi: 10.4161/jkst.24635. Epub 2013 Apr 15. PMID: 24470973 PMCID: PMC3891630 read article


Yeh JE, Toniolo PA, Frank DA. Targeting transcription factors: promising new strategies for cancer therapy. Curr Opin Oncol. 2013 Nov;25(6):652-8. doi: 10.1097/01.cco.0000432528.88101.1a. PMID: 24048019


top

2012


Hafler BP, Surzenko N, Beier KT, Punzo C, Trimarchi JM, Kong JH, Cepko CL. Transcription factor Olig2 defines subpopulations of retinal progenitor cells biased toward specific cell fates. Proc Natl Acad Sci U S A. 2012 May 15;109(20):7882-7. Epub 2012 Apr 27. PubMed PMID: 22543161; PubMed Central PMCID: PMC3356608.


Beliveau BJ, Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT. Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes. Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21301-6. doi: 10.1073/pnas.1213818110. Epub 2012 Dec 11. PMID: 23236188 PMCID: PMC3535588 read article


Bowen ME, Henke K, Siegfried KR, Warman ML, Harris MP. (2012) Efficient mapping and cloning of mutations in zebrafish by low-coverage whole-genome sequencing. Genetics 190(3):1017-24. PMCID:PMC3296239.


Kurek KC, Luks VL, Ayturk UM, Alomari AI, Fishman SJ, Spencer SA, Mulliken JB, Bowen ME, Yamamoto GL, Kozakewich HP, Warman ML. (2012) Somatic mosaic activating mutations in PIK3CA cause CLOVES syndrome. Am J Hum Genet 90(6):1108-15. PMCID:PMC3370283.


Ray, R.S., Corcoran, A.E., Brust, R.B., Nattie, E., Dymecki, S.M. Egr2-neurons control the adult respiratory response to hypercapnia. Brain Res. 2013 May 20;1511:115-25. doi: 10.1016/j.brainres.2012.12.017. Epub 2012 Dec 19. PMID: 23261662 PMCID: PMC3947592


Engleka, K., Manderfield, L., Brust, R.B., Lu, M.M., Dymecki, S.M., and Epstein J.A. Islet1 Derivatives in the Heart are of Both Neural Crest and Second Heard Field Origin. Circ Res. 2012 Mar 30;110(7):922-6. doi: 10.1161/CIRCRESAHA.112.266510. Epub 2012 Mar 6. PMID: 22394517 PMCID: PMC3355870 read article


Cooney JD; Hildick-Smith GJ; Shafizadeh E; McBride PF; Carroll KJ; Anderson H; Shaw GC; Tamplin OK; Branco DS; Dalton AJ; Shah DI; Wong C; Gallagher PG; Zon LI; North TE; Paw, BH. Teleost growth factor idendependence (gfi) genes differentially regulate successive waves of hematopoiesis. Dev Biol. 2013 Jan 15;373(2):431-41. doi: 10.1016/j.ydbio.2012.08.015. Epub 2012 Aug 29. PMID: 22960038 PMCID: PMC3532562
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Chan YK, Huang IC, Farzan M. IFITM proteins restrict antibody-dependent enhancement of dengue virus infection. PLoS One. 2012;7(3):e34508. doi: 10.1371/journal.pone.0034508. Epub 2012 Mar 30. PMID: 22479637; PMCID: PMC3316688.  read article


Lui JC, Nilsson O, Chan Y, Palmer CD, Andrade AC, Hirschhorn JN, Baron J. Synthesizing genome-wide association studies and expression microarray reveals novel genes that act in the human growth plate to modulate height. Hum Mol Genet. 2012 Dec 1;21(23):5193-201. doi: 10.1093/hmg/dds347. Epub 2012 Aug 21. PMID: 22914739 PMCID: PMC3490510
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Cherry AB, Daley GQ. Reprogramming cellular identity for regenerative medicine. Cell. 2012 Mar 16;148(6):1110-22. doi: 10.1016/j.cell.2012.02.031. PMID: 22424223; PMCID: PMC3354575.  read article


Chiang CW, Liu CT, Lettre G, Lange LA, Jorgensen NW, Keating BJ, Vedantam S, Nock NL, Franceschini N, Reiner AP, Demerath EW, Boerwinkle E, Rotter JI, Wilson JG, North KE, Papanicolaou GJ, Cupples LA, Murabito JM, Consortium G, Hirschhorn JN. Ultraconserved Elements in the Human Genome: Association and Transmission Analyses of Highly Constrained SNPs. Genetics. 2012 Jun 19. [Epub ahead of print] PubMed PMID: 22714408.


Stadtfeld, M., Apostolou, E., Ferrari, F., Choi, J., Walsh, R.M., Chen, T., Oi, S., Kim, S.Y., Bestor, T., Shioda, T., et al. (2012). Ascorbic acid prevents loss of Dlk1-Dio3 imprinting and facilitates generation of all-iPS cell mice from terminally differentiated B cells. Nat Genet. 2012 Mar 4;44(4):398-405, S1-2. doi: 10.1038/ng.1110. PMID: 22387999 PMCID: PMC3538378 read article


He A, Ma Q, Cao J, von Gise A, Zhou P, Xie H, Zhang B, Hsing M, Christodoulou DC, Cahan P, Daley GQ, Kong SW, Orkin SH, Seidman CE, Seidman JG, Pu WT. Polycomb repressive complex 2 regulates normal development of the mouse heart. Circ Res. 2012 Feb 3;110(3):406-15. Epub 2011 Dec 8. PubMed PMID: 22158708; PubMed Central PMCID: PMC3282145.


Wang HH, Kim H, Cong L, Jeong J, Bang D, Church GM. Genome-scale promoter engineering by coselection MAGE. Nat Methods. 2012 Jun;9(6):591-3. doi: 10.1038/nmeth.1971. Epub 2012 Apr 8. PubMed PMID: 22484848 PMCID: PMC3428217 read article


Silveira-Neto AP, Leal LF, Emerman AB, Henderson KD, Piskounova E, Henderson BE, Gregory RI, Silveira LF, Hirschhorn JN, Nguyen TT, Beneduzzi D, Tusset C, Reis AC, Brito VN, Mendonca BB, Palmert MR, Antonini SR, Latronico AC. Absence of functional LIN28B mutations in a large cohort of patients with idiopathic central precocious puberty. Horm Res Paediatr. 2012;78(3):144-50. doi: 10.1159/000342212. Epub 2012 Sep 6. PMID: 22964795. PMCID: PMC3526815. read article


Finley LW, Lee J, Souza A, Rowe G, Clish CB, Arany Z, Haigis MC. Skeletal muscle transcriptional coactivator PGC-1α mediates mitochondrial, but not metabolic, changes during calorie restriction. Proc Natl Acad Sci USA 2012 Feb 3. PMCID: PMC3286952


Garnaas MK, Cutting CC, Meyers A, Kelsey PB Jr, Harris JM, North TE, Goessling W. Rargb regulates organ laterality in a zebrafish model of right atrial isomerism. Dev Biol. 2012 Dec 15;372(2):178-89. doi: 10.1016/j.ydbio.2012.09.001. Epub 2012 Sep 13.PMID: 22982668 PMCID: PMC3697125
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Pattaro C1, Köttgen A, Teumer A, Garnaas M, Böger CA, Fuchsberger C, Olden M, Chen MH, Tin A, Taliun D, Li M, Gao X, Gorski M, Yang Q, Hundertmark C, Foster MC, O'Seaghdha CM, Glazer N, Isaacs A, Liu CT, Smith AV, O'Connell JR, Struchalin M, Tanaka T, Li G, Johnson AD, Gierman HJ, Feitosa M, Hwang SJ, Atkinson EJ, Lohman K, Cornelis MC, Johansson Å, Tönjes A, Dehghan A, Chouraki V, Holliday EG, Sorice R, Kutalik Z, Lehtimäki T, Esko T, Deshmukh H, Ulivi S, Chu AY, Murgia F, Trompet S, Imboden M, Kollerits B, Pistis G; CARDIoGRAM Consortium; ICBP Consortium; CARe Consortium; Wellcome Trust Case Control Consortium 2 (WTCCC2), Harris TB, Launer LJ, Aspelund T, Eiriksdottir G, Mitchell BD, Boerwinkle E, Schmidt H, Cavalieri M, Rao M, Hu FB, Demirkan A, Oostra BA, de Andrade M, Turner ST, Ding J, Andrews JS, Freedman BI, Koenig W, Illig T, Döring A, Wichmann HE, Kolcic I, Zemunik T, Boban M, Minelli C, Wheeler HE, Igl W, Zaboli G, Wild SH, Wright AF, Campbell H, Ellinghaus D, Nöthlings U, Jacobs G, Biffar R, Endlich K, Ernst F, Homuth G, Kroemer HK, Nauck M, Stracke S, Völker U, Völzke H, Kovacs P, Stumvoll M, Mägi R, Hofman A, Uitterlinden AG, Rivadeneira F, Aulchenko YS, Polasek O, Hastie N, Vitart V, Helmer C, Wang JJ, Ruggiero D, Bergmann S, Kähönen M, Viikari J, Nikopensius T, Province M, Ketkar S, Colhoun H, Doney A, Robino A, Giulianini F, Krämer BK, Portas L, Ford I, Buckley BM, Adam M, Thun GA, Paulweber B, Haun M, Sala C, Metzger M, Mitchell P, Ciullo M, Kim SK, Vollenweider P, Raitakari O, Metspalu A, Palmer C, Gasparini P, Pirastu M, Jukema JW, Probst-Hensch NM, Kronenberg F, Toniolo D, Gudnason V, Shuldiner AR, Coresh J, Schmidt R, Ferrucci L, Siscovick DS, van Duijn CM, Borecki I, Kardia SL, Liu Y, Curhan GC, Rudan I, Gyllensten U, Wilson JF, Franke A, Pramstaller PP, Rettig R, Prokopenko I, Witteman JC, Hayward C, Ridker P, Parsa A, Bochud M, Heid IM, Goessling W, Chasman DI, Kao WH, Fox CS. Genome-wide association and functional follow-up reveals new loci for kidney function. PLoS Genet. 2012;8(3):e1002584. doi: 10.1371/journal.pgen.1002584. Epub 2012 Mar 29. PMID: 22479191 PMCID: PMC3315455
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Leshchiner I, Alexa K, Kelsey P, Adzhubei I, Austin-Tse CA, Cooney JD, Anderson H, King MJ, Stottmann RW, Garnaas MK, Ha S, Drummond IA, Paw BH, North TE, Beier DR, Goessling W, Sunyaev SR. Mutation mapping and identification by whole-genome sequencing. Genome Res. 2012 Aug;22(8):1541-8. doi: 10.1101/gr.135541.111. Epub 2012 May 3. PMID: 22555591 PMCID: PMC3409267 read article


Shaik S, Nucera C, Inuzuka H, Gao D, Garnaas M, Frechette G, Harris L, Wan L, Fukushima H, Husain A, Nose V, Fadda G, Sadow PM, Goessling W, North T, Lawler J, Wei W. SCF(β-TRCP) suppresses angiogenesis and thyroid cancer cell migration by promoting ubiquitination and destruction of VEGF receptor 2. J Exp Med. 2012 Jul 2;209(7):1289-307. doi: 10.1084/jem.20112446. Epub 2012 Jun 18. PMID: 22711876
PMCID: PMC3405505
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Haas JT, Miao J, Chanda D, Wang Y, Zhao E, Haas ME, Hirschey M, Vaitheesvaran B, Farese RV Jr, Kurland IJ, Graham M, Crooke R, Foufelle F, Biddinger SB. Hepatic Insulin Signaling Is Required for Obesity-Dependent Expression of SREBP-1c mRNA but Not for Feeding-Dependent Expression. Cell Metab. 2012 Jun 6;15(6):873-84. doi: 10.1016/j.cmet.2012.05.002. PMID: 22682225 PMCID: PMC3383842.  read article


Holoch D, Moazed D. RNAi in fission yeast finds new targets and new ways of targeting at the nuclear periphery. Genes Dev. 2012 Apr 15;26(8):741-5. doi: 10.1101/gad.191155.112. PMID: 22508721 PMCID: PMC3337448 read article


Blum B, Hrvatin SS, Schuetz C, Bonal C, Rezania A, Melton DA. Functional beta-cell maturation is marked by an increased glucose threshold and by expression of urocortin 3. Nat Biotechnol. 2012 Feb 26;30(3):261-4. doi: 10.1038/nbt.2141. PubMed PMID: 22371083.


Hu X, Daly M. What have we learned from six years of GWAS in autoimmune diseases, and what is next? Curr Opin Immunol. 2012 Oct;24(5):571-5. doi: 10.1016/j.coi.2012.09.001. Epub 2012 Sep 24. PMID: 23017373


Jostins L, Ripke S, Weersma RK, Duerr RH, McGovern DP, Hui KY, Lee JC, Schumm LP, Sharma Y, Anderson CA, Essers J, Mitrovic M, Ning K, Cleynen I, Theatre E, Spain SL, Raychaudhuri S, Goyette P, Wei Z, Abraham C, Achkar JP, Ahmad T, Amininejad L, Ananthakrishnan AN, Andersen V, Andrews JM, Baidoo L, Balschun T, Bampton PA, Bitton A, Boucher G, Brand S, Büning C, Cohain A, Cichon S, D'Amato M, De Jong D, Devaney KL, Dubinsky M, Edwards C, Ellinghaus D, Ferguson LR, Franchimont D, Fransen K, Gearry R, Georges M, Gieger C, Glas J, Haritunians T, Hart A, Hawkey C, Hedl M, Hu X, Karlsen TH, Kupcinskas L, Kugathasan S, Latiano A, Laukens D, Lawrance IC, Lees CW, Louis E, Mahy G, Mansfield J, Morgan AR, Mowat C, Newman W, Palmieri O, Ponsioen CY, Potocnik U, Prescott NJ, Regueiro M, Rotter JI, Russell RK, Sanderson JD, Sans M, Satsangi J, Schreiber S, Simms LA, Sventoraityte J, Targan SR, Taylor KD, Tremelling M, Verspaget HW, De Vos M, Wijmenga C, Wilson DC, Winkelmann J, Xavier RJ, Zeissig S, Zhang B, Zhang CK, Zhao H; International IBD Genetics Consortium (IIBDGC), Silverberg MS, Annese V, Hakonarson H, Brant SR, Radford-Smith G, Mathew CG, Rioux JD, Schadt EE, Daly MJ, Franke A, Parkes M, Vermeire S, Barrett JC, Cho JH. Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease. Nature. 2012 Nov 1;491(7422):119-24. doi: 10.1038/nature11582. PMID 23128233 PMCID: PMC3491803 read article


Eyre S, Bowes J, Diogo D, Lee A, Barton A, Martin P, Zhernakova A, Stahl E, Viatte S, McAllister K, Amos CI, Padyukov L, Toes RE, Huizinga TW, Wijmenga C, Trynka G, Franke L, Westra HJ, Alfredsson L, Hu X, Sandor C, de Bakker PI, Davila S, Khor CC, Heng KK, Andrews R, Edkins S, Hunt SE, Langford C, Symmons D; Biologics in Rheumatoid Arthritis Genetics and Genomics Study Syndicate; Wellcome Trust Case Control Consortium, Concannon P, Onengut-Gumuscu S, Rich SS, Deloukas P, Gonzalez-Gay MA, Rodriguez-Rodriguez L, Ärlsetig L, Martin J, Rantapää-Dahlqvist S, Plenge RM, Raychaudhuri S, Klareskog L, Gregersen PK, Worthington J. High-density genetic mapping identifies new susceptibility loci for rheumatoid arthritis. Nat Genet. 2012 Dec;44(12):1336-40. doi: 10.1038/ng.2462. Epub 2012 Nov 11. PMID: 23143596 PMCID: PMC3605761 read article


Zhang W, Mendoza MC, Pei X, Ilter D, Mahoney SJ, Zhang Y, Ma D, Blenis J, Wang Y. Down-regulation of CMTM8 induces epithelial-to-mesenchymal transition-like changes via c-MET/extracellular signal-regulated kinase (ERK) signaling. J Biol Chem. 2012 Apr 6;287(15):11850-8. doi: 10.1074/jbc.M111.258236. Epub 2012 Feb 15. PMID: 22337876 PMCID: PMC3320933 read article


Burrill DR, Inniss MC, Boyle PM, Silver PA. Synthetic memory circuits for tracking human cell fate. Genes Dev. 2012 Jul 1;26(13):1486-97. doi: 10.1101/gad.189035.112.
PMID: 22751502 PMCID: PMC3403016
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Boyle PM, Burrill DR, Inniss MC, Agapakis CM, Deardon A, Dewerd JG, Gedeon MA, Quinn JY, Paull ML, Raman AM, Theilmann MR, Wang L, Winn JC, Medvedik O, Schellenberg K, Haynes KA, Viel A, Brenner TJ, Church GM, Shah JV, Silver PA. A BioBrick compatible strategy for genetic modification of plants. J Biol Eng. 2012 Jun 20;6(1):8. doi: 10.1186/1754-1611-6-8. PMID: 22716313 PMCID: PMC3537565 read article


Kung JT, Gelbart ME. Getting a head start: the importance of personal genetics education in high schools. Yale J Biol Med. 2012 Mar;85(1):87-92. Epub 2012 Mar 29. PMID: 22461746 PMCID: PMC3313542 read article


Tukachinsky H, Kuzmickas RP, Jao CY, Liu J, Salic A. Dispatched and scube mediate the efficient secretion of the cholesterol-modified hedgehog ligand. Cell Rep. 2012 Aug 30;2(2):308-20. doi: 10.1016/j.celrep.2012.07.010. Epub 2012 Aug 16. PMID: 22902404 PMCID: PMC3682496 read article


Driscoll B, Kikuchi A, Lau AN, Lee J, Reddy R, Jesudason E, Kim CF, Warburton D. Isolation and characterization of distal lung progenitor cells. Methods Mol Biol. 2012;879:109-22. doi: 10.1007/978-1-61779-815-3_7. PMID: 22610556 PMCID: PMC3710291 read article


Lau AN, Goodwin M, Kim CF, Weiss DJ. Stem cells and regenerative medicine in lung biology and diseases. Mol Ther. 2012 Jun;20(6):1116-30. doi: 10.1038/mt.2012.37. Epub 2012 Mar 6. PMID: 22395528 PMCID: PMC3369292 read article


Tropea KA, Leder E, Aslam M, Lau AN, Raiser DM, Lee JH, Balasubramaniam V, Fredenburgh LE, Alex Mitsialis S, Kourembanas S, Kim CF. Bronchioalveolar stem cells increase after mesenchymal stromal cell treatment in a mouse model of bronchopulmonary dysplasia. Am J Physiol Lung Cell Mol Physiol. 2012 May;302(9):L829-37. doi: 10.1152/ajplung.00347.2011. Epub 2012 Feb 10. PMID: 22328358 PMCID: PMC3362163. read article


Sugimoto H, LeBleu VS, Bosukonda D, Keck P, Taduri G, Bechtel W, Okada H, Carlson W Jr, Bey P, Rusckowski M, Tampe B, Tampe D, Kanasaki K, Zeisberg M, Kalluri R. Activin-like kinase 3 is important for kidney regeneration and reversal of fibrosis. Nat Med. 2012 Feb 5;18(3):396-404. doi: 10.1038/nm.2629. PubMed PMID: 22306733.


Cooke VG, LeBleu VS, Keskin D, Khan Z, O'Connell JT, Teng Y, Duncan MB, Xie L, Maeda G, Vong S, Sugimoto H, Rocha RM, Damascena A, Brentani RR, Kalluri R. Pericyte depletion results in hypoxia-associated epithelial-to-mesenchymal transition and metastasis mediated by met signaling pathway. Cancer Cell. 2012 Jan 17;21(1):66-81. PubMed PMID: 22264789.


Lee RS, Stewart C, Carter SL, Ambrogio L, Cibulskis K, Sougnez C, Lawrence MS, Auclair D, Mora J, Golub TR, Biegel JA, Getz G, Roberts CW. A remarkably simple genome underlies highly malignant pediatric rhabdoid cancers. J Clin Invest. 2012 Aug 1;122(8):2983-8. doi: 10.1172/JCI64400. Epub 2012 Jul 17. PMID: 22797305 PMCID:PMC3408754 read article


Landreville S, Agapova OA, Matatall KA, Kneass ZT, Onken MD, Lee RS, Bowcock AM, Harbour JW. Histone deacetylase inhibitors induce growth arrest and differentiation in uveal melanoma. Clin Cancer Res. 2012 Jan 15;18(2):408-16. doi: 10.1158/1078-0432.CCR-11-0946. Epub 2011 Oct 28. PMID: 22038994 PMCID: PMC3261307 read article


Chahrour MH, Yu TW, Lim ET, Ataman B, Coulter ME, Hill RS, Stevens CR, Schubert CR; ARRA Autism Sequencing Collaboration, Greenberg ME, Gabriel SB, Walsh CA. Whole-exome sequencing and homozygosity analysis implicate depolarization-regulated neuronal genes in autism. PLoS Genet. 2012;8(4):e1002635. doi: 10.1371/journal.pgen.1002635. Epub 2012 Apr 12. PMID: 22511880 PMCID: PMC3325173 read article


Staropoli JF, Karaa A, Lim ET, Kirby A, Elbalalesy N, Romansky SG, Leydiker KB, Coppel SH, Barone R, Xin W, MacDonald ME, Abdenur JE, Daly MJ, Sims KB, Cotman SL. A homozygous mutation in KCTD7 links neuronal ceroid lipofuscinosis to the ubiquitin-proteasome system. Am J Hum Genet. 2012 Jul 13;91(1):202-8. doi: 10.1016/j.ajhg.2012.05.023. Epub 2012 Jun 28. PMID: 22748208 PMCID: PMC3397260 read article


Neale BM, Kou Y, Liu L, Ma'ayan A, Samocha KE, Sabo A, Lin CF, Stevens C, Wang LS, Makarov V, Polak P, Yoon S, Maguire J, Crawford EL, Campbell NG, Geller ET, Valladares O, Schafer C, Liu H, Zhao T, Cai G, Lihm J, Dannenfelser R, Jabado O, Peralta Z, Nagaswamy U, Muzny D, Reid JG, Newsham I, Wu Y, Lewis L, Han Y, Voight BF, Lim E, Rossin E, Kirby A, Flannick J, Fromer M, Shakir K, Fennell T, Garimella K, Banks E, Poplin R, Gabriel S, DePristo M, Wimbish JR, Boone BE, Levy SE, Betancur C, Sunyaev S, Boerwinkle E, Buxbaum JD, Cook EH Jr, Devlin B, Gibbs RA, Roeder K, Schellenberg GD, Sutcliffe JS, Daly MJ. Patterns and rates of exonic de novo mutations in autism spectrum disorders. Nature. 2012 Apr 4;485(7397):242-5. doi: 10.1038/nature11011. PMID: 22495311 PMCID: PMC3613847 read article


Haas JT, Winter HS, Lim E, Kirby A, Blumenstiel B, DeFelice M, Gabriel S, Jalas C, Branski D, Grueter CA, Toporovski MS, Walther TC, Daly MJ, Farese RV Jr. DGAT1 mutation is linked to a congenital diarrheal disorder. J Clin Invest. 2012 Dec 3;122(12):4680-4. doi: 10.1172/JCI64873. Epub 2012 Nov 1. PMID: 23114594 PMCID: PMC3533555 read article


Patten IS, Rana S, Shahul S, Rowe GC, Jang C, Liu L, Hacker MR, Rhee JS, Mitchell J, Mahmood F, Hess P, Farrell C, Koulisis N, Khankin EV, Burke SD, Tudorache I, Bauersachs J, del Monte F, Hilfiker-Kleiner D, Karumanchi SA, Arany Z. Cardiac angiogenic imbalance leads to peripartum cardiomyopathy. Nature. 2012 May 9;485(7398):333-8. doi: 10.1038/nature11040. PMID: 22596155 PMCID: PMC3356917.  read article


Mitra D, Luo X, Morgan A, Wang J, Hoang MP, Lo J, Guerrero CR, Lennerz JK, Mihm MC, Wargo JA, Robinson KC, Devi SP, Vanover JC, D'Orazio JA, McMahon M, Bosenberg MW, Haigis KM, Haber DA, Wang Y, Fisher DE. An ultraviolet-radiation-independent pathway to melanoma carcinogenesis in the red hair/fair skin background. Nature. 2012 Nov 15;491(7424):449-53. doi: 10.1038/nature11624. Epub 2012 Oct 31. PMID: 23123854 PMCID: PMC3521494 read article


Madigan CA, Cheng TY, Layre E, Young DC, McConnell MJ, Debono CA, Murry JP, Wei JR, Barry CE 3rd, Rodriguez GM, Matsunaga I, Rubin EJ, Moody DB. Lipidomic discovery of deoxysiderophores reveals a revised mycobactin biosynthesis pathway in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A. 2012 Jan 24;109(4):1257-62. Epub 2012 Jan 9. PubMed PMID: 22232695; PubMed Central PMCID: PMC3268331.


Majczenko K, Davidson AE, Camelo-Piragua S, Agrawal PB, Manfready RA, Li X, Joshi S, Xu J, Peng W, Beggs AH, Li JZ, Burmeister M, Dowling JJ. Dominant mutation of CCDC78 in a unique congenital myopathy with prominent internal nuclei and atypical cores. Am J Hum Genet. 2012 Aug 10;91(2):365-71. doi: 10.1016/j.ajhg.2012.06.012. Epub 2012 Jul 19. PMID: 22818856 PMCID: PMC3415545 read article


Lawlor MW, Alexander MS, Viola MG, Meng H, Joubert R, Gupta V, Motohashi N, Manfready RA, Hsu CP, Huang P, Buj-Bello A, Kunkel LM, Beggs AH, Gussoni E. Myotubularin-deficient myoblasts display increased apoptosis, delayed proliferation, and poor cell engraftment. Am J Pathol. 2012 Sep;181(3):961-8. doi: 10.1016/j.ajpath.2012.05.016. Epub 2012 Jul 27. PMID: 22841819 PMCID PMC3432426
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Hodis E, Watson IR, Kryukov GV, Arold ST, Imielinski M, Theurillat JP, Nickerson E, Auclair D, Li L, Place C, Dicara D, Ramos AH, Lawrence MS, Cibulskis K, Sivachenko A, Voet D, Saksena G, Stransky N, Onofrio RC, Winckler W, Ardlie K, Wagle N, Wargo J, Chong K, Morton DL, Stemke-Hale K, Chen G, Noble M, Meyerson M, Ladbury JE, Davies MA, Gershenwald JE, Wagner SN, Hoon DS, Schadendorf D, Lander ES, Gabriel SB, Getz G, Garraway LA, Chin L. A landscape of driver mutations in melanoma. Cell. 2012 Jul 20;150(2):251-63. doi: 10.1016/j.cell.2012.06.024. PMID: 22817889 PMCID: PMC3600117
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Blackburn JS, Liu S, Raiser DM, Martinez SA, Feng H, Meeker ND, Gentry J, Neuberg D, Look AT, Ramaswamy S, Bernards A, Trede NS, Langenau DM. Notch signaling expands a pre-malignant pool of T-cell acute lymphoblastic leukemia clones without affecting leukemia-propagating cell frequency. Leukemia. 2012 Sep;26(9):2069-78. doi: 10.1038/leu.2012.116. Epub 2012 Apr 27. PMID: 22538478 PMCID: PMC3435461 read article


Tropea KA, Leder E, Aslam M, Lau AN, Raiser DM, Lee JH, Balasubramaniam V, Fredenburgh LE, Alex Mitsialis S, Kourembanas S, Kim CF. Bronchioalveolar stem cells increase after mesenchymal stromal cell treatment in a mouse model of bronchopulmonary dysplasia. Am J Physiol Lung Cell Mol Physiol. 2012 May 1;302(9):L829-37. doi: 10.1152/ajplung.00347.2011. Epub 2012 Feb 10. PMID: 22328358 PMCID: PMC3362163 read article


Moore FE, Reyon D, Sander JD, Martinez SA, Blackburn JS, Khayter C, Ramirez CL, Joung JK, Langenau DM. Improved Somatic Mutagenesis in Zebrafish Using Transcription Activator-Like Effector Nucleases (TALENs). PLoS One. 2012;7(5):e37877. Epub 2012 May 24. PubMed PMID: 22655075; PubMed Central PMCID: PMC3360007.


Ramirez CL, Certo MT, Mussolino C, Goodwin MJ, Cradick TJ, McCaffrey AP, Cathomen T, Scharenberg AM, Joung JK. Engineered zinc finger nickases induce homology-directed repair with reduced mutagenic effects. Nucleic Acids Res. 2012 Jul 1;40(12):5560-5568. Epub 2012 Feb 28. PubMed PMID: 22373919; PubMed Central PMCID: PMC3384306.


Robinton DA, Daley GQ. The promise of induced pluripotent stem cells in research and therapy. Nature. 2012 Jan 18;481(7381):295-305. doi: 10.1038/nature10761. Review. PubMed PMID: 22258608 PMCID: PMC3652331 read article


Neale BM, Kou Y, Liu L, Ma'ayan A, Samocha KE, Sabo A, Lin CF, Stevens C, Wang LS, Makarov V, Polak P, Yoon S, Maguire J, Crawford EL, Campbell NG, Geller ET, Valladares O, Schafer C, Liu H, Zhao T, Cai G, Lihm J, Dannenfelser R, Jabado O, Peralta Z, Nagaswamy U, Muzny D, Reid JG, Newsham I, Wu Y, Lewis L, Han Y, Voight BF, Lim E, Rossin E, Kirby A, Flannick J, Fromer M, Shakir K, Fennell T, Garimella K, Banks E, Poplin R, Gabriel S, DePristo M, Wimbish JR, Boone BE, Levy SE, Betancur C, Sunyaev S, Boerwinkle E, Buxbaum JD, Cook EH Jr, Devlin B, Gibbs RA, Roeder K, Schellenberg GD, Sutcliffe JS, Daly MJ. Patterns and rates of exonic de novo mutations in autism spectrum disorders. Nature. 2012 Apr 4;485(7397):242-5. doi: 10.1038/nature11011. PMID: 22495311 PMCID: PMC3613847 read article


Beliveau BJ, Joyce EF, Apostolopoulos N, Yilmaz F, Fonseka CY, McCole RB, Chang Y, Li JB, Senaratne TN, Williams BR, Rouillard JM, Wu CT. Versatile design and synthesis platform for visualizing genomes with Oligopaint FISH probes. Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21301-6. doi: 10.1073/pnas.1213818110. Epub 2012 Dec 11. PMID: 23236188 PMCID: PMC3535588 read article


Akopian V, Chan MM, Clement K, Galonska C, Gifford CA, Lehtola E, Liao J, Samavarchi-Tehrani P, Sindhu C, Smith ZD, Tsankov AM, Webster J, Zhang Y, Ziller MJ, Meissner A. Epigenomics and chromatin dynamics. Genome Biol. 2012 Feb 24;13(2):313. doi: 10.1186/gb-2012-13-2-313. PMID: 22364154 PMCID: PMC3334565 read article


Sindhu C, Samavarchi-Tehrani P, Meissner A. Transcription factor-mediated epigenetic reprogramming. J Biol Chem. 2012 Sep 7;287(37):30922-31. doi: 10.1074/jbc.R111.319046. Epub 2012 Sep 5. PMID: 22952239 PMCID: PMC3438925 read article


Rajani DK, Walch M, Martinvalet D, Thomas MP, Lieberman J. Alterations in RNA processing during immune-mediated programmed cell death. Proc Natl Acad Sci U S A. 2012 May 29;109(22):8688-93. doi: 10.1073/pnas.1201327109. Epub 2012 May 15. PMID: 22589304 PMCID: PMC3365155 read article


Thompson DB, Cronican JJ, Liu DR. Engineering and identifying supercharged proteins for macromolecule delivery into mammalian cells. Methods Enzymol. 2012;503:293-319. doi: 10.1016/B978-0-12-396962-0.00012-4. PMID: 22230574 PMCID: PMC3505079 read article


Thompson DB, Villaseñor R, Dorr BM, Zerial M, Liu DR. Cellular uptake mechanisms and endosomal trafficking of supercharged proteins. Chem Biol. 2012 Jul 27;19(7):831-43. doi: 10.1016/j.chembiol.2012.06.014. PMID: 22840771 PMCID: PMC3408882 read article


Tsanov KM, Nishi Y, Peterson KA, Liu J, Baetscher M, McMahon AP. An embryonic stem cell-based system for rapid analysis of transcriptional enhancers. Genesis. 2012 May;50(5):443-50. doi: 10.1002/dvg.20820. Epub 2012 Jan 17. PMID: 22083581 PMCID: PMC3334447.  read article


Williams LA, Davis-Dusenbery BN, Eggan KC. SnapShot: directed differentiation of pluripotent stem cells. Cell. 2012 May 25;149(5):1174-1174.e1. doi: 10.1016/j.cell.2012.05.015. PMID: 22632979


Ball MP, Thakuria JV, Zaranek AW, Clegg T, Rosenbaum AM, Wu X, Angrist M, Bhak J, Bobe J, Callow MJ, Cano C, Chou MF, Chung WK, Douglas SM, Estep PW, Gore A, Hulick P, Labarga A, Lee JH, Lunshof JE, Kim BC, Kim JI, Li Z, Murray MF, Nilsen GB, Peters BA, Raman AM, Rienhoff HY, Robasky K, Wheeler MT, Vandewege W, Vorhaus DB, Yang JL, Yang L, Aach J, Ashley EA, Drmanac R, Kim SJ, Li JB, Peshkin L, Seidman CE, Seo JS, Zhang K, Rehm HL, Church GM. A public resource facilitating clinical use of genomes. Proc Natl Acad Sci U S A. 2012 Jul 24;109(30):11920-7. doi: 10.1073/pnas.1201904109. Epub 2012 Jul 13. PMID: 22797899 PMCID: PMC3409785 read article


Kim H, Yang K, Dejsuphong D, D'Andrea AD. Regulation of Rev1 by the Fanconi anemia core complex. Nat Struct Mol Biol. 2012 Jan 22;19(2):164-70. doi: 10.1038/nsmb.2222. PubMed PMID: 22266823; PubMed Central PMCID: PMC3280818.


Ball MP, Thakuria JV, Zaranek AW, Clegg T, Rosenbaum AM, Wu X, Angrist M, Bhak J, Bobe J, Callow MJ, Cano C, Chou MF, Chung WK, Douglas SM, Estep PW, Gore A, Hulick P, Labarga A, Lee JH, Lunshof JE, Kim BC, Kim JI, Li Z, Murray MF, Nilsen GB, Peters BA, Raman AM, Rienhoff HY, Robasky K, Wheeler MT, Vandewege W, Vorhaus DB, Yang JL, Yang L, Aach J, Ashley EA, Drmanac R, Kim SJ, Li JB, Peshkin L, Seidman CE, Seo JS, Zhang K, Rehm HL, Church GM. A public resource facilitating clinical use of genomes. Proc Natl Acad Sci U S A. 2012 Jul 13. [Epub ahead of print] PubMed PMID: 22797899.


Briggs AW, Rios X, Chari R, Yang L, Zhang F, Mali P, Church GM. Iterative capped assembly: rapid and scalable synthesis of repeat-module DNA such as TAL effectors from individual monomers. Nucleic Acids Res. 2012 Jun 26. [Epub ahead of print] PubMed PMID: 22740649.


Zeng X, King RW. An APC/C inhibitor stabilizes cyclin B1 by prematurely terminating ubiquitination. Nat Chem Biol. 2012 Feb 26;8(4):383-92. doi: 10.1038/nchembio.801. PubMed PMID: 22366722; PubMed Central PMCID: PMC3307893.


Christofferson DE, Li Y, Hitomi J, Zhou W, Upperman C, Zhu H, Gerber SA, Gygi S, Yuan J .A novel role for RIP1 kinase in mediating TNFα production. Cell Death Dis. 2012 Jun 14;3:e320. doi: 10.1038/cddis.2012.64. PMID: 22695613 PMCID: PMC3388236 read article


Zhou W, Yuan J. Cell biology: Death by deacetylation. Nature. 2012 Dec 13;492(7428):194-5. doi: 10.1038/nature11761. Epub 2012 Nov 28. PMID:23201692


top

2011


Beier KT, Saunders A, Oldenburg IA, Miyamichi K, Akhtar N, Luo L, Whelan SP, Sabatini B, Cepko CL. Anterograde or retrograde transsynaptic labeling of CNS neurons with vesicular stomatitis virus vectors. Proc Natl Acad Sci U S A. 2011 Sep 13;108(37):15414-9. Epub 2011 Aug 8. PubMed PMID: 21825165; PubMed Central PMCID: PMC3174680.


Cronican JJ, Beier KT, Davis TN, Tseng JC, Li W, Thompson DB, Shih AF, May EM, Cepko CL, Kung AL, Zhou Q, Liu DR. A class of human proteins that deliver functional proteins into mammalian cells in vitro and in vivo. Chem Biol. 2011 Jul 29;18(7):833-8. PubMed PMID: 21802004; PubMed Central PMCID: PMC3154086.


Beier KT, Samson ME, Matsuda T, Cepko CL. Conditional expression of the TVA receptor allows clonal analysis of descendents from Cre-expressing progenitor cells. Dev Biol. 2011 May 15;353(2):309-20. Epub 2011 Mar 21. PubMed PMID: 21397594; PubMed Central PMCID: PMC3100772.


Bowen ME, Boyden ED, Holm IA, Campos-Xavier B, Bonafé L, et al. (2011) Loss-of-function mutations in PTPN11 cause Metachondromatosis, but not Ollier disease or Maffucci syndrome. PLoS Genetics 7(4):e1002050. PMCID:PMC3077396.


Ray, R.S.*, Corcoran, A.E.*, Brust, R.D.*, Kim, J.C., Richerson, G.B., Nattie, E., Dymecki, S.M. Impaired Respiratory and Body Temperature Control Upon Acute Serotonergic Neuron Inhibition. Science. 2011 Jul 29;333(6042):637-42. doi: 10.1126/science.1205295. PMID: 21798952 PMCID: PMC3729433 *- These authors contributed equally to this work. read article


Chan Y, Holmen OL, Dauber A, Vatten L, Havulinna AS, Skorpen F, Kvaløy K, Silander K, Nguyen TT, Willer C, Boehnke M, Perola M, Palotie A, Salomaa V, Hveem K, Frayling TM, Hirschhorn JN, Weedon MN. Common variants show predicted polygenic effects on height in the tails of the distribution, except in extremely short individuals. PLoS Genet. 2011 Dec;7(12):e1002439. doi: 10.1371/journal.pgen.1002439. Epub 2011 Dec 29. PMID: 22242009 PMCID: PMC3248463 read article


Dauber A, Yu Y, Turchin MC, Chiang CW, Meng YA, Demerath EW, Patel SR, Rich SS, Rotter JI, Schreiner PJ, Wilson JG, Shen Y, Wu BL, Hirschhorn JN. Genome-wide association of copy-number variation reveals an association between short stature and the presence of low-frequency genomic deletions. Am J Hum Genet. 2011 Dec 9;89(6):751-9. Epub 2011 Nov 23. PubMed PMID: 22118881; PubMed Central PMCID: PMC3234379.


Chiang CW, Gajdos ZK, Korn JM, Butler JL, Hackett R, Guiducci C, Nguyen TT, Wilks R, Forrester T, Henderson KD, Le Marchand L, Henderson BE, Haiman CA, Cooper RS, Lyon HN, Zhu X, McKenzie CA, Palmert MR, Hirschhorn JN. The efficacy of detecting variants with small effects on the Affymetrix 6.0 platform using pooled DNA. Hum Genet. 2011 Nov;130(5):607-21. Epub 2011 Mar 22. PubMed PMID: 21424828.


Zhu X, Young JH, Fox E, Keating BJ, Franceschini N, Kang S, Tayo B, Adeyemo A, Sun YV, Li Y, Morrison A, Newton-Cheh C, Liu K, Ganesh SK, Kutlar A, Vasan RS, Dreisbach A, Wyatt S, Polak J, Palmas W, Musani S, Taylor H, Fabsitz R, Townsend RR, Dries D, Glessner J, Chiang CW, Mosley T, Kardia S, Curb D, Hirschhorn JN, Rotimi C, Reiner A, Eaton C, Rotter JI, Cooper RS, Redline S, Chakravarti A, Levy D. Combined admixture mapping and association analysis identifies a novel blood pressure genetic locus on 5p13: contributions from the CARe consortium. Hum Mol Genet. 2011 Jun 1;20(11):2285-95. Epub 2011 Mar 21. PubMed PMID: 21422096; PubMed Central PMCID: PMC3090198.


Christodoulou DC, Gorham JM, Herman DS, Seidman JG. Construction of normalized RNA-seq libraries for next-generation sequencing using the crab duplex-specific nuclease. Curr Protoc Mol Biol. 2011 Apr;Chapter 4:Unit4.12. PubMed PMID: 21472699; PubMed Central PMCID: PMC3152986.


Alon S, Vigneault F, Eminaga S, Christodoulou DC, Seidman JG, Church GM, Eisenberg E. Barcoding bias in high-throughput multiplex sequencing of miRNA. Genome Res. 2011 Sep;21(9):1506-11. Epub 2011 Jul 12. PubMed PMID: 21750102; PubMed Central PMCID: PMC3166835.


Zhang F, Cong L, Lodato S, Kosuri S, Church GM, Arlotta P. Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription. Nat Biotechnol. 2011 Feb;29(2):149-53. Epub 2011 Jan 19. PubMed PMID: 21248753; PubMed Central PMCID: PMC3084533.  read article


Park KS, Liang MC, Raiser DM, Zamponi R, Roach RR, Curtis SJ, Walton Z, Schaffer BE, Roake CM, Zmoos AF, Kriegel C, Wong KK, Sage J, Kim CF. Characterization of the cell of origin for small cell lung cancer. Cell Cycle. 2011 Aug 15;10(16):2806-15. Epub 2011 Aug 15. PubMed PMID: 21822053; PubMed Central PMCID: PMC3219544.


Anderl S, Freeland M, Kwiatkowski DJ, Goto J. (2011)Therapeutic value of prenatal rapamycin treatment in a mouse brain model of tuberous sclerosis complex. Hum Mol Genet. 2011 Dec 1;20(23):4597-604. doi: 10.1093/hmg/ddr393. Epub 2011 Sep 1. PMID: 21890496 PMCID: PMC3209830 read article


Kim T, Escudero S, and Shivdasani RA. Intact function of Lgr5-expressing intestinal stem cells in the absence of paneth cells. Proc Natl Acad Sci U S A. 2012 Mar 6;109(10):3932-7. doi: 10.1073/pnas.1113890109. Epub 2012 Feb 21. PMID: 22355124 PMCID: PMC3309789 read article


Finley LW, Haas W, Desquiret-Dumas V, Wallace DC, Procaccio V, Gygi SP, Haigis MC. Succinate dehydrogenase is a direct target of sirtuin 3 deacetylase activity. PLoS One 2011;6(8):e23295. Epub 2011 Aug 17. PMID: 21858060. PMCID: PMC3157345.


Liu CT, Garnaas MK, Tin A, Kottgen A, Franceschini N, Peralta CA, de Boer IH, Lu X, Atkinson E, Ding J, Nalls M, Shriner D, Coresh J, Kutlar A, Bibbins-Domingo K, Siscovick D, Akylbekova E, Wyatt S, Astor B, Mychaleckjy J, Li M, Reilly MP, Townsend RR, Adeyemo A, Zonderman AB, de Andrade M, Turner ST, Mosley TH, Harris TB; CKDGen Consortium, Rotimi CN, Liu Y, Kardia SL, Evans MK, Shlipak MG, Kramer H, Flessner MF, Dreisbach AW, Goessling W, Cupples LA, Kao WL, Fox CS. Genetic association for renal traits among participants of African ancestry reveals new loci for renal function. PLoS Genet. 2011 Sep;7(9):e1002264. Epub 2011 Sep 8. PubMed PMID: 21931561; PubMed Central PMCID: PMC3169523. read article


Grassian AR, Coloff JL, Brugge JS. Extracellular matrix regulation of metabolism and implications for tumorigenesis. Cold Spring Harb Symp Quant Biol. 2011;76:313-24. Epub 2011 Nov 21. PubMed PMID: 22105806.


Grassian AR, Metallo CM, Coloff JL, Stephanopoulos G, Brugge JS. Erk regulation of pyruvate dehydrogenase flux through PDK4 modulates cell proliferation. Genes Dev. 2011 Aug 15;25(16):1716-33. PubMed PMID: 21852536; PubMed Central PMCID: PMC3165936.


Locasale JW, Grassian AR, Melman T, Lyssiotis CA, Mattaini KR, Bass AJ, Heffron G, Metallo CM, Muranen T, Sharfi H, Sasaki AT, Anastasiou D, Mullarky E, Vokes NI, Sasaki M, Beroukhim R, Stephanopoulos G, Ligon AH, Meyerson M, Richardson AL, Chin L, Wagner G, Asara JM, Brugge JS, Cantley LC, Vander Heiden MG. Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis. Nat Genet. 2011 Jul 31;43(9):869-74. doi: 10.1038/ng.890. PubMed PMID: 21804546.


Castillo M, Hall JA, Correa-Medina M, Ueta C, Kang HW, Cohen DE, Bianco AC. Disruption of thyroid hormone activation in type 2 deiodinase knockout mice causes obesity with glucose intolerance and liver steatosis only at thermoneutrality. Diabetes. 2011 Apr;60(4):1082-9. doi: 10.2337/db10-0758. Epub 2011 Feb 18. PMID: 21335378 PMCID: PMC3064082 read article


Zacharek SJ, Fillmore CM, Lau AN, Gludish DW, Chou A, Ho JW, Zamponi R, Gazit R, Bock C, Jäger N, Smith ZD, Kim TM, Saunders AH, Wong J, Lee JH, Roach RR, Rossi DJ, Meissner A, Gimelbrant AA, Park PJ, Kim CF. Lung stem cell self-renewal relies on BMI1-dependent control of expression at imprinted loci. Cell Stem Cell. 2011 Sep 2;9(3):272-81. doi: 10.1016/j.stem.2011.07.007. PMID: 21885022 PMCID: PMC3167236 read article


O'Connell JT, Sugimoto H, Cooke VG, MacDonald BA, Mehta AI, LeBleu VS, Dewar R, Rocha RM, Brentani RR, Resnick MB, Neilson EG, Zeisberg M, Kalluri R. VEGF-A and Tenascin-C produced by S100A4+ stromal cells are important for metastatic colonization. Proc Natl Acad Sci U S A. 2011 Sep 20;108(38):16002-7. Epub 2011 Sep 12. PubMed PMID: 21911392; PubMed Central PMCID: PMC3179047.


Layre E, Sweet L, Hong S, Madigan CA, Desjardins D, Young DC, Cheng TY, Annand JW, Kim K, Shamputa IC, McConnell MJ, Debono CA, Behar SM, Minnaard AJ, Murray M, Barry CE 3rd, Matsunaga I, Moody DB. A comparative lipidomics platform for chemotaxonomic analysis of Mycobacterium tuberculosis. Chem Biol. 2011 Dec 23;18(12):1537-49. PubMed PMID: 22195556.


Huang S, Cheng TY, Young DC, Layre E, Madigan CA, Shires J, Cerundolo V, Altman JD, Moody DB. Discovery of deoxyceramides and diacylglycerols as CD1b scaffold lipids among diverse groove-blocking lipids of the human CD1 system. Proc Natl Acad Sci U S A. 2011 Nov 29;108(48):19335-40. Epub 2011 Nov 15. PubMed PMID: 22087000; PubMed Central PMCID: PMC3228429.


De Raedt T, Walton Z, Yecies JL, Li D, Chen Y, Malone CF, Maertens O, Jeong SM, Bronson RT, Lebleu V, Kalluri R, Normant E, Haigis MC, Manning BD, Wong KK, Macleod KF, Cichowski K. Exploiting cancer cell vulnerabilities to develop a combination therapy for ras-driven tumors.Cancer Cell. 2011 Sep 13;20(3):400-13. doi: 10.1016/j.ccr.2011.08.014.PMID: 21907929 PMCID: PMC3233475.  read article


Yang DC, Peters NT, Parzych KR, Uehara T, Markovski M, Bernhardt TG. An ATP-binding cassette transporter-like complex governs cell-wall hydrolysis at the bacterial cytokinetic ring. Proc Natl Acad Sci U S A. 2011 Nov 8;108(45):E1052-60. Epub 2011 Oct 17. PubMed PMID: 22006326; PubMed Central PMCID: PMC3215046.


Mullarky E, Mattaini KR, Vander Heiden MG, Cantley LC, Locasale JW. PHGDH amplification and altered glucose metabolism in human melanoma. Pigment Cell Melanoma Res. 2011 Dec;24(6):1112-5. doi: 10.1111/j.1755-148X.2011.00919.x. Epub 2011 Oct 28. PMID: 21981974


Locasale JW, Grassian AR, Melman T, Lyssiotis CA, Mattaini KR, Bass AJ, Heffron G, Metallo CM, Muranen T, Sharfi H, Sasaki AT, Anastasiou D, Mullarky E, Vokes NI, Sasaki M, Beroukhim R, Stephanopoulos G, Ligon AH, Meyerson M, Richardson AL, Chin L, Wagner G, Asara JM, Brugge JS, Cantley LC, Vander Heiden MG. Phosphoglycerate dehydrogenase diverts glycolytic flux and contributes to oncogenesis. Nat Genet. 2011 Jul 31;43(9):869-74. doi: 10.1038/ng.890. PMID: 21804546 PMCID: PMC3677549 read article


Helman E, Naxerova K, Kohane IS. DNA hypermethylation in lung cancer is targeted at differentiation-associated genes. Oncogene. 2012 Mar 1;31(9):1181-8. doi: 10.1038/onc.2011.307. Epub 2011 Aug 1. PubMed PMID: 21804601.


Liu J, Liao S, Huang Y, Samuel R, Shi T, Naxerova K, Huang P, Kamoun W, Jain RK, Fukumura D, Xu L. PDGF-D improves drug delivery and efficacy via vascular normalization, but promotes lymphatic metastasis by activating CXCR4 in breast cancer. Clin Cancer Res. 2011 Jun 1;17(11):3638-48. Epub 2011 Apr 1. PubMed PMID: 21459800; PubMed Central PMCID: PMC3107920.


Jiang J, Lazarus MB, Pasquina L, Sliz P, Walker S. A neutral diphosphate mimic crosslinks the active site of human O-GlcNAc transferase. Nat Chem Biol. 2011 Nov 13;8(1):72-7. doi: 10.1038/nchembio.711. PMID: 22082911 PMCID: PMC3241908  read article


Piskounova E, Polytarchou C, Thornton JE, LaPierre RJ, Pothoulakis C, Hagan JP, Iliopoulos D, Gregory RI. Lin28A and Lin28B inhibit let-7 microRNA biogenesis by distinct mechanisms. Cell. 2011 Nov 23;147(5):1066-79. PubMed PMID: 22118463; PubMed Central PMCID: PMC3227872.


Park KS, Liang MC, Raiser DM, Zamponi R, Roach RR, Curtis SJ, Walton Z, Schaffer BE, Roake CM, Zmoos AF, Kriegel C, Wong KK, Sage J, Kim CF. Characterization of the cell of origin for small cell lung cancer. Cell Cycle. 2011 Aug 15;10(16):2806-15. Epub 2011 Aug 15. PMID: 21822053 PMCID: PMC3219544 read article


Sebastiano V, Maeder ML, Angstman JF, Haddad B, Khayter C, Yeo DT, Goodwin MJ, Hawkins JS, Ramirez CL, Batista LF, Artandi SE, Wernig M, Joung JK. In situ genetic correction of the sickle cell anemia mutation in human induced pluripotent stem cells using engineered zinc finger nucleases. Stem Cells. 2011 Nov;29(11):1717-26. doi: 10.1002/stem.718. PubMed PMID: 21898685; PubMed Central PMCID: PMC3285772.


Pattanayak V, Ramirez CL, Joung JK, Liu DR. Revealing off-target cleavage specificities of zinc-finger nucleases by in vitro selection. Nat Methods. 2011 Aug 7;8(9):765-70. doi: 10.1038/nmeth.1670. PubMed PMID: 21822273; PubMed Central PMCID: PMC3164905.


Coers J, Gondek DC, Olive AJ, Rohlfing A, Taylor GA, Starnbach MN. Compensatory T cell responses in IRG-deficient mice prevent sustained Chlamydia trachomatis infections. PLoS Pathog. 2011 Jun;7(6):e1001346. doi: 10.1371/journal.ppat.1001346. Epub 2011 Jun 23. PMID: 21731484 PMCID: PMC3121881 read article


Dong CK, Urgaonkar S, Cortese JF, Gamo FJ, Garcia-Bustos JF, Lafuente MJ, Patel V, Ross L, Coleman BI, Derbyshire ER, Clish CB, Serrano AE, Cromwell M, Barker RH Jr, Dvorin JD, Duraisingh MT, Wirth DF, Clardy J, Mazitschek R. Identification and validation of tetracyclic benzothiazepines as Plasmodium falciparum cytochrome bc1 inhibitors. Chem Biol. 2011 Dec 23;18(12):1602-10. PubMed PMID: 22195562.


San Roman AK, Shivdasani RA. Boundaries, junctions and transitions in the gastrointestinal tract. Exp Cell Res. 2011 Nov 15;317(19):2711-8. doi: 10.1016/j.yexcr.2011.07.011. Epub 2011 Jul 23. PMID: 21802415 PMCID: PMC3210370 read article


Sarkar A, Hochedlinger K. A gutsy way to grow: intestinal stem cells as nutrient sensors. Cell. 2011 Oct 28;147(3):487-9. doi: 10.1016/j.cell.2011.10.006. PMID: 22036555


Arnold K, Sarkar A, Yram MA, Polo JM, Bronson R, Sengupta S, Seandel M, Geijsen N, Hochedlinger K. Sox2(+) adult stem and progenitor cells are important for tissue regeneration and survival of mice. Cell Stem Cell. 2011 Oct 4;9(4):317-29. doi: 10.1016/j.stem.2011.09.001. PMID: 21982232 PMCID: PMC3538360 read article


Lal A, Thomas MP, Altschuler G, Navarro F, O'Day E, Li XL, Concepcion C, Han YC, Thiery J, Rajani DK, Deutsch A, Hofmann O, Ventura A, Hide W, Lieberman J. Capture of microRNA-bound mRNAs identifies the tumor suppressor miR-34a as a regulator of growth factor signaling. PLoS Genet. 2011 Nov;7(11):e1002363. doi: 10.1371/journal.pgen.1002363. Epub 2011 Nov 10. PMID: 22102825 PMCID: PMC3213160 read article


Cronican JJ, Beier KT, Davis TN, Tseng JC, Li W, Thompson DB, Shih AF, May EM, Cepko CL, Kung AL, Zhou Q, Liu DR. A class of human proteins that deliver functional proteins into mammalian cells in vitro and in vivo. Chem Biol. 2011 Jul 29;18(7):833-8. doi: 10.1016/j.chembiol.2011.07.003. PMID: 21802004 PMCID: PMC3154086 read article


Camp AH, Wang AF, Losick R. A small protein required for the switch from {sigma}F to {sigma}G during sporulation in Bacillus subtilis.J Bacteriol. 2011 Jan;193(1):116-24. doi: 10.1128/JB.00949-10. Epub 2010 Oct 29. PMID: 21037003 PMCID: PMC3019954 read article


Wardwell LH, Huttenhower C, Garrett WS. Current concepts of the intestinal microbiota and the pathogenesis of infection. Curr Infect Dis Rep. 2011 Feb;13(1):28-34. doi: 10.1007/s11908-010-0147-7. PMID: 21308452 PMCID: PMC3077078 read article


Yang K, Moldovan GL, Vinciguerra P, Murai J, Takeda S, D'Andrea AD. Regulation of the Fanconi anemia pathway by a SUMO-like delivery network. Genes Dev. 2011 Sep 1;25(17):1847-58. PubMed PMID: 21896657; PubMed Central PMCID: PMC3175720.


Murai J, Yang K, Dejsuphong D, Hirota K, Takeda S, D'Andrea AD. The USP1/UAF1 complex promotes double-strand break repair through homologous recombination. Mol Cell Biol. 2011 Jun;31(12):2462-9. Epub 2011 Apr 11. PubMed PMID: 21482670; PubMed Central PMCID: PMC3133424.


Loh YH, Yang L, Yang JC, Li H, Collins JJ, Daley GQ. Genomic approaches to deconstruct pluripotency. Annu Rev Genomics Hum Genet. 2011;12:165-85. doi: 10.1146/annurev-genom-082410-101506. PMID: 21801025 PMCID: PMC3652340  read article


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2010


Cronican JJ, Thompson DB, Beier KT, McNaughton BR, Cepko CL, Liu DR. Potent delivery of functional proteins into Mammalian cells in vitro and in vivo using a supercharged protein. ACS Chem Biol. 2010 Aug 20;5(8):747-52. PubMed PMID: 20545362; PubMed Central PMCID: PMC2924640.


Derti A, Cenik C, Kraft P, Roth FP. Absence of evidence for MHC-dependent mate selection within HapMap populations. PLoS Genet. 2010 Apr 29;6(4):e1000925. PubMed PMID: 20442868; PubMed Central PMCID: PMC2861700.


Cenik C, Derti A, Mellor JC, Berriz GF, Roth FP. Genome-wide functional analysis of human 5' untranslated region introns. Genome Biol. 2010;11(3):R29. Epub 2010 Mar 11. PubMed PMID: 20222956; PubMed Central PMCID: PMC2864569.


Chao MC, Rubin EJ. Letting sleeping dos lie: does dormancy play a role in tuberculosis? Annu Rev Microbiol. 2010;64:293-311. Review. PubMed PMID: 20825351.


Hett EC, Chao MC, Rubin EJ. Interaction and modulation of two antagonistic cell wall enzymes of mycobacteria. PLoS Pathog. 2010 Jul 29;6(7):e1001020. PubMed PMID: 20686708; PubMed Central PMCID: PMC2912383.


Chen AC, Guo LY, Ostaszewski BL, Selkoe DJ, LaVoie MJ. Aph-1 associates directly with full-length and C-terminal fragments of gamma-secretase substrates. J Biol Chem. 2010 Apr 9;285(15):11378-91. Epub 2010 Feb 9. PubMed PMID: 20145246; PubMed Central PMCID: PMC2857016.


Chiang CW, Gajdos ZK, Korn JM, Kuruvilla FG, Butler JL, Hackett R, Guiducci C, Nguyen TT, Wilks R, Forrester T, Haiman CA, Henderson KD, Le Marchand L, Henderson BE, Palmert MR, McKenzie CA, Lyon HN, Cooper RS, Zhu X, Hirschhorn JN. Rapid assessment of genetic ancestry in populations of unknown origin by genome-wide genotyping of pooled samples. PLoS Genet. 2010 Mar 5;6(3):e1000866. PubMed PMID: 20221249; PubMed Central PMCID: PMC2832667.


Kang SJ, Chiang CW, Palmer CD, Tayo BO, Lettre G, Butler JL, Hackett R, Adeyemo AA, Guiducci C, Berzins I, Nguyen TT, Feng T, Luke A, Shriner D, Ardlie K, Rotimi C, Wilks R, Forrester T, McKenzie CA, Lyon HN, Cooper RS, Zhu X, Hirschhorn JN. Genome-wide association of anthropometric traits in African- and African-derived populations. Hum Mol Genet. 2010 Jul 1;19(13):2725-38. Epub 2010 Apr 16. PubMed PMID: 20400458; PubMed Central PMCID: PMC2883343.


Nowak RJ, Cuny GD, Choi S, Lansbury PT, Ray SS. Improving binding specificity of pharmacological chaperones that target mutant superoxide dismutase-1 linked to familial amyotrophic lateral sclerosis using computational methods. J Med Chem. 2010 Apr 8;53(7):2709-18. PubMed PMID: 20232802.


Prisic S, Dankwa S, Schwartz D, Chou MF, Locasale JW, Kang CM, Bemis G, Church GM, Steen H, Husson RN. Extensive phosphorylation with overlapping specificity by Mycobacterium tuberculosis serine/threonine protein kinases. Proc Natl Acad Sci U S A. 2010 Apr 20;107(16):7521-6. Epub 2010 Apr 5. PubMed PMID: 20368441.


Curtis SJ, Sinkevicius KW, Li D, Lau AN, Roach RR, Zamponi R, Woolfenden AE, Kirsch DG, Wong KK, Kim CF. Primary tumor genotype is an important determinant in identification of lung cancer propagating cells. Cell Stem Cell. 2010 Jul 2;7(1):127-33. PubMed PMID: 20621056; PubMed Central PMCID: PMC2908996.


Li W, Schulman S, Dutton RJ, Boyd D, Beckwith J, Rapoport TA. Structure of a bacterial homologue of vitamin K epoxide reductase. Nature. 2010 Jan 28;463(7280):507-12. PubMed PMID: 20110994.


Warren L, Manos PD, Ahfeldt T, Loh YH, Li H, Lau F, Ebina W, Mandal PK, Smith ZD, Meissner A, Daley GQ, Brack AS, Collins JJ, Cowan C, Schlaeger TM, Rossi DJ. Highly Efficient Reprogramming to Pluripotency and Directed Differentiation of Human Cells with Synthetic Modified mRNA. Cell Stem Cell. 2010 Sep 29. [Epub ahead of print] PMID: 20888316


Erwin JA, Lee JT. Characterization of X-chromosome inactivation status in human pluripotent stem cells. Curr Protoc Stem Cell Biol. 2010 Feb;Chapter 1:Unit 1B.6. PubMed PMID: 20127856.


Chiang CW, Gajdos ZK, Korn JM, Kuruvilla FG, Butler JL, Hackett R, Guiducci C, Nguyen TT, Wilks R, Forrester T, Haiman CA, Henderson KD, Le Marchand L, Henderson BE, Palmert MR, McKenzie CA, Lyon HN, Cooper RS, Zhu X, Hirschhorn JN. Rapid assessment of genetic ancestry in populations of unknown origin by genome-wide genotyping of pooled samples. PLoS Genet. 2010 Mar 5;6(3):e1000866. PubMed PMID: 20221249; PubMed Central PMCID: PMC2832667.


Gajdos ZK, Henderson KD, Hirschhorn JN, Palmert MR. Genetic determinants of pubertal timing in the general population. Mol Cell Endocrinol. 2010 Feb 6. [Epub ahead of print] PubMed PMID: 20144687.


Kharas MG, Okabe R, Ganis JJ, Gozo M, Khandan T, Paktinat M, Gilliland DG,Gritsman K. Constitutively active AKT depletes hematopoietic stem cells andinduces leukemia in mice. Blood. 2010 Feb 18;115(7):1406-15. Epub 2009 Dec 14. PubMed PMID: 20008787; PubMed Central PMCID: PMC2826762. read article


Grassian AR, Schafer ZT, Brugge JS. ErbB2 stabilizes epidermal growth factor receptor (EGFR) expression via Erk and Sprouty2 in extracellular matrix-detached cells. J Biol Chem. 2011 Jan 7;286(1):79-90. Epub 2010 Oct 18. PubMed PMID: 20956544; PubMed Central PMCID: PMC3013038.


Hall JA, Ribich S, Christoffolete MA, Simovic G, Correa-Medina M, Patti ME, Bianco AC. Absence of thyroid hormone activation during development underlies a permanent defect in adaptive thermogenesis. Endocrinology. 2010 Sep;151(9):4573-82. doi: 10.1210/en.2010-0511. Epub 2010 Jul 21. PMID: 20660060 PMCID: PMC2940501 read article


Rajamani S, Ichida JK, Antal T, Treco DA, Leu K, Nowak MA, Szostak JW, Chen IA. Effect of stalling after mismatches on the error catastrophe in nonenzymatic nucleic acid replication. J Am Chem Soc. 2010 Apr 28;132(16):5880-5. PubMed PMID: 20359213; PubMed Central PMCID: PMC2857888.


Zhao J, Ohsumi TK, Kung JT, Ogawa Y, Grau DJ, Sarma K, Song JJ, Kingston RE, Borowsky M, Lee JT. Genome-wide identification of polycomb-associated RNAs by RIP-seq. Mol Cell. 2010 Dec 22;40(6):939-53. doi: 10.1016/j.molcel.2010.12.011. PMID: 21172659 PMCID: PMC3021903.  read article


Curtis SJ, Sinkevicius KW, Li D, Lau AN, Roach RR, Zamponi R, Woolfenden AE, Kirsch DG, Wong KK, Kim CF. Primary tumor genotype is an important determinant in identification of lung cancer propagating cells. Cell Stem Cell. 2010 Jul 2;7(1):127-33. doi: 10.1016/j.stem.2010.05.021. PMID: 20621056 PMCID: PMC2908996  read article


Liu JJ, Fisher DE. Lighting a path to pigmentation: mechanisms of MITF induction by UV. Pigment Cell Melanoma Res. 2010 Dec;23(6):741-5. doi: 10.1111/j.1755-148X.2010.00775.x. PMID: 20973930


Diebold ML, Koch M, Loeliger E, Cura V, Winston F, Cavarelli J, Romier C. The structure of an Iws1/Spt6 complex reveals an interaction domain conserved in TFIIS, Elongin A and Med26. EMBO J. 2010 Dec 1;29(23):3979-91. doi: 10.1038/emboj.2010.272. Epub 2010 Nov 5. PMID: 21057455 PMCID: PMC3020637 read article


Diebold ML, Loeliger E, Koch M, Winston F, Cavarelli J, Romier C. Noncanonical tandem SH2 enables interaction of elongation factor Spt6 with RNA polymerase II. J Biol Chem. 2010 Dec 3;285(49):38389-98. doi: 10.1074/jbc.M110.146696. Epub 2010 Oct 6. PMID: 20926373 PMCID: PMC2992272 read article


Mullally A, Lane SW, Ball B, Megerdichian C, Okabe R, Al-Shahrour F, Paktinat M, Haydu JE, Housman E, Lord AM, Wernig G, Kharas MG, Mercher T, Kutok JL, Gilliland DG, Ebert BL. Physiological Jak2V617F expression causes a lethal myeloproliferative neoplasm with differential effects on hematopoietic stem and progenitor cells. Cancer Cell. 2010 Jun 15;17(6):584-96. doi: 10.1016/j.ccr.2010.05.015. PMID: 20541703 PMCID: PMC2909585
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Paradis-Bleau C, Markovski M, Uehara T, Lupoli TJ, Walker S, Kahne DE, Bernhardt TG. Lipoprotein cofactors located in the outer membrane activate bacterial cell wall polymerases. Cell. 2010 Dec 23;143(7):1110-20. PubMed PMID: 21183074; PubMed Central PMCID: PMC3085243.


Hellman NE, Liu Y, Merkel E, Austin C, Le Corre S, Beier DR, Sun Z, Sharma N, Yoder BK, Drummond IA. The zebrafish foxj1a transcription factor regulates cilia function in response to injury and epithelial stretch. Proc Natl Acad Sci U S A. 2010 Oct 26;107(43):18499-504. doi: 10.1073/pnas.1005998107. Epub 2010 Oct 11. PMID: 20937855 PMCID: PMC2972951 read article


Nielsen CM, Dymecki SM. Sonic hedgehog is required for vascular outgrowth in the hindbrain choroid plexus. Dev Biol. 2010 Apr 15;340(2):430-7. Epub 2010 Feb 1. PubMed PMID: 20123094.


Paik EJ, Zon LI. Hematopoietic development in the zebrafish. Int J Dev Biol. 2010;54(6-7):1127-37. Review. PubMed PMID: 20711990.


Paik EJ, de Jong JL, Pugach E, Opara P, Zon LI. A chemical genetic screen in zebrafish for pathways interacting with cdx4 in primitive hematopoiesis. Zebrafish. 2010 Mar;7(1):61-8. PubMed PMID: 20415644; PubMed Central PMCID: PMC2897134.


Schlabach MR, Hu JK, Li M, Elledge SJ. Synthetic design of strong promoters. Proc Natl Acad Sci U S A. 2010 Feb 9;107(6):2538-43. Epub 2010 Jan 21. PubMed PMID: 20133776; PubMed Central PMCID: PMC2823900.


Millet YA, Danna CH, Clay NK, Songnuan W, Simon MD, Werck-Reichhart D, Ausubel FM. Innate immune responses activated in Arabidopsis roots by microbe-associated molecular patterns. Plant Cell. 2010 Mar;22(3):973-90. Epub 2010 Mar 26. PubMed PMID: 20348432; PubMed Central PMCID: PMC2861455.


Thomas M, Lieberman J, Lal A. Desperately seeking microRNA targets. Nat Struct Mol Biol. 2010 Oct;17(10):1169-74. doi: 10.1038/nsmb.1921. PMID: 20924405


Cronican JJ, Thompson DB, Beier KT, McNaughton BR, Cepko CL, Liu DR. Potent delivery of functional proteins into Mammalian cells in vitro and in vivo using a supercharged protein. ACS Chem Biol. 2010 Aug 20;5(8):747-52. doi: 10.1021/cb1001153. PMID: 20545362 PMCID: PMC2924640 read article


Birk E, Har-Zahav A, Manzini CM, Pasmanik-Chor M, Kornreich L, Walsh CA, Noben-Trauth K, Albin A, Simon AJ, Colleaux L, Morad Y, Rainshtein L, Tischfield DJ, Wang P, Magal N, Maya I, Shoshani N, Rechavi G, Gothelf D, Maydan G, Shohat M, Basel-Vanagaite L. SOBP is mutated in syndromic and nonsyndromic intellectual disability and is highly expressed in the brain limbic system. Am J Hum Genet. 2010 Nov 12;87(5):694-700. Epub 2010 Oct 28. PMID: 21035105 PMCID: PMC2978971  read article


de Jong JL, Davidson AJ, Wang Y, Palis J, Opara P, Pugach E, Daley GQ, Zon LI. Interaction of retinoic acid and scl controls primitive blood development. Blood. 2010 Jul 15;116(2):201-9. doi: 10.1182/blood-2009-10-249557. Epub 2010 Apr 21. PMID: 20410509 PMCID: PMC2910607 read article


Wang Y, Krivtsov AV, Sinha AU, North TE, Goessling W, Feng Z, Zon LI, Armstrong SA. The Wnt/beta-catenin pathway is required for the development of leukemia stem cells in AML. Science. 2010 Mar 26;327(5973):1650-3. doi: 10.1126/science.1186624. PMID: 20339075 PMCID: PMC3084586 read article


Sakuma M, Morooka T, Wang Y, Shi C, Croce K, Gao H, Strainic M, Medof ME, Simon DI. The Intrinsic Complement Regulator Decay-Accelerating Factor Modulates the Biological Response to Vascular Injury. Arterioscler Thromb Vasc Biol. 2010 Jun;30(6):1196-202. doi: 10.1161/ATVBAHA.110.205559. Epub 2010 Mar 18. PMID: 20299685 PMCID: PMC2903214 read article


Nozari A, Dilekoz E, Sukhotinsky I, Stein T, Eikermann-Haerter K, Liu C, Wang Y, Frosch MP, Waeber C, Ayata C, Moskowitz MA. Microemboli may link spreading depression, migraine aura, and patent foramen ovale. Ann Neurol. 2010 Feb;67(2):221-9. doi: 10.1002/ana.21871. PMID: 20225282 PMCID: PMC2921919 read article


Wang H, Wu X, Wang Y, Oldenborg PA, Yang YG. CD47 is required for suppression of allograft rejection by donor-specific transfusion. J Immunol. 2010 Apr 1;184(7):3401-7. doi: 10.4049/jimmunol.0901550. Epub 2010 Mar 5. PMID: 20208011 PMCID: PMC3670954 read article


Tung N, Wang Y, Collins LC, Kaplan J, Li H, Gelman R, Comander AH, Gallagher B, Fetten K, Krag K, Stoeckert KA, Legare RD, Sgroi D, Ryan PD, Garber JE, Schnitt SJ. Estrogen receptor positive breast cancers in BRCA1 mutation carriers: clinical risk factors and pathologic features. Breast Cancer Res. 2010;12(1):R12. doi: 10.1186/bcr2478. Epub 2010 Feb 11. PMID: 20149218 PMCID: PMC2880433


Xu X, Yang Z, Liu Q, Wang Y. In vivo fluorescence imaging of muscle cell regeneration by transplanted EGFP-labeled myoblasts. Mol Ther. 2010 Apr;18(4):835-42. Epub 2010 Feb 2. PubMed PMID: 20125125. read article


Simunovic F, Yi M, Wang Y, Stephens R, Sonntag KC. Evidence for gender-specific transcriptional profiles of nigral dopamine neurons in Parkinson disease. PLoS One. 2010 Jan 25;5(1):e8856. doi: 10.1371/journal.pone.0008856. PMID: 20111594 PMCID: PMC2810324 read article


Xu C, Lo A, Yammanuru A, Tallarico AS, Brady K, Murakami A, Barteneva N, Zhu Q, Marasco WA. Unique biological properties of catalytic domain directed human anti-CAIX antibodies discovered through phage-display technology. PLoS One. 2010 Mar 10;5(3):e9625. PubMed PMID: 20224781; PubMed Central PMCID: PMC2835754.


Vandorpe DH, Xu C, Shmukler BE, Otterbein LE, Trudel M, Sachs F, Gottlieb PA, Brugnara C, Alper SL. Hypoxia activates a Ca2+-permeable cation conductance sensitive to carbon monoxide and to GsMTx-4 in human and mouse sickle erythrocytes. PLoS One. 2010 Jan 15;5(1):e8732. PubMed PMID: 20090940; PubMed Central PMCID: PMC2806905.


Huang M, Kim JM, Shiotani B, Yang K, Zou L, D'Andrea AD. The FANCM/FAAP24 complex is required for the DNA interstrand crosslink-induced checkpoint response. Mol Cell. 2010 Jul 30;39(2):259-68. PubMed PMID: 20670894; PubMed Central PMCID: PMC2928996.


Zeng X, Sigoillot F, Gaur S, Choi S, Pfaff KL, Oh DC, Hathaway N, Dimova N, Cuny GD, King RW. Pharmacologic inhibition of the anaphase-promoting complex induces a spindle checkpoint-dependent mitotic arrest in the absence of spindle damage. Cancer Cell. 2010 Oct 19;18(4):382-95. PubMed PMID: 20951947; PubMed Central PMCID: PMC2957475.


Lipinski MM, Hoffman G, Ng A, Zhou W, Py BF, Hsu E, Liu X, Eisenberg J, Liu J, Blenis J, Xavier RJ, Yuan J. A genome-wide siRNA screen reveals multiple mTORC1 independent signaling pathways regulating autophagy under normal nutritional conditions. Dev Cell. 2010 Jun 15;18(6):1041-52. doi: 10.1016/j.devcel.2010.05.005. PMID: 20627085 PMCID: PMC2935848 read article


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2009


Schrum JP, Ricardo A, Krishnamurthy M, Blain JC, Szostak JW. Efficient and rapid template-directed nucleic acid copying using 2'-amino-2',3'-dideoxyribonucleoside-5'-phosphorimidazolide monomers. J Am Chem Soc. 2009 Oct 14;131(40):14560-70. PubMed PMID: 19757789; PubMed Central PMCID: PMC2759813.


Brown KM, Depristo MA, Weinreich DM, Hartl DL. Temporal constraints on the incorporation of regulatory mutants in evolutionary pathways. Mol Biol Evol. 2009 Nov;26(11):2455-62. Epub 2009 Jul 14. PubMed PMID: 19602543.


Lozovsky ER, Chookajorn T, Brown KM, Imwong M, Shaw PJ, Kamchonwongpaisan S, Neafsey DE, Weinreich DM, Hartl DL. Stepwise acquisition of pyrimethamine resistance in the malaria parasite. Proc Natl Acad Sci U S A. 2009 Jul 21;106(29):12025-30. Epub 2009 Jul 8. PubMed PMID: 19587242; PubMed Central PMCID: PMC2715478.


Bruckner RJ, Mansy SS, Ricardo A, Mahadevan L, Szostak JW. Flip-flop-induced relaxation of bending energy: implications for membrane remodeling. Biophys J. 2009 Dec 16;97(12):3113-22. PubMed PMID: 20006948; PubMed Central PMCID: PMC2793357.


Budin I, Bruckner RJ, Szostak JW. Formation of protocell-like vesicles in a thermal diffusion column. J Am Chem Soc. 2009 Jul 22;131(28):9628-9. PubMed PMID: 19601679; PubMed Central PMCID: PMC2710859.


MacConaill LE, Campbell CD, Kehoe SM, Bass AJ, Hatton C, Niu L, Davis M, Yao K, Hanna M, Mondal C, Luongo L, Emery CM, Baker AC, Philips J, Goff DJ, Fiorentino M, Rubin MA, Polyak K, Chan J, Wang Y, Fletcher JA, Santagata S, Corso G, Roviello F, Shivdasani R, Kieran MW, Ligon KL, Stiles CD, Hahn WC, Meyerson ML, Garraway LA. Profiling critical cancer gene mutations in clinical tumor samples. PLoS One. 2009 Nov 18;4(11):e7887. PubMed PMID: 19924296; PubMed Central PMCID: PMC2774511.


Berriz GF, Beaver JE, Cenik C, Tasan M, Roth FP. Next generation software for functional trend analysis. Bioinformatics. 2009 Nov 15;25(22):3043-4. Epub 2009 Aug 28. PubMed PMID: 19717575; PubMed Central PMCID: PMC2800365.


Qiao L, Choi S, Case A, Gainer TG, Seyb K, Glicksman MA, Lo DC, Stein RL, Cuny GD. Structure-activity relationship study of EphB3 receptor tyrosine kinase inhibitors. Bioorg Med Chem Lett. 2009 Nov 1;19(21):6122-6. Epub 2009 Sep 9. PubMed PMID: 19783434; PubMed Central PMCID: PMC2785710.


Hwang DY, Hong S, Jeong JW, Choi S, Kim H, Kim J, Kim KS. Vesicular monoamine transporter 2 and dopamine transporter are molecular targets of Pitx3 in the ventral midbrain dopamine neurons. J Neurochem. 2009 Dec;111(5):1202-12. Epub 2009 Sep 24. PubMed PMID: 19780901.


Schwartz D, Chou MF, Church GM. Predicting protein post-translational modifications using meta-analysis of proteome scale data sets. Mol Cell Proteomics. 2009 Feb;8(2):365-79. Epub 2008 Oct 28. PubMed PMID: 18974045; PubMed Central PMCID: PMC2634583.


Dutton RJ, Wayman A, Wei JR, Rubin EJ, Beckwith J, Boyd D. Inhibition of bacterial disulfide bond formation by the anticoagulant warfarin. Proc Natl Acad Sci USA. 2010 Jan 5;107(1):297-301. Epub 2009 Dec 15. PubMed PMID: 20018758; PubMed Central PMCID: PMC2806739.


Ebina W, Rowat AC, Weitz DA. Electrodes on a budget: Micropatterned electrode fabrication by wet chemical deposition. Electrodes on a budget: Micropatterned electrode fabrication by wet chemical deposition. Biomicrofluidics. 2009 Sep 8;3(3):34104. PMID: 20216960 PMCID: PMC2835278 read article


Egyud MR, Gajdos ZK, Butler JL, Tischfield S, Le Marchand L, Kolonel LN, Haiman CA, Henderson BE, Hirschhorn JN. Use of weighted reference panels based on empirical estimates of ancestry for capturing untyped variation. Hum Genet. 2009 Apr;125(3):295-303. Epub 2009 Jan 28. PubMed PMID: 19184111.


Gajdos ZK, Hirschhorn JN, Palmert MR. What controls the timing of puberty? An update on progress from genetic investigation. Curr Opin Endocrinol Diabetes Obes. 2009 Feb;16(1):16-24. Review. PubMed PMID: 19104234.


Ganis JJ, Hsia N, Trompouki E, de Jong JL, DiBiase A, Lambert JS, Jia Z, Sabo PJ, Weaver M, Sandstrom R, Stamatoyannopoulos JA, Zhou Y, Zon LI. Zebrafish globin switching occurs in two developmental stages and is controlled by the LCR. Dev Biol. 2012 Jun 15;366(2):185-94. Epub 2012 Apr 19. PubMed PMID: 22537494; PubMed Central PMCID: PMC3378398.  read article


Goldman JA, Garlick JD, Kingston RE. Chromatin remodeling by imitation switch (ISWI) class ATP-dependent remodelers is stimulated by histone variant H2A.Z. J Biol Chem. 2010 Feb 12;285(7):4645-51. Epub 2009 Nov 25. PubMed PMID: 19940112; PubMed Central PMCID: PMC2836070.


Tolstorukov MY, Kharchenko PV, Goldman JA, Kingston RE, Park PJ. Comparative analysis of H2A.Z nucleosome organization in the human and yeast genomes. Genome Res. 2009 Jun;19(6):967-77. Epub 2009 Feb 26. PubMed PMID: 19246569; PubMed Central PMCID: PMC2694475.


Schafer ZT, Grassian AR, Song L, Jiang Z, Gerhart-Hines Z, Irie HY, Gao S, Puigserver P, Brugge JS. Antioxidant and oncogene rescue of metabolic defects caused by loss of matrix attachment. Nature. 2009 Sep 3;461(7260):109-13. Epub 2009 Aug 19. PubMed PMID: 19693011; PubMed Central PMCID: PMC2931797.


Hall JA, Bianco AC. Triumphs of the thyroid despite lesser conversion. Endocrinology. 2009 Jun;150(6):2502-4. doi: 10.1210/en.2009-0347. PMID: 19458245


Ichida JK, Blanchard J, Lam K, Son EY, Chung JE, Egli D, Loh KM, Carter AC, Di Giorgio FP, Koszka K, Huangfu D, Akutsu H, Liu DR, Rubin LL, Eggan K. A small-molecule inhibitor of tgf-Beta signaling replaces sox2 in reprogramming by inducing nanog. Cell Stem Cell. 2009 Nov 6;5(5):491-503. Epub 2009 Oct 8. PubMed PMID: 19818703.


Schweitzer MH, Zheng W, Organ CL, Avci R, Suo Z, Freimark LM, Lebleu VS, Duncan MB, Vander Heiden MG, Neveu JM, Lane WS, Cottrell JS, Horner JR, Cantley LC, Kalluri R, Asara JM. Biomolecular characterization and protein sequences of the Campanian hadrosaur B. canadensis. Science. 2009 May 1;324(5927):626-31. PubMed PMID: 19407199.


Tzur A, Kafri R, LeBleu VS, Lahav G, Kirschner MW. Cell growth and size homeostasis in proliferating animal cells. Science. 2009 Jul 10;325(5937):167-71. PubMed PMID: 19589995; PubMed Central PMCID: PMC2905160.


Shen X, Kim W, Fujiwara Y, Simon MD, Liu Y, Mysliwiec MR, Yuan GC, Lee Y, Orkin SH. Jumonji modulates polycomb activity and self-renewal versus differentiation of stem cells. Cell. 2009 Dec 24;139(7):1303-14. PubMed PMID: 20064376; PubMed Central PMCID: PMC2810107.


Dominy JE Jr, Lee Y, Gerhart-Hines Z, Puigserver P. Nutrient-dependent regulation of PGC-1alpha's acetylation state and metabolic function through the enzymatic activities of Sirt1/GCN5. Biochim Biophys Acta. 2009 Dec 11. [Epub ahead of print] PubMed PMID: 20005308.


Chien K, Cai T, Hsu H, Su T, Chang W, Chen M, Lee Y, Hu FB. A prediction model for type 2 diabetes risk among Chinese people. Diabetologia. 2009 Mar;52(3):443-50. Epub 2008 Dec 5. PubMed PMID: 19057891.


Johnson A, Li G, Sikorski TW, Buratowski S, Woodcock CL, Moazed D*. Reconstitution of heterochromatin-dependent transcriptional gene silencing. Mol Cell. 2009 Sep 24;35(6):769-81. PubMed PMID: 19782027; PubMed Central PMCID: PMC2842978.


Naylor ML, Li JM, Osborn AJ, Elledge SJ. Mrc1 phosphorylation in response to DNA replication stress is required for Mec1 accumulation at the stalled fork. Proc Natl Acad Sci USA. 2009 Aug 4;106(31):12765-70. Epub 2009 Jun 10. PubMed PMID: 19515819; PubMed Central PMCID: PMC2722297.


Naylor ML, Li JM, Osborn AJ, Elledge SJ. Mrc1 phosphorylation in response to DNA replication stress is required for Mec1 accumulation at the stalled fork. Proc Natl Acad Sci USA. 2009 Aug 4;106(31):12765-70. Epub 2009 Jun 10. PubMed PMID: 19515819; PubMed Central PMCID: PMC2722297.


Burns CE, Galloway JL, Smith AC, Keefe MD, Cashman TJ, Paik EJ, Mayhall EA, Amsterdam AH, Zon LI. A genetic screen in zebrafish defines a hierarchical network of pathways required for hematopoietic stem cell emergence. Blood. 2009 Jun 4;113(23):5776-82. Epub 2009 Mar 30. PubMed PMID: 19332767; PubMed Central PMCID: PMC2700318.


Hagan JP, Piskounova E, Gregory RI. Lin28 recruits the TUTase Zcchc11 to inhibit let-7 maturation in mouse embryonic stem cells. Nat Struct Mol Biol. 2009 Oct;16(10):1021-5. Epub 2009 Aug 27. PubMed PMID: 19713958; PubMed Central PMCID: PMC2758923.


Raiser DM, Kim CF. Commentary: Sca-1 and Cells of the Lung: A matter of Different Sorts. Stem Cells. 2009 Mar;27(3):606-11. doi: 10.1002/stem.10. PMID: 19259938 PMCID: PMC3408081 read article


Rosen JN, Sweeney MF, Mably JD. Microinjection of zebrafish embryos to analyze gene function. J Vis Exp. 2009 Mar 9;(25). pii: 1115. doi: 10.3791/1115. PubMed PMID: 19274045.


Luo J, Emanuele MJ, Li D, Creighton CJ, Schlabach MR, Westbrook TF, Wong KK, Elledge SJ. A genome-wide RNAi screen identifies multiple synthetic lethal interactions with the Ras oncogene. Cell. 2009 May 29;137(5):835-48. PubMed PMID: 19490893; PubMed Central PMCID: PMC2768667.


Xu Q, Schlabach MR, Hannon GJ, Elledge SJ. Design of 240,000 orthogonal 25mer DNA barcode probes. Proc Natl Acad Sci U S A. 2009 Feb 17;106(7):2289-94. Epub 2009 Jan 26. PubMed PMID: 19171886; PubMed Central PMCID: PMC2631075.


Schneiderman JI, Sakai A, Goldstein S, Ahmad K*. The XNP remodeler targets dynamic chromatin in Drosophila. Proc Natl Acad Sci U S A. 2009 Aug 25;106(34):14472-7. Epub 2009 Aug 11. PubMed PMID: 19706533; PubMed Central PMCID: PMC2725014.


McNaughton BR, Cronican JJ, Thompson DB, Liu DR. Mammalian cell penetration, siRNA transfection, and DNA transfection by supercharged proteins. Proc Natl Acad Sci U S A. 2009 Apr 14;106(15):6111-6. doi: 10.1073/pnas.0807883106. Epub 2009 Mar 23. PMID: 19307578 PMCID: PMC2659711 read article


Zhang X, Rice K, Wang Y, Chen W, Zhong Y, Nakayama Y, Zhou Y, Klibanski A. Maternally expressed gene 3 (MEG3) noncoding ribonucleic acid: isoform structure, expression, and functions. Endocrinology. 2010 Mar;151(3):939-47. doi: 10.1210/en.2009-0657. Epub 2009 Dec 23. PMID: 20032057 PMCID: PMC2840681 read article


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2008


Brown KM, Landry CR, Hartl DL, Cavalieri D. Cascading transcriptional effects of a naturally occurring frameshift mutation in Saccharomyces cerevisiae. Mol Ecol. 2008 Jun;17(12):2985-97. Epub 2008 Apr 18. PubMed PMID: 18422925.


Hett EC, Chao MC, Deng LL, Rubin EJ. A mycobacterial enzyme essential for cell division synergizes with resuscitation-promoting factor. PLoS Pathog. 2008 Feb 29;4(2):e1000001. PubMed PMID: 18463693; PubMed Central PMCID: PMC2262848.


Young-Pearse TL, Chen AC, Chang R, Marquez C, Selkoe DJ. Secreted APP regulates the function of full-length APP in neurite outgrowth through interaction with integrin beta1. Neural Dev. 2008 Jun 23;3:15. PubMed PMID: 18573216; PubMed Central PMCID: PMC2442059.


Cheung V, Chua G, Batada NN, Landry CR, Michnick SW, Hughes TR, Winston F. Chromatin- and transcription-related factors repress transcription from within coding regions throughout the Saccharomyces cerevisiae genome. PLoS Biol. 2008 Nov 11;6(11):e277. PubMed PMID: 18998772; PubMed Central PMCID: PMC2581627.


Chiang CW, Derti A, Schwartz D, Chou MF, Hirschhorn JN, Wu CT. Ultraconserved elements: analyses of dosage sensitivity, motifs and boundaries. Genetics. 2008 Dec;180(4):2277-93. Epub 2008 Oct 28. PubMed PMID: 18957701; PubMed Central PMCID: PMC2600958.


Keating BJ, Tischfield S, Murray SS, Bhangale T, Price TS, Glessner JT, Galver L, Barrett JC, Grant SF, Farlow DN, Chandrupatla HR, Hansen M, Ajmal S, Papanicolaou GJ, Guo Y, Li M, Derohannessian S, de Bakker PI, Bailey SD, Montpetit A, Edmondson AC, Taylor K, Gai X, Wang SS, Fornage M, Shaikh T, Groop L, Boehnke M, Hall AS, Hattersley AT, Frackelton E, Patterson N, Chiang CW, Kim CE, Fabsitz RR, Ouwehand W, Price AL, Munroe P, Caulfield M, Drake T, Boerwinkle E, Reich D, Whitehead AS, Cappola TP, Samani NJ, Lusis AJ, Schadt E, Wilson JG, Koenig W, McCarthy MI, Kathiresan S, Gabriel SB, Hakonarson H, Anand SS, Reilly M, Engert JC, Nickerson DA, Rader DJ, Hirschhorn JN, Fitzgerald GA. Concept, design and implementation of a cardiovascular gene-centric 50 k SNP array for large-scale genomic association studies. PLoS One. 2008;3(10):e3583. Epub 2008 Oct 31. PubMed PMID: 18974833; PubMed Central PMCID: PMC2571995.


Cutler C, Stevenson K, Kim HT, Richardson P, Ho VT, Linden E, Revta C, Ebert R, Warren D, Choi S, Koreth J, Armand P, Alyea E, Carter S, Horowitz M, Antin JH, Soiffer R. Sirolimus is associated with veno-occlusive disease of the liver after myeloablative allogeneic stem cell transplantation. Blood. 2008 Dec 1;112(12):4425-31. Epub 2008 Sep 5. PubMed PMID: 18776081; PubMed Central PMCID: PMC2597119.


Mitnick CD, Shin SS, Seung KJ, Rich ML, Atwood SS, Furin JJ, Fitzmaurice GM, Alcantara Viru FA, Appleton SC, Bayona JN, Bonilla CA, Chalco K, Choi S, Franke MF, Fraser HS, Guerra D, Hurtado RM, Jazayeri D, Joseph K, Llaro K, Mestanza L, Mukherjee JS, Muñoz M, Palacios E, Sanchez E, Sloutsky A, Becerra MC. Comprehensive treatment of extensively drug-resistant tuberculosis. N Engl J Med. 2008 Aug 7;359(6):563-74. PubMed PMID: 18687637; PubMed Central PMCID: PMC2673722.


Liu M, Choi S, Cuny GD, Ding K, Dobson BC, Glicksman MA, Auerbach K, Stein RL. Kinetic studies of Cdk5/p25 kinase: phosphorylation of tau and complex inhibition by two prototype inhibitors. Biochemistry. 2008 Aug 12;47(32):8367-77. Epub 2008 Jul 18. PubMed PMID: 18636751.


Chiang CW, Derti A, Schwartz D, Chou MF, Hirschhorn JN, Wu CT. Ultraconserved elements: analyses of dosage sensitivity, motifs and boundaries. Genetics. 2008 Dec;180(4):2277-93. Epub 2008 Oct 28. PubMed PMID: 18957701; PubMed Central PMCID: PMC2600958.


Raiser DM, Zacharek SJ, Roach RR, Curtis SJ, Sinkevicius KW, Gludish DW, Kim CF. Stem cell biology in the lung and lung cancers: using pulmonary context and classic approaches. Cold Spring Harb Symp Quant Biol. 2008;73:479-90. Epub 2008 Nov 21. Review. PubMed PMID: 19028984.


Dutton RJ, Boyd D, Berkmen M, Beckwith J. Bacterial species exhibit diversity in their mechanisms and capacity for protein disulfide bond formation. Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11933-8. Epub 2008 Aug 11. PubMed PMID: 18695247; PubMed Central PMCID: PMC2575290.


Zhao J, Sun BK, Erwin JA, Song JJ, Lee JT. Polycomb proteins targeted by a short repeat RNA to the mouse X chromosome. Science. 2008 Oct 31;322(5902):750-6. PubMed PMID: 18974356; PubMed Central PMCID: PMC2748911.


Erwin JA, Lee JT. New twists in X-chromosome inactivation. Curr Opin Cell Biol. 2008 Jun;20(3):349-55. Epub 2008 May 26. Review. PubMed PMID: 18508252; PubMed Central PMCID: PMC2491718.


Gabel HW, Ruvkun G. The exonuclease ERI-1 has a conserved dual role in 5.8S rRNA processing and RNAi. Nat Struct Mol Biol. 2008 May;15(5):531-3. Epub 2008 Apr 27. PubMed PMID: 18438419.


Pierce ML, Weston MD, Fritzsch B, Gabel HW, Ruvkun G, Soukup GA. MicroRNA-183 family conservation and ciliated neurosensory organ expression. Evol Dev. 2008 Jan-Feb;10(1):106-13. PubMed PMID: 18184361; PubMed Central PMCID: PMC2637451.


Gajdos ZK, Butler JL, Henderson KD, He C, Supelak PJ, Egyud M, Price A, Reich D, Clayton PE, Le Marchand L, Hunter DJ, Henderson BE, Palmert MR, Hirschhorn JN Association studies of common variants in 10 hypogonadotropic hypogonadism genes with age at menarche. J Clin Endocrinol Metab. 2008 Nov;93(11):4290-8. Epub 2008 Aug 26. PubMed PMID: 18728166; PubMed Central PMCID: PMC2582573.


Sullivan S, Ichida JK, Umezawa A, Akutsu H. Elucidating nuclear reprogramming mechanisms: taking a synergistic approach. Reprod Biomed Online. 2008 Jan;16(1):41-50. Review. PubMed PMID: 18252046.


LeBleu VS, Kalluri R. Stem cell-based therapy for glomerular diseases: an evolving concept. J Am Soc Nephrol. 2008 Sep;19(9):1621-3. Epub 2008 Aug 13. PubMed PMID: 18701605.


Lebleu VS, Sugimoto H, Miller CA, Gattone VH 2nd, Kalluri R. Lymphocytes are dispensable for glomerulonephritis but required for renal interstitial fibrosis in matrix defect-induced Alport renal disease. Lab Invest. 2008 Mar;88(3):284-92. Epub 2008 Jan 7. PubMed PMID: 18180701.


Buchberger JR, Onishi M, Li G, Seebacher J, Rudner AD, Gygi SP, Moazed D*. Sir3-nucleosome interactions in spreading of silent chromatin in Saccharomyces cerevisiae. Mol Cell Biol. 2008 Nov;28(22):6903-18. Epub 2008 Sep 15. PubMed PMID: 18794362; PubMed Central PMCID: PMC2573294.


Li JM, Tetzlaff MT, Elledge SJ. Identification of MSA1, a cell cycle-regulated, dosage suppressor of drc1/sld2 and dpb11 mutants. Cell Cycle. 2008 Nov 1;7(21):3388-98. Epub 2008 Nov 5. PubMed PMID: 18948746.


Li JM. Pain management in the hospitalized patient. Med Clin North Am. 2008 Mar;92(2):371-85, ix. Review. PubMed PMID: 18298984.


Denoux C, Galletti R, Mammarella N, Gopalan S, Werck D, De Lorenzo G, Ferrari S, Ausubel FM, Dewdney J. Activation of defense response pathways by OGs and Flg22 elicitors in Arabidopsis seedlings. Mol Plant. 2008 May;1(3):423-45. Epub 2008 May 22. Review. Erratum in: Mol Plant. 2009 Jul;2(4):838. PubMed PMID: 19825551.


McEwen JM, Kaplan JM. UNC-18 promotes both the anterograde trafficking and synaptic function of syntaxin. Mol Biol Cell. 2008 Sep;19(9):3836-46. Epub 2008 Jul 2. PubMed PMID: 18596236; PubMed Central PMCID: PMC2526711.


Chun DK, McEwen JM, Burbea M, Kaplan JM. UNC-108/Rab2 regulates postendocytic trafficking in Caenorhabditis elegans. Mol Biol Cell. 2008 Jul;19(7):2682-95. Epub 2008 Apr 23. PubMed PMID: 18434599; PubMed Central PMCID: PMC2441656.


Perlis RH, Moorjani P, Fagerness J, Purcell S, Trivedi MH, Fava M, Rush AJ, Smoller JW. Pharmacogenetic analysis of genes implicated in rodent models of antidepressant response: association of TREK1 and treatment resistance in the STAR(*)D study. Neuropsychopharmacology. 2008 Nov;33(12):2810-9. Epub 2008 Feb 20. PubMed PMID: 18288090.


Naxerova K, Bult CJ, Peaston A, Fancher K, Knowles BB, Kasif S, Kohane IS. Analysis of gene expression in a developmental context emphasizes distinct biological leitmotifs in human cancers. Genome Biol. 2008;9(7):R108. Epub 2008 Jul 8. PubMed PMID: 18611264; PubMed Central PMCID: PMC2530866.


Lan F, Nottke AC, Shi Y. Mechanisms involved in the regulation of histone lysine demethylases. Curr Opin Cell Biol. 2008 Jun;20(3):316-25. Epub 2008 Apr 25. Review. PubMed PMID: 18440794; PubMed Central PMCID: PMC2674377.


Piskounova E, Viswanathan SR, Janas M, LaPierre RJ, Daley GQ, Sliz P, Gregory RI. Determinants of microRNA processing inhibition by the developmentally regulated RNA-binding protein Lin28. J Biol Chem. 2008 Aug 1;283(31):21310-4. Epub 2008 Jun 12. PubMed PMID: 18550544.


Raiser DM, Zacharek SJ, Roach RR, Curtis SJ, Sinkevicius KW, Gludish DW, Kim CF. Stem cell biology in the lung and lung cancers: using pulmonary context and classic approaches. Cold Spring Harb Symp Quant Biol. 2008;73:479-90. doi: 10.1101/sqb.2008.73.036. Epub 2008 Nov 21. PMID: 19028984


Ramirez CL, Foley JE, Wright DA, Müller-Lerch F, Rahman SH, Cornu TI, Winfrey RJ, Sander JD, Fu F, Townsend JA, Cathomen T, Voytas DF, Joung JK. Unexpected failure rates for modular assembly of engineered zinc fingers. Nat Methods. 2008 May;5(5):374-5. Erratum in: Nat Methods. 2008 Jun;5(6):575. PubMed PMID: 18446154.


Zhou B, von Gise A, Ma Q, Rivera-Feliciano J, Pu WT. Nkx2-5- and Isl1-expressing cardiac progenitors contribute to proepicardium. Biochem Biophys Res Commun. 2008 Oct 24;375(3):450-3. PMC2610421.


Zhou B, Ma Q, Rajagopal S, Wu SM, Domian I, Rivera-Feliciano J, Jiang D, von Gise A, Ikeda S, Chien KR, Pu WT. Epicardial progenitors contribute to the cardiomyocyte lineage in the developing heart. Nature. 2008 Jul 3;454(7200):109-13. PMC2574791


Patel V, Booker M, Kramer M, Ross L, Celatka CA, Kennedy LM, Dvorin JD, Duraisingh MT, Sliz P, Wirth DF, Clardy J. Identification and characterization of small molecule inhibitors of Plasmodium falciparum dihydroorotate dehydrogenase. J Biol Chem. 2008 Dec 12;283(50):35078-85. Epub 2008 Oct 8. PubMed PMID: 18842591; PubMed Central PMCID: PMC2596402.


Schlabach MR, Luo J, Solimini NL, Hu G, Xu Q, Li MZ, Zhao Z, Smogorzewska A, Sowa ME, Ang XL, Westbrook TF, Liang AC, Chang K, Hackett JA, Harper JW, Hannon GJ, Elledge SJ. Cancer proliferation gene discovery through functional genomics. Science. 2008 Feb 1;319(5863):620-4. Erratum in: Science.2008 Apr 18;320(5874):316. PubMed PMID: 18239126.


Sural TH, Peng S, Li B, Workman JL, Park PJ, Kuroda MI. The MSL3 chromodomain directs a key targeting step for dosage compensation of the Drosophila melanogaster X chromosome. Nat Struct Mol Biol. 2008 Dec;15(12):1318-25. Epub 2008 Nov 23. PubMed PMID: 19029895; PubMed Central PMCID: PMC2636508.


Vashlishan AB, Madison JM, Dybbs M, Bai J, Sieburth D, Ch'ng Q, Tavazoie M, Kaplan JM. An RNAi screen identifies genes that regulate GABA synapses. Neuron. 2008 May 8;58(3):346-61. PubMed PMID: 18466746.


Alekseyenko AA, Peng S, Larschan E, Gorchakov AA, Lee OK, Kharchenko P, McGrath SD, Wang CI, Mardis ER, Park PJ, Kuroda MI. A sequence motif within chromatin entry sites directs MSL establishment on the Drosophila X chromosome. Cell. 2008 Aug 22;134(4):599-609. PubMed PMID: 18724933; PubMed Central PMCID: PMC2613042.


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2007


Kiel DP, Magaziner J, Zimmerman S, Ball L, Barton BA, Brown KM, Stone JP, Dewkett D, Birge SJ. Efficacy of a hip protector to prevent hip fracture in nursing home residents: the HIP PRO randomized controlled trial. JAMA. 2007 Jul 25;298(4):413-22. PubMed PMID: 17652295.


Colmenares SU, Buker SM, Buhler M, Dlakić M, Moazed D. Coupling of double-stranded RNA synthesis and siRNA generation in fission yeast RNAi. Mol Cell. 2007 Aug 3;27(3):449-61. Epub 2007 Jul 19. PubMed PMID: 17658285.


Buker SM, Iida T, Bühler M, Villén J, Gygi SP, Nakayama J, Moazed D. Two different Argonaute complexes are required for siRNA generation and heterochromatin assembly in fission yeast. Nat Struct Mol Biol. 2007 Mar;14(3):200-7. Epub 2007 Feb 25. PubMed PMID: 17310250.


Hett EC, Chao MC, Steyn AJ, Fortune SM, Deng LL, Rubin EJ. A partner for the resuscitation-promoting factors of Mycobacterium tuberculosis. Mol Microbiol. 2007 Nov;66(3):658-68. Epub 2007 Oct 4. PubMed PMID: 17919286.


Chen AC, Selkoe DJ. Response to: Pardossi-Piquard et al., "Presenilin-Dependent Transcriptional Control of the Abeta-Degrading Enzyme Neprilysin by Intracellular Domains of betaAPP and APLP." Neuron 46, 541-554. Neuron. 2007 Feb 15;53(4):479-83. PubMed PMID: 17296549.


Yang H, Baur JA, Chen A, Miller C, Adams JK, Kisielewski A, Howitz KT, Zipkin RE, Sinclair DA. Design and synthesis of compounds that extend yeast replicative lifespan. Aging Cell. 2007 Feb;6(1):35-43. Epub 2006 Dec 5. Erratum in: Aging Cell. 2007 Aug;6(4):593. Adams, Jeffrey K [added]; Kisielewski, Anne [added]; Howitz, Konrad T [added]; Zipkin, Robert E [added]. PubMed PMID: 17156081.


Colmenares SU, Buker SM, Buhler M, Dlakić M, Moazed D. Coupling of double-stranded RNA synthesis and siRNA generation in fission yeast RNAi. Mol Cell. 2007 Aug 3;27(3):449-61. Epub 2007 Jul 19. PubMed PMID: 17658285.


Newton IL, Woyke T, Auchtung TA, Dilly GF, Dutton RJ, Fisher MC, Fontanez KM, Lau E, Stewart FJ, Richardson PM, Barry KW, Saunders E, Detter JC, Wu D, Eisen JA, Cavanaugh CM. The Calyptogena magnifica chemoautotrophic symbiont genome.Science. 2007 Feb 16;315(5814):998-1000. PubMed PMID: 17303757.


Cohen DE, Davidow LS, Erwin JA, Xu N, Warshawsky D, Lee JT. The DXPas34 repeat regulates random and imprinted X inactivation. Dev Cell. 2007 Jan;12(1):57-71. PubMed PMID: 17199041.


Dapprich J, Witter K, Gabel HW, Murphy NB, Albert ED. Identification of a new HLA-B allele (B*1576) by haplotype specific extraction. Hum Immunol. 2007 May;68(5):418-21. Epub 2007 Feb 15. PubMed PMID: 17462508; PubMed Central PMCID: PMC1945813.


Zhang Z, Fan HY, Goldman JA, Kingston RE. Homology-driven chromatin remodeling by human RAD54. Nat Struct Mol Biol. 2007 May;14(5):397-405. Epub 2007 Apr 8. PubMed PMID: 17417655.


Kanasaki K, Kanda Y, Palmsten K, Tanjore H, Lee SB, Lebleu VS, Gattone VH Jr, Kalluri R. Integrin beta1-mediated matrix assembly and signaling are critical for the normal development and function of the kidney glomerulus. Dev Biol. 2008 Jan 15;313(2):584-93. Epub 2007 Nov 12. PubMed PMID: 18082680.


LeBleu VS, Macdonald B, Kalluri R. Structure and function of basement membranes. Exp Biol Med (Maywood). 2007 Oct;232(9):1121-9. Review. PubMed PMID: 17895520.


Sugimoto H, Yang C, LeBleu VS, Soubasakos MA, Giraldo M, Zeisberg M, Kalluri R. BMP-7 functions as a novel hormone to facilitate liver regeneration. FASEB J. 2007 Jan;21(1):256-64. Epub 2006 Nov 20. PubMed PMID: 17116741.


Salahuddin S, Lee Y, Vadnais M, Sachs BP, Karumanchi SA, Lim KH. Diagnostic utility of soluble fms-like tyrosine kinase 1 and soluble endoglin in hypertensive diseases of pregnancy. Am J Obstet Gynecol. 2007 Jul;197(1):28.e1-6. PubMed PMID: 17618745.


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2006


Moazed D, Bühler M, Buker SM, Colmenares SU, Gerace EL, Gerber SA, Hong EJ, Motamedi MR, Verdel A, Villén J, Gygi SP. Studies on the mechanism of RNAi-dependent heterochromatin assembly. Cold Spring Harb Symp Quant Biol. 2006;71:461-71. Review. PubMed PMID: 17381328.


Moazed D, Bühler M, Buker SM, Colmenares SU, Gerace EL, Gerber SA, Hong EJ, Motamedi MR, Verdel A, Villén J, Gygi SP. Studies on the mechanism of RNAi-dependent heterochromatin assembly. Cold Spring Harb Symp Quant Biol. 2006;71:461-71. Review. PubMed PMID: 17381328.


Moazed D, Bühler M, Buker SM, Colmenares SU, Gerace EL, Gerber SA, Hong EJ, Motamedi MR, Verdel A, Villén J, Gygi SP. Studies on the mechanism of RNAi-dependent heterochromatin assembly. Cold Spring Harb Symp Quant Biol. 2006;71:461-71. Review. PubMed PMID: 17381328.


James RG, Kamei CN, Wang Q, Jiang R, Schultheiss TM. Odd-skipped related 1 is required for development of the metanephric kidney and regulates formation and differentiation of kidney precursor cells. Development. 2006 Aug;133(15):2995-3004. Epub 2006 Jun 21. PubMed PMID: 16790474.


Lee AM, Wu CT. Enhancer-promoter communication at the yellow gene of Drosophila melanogaster: diverse promoters participate in and regulate trans interactions. Genetics. 2006 Dec;174(4):1867-80. Epub 2006 Oct 22. PubMed PMID: 17057235; PubMed Central PMCID: PMC1698615.


Bateman JR, Lee AM, Wu CT. Site-specific transformation of Drosophila via phiC31 integrase-mediated cassette exchange. Genetics. 2006 Jun;173(2):769-77. Epub 2006 Mar 17. PubMed PMID: 16547094; PubMed Central PMCID: PMC1526508.


Rivera-Feliciano J, Lee KH, Kong SW, Rajagopal S, Ma Q, Springer Z, Izumo S, Tabin CJ, Pu WT. Development of heart valves requires Gata4 expression in endothelial-derived cells. Development. 2006 Sep;133(18):3607-18. PMC2735081.


Rivera-Feliciano J, Tabin CJ*. Bmp2 instructs cardiac progenitors to form the heart-valve-inducing field. Dev Biol. 2006. Jul 15;295(2):580-8. PMC2680002.


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2005


Wang D, Kennedy S, Conte D Jr, Kim JK, Gabel HW, Kamath RS, Mello CC, Ruvkun G. Somatic misexpression of germline P granules and enhanced RNA interference in retinoblastoma pathway mutants. Nature. 2005 Jul 28;436(7050):593-7. PubMed PMID: 16049496.


Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G. Functional genomic analysis of RNA interference in C. elegans. Science. 2005 May 20;308(5725):1164-7. Epub 2005 Mar 24. PubMed PMID: 15790806.


Hong EJ, Villén J, Gerace EL, Gygi SP, Moazed D. A cullin E3 ubiquitin ligase complex associates with Rik1 and the Clr4 histone H3-K9 methyltransferase and is required for RNAi-mediated heterochromatin formation. RNA Biol. 2005 Jul-Sep;2(3):106-11. Epub 2005 Jul 30. PubMed PMID: 17114925.


Ichida JK, Horhota A, Zou K, McLaughlin LW, Szostak JW. High fidelity TNA synthesis by Therminator polymerase. Nucleic Acids Res. 2005 Sep 12;33(16):5219-25. Print 2005. PubMed PMID: 16157867; PubMed Central PMCID: PMC1214552.


Ichida JK, Zou K, Horhota A, Yu B, McLaughlin LW, Szostak JW. An in vitro selection system for TNA. J Am Chem Soc. 2005 Mar 9;127(9):2802-3. PubMed PMID: 15740086.


Sakata Y, Koibuchi N, Xiang F, Youngblood JM, Kamei CN, Chin MT. The spectrum of cardiovascular anomalies in CHF1/Hey2 deficient mice reveals roles in endocardial cushion, myocardial and vascular maturation. J Mol Cell Cardiol. 2006 Feb;40(2):267-73. Epub 2005 Oct 19. PubMed PMID: 16242143.


Weingart SN, Pagovich O, Sands DZ, Li JM, Aronson MD, Davis RB, Phillips RS, Bates DW. Patient-reported service quality on a medicine unit. Int J Qual Health Care. 2006 Apr;18(2):95-101. Epub 2005 Nov 10. PubMed PMID: 16282334.


Weingart SN, Pagovich O, Sands DZ, Li JM, Aronson MD, Davis RB, Bates DW, Phillips RS. What can hospitalized patients tell us about adverse events? Learning from patient-reported incidents. J Gen Intern Med. 2005 Sep;20(9):830-6. PubMed PMID: 16117751; PubMed Central PMCID: PMC1490203.


Li JM, Li Y, Elledge SJ. Genetic analysis of the kinetochore DASH complex reveals an antagonistic relationship with the ras/protein kinase A pathway and a novel subunit required for Ask1 association. Mol Cell Biol. 2005 Jan;25(2):767-78. PubMed PMID: 15632076; PubMed Central PMCID: PMC543429.


Westbrook TF, Martin ES, Schlabach MR, Leng Y, Liang AC, Feng B, Zhao JJ, Roberts TM, Mandel G, Hannon GJ, Depinho RA, Chin L, Elledge SJ. A genetic screen for candidate tumor suppressors identifies REST. Cell. 2005 Jun 17;121(6):837-48. PubMed PMID: 15960972.


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2004


Chen J, Wall NR, Kocher K, Duclos N, Fabbro D, Neuberg D, Griffin JD, Shi Y, Gilliland DG. Stable expression of small interfering RNA sensitizes TEL-PDGFbetaR to inhibition with imatinib or rapamycin. J Clin Invest. 2004 Jun;113(12):1784-91. PubMed PMID: 15199413; PubMed Central PMCID: PMC420507.


Hamar P, Song E, Kokeny G, Chen A, Ouyang N, Lieberman J. Small interfering RNA targeting Fas protects mice against renal ischemia-reperfusion injury. Proc Natl Acad Sci U S A. 2004 Oct 12;101(41):14883-8.


Takahashi TS, Yiu P, Chou MF, Gygi S, Walter JC. Recruitment of Xenopus Scc2 and cohesin to chromatin requires the pre-replication complex. Nat Cell Biol. 2004 Oct;6(10):991-6. Epub 2004 Sep 26. PubMed PMID: 15448702.


Motamedi MR, Verdel A, Colmenares SU, Gerber SA, Gygi SP, Moazed D*. Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell. 2004 Dec 17;119(6):789-802. PubMed PMID: 15607976.


Li S, Armstrong CM, Bertin N, Ge H, Milstein S, Boxem M, Vidalain PO, Han JD, Chesneau A, Hao T, Goldberg DS, Li N, Martinez M, Rual JF, Lamesch P, Xu L, Tewari M, Wong SL, Zhang LV, Berriz GF, Jacotot L, Vaglio P, Reboul J, Hirozane-Kishikawa T, Li Q, Gabel HW, Elewa A, Baumgartner B, Rose DJ, Yu H, Bosak S, Sequerra R, Fraser A, Mango SE, Saxton WM, Strome S, Van Den Heuvel S, Piano F, Vandenhaute J, Sardet C, Gerstein M, Doucette-Stamm L, Gunsalus KC, Harper JW, Cusick ME, Roth FP, Hill DE, Vidal M. A map of the interactome network of the metazoan C. elegans. Science. 2004 Jan 23;303(5657):540-3. Epub 2004 Jan 2. PubMed PMID: 14704431; PubMed Central PMCID: PMC1698949.


Sakata Y, Xiang F, Chen Z, Kiriyama Y, Kamei CN, Simon DI, Chin MT. Transcription factor CHF1/Hey2 regulates neointimal formation in vivo and vascular smooth muscle proliferation and migration in vitro. Arterioscler Thromb Vasc Biol. 2004 Nov;24(11):2069-74. Epub 2004 Sep 2. PubMed PMID: 15345511.


Morris JR, Petrov DA, Lee AM, Wu CT. Enhancer choice in cis and in trans in Drosophila melanogaster: role of the promoter. Genetics. 2004 Aug;167(4):1739-47. PubMed PMID: 15342512; PubMed Central PMCID: PMC1471007.


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2003


Cruz JC, Tseng HC, Goldman JA, Shih H, Tsai LH. Aberrant Cdk5 activation by p25 triggers pathological events leading to neurodegeneration and neurofibrillary tangles. Neuron. 2003 Oct 30;40(3):471-83. PubMed PMID: 14642273.


Chaput JC, Ichida JK, Szostak JW. DNA polymerase-mediated DNA synthesis on a TNA template. J Am Chem Soc. 2003 Jan 29;125(4):856-7. PubMed PMID: 12537469.


Thayer SP, di Magliano MP, Heiser PW, Nielsen CM, Roberts DJ, Lauwers GY, Qi YP, Gysin S, Fernández-del Castillo C, Yajnik V, Antoniu B, McMahon M, Warshaw AL, Hebrok M. Hedgehog is an early and late mediator of pancreatic cancer tumorigenesis. Nature. 2003 Oct 23;425(6960):851-6. Epub 2003 Sep 14. PubMed PMID: 14520413.


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Student Body

2013-2014 Enrollment


 

Total Enrollment: 349

Average Size of Incoming Class: 60

Average Time to Degree:

Ph.D. Students: 6.06 years

M.D./Ph.D. Students: 4.56 years

 

Women: 185 (53%)

Men: 164 (47%)

 

Underrepresented Minority: 25 (7%)

 

Domestic: 264 (76%)

International: 85 (24%)

 

PhD: 318 (91%)

MD-PhD: 31 (9%)


© 2013 by the President and Fellows of Harvard College