ABCDEFGHJLMNPQSTUVZAAABACADAEAFAG
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Article InformationReplication Progress
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Recent UpdatesStudy NumberTitleAuthorsCorresponding Author(s) EmailOriginal authors contactedPapers coded against review checklistsPhase 1: Identify key experimentsLink to coded spreadsheetPhase 2: Write protocols for key experimentsPhase 3: Move to Registered Report formatPhase 4: Request information from corresponding author(s)Calculate necessary sample sizesPhase 5: Match experiments with Science Exchange labsPhase 6: Registered Report undergoes peer review at eLife Registered Report accepted at eLifeExperimental protocols registered on OSFPhase 7: Replication studies beginPhase 8: Replication studies completedPhase 9: Reproducibility (analysis) of replication experiments determined (listed as same as submission date)Replication results deposited in OSF (listed as same as submission date because it's ongoing from start of project)Phase 10: Replication studies submitted to eLifeReplication studies published in eLife (OSF results made public)
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Experimental work complete1A coding-independent function of gene and pseudogene mRNAs regulates tumour biologyPoliseno L., Salmena L., Zhang J., Carver B., Haveman W.J., Pandolfi P.P.ppandolf@bidmc.harvard.edu10/29/201311/7/201310/15/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidGN3eWlIc0w4MmxDSk5KT2tNbmhiYVE&usp=drive_web#gid=010/15/2013EIEG/TE10/14/201412/23/201412/20/20134/21/20158/8/20158/17/20159/2/2015
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Experimental work complete2A Chromatin-Mediated Reversible Drug-Tolerant State in Cancer Cell SubpopulationsJSharma S.V., Lee D.Y., Li B., Quinlan M.P., Takahashi F., Maheswaran S., McDermott U., Azizian N., Zou L., Fischbach M.A., Wong K.-K., Brandstetter K., Wittner B., Ramaswamy S., Classon M., Settleman J.classon@helix.mgh.harvard.edu; settleman.jeffrey@gene.com10/29/20133/7/201411/25/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidDVnZEpLZW5EUHlxeDB5UEYxSm5XaXc&usp=drive_web#gid=02/18/2014NVEG/JL/TE10/8/20141/9/20152/27/20156/15/201510/29/201512/30/20151/14/2016
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred3Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasisGupta R.A., Shah N., Wang K.C., Kim J., Horlings H.M., Wong D.J., Tsai M.-C., Hung T., Argani P., Rinn J.L., Wang Y., Brzoska P., Kong B., Li R., West R.B., Van De Vijver M.J., Sukumar S., Chang H.Y.howchang@stanford.edu10/29/20133/10/201412/16/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AskZxHpQfFwKdEk3YmFSLXNEWDRKbFhjUHhtU1J3c0E&usp=drive_web#gid=02/28/2014SSFT/JL12/18/2014
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred4Leukemic IDH1 and IDH2 Mutations Result in a Hypermethylation Phenotype, Disrupt TET2 Function, and Impair Hematopoietic DifferentiationFigueroa M.E., Abdel-Wahab O., Lu C., Ward P.S., Patel J., Shih A., Li Y., Bhagwat N., Vasanthakumar A., Fernandez H.F., Tallman M.S., Sun Z., Wolniak K., Peeters J.K., Liu W., Choe S.E., Fantin V.R., Paietta E., Lowenberg B., Licht J.D., Godley L.A., Delwel R., Valk P.J.M., Thompson C.B., Levine R.L., Melnick A.thompsonc@mskcc.org; leviner@mskcc.org; amm2014@med.cornell.edu10/29/20133/12/201412/1/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdEVkelB0aVJQQ2F4cWhaWWJ5MER6UkE&usp=drive_web#gid=02/28/2014LL/TEEG/TE/JL12/11/2014
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Experimental work complete5Tumour vascularization via endothelial differentiation of glioblastoma stem-like cellsRicci-Vitiani L., Pallini R., Biffoni M., Todaro M., Invernici G., Cenci T., Maira G., Parati E.A., Stassi G., Larocca L.M., De Maria R.pallini@rm.unicatt.it; demaria@iss.it10/29/20132/26/201412/3/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdEd3Wk5SMU12MENuQm1zTlRCU1Y4OWc&usp=drive_web#gid=03/30/2014NMJL/TE/FT5/9/20147/26/20148/7/20148/13/20141/27/20153/9/20157/17/2015
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Experimental work complete6Diverse somatic mutation patterns and pathway alterations in human cancersKan Z., Jaiswal B.S., Stinson J., Janakiraman V., Bhatt D., Stern H.M., Yue P., Haverty P.M., Bourgon R., Zheng J., Moorhead M., Chaudhuri S., Tomsho L.P., Peters B.A., Pujara K., Cordes S., Davis D.P., Carlton V.E.H., Yuan W., Li L., Wang W., Eigenbrot C., Kaminker J.S., Eberhard D.A., Waring P., Schuster S.C., Modrusan Z., Zhang Z., Stokoe D., De Sauvage F.J., Faham M., Seshagiri S.sekar@gene.com10/29/20136/8/201412/4/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dElzZFdVdUtGMUViR1hJcjVtbldNWmc&usp=drive_web#gid=05/6/2014AAEG/TE/NP1/21/20152/24/20152/27/20159/14/20151/8/20161/15/20163/2/2016
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Experimental work complete7Kinase-Dead BRAF and Oncogenic RAS Cooperate to Drive Tumor Progression through CRAFHeidorn S.J., Milagre C., Whittaker S., Nourry A., Niculescu-Duvas I., Dhomen N., Hussain J., Reis-Filho J.S., Springer C.J., Pritchard C., Marais R.Richard.Marais@cruk.manchester.ac.uk10/29/20132/19/201412/4/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dFZhdmk1alBNeTBSZUkzY21wS2M3TFE&usp=drive_web#gid=02/24/2014HMNP1/26/20155/14/20155/28/20159/30/20151/25/20162/3/20167/14/2017
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Experimental work complete8RAF inhibitors prime wild-type RAF to activate the MAPK pathway and enhance growthHatzivassiliou G., Song K., Yen I., Brandhuber B.J., Anderson D.J., Alvarado R., Ludlam M.J.C., Stokoe D., Gloor S.L., Vigers G., Morales T., Aliagas I., Liu B., Sideris S., Hoeflich K.P., Jaiswal B.S., Seshagiri S., Koeppen H., Belvin M., Friedman L.S., Malek S.hatzivassiliou.georgia@gene.com; malek.shiva@gene.com10/29/20132/21/201412/4/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdElPZ1ZMblFMRXRrNVVTQlRrYnAtalE&usp=drive_web#gid=04/26/2014NMFT8/11/201410/28/20141/30/20147/8/20141/6/20162/9/20163/5/20169/19/2017
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Vermeulen L., De Sousa E Melo F., Van Der Heijden M., Cameron K., De Jong J.H., Borovski T., Tuynman J.B., Todaro M., Merz C., Rodermond H., Sprick M.R., Kemper K., Richel D.J., Stassi G., Medema J.P.9Wnt activity defines colon cancer stem cells and is regulated by the microenvironmentJ.P.Medema@amc.uva.nl10/29/20133/18/201412/3/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidHdSRElISnZmZ1UwbTBkY3dENGJGTEE&usp=drive_web#gid=04/30/2014LBTE9/17/201410/30/201411/21/20143/2/20158/1/20158/17/20159/4/20166/20/20181/22/20191/22/20191/22/20196/19/2019
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Rejected from eLife10The transcriptional network for mesenchymal transformation of brain tumoursCarro M.S., Lim W.K., Alvarez M.J., Bollo R.J., Zhao X., Snyder E.Y., Sulman E.P., Anne S.L., Doetsch F., Colman H., Lasorella A., Aldape K., Califano A., Iavarone A.califano@c2b2.columbia.edu; ai2102@columbia.edu10/29/20133/7/201412/5/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0Ai1a44MtujtidHI3MFpuSHNDM0c3Ti00aG1HZGk3RGc&usp=drive_web#gid=03/14/2014APJL/TE5/21/20149/5/20146/26/20149/24/2014
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred11Melanomas acquire resistance to B-RAF(V600E) inhibition by RTK or N-RAS upregulationNazarian R., Shi H., Wang Q., Kong X., Koya R.C., Lee H., Chen Z., Lee M.-K., Attar N., Sazegar H., Chodon T., Nelson S.F., McArthur G., Sosman J.A., Ribas A., Lo R.S.rlo@mednet.ucla.edu10/29/20132/19/201412/5/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dG10RVhMT2ZwNkpReFZRbDNYS0Ezc3c&usp=drive_web#gid=02/3/2014RJEG/TE/NP1/22/2015
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Experimental work complete12COT drives resistance to RAF inhibition through MAP kinase pathway reactivationJohannessen C.M., Boehm J.S., Kim S.Y., Thomas S.R., Wardwell L., Johnson L.A., Emery C.M., Stransky N., Cogdill A.P., Barretina J., Caponigro G., Hieronymus H., Murray R.R., Salehi-Ashtiani K., Hill D.E., Vidal M., Zhao J.J., Yang X.P., Alkan O., Kim S., Harris J.L., Wilson C.J., Myer V.E., Finan P.M., Root D.E., Roberts T.M., Golub T., Flaherty K.T., Dummer R., Weber B.L., Sellers W.R., Schlegel R., Wargo J.A., Hahn W.C., Garraway L.A.Levi_Garraway@dfci.harvard.edu10/29/20132/26/201412/4/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdC1lM2hUZWZmbmhFandtbk5SdndPckE&usp=drive_web#gid=02/22/2014MSTE11/11/20143/11/20153/26/20159/16/20153/7/20163/17/20166/7/2016
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excluded because contains sequencing and proteomic experiments13A Myc Network Accounts for Similarities between Embryonic Stem and Cancer Cell Transcription ProgramsKim J., Woo A.J., Chu J., Snow J.W., Fujiwara Y., Kim C.G., Cantor A.B., Orkin S.H.stuart_orkin@dfci.harvard.edu10/29/20136/8/201412/5/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidGphOGV6aDdGaUJIRWYtSFFteTZab0E&usp=drive_web#gid=04/28/2014SN
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On hold due to budgetary constraints14RAF inhibitors transactivate RAF dimers and ERK signalling in cells with wild-type BRAFPoulikakos P.I., Zhang C., Bollag G., Shokat K.M., Rosen N.rosenn@mskcc.org10/29/20132/19/201412/6/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidFpBTFNENzcwNzFQNGFEa1pjVldTMkE&usp=drive_web#gid=03/24/2014AUFT11/13/20142/11/20152/23/2015
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Replication Study published15Coadministration of a Tumor-Penetrating Peptide Enhances the Efficacy of Cancer DrugsSugahara K.N., Teesalu T., Prakash Karmali P., Ramana Kotamraju V., Agemy L., Greenwald D.R., Ruoslahti E.ruoslahti@burnham.org10/29/20133/7/201412/11/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dGxLT2ZFSFFqWTBCUkIzVWtGZWtMQVE&usp=drive_web#gid=02/26/2014KCFT/TE6/9/20148/19/20141/6/20152/10/20154/29/20155/12/20154/30/20158/26/20155/5/20165/5/20165/5/20161/18/2017
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Replication Study published16The Common Feature of Leukemia-Associated IDH1 and IDH2 Mutations Is a Neomorphic Enzyme Activity Converting alpha-Ketoglutarate to 2-HydroxyglutarateWard P.S., Patel J., Wise D.R., Abdel-Wahab O., Bennett B.D., Coller H.A., Cross J.R., Fantin V.R., Hedvat C.V., Perl A.E., Rabinowitz J.D., Carroll M., Su S.M., Sharp K.A., Levine R.L., Thompson C.B.thompsonc@mskcc.org10/29/20132/26/201412/12/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidExIeFM2WnZxUDVTV0dTOUFsaE1rdGc&usp=drive_web#gid=02/26/2014CTALE/TE/FT/NP2/13/20153/5/20156/29/201510/28/20152/13/20163/2/20163/23/201610/14/20162/14/20172/14/20172/14/20176/27/2017
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred17Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2Ko M., Huang Y., Jankowska A.M., Pape U.J., Tahiliani M., Bandukwala H.S., An J., Lamperti E.D., Koh K.P., Ganetzky R., Liu X.S., Aravind L., Agarwal S., MacIejewski J.P., Rao A.maciejj@ccf.org; arao@liai.org10/29/20133/10/201412/16/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dDdHT0tzN01DRGZ4SlYwVzRITzJaRUE&usp=drive_web#gid=03/26/2014JJFT10/14/20141/23/2014
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred18RNAi screen identifies Brd4 as a therapeutic target in acute myeloid leukaemiaZuber J., Shi J., Wang E., Rappaport A.R., Herrmann H., Sison E.A., Magoon D., Qi J., Blatt K., Wunderlich M., Taylor M.J., Johns C., Chicas A., Mulloy J.C., Kogan S.C., Brown P., Valent P., Bradner J.E., Lowe S.W., Vakoc C.R.lowe@cshl.edu; vakoc@cshl.edu10/29/20133/27/201412/16/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdF9nQ1F2SGR5MDJkZ0F0N1A0SWlmZWc&usp=drive_web#gid=13/8/2014CAFT7/30/201411/18/2014
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Replication Study published19BET Bromodomain Inhibition as a Therapeutic Strategy to Target c-MycDelmore J.E., Issa G.C., Lemieux M.E., Rahl P.B., Shi J., Jacobs H.M., Kastritis E., Gilpatrick T., Paranal R.M., Qi J., Chesi M., Schinzel A.C., McKeown M.R., Heffernan T.P., Vakoc C.R., Bergsagel P.L., Ghobrial I.M., Richardson P.G., Young R.A., Hahn W.C., Anderson K.C., Kung A.L., Bradner J.E., Mitsiades C.S.james_bradner@dfci.harvard.edu; cmitsiades@gmail.com10/29/20133/18/201412/17/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dFhXYm84MzFES0U0ZDJZSkJtX1VQREE&usp=drive_web#gid=02/16/2014HJTE8/20/201411/6/20141/6/20152/16/20155/8/20156/15/20156/15/20153/15/20169/3/20169/3/20169/3/20161/18/2017
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Experimental work complete20Biomechanical Remodeling of the Microenvironment by Stromal Caveolin-1 Favors Tumor Invasion and MetastasisGoetz J.G., Minguet S., Navarro-Lerida I., Lazcano J.J., Samaniego R., Calvo E., Tello M., Osteso-Ibanez T., Pellinen T., Echarri A., Cerezo A., Klein-Szanto A.J.P., Garcia R., Keely P.J., Sanchez-Mateos P., Cukierman E., Del Pozo M.A.jgoetz@igbmc.fr; madelpozo@cnic.es10/29/20133/27/201412/18/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidDlEM0g3TGhnb0JLZU9GUV9yQ3l2TXc&usp=drive_web#gid=03/2/2014TSTE/FT5/14/20147/30/20149/10/20149/16/20146/26/20157/13/20157/27/20158/7/2018
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Replication Study published21Discovery and preclinical validation of drug indications using compendia of public gene expression dataSirota M., Dudley J.T., Kim J., Chiang A.P., Morgan A.A., Sweet-Cordero A., Sage J., Butte A.J.abutte@stanford.edu10/29/20133/7/201412/17/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dEp0bmZDVXdWV1FET0NaQ2ZZWUdUTFE&usp=drive_web#gid=05/5/2014IZFT8/18/201411/14/20141/6/20152/3/20154/15/20154/16/20157/27/20159/4/20154/18/20164/18/20164/18/20161/18/2017
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred22Selective killing of cancer cells by a small molecule targeting the stress response to ROSRaj L., Ide T., Gurkar A.U., Foley M., Schenone M., Li X., Tolliday N.J., Golub T.R., Carr S.A., Shamji A.F., Stern A.M., Mandinova A., Schreiber S.L., Lee S.W.stuart_schreiber@harvard.edu; anna.mandinova@cbrc2.mgh.harvard.edu; sam.lee@cbrc2.mgh.harvard.edu10/29/20133/2/20141/2/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dGw2YlJxbmhfRVg0cUtleWVOLXFVckE&usp=drive_web#gid=04/6/2014NMJL9/22/2014
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On hold due to budgetary constraints23Functional genomics reveal that the serine synthesis pathway is essential in breast cancerPossemato R., Marks K.M., Shaul Y.D., Pacold M.E., Kim D., Birsoy K., Sethumadhavan S., Woo H.-K., Jang H.G., Jha A.K., Chen W.W., Barrett F.G., Stransky N., Tsun Z.-Y., Cowley G.S., Barretina J., Kalaany N.Y., Hsu P.P., Ottina K., Chan A.M., Yuan B., Garraway L.A., Root D.E., Mino-Kenudson M., Brachtel E.F., Driggers E.M., Sabatini D.M.sabatini@wi.mit.edu10/29/20134/22/201412/27/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdFozSE1OeWE3dFZHY0lRV1NpX3pYNlE&usp=drive_web#gid=13/10/2014JGJL/TE10/10/20145/25/20155/30/2015
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Experimental work complete24Coding-Independent Regulation of the Tumor Suppressor PTEN by Competing Endogenous mRNAsTay Y., Kats L., Salmena L., Weiss D., Tan S.M., Ala U., Karreth F., Poliseno L., Provero P., Di Cunto F., Lieberman J., Rigoutsos I., Pandolfi P.P.ppandolf@bidmc.harvard.edu10/29/20131/15/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdElDZDd1dmJTVlF4VzFpcXI2ZVFiRlE&usp=drive_web#gid=03/2/2014MCNP2/24/20154/1/20155/6/201511/20/20152/12/20163/2/20168/2/2016
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Experimental work complete25Oncometabolite 2-Hydroxyglutarate Is a Competitive Inhibitor of alpha-Ketoglutarate-Dependent DioxygenasesXu W., Yang H., Liu Y., Yang Y., Wang P., Kim S.-H., Ito S., Yang C., Wang P., Xiao M.-T., Liu L.-X., Jiang W.-Q., Liu J., Zhang J.-Y., Wang B., Frye S., Zhang Y., Xu Y.-H., Lei Q.-Y., Guan K.-L., Zhao S.-M., Xiong Y.kuguan@ucsd.edu; zhaosm@fudan.edu.cn; yxiong@email.unc.edu10/29/20131/12/2014https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdHdCeVdUMmR5eWRORmNycS1wQjlteGc&usp=drive_web#gid=16/3/2014EGFT7/28/201410/28/201412/29/20143/10/20157/9/20157/9/20158/18/2015
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On hold due to budgetary constraints26Oncogene-induced Nrf2 transcription promotes ROS detoxification and tumorigenesisDeNicola G.M., Karreth F.A., Humpton T.J., Gopinathan A., Wei C., Frese K., Mangal D., Yu K.H., Yeo C.J., Calhoun E.S., Scrimieri F., Winter J.M., Hruban R.H., Iacobuzio-Donahue C., Kern S.E., Blair I.A., Tuveson D.A.david.tuveson@cancer.org.uk10/29/20132/28/20141/3/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dHJsX3JMRjhrYXNKQklMUmR3aVJsSHc&usp=drive_web#gid=04/21/2014DATE/JL/NP12/11/20143/3/20154/4/2015
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On hold due to budgetary constraints27BRCA1 tumour suppression occurs via heterochromatin-mediated silencingZhu Q., Pao G.M., Huynh A.M., Suh H., Tonnu N., Nederlof P.M., Gage F.H., Verma I.M.pao@salk.edu; verma@salk.edu10/29/20133/27/201412/19/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0Ai1a44MtujtidGRKN2JDaWNWaGtnNFplY1N5VTZNX0E#gid=15/6/2014BSFT12/16/20142/20/20154/30/2015
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Replication Study published28The microRNA miR-34a inhibits prostate cancer stem cells and metastasis by directly repressing CD44Liu C., Kelnar K., Liu B., Chen X., Calhoun-Davis T., Li H., Patrawala L., Yan H., Jeter C., Honorio S., Wiggins J.F., Bader A.G., Fagin R., Brown D., Tang D.G.dtang@mdanderson.org10/29/20133/7/201412/28/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdGhZYXV5SEhZWl9kZ1RfYkVQLXIyTEE&usp=drive_web#gid=14/9/2014MLFT/TE5/9/201410/2/20144/15/20141/9/20157/10/20157/10/20152/17/20161/19/201811/8/201811/8/201811/8/20182/25/2019
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Replication Study published29Inhibition of BET recruitment to chromatin as an effective treatment for MLL-fusion leukaemiaDawson M.A., Prinjha R.K., Dittmann A., Giotopoulos G., Bantscheff M., Chan W.-I., Robson S.C., Chung C.-W., Hopf C., Savitski M.M., Huthmacher C., Gudgin E., Lugo D., Beinke S., Chapman T.D., Roberts E.J., Soden P.E., Auger K.R., Mirguet O., Doehner K., Delwel R., Burnett A.K., Jeffrey P., Drewes G., Lee K., Huntly B.J.P., Kouzarides T.bjph2@cam.ac.uk, mafd2@cam.ac.uk, t.kouzarides@gurdon.cam.ac.uk10/29/20136/8/20141/5/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdDF5ZFBsTXlRVnhNVjNkTGlTY3J3T1E&usp=drive_web#gid=12/27/2014MGJL/TE8/18/201410/2/201411/5/20145/25/20158/4/20158/17/20159/17/20158/26/20161/20/20171/20/20171/20/20176/27/2017
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred30CCL2 recruits inflammatory monocytes to facilitate breast-tumour metastasisQian B.-Z., Li J., Zhang H., Kitamura T., Zhang J., Campion L.R., Kaiser E.A., Snyder L.A., Pollard J.W.pollard@aecom.yu.edu10/29/20133/2/20141/5/2013https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dEhkM2RESkRjNG9nMXk4TDI5UDFjbUE&usp=drive_web#gid=06/20/2014EGTE/EG/JL12/15/2014
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Rejected from eLife31An Extensive MicroRNA-Mediated Network of RNA-RNA Interactions Regulates Established Oncogenic Pathways in GlioblastomaSumazin P., Yang X., Chiu H.-S., Chung W.-J., Iyer A., Llobet-Navas D., Rajbhandari P., Bansal M., Guarnieri P., Silva J., Califano A.califano@c2b2.columbia.edu10/29/20133/27/20141/3/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dGp2b0JGZTVhX0dzakw4a0d4SHB4ZVE&usp=drive_web#gid=03/3/2014ADNP1/20/20153/11/20154/27/201512/18/2015
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred32Normal and neoplastic nonstem cells can spontaneously convert to a stem-like stateChaffer C.L., Brueckmann I., Scheel C., Kaestli A.J., Wiggins P.A., Rodrigues L.O., Brooks M., Reinhardt F., Suc Y., Polyak K., Arendt L.M., Kuperwasser C., Bierie B., Weinberg R.A.weinberg@wi.mit.edu10/29/20133/18/20141/3/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dEFBdW1vbFZzMlQwalNlVkRrZUI1bkE&usp=drive_web#gid=02/22/2014HHFT8/6/20141/6/2015
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred33An endogenous tumour-promoting ligand of the human aryl hydrocarbon receptorOpitz C.A., Litzenburger U.M., Sahm F., Ott M., Tritschler I., Trump S., Schumacher T., Jestaedt L., Schrenk D., Weller M., Jugold M., Guillemin G.J., Miller C.L., Lutz C., Radlwimmer B., Lehmann I., von Deimling A., Wick W., Platten M.m.platten@dkfz-heidelberg.de10/29/20132/28/20141/3/2014https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0Ai1a44MtujtidHFfVTNFdDBHVjNFY0x2OFIwR0NVZFE#gid=13/10/2014GDFT8/26/20141/6/2015
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Experimental work complete34Senescence surveillance of pre-malignant hepatocytes limits liver cancer developmentKang T.W., Yevsa T., Woller N., Hoenicke L., Wuestefeld T., Dauch D., Hohmeyer A., Gereke M., Rudalska R., Potapova A., Iken M., Vucur M., Weiss S., Heikenwalder M., Khan S., Gil J., Bruder D., Manns M., Schirmacher P., Tacke F., Ott M., Luedde T., Longerich T., Kubicka S., Zender L.Lars.Zender@helmholtz-hzi.de10/29/20133/7/20141/6/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dGdjUXNScEJfbjgwQThCYVlydGRhRkE&usp=drive_web#gid=02/21/2014NYJL/TE/WG5/12/20147/18/20147/1/20147/18/201412/14/20141/28/20154/22/20155/22/2017
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excluded because unable to obtain necessary reagents (mouse model)35A restricted cell population propagates glioblastoma growth after chemotherapyChen J., Li Y., Yu T.-S., McKay R.M., Burns D.K., Kernie S.G., Parada L.F.luis.parada@utsouthwestern.edu10/29/20133/2/20141/9/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AiFZEORO7QfGdDhXaXhKZ1p1OXJzMUdXQjJCMjBIblE&usp=drive_web#gid=03/2/2014TKJL6/25/2014
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excluded because of feasiblity constraint (mouse model)36Defining the mode of tumour growth by clonal analysisDriessens G., Beck B., Caauwe A., Simons B.D., Blanpain C.bds10@cam.ac.uk; Cedric.Blanpain@ulb.ac.be10/29/20133/18/20141/6/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dE9nc0hZaDMxd1dTdk9DVE9sZVVvS3c&usp=drive_web#gid=02/24/2014NMFT5/28/2014
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Replication Study published37Systematic identification of genomic markers of drug sensitivity in cancer cellsGarnett M.J., Edelman E.J., Heidorn S.J., Greenman C.D., Dastur A., Lau K.W., Greninger P., Thompson I.R., Luo X., Soares J., Liu Q., Iorio F., Surdez D., Chen L., Milano R.J., Bignell G.R., Tam A.T., Davies H., Stevenson J.A., Barthorpe S., Lutz S.R., Kogera F., Lawrence K., McLaren-Douglas A., Mitropoulos X., Mironenko T., Thi H., Richardson L., Zhou W., Jewitt F., Zhang T., O'Brien P., Boisvert J.L., Price S., Hur W., Yang W., Deng X., Butler A., Choi H.G., Chang J.W., Baselga J., Stamenkovic I., Engelman J.A., Sharma S.V., Delattre O., Saez-Rodriguez J., Gray N.S., Settleman J., Futreal P.A., Haber D.A., Stratton M.R., Ramaswamy S., McDermott U., Benes C.H.um1@sanger.ac.uk; CBENES@mgh.harvard.edu10/29/20136/8/20142/3/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dGF2aGl4Q2NZVWJCS1JjbTQwcFRlRlE&usp=drive_web#gid=03/25/2014JBFT12/1/20145/19/20155/30/201512/7/20155/25/20166/12/201610/4/20165/17/20176/19/20176/19/20176/19/20171/9/2018
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excluded because of feasiblity constraint (mouse model)38Lineage Tracing Reveals Lgr5(+) Stem Cell Activity in Mouse Intestinal AdenomasSchepers A.G., Snippert H.J., Stange D.E., Van Den Born M., Van Es J.H., Van De Wetering M., Clevers H.h.clevers@hubrecht.eu10/29/20133/18/20141/6/2014https://docs.google.com/a/mendeley.com/spreadsheet/ccc?key=0AskZxHpQfFwKdGt1eXNWUDlwd2pMaGlHbjBmMVNxTnc&usp=sharing3/1/2014SBTE4/21/20144/21/2014
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Replication Study published39The CD47-signal regulatory protein alpha (SIRPa) interaction is a therapeutic target for human solid tumorsWillingham S.B., Volkmer J.-P., Gentles A.J., Sahoo D., Dalerba P., Mitra S.S., Wang J., Contreras-Trujillo H., Martin R., Cohen J.D., Lovelace P., Scheeren F.A., Chao M.P., Weiskopf K., Tang C., Volkmer A.K., Naik T.J., Storm T.A., Mosley A.R., Edris B., Schmid S.M., Sun C.K., Chua M.-S., Murillo O., Rajendran P., Cha A.C., Chin R.K., Kim D., Adorno M., Raveh T., Tseng D., Jaiswal S., Enger P.O., Steinberg G.K., Li G., So S.K., Majeti R., Harsh G.R., Van Rijn M.D., Teng N.N.H., Sunwoo J.B., Alizadeh A.A., Clarke M.F., Weissman I.L.irv@stanford.edu10/29/20132/28/20141/14/2014https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0Ai1a44MtujtidFBDcXA1RmlLZFYzZFJtTTZPZHVtZnc&usp=drive_web#gid=13/23/2014NMTE/FT4/21/20147/28/20144/26/20149/2/201412/21/20141/28/20155/27/20154/26/20165/24/20165/24/20165/24/20161/18/2017
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Experimental work complete40Tumour micro-environment elicits innate resistance to RAF inhibitors through HGF secretionStraussman R., Morikawa T., Shee K., Barzily-Rokni M., Qian Z.R., Du J., Davis A., Mongare M.M., Gould J., Frederick D.T., Cooper Z.A., Chapman P.B., Solit D.B., Ribas A., Lo R.S., Flaherty K.T., Ogino S., Wargo J.A., Golub T.R.golub@broadinstitute.org10/29/20131/15/2014https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0Ai1a44MtujtidE9BZ2tqRlpzdTY0WEpXYWswY241dEE#gid=12/6/2014SLFT/TE/EI2/20/20142/15/20142/15/20147/14/201411/17/201412/18/20146/11/2015
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Replication Study submitted to eLife41Intestinal Inflammation Targets Cancer-Inducing Activity of the MicrobiotaArthur J.C., Perez-Chanona E., Muhlbauer M., Tomkovich S., Uronis J.M., Fan T.-J., Campbell B.J., Abujamel T., Dogan B., Rogers A.B., Rhodes J.M., Stintzi A., Simpson K.W., Hansen J.J., Keku T.O., Fodor A.A., Jobin C.Christian.Jobin@medicine.ufl.edu10/29/20132/21/20141/21/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dE5OTFViVEdPSkpNV3BQZmViNkk3c2c&usp=drive_web#gid=03/5/2014WYFT/TE/EI4/15/20147/28/20144/23/20147/29/20142/12/20153/19/20158/4/201511/14/201712/14/201712/14/201712/14/2017
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Replication Study published42Melanoma exosomes educate bone marrow progenitor cells toward a pro-metastatic phenotype through METPeinado H., Aleckovic M., Lavotshkin S., Matei I., Costa-Silva B., Moreno-Bueno G., Hergueta-Redondo M., Williams C., Garcia-Santos G., Ghajar C.M., Nitadori-Hoshino A., Hoffman C., Badal K., Garcia B.A., Callahan M.K., Yuan J., Martins V.R., Skog J., Kaplan R.N., Brady M.S., Wolchok J.D., Chapman P.B., Kang Y., Bromberg J., Lyden D.bromberj@mskcc.org; dcl2001@med.cornell.edu10/29/20133/27/20141/21/2014https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdEctaHgwQzBLd2xwUmhHRVQzMWMtUmc&usp=drive_web#gid=13/11/2014LPTE7/28/20148/20/20141/6/20153/8/201510/28/201512/30/20153/18/201612/18/20177/9/20187/9/20187/9/201812/1/2018
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Experimental work complete43Interactions between cancer stem cells and their niche govern metastatic colonizationJMalanchi I., Santamaria-Martinez A., Susanto E., Peng H., Lehr H.A., Delaloye J.F., Huelsken J.joerg.huelsken@epfl.ch10/29/20132/26/20142/3/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0AskZxHpQfFwKdEF3bmxUU25XV3F1SVI2TFpJWEtmeXc&usp=drive_web#gid=02/26/2014ALTE7/21/201411/2/201412/4/20142/9/20155/22/20156/1/20156/1/2015
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Replication Study published44Melanoma genome sequencing reveals frequent PREX2 mutationsBerger M.F., Hodis E., Heffernan T.P., Deribe Y.L., Lawrence M.S., Protopopov A., Ivanova E., Watson I.R., Nickerson E., Ghosh P., Zhang H., Zeid R., Ren X., Cibulskis K., Sivachenko A.Y., Wagle N., Sucker A., Sougnez C., Onofrio R., Ambrogio L., Auclair D., Fennell T., Carter S.L., Drier Y., Stojanov P., Singer M.A., Voet D., Jing R., Saksena G., Barretina J., Ramos A.H., Pugh T.J., Stransky N., Parkin M., Winckler W., Mahan S., Ardlie K., Baldwin J., Wargo J., Schadendorf D., Meyerson M., Gabriel S.B., Golub T.R., Wagner S.N., Lander E.S., Getz G., Chin L., Garraway L.A.LChin@mdanderson.org; levi_garraway@dfci.harvard.edu10/29/20134/14/20141/9/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dFVqTFI0RW5WTnpkZ3ZUSHRRWWhiaFE&usp=drive_web#gid=03/11/2014AHJL/TE5/29/20147/24/20146/26/20147/28/201411/11/201412/18/20144/2/20157/7/20169/17/20169/17/20169/17/20161/18/2017
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred45Unresponsiveness of colon cancer to BRAF(V600E) inhibition through feedback activation of EGFRPrahallad A., Sun C., Huang S., Di Nicolantonio F., Salazar R., Zecchin D., Beijersbergen R.L., Bardelli A., Bernards R.r.bernards@nki.nl10/29/20132/19/20141/10/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dHBhNTZVbGJsZ2c1WEdSdkFQRzYxbnc&usp=drive_web#gid=02/26/2014KPTE/AW11/11/2014
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Experimental work complete46Widespread potential for growth-factor-driven resistance to anticancer kinase inhibitorsWilson T.R., Fridlyand J., Yan Y., Penuel E., Burton L., Chan E., Peng J., Lin E., Wang Y., Sosman J., Ribas A., Li J., Moffat J., Sutherlin D.P., Koeppen H., Merchant M., Neve R., Settleman J.settleman.jeffrey@gene.com10/29/20133/7/20141/5/2014https://docs.google.com/a/mendeley.com/spreadsheet/ccc?key=0AskZxHpQfFwKdFdrajc5NVJ2OW1PZ2Y5N1RKUG1HeXc&usp=sharing2/25/2014EGFT/TE5/9/20147/15/20145/16/20147/14/20149/28/201412/18/20147/20/2015
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Experimental work complete47IDH mutation impairs histone demethylation and results in a block to cell differentiationLu C., Ward P.S., Kapoor G.S., Rohle D., Turcan S., Abdel-Wahab O., Edwards C.R., Khanin R., Figueroa M.E., Melnick A., Wellen K.E., Ogrourke D.M., Berger S.L., Chan T.A., Levine R.L., Mellinghoff I.K., Thompson C.B.thompsonc@mskcc.org10/29/20132/19/201412/29/2013https://docs.google.com/a/mendeley.com/spreadsheet/ccc?key=0AskZxHpQfFwKdHZDcXN6V2FkcHdTeXRwRmd1eVpXcXc&usp=sharing3/5/2014DGFT11/3/20143/2/20153/27/20158/13/20152/15/20163/2/201610/24/2016
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Replication Study published48Transcriptional Amplification in Tumor Cells with Elevated c-MycLin C.Y., Loven J., Rahl P.B., Paranal R.M., Burge C.B., Bradner J.E., Lee T.I., Young R.A.young@wi.mit.edu10/29/20133/18/201412/28/2013https://docs.google.com/a/scienceexchange.com/spreadsheet/ccc?key=0AiFZEORO7QfGdGtjRElLZmNiZWtRQmZwX1Q0MUFNSHc&usp=drive_web#gid=12/10/2014MMTE/EI2/21/20147/9/20142/15/20147/14/201412/14/20141/28/20156/11/20154/9/20177/7/20177/7/20177/7/20171/9/2018
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred49Sequential Application of Anticancer Drugs Enhances Cell Death by Rewiring Apoptotic Signaling NetworksLee M.J., Ye A.S., Gardino A.K., Heijink A.M., Sorger P.K., MacBeath G., Yaffe M.B.myaffe@mit.edu10/29/20133/7/201412/21/2013https://docs.google.com/spreadsheet/ccc?key=0AskZxHpQfFwKdE1KdktORXVyRWY5TXB1T2dZOXZmTGc&usp=sharing3/2/2014RHTE/AW10/28/2014(partial) 7/14/2015
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Replication Study published50Fusobacterium nucleatum infection is prevalent in human colorectal carcinomaCastellarin M., Warren R.L., Freeman J.D., Dreolini L., Krzywinski M., Strauss J., Barnes R., Watson P., Allen-Vercoe E., Moore R.A., Holt R.A.rholt@bcgsc.ca10/29/20132/19/201412/19/2013https://docs.google.com/spreadsheet/ccc?key=0AskZxHpQfFwKdFZQUks5UFpDYU84eGJjSi1uTjh1Snc&usp=sharing4/30/2014NMEG/TE/NP1/21/20152/11/20152/27/20155/4/201511/30/201512/30/201512/30/20151/5/20172/6/20172/6/20172/6/20173/13/2018
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred51DNA breaks and chromosome pulverization from errors in mitosisCrasta K., Ganem N.J., Dagher R., Lantermann A.B., Ivanova E.V., Pan Y., Nezi L., Protopopov A., Chowdhury D., Pellman D.10/20/20149/11/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0ApshURhC8ht3dHl0ZVliVGc1d2loZXdRQ2pDZ2g5Q1E&usp=drive_web#gid=011/13/2014TE/FT/JLTE11/17/2014
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred52A microRNA regulon that mediates endothelial recruitment and metastasis by cancer cellsPng K.J., Halber N., Yoshida M., Tavazoie S.F.10/20/201410/10/2014https://docs.google.com/a/virginia.edu/spreadsheet/ccc?key=0Ai1a44MtujtidENGSGthbm9EQ21xNnZDa19leEdickE&usp=drive_web#gid=010/20/2014FT/JL/TEFT10/22/20141/29/2015
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On hold due to budgetary constraints53Reductive glutamine metabolism by IDH1 mediates lipogenesis under hypoxiaMetallo C.M., Gameiro P.A., Bell E.L., Mattaini K.R., Yang J., Hiller K., Jewell C.M., Johnson Z.R., Irvine D.J., Guarente L., Kelleher J.K., Vander Heiden M.G., Iliopoulos O., Stephanopoulos G.12/9/20141/27/2015n/a1/29/2015NP/FT/JL/TENP2/13/20154/13/20153/27/2015
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On hold due to budgetary constraints, see https://osf.io/ucpye/ for how adustment occurred54Somatic mutations altering EZH2 (Y641) in follicular and diffuse large B-cell lymphomas of germinal-center originMorin R.D., Johnson N.A., Severson T.M., Mungall A.J., An J, Goya R., Paul J.E., Boyle M., Woolcock B.W., Kuchenbauer F., Yap D., Humphries R.K., Griffith O.L., Shah S., Zhu H., Kimbara M., Shashkin P., Charlot J.F., Tcherpakov M., Corbett R., Tam A., Varhol R., Smailus D., Moksa M., Zhao Y., Delaney A., Qian H., Birol I., Schein J., Moore R., Holt R., Horsman D.E., Connors J.M., Jones S., Aparicio S., Hirst M., Gascoyne R.D., Marra M.A.2/12/20152/12/2015n/a2/17/2015EGEG/TE/NP2/19/2015
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