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Page 1
Recurrent epimutations activate gene body promoters in primary glioblastoma.
Nagarajan RP, Zhang B, Bell RJ, Johnson BE, Olshen AB, Sundaram V, Li D, Graham AE, Diaz A, Fouse SD, Smirnov I, Song J, Paris PL, Wang T, Costello JF. Nagarajan RP, et al. Among authors: johnson be. Genome Res. 2014 May;24(5):761-74. doi: 10.1101/gr.164707.113. Epub 2014 Apr 7. Genome Res. 2014. PMID: 24709822 Free PMC article.
Conserved role of intragenic DNA methylation in regulating alternative promoters.
Maunakea AK, Nagarajan RP, Bilenky M, Ballinger TJ, D'Souza C, Fouse SD, Johnson BE, Hong C, Nielsen C, Zhao Y, Turecki G, Delaney A, Varhol R, Thiessen N, Shchors K, Heine VM, Rowitch DH, Xing X, Fiore C, Schillebeeckx M, Jones SJ, Haussler D, Marra MA, Hirst M, Wang T, Costello JF. Maunakea AK, et al. Among authors: johnson be. Nature. 2010 Jul 8;466(7303):253-7. doi: 10.1038/nature09165. Nature. 2010. PMID: 20613842 Free PMC article.
Mutational analysis reveals the origin and therapy-driven evolution of recurrent glioma.
Johnson BE, Mazor T, Hong C, Barnes M, Aihara K, McLean CY, Fouse SD, Yamamoto S, Ueda H, Tatsuno K, Asthana S, Jalbert LE, Nelson SJ, Bollen AW, Gustafson WC, Charron E, Weiss WA, Smirnov IV, Song JS, Olshen AB, Cha S, Zhao Y, Moore RA, Mungall AJ, Jones SJM, Hirst M, Marra MA, Saito N, Aburatani H, Mukasa A, Berger MS, Chang SM, Taylor BS, Costello JF. Johnson BE, et al. Science. 2014 Jan 10;343(6167):189-193. doi: 10.1126/science.1239947. Epub 2013 Dec 12. Science. 2014. PMID: 24336570 Free PMC article.
DNA Methylation and Somatic Mutations Converge on the Cell Cycle and Define Similar Evolutionary Histories in Brain Tumors.
Mazor T, Pankov A, Johnson BE, Hong C, Hamilton EG, Bell RJA, Smirnov IV, Reis GF, Phillips JJ, Barnes MJ, Idbaih A, Alentorn A, Kloezeman JJ, Lamfers MLM, Bollen AW, Taylor BS, Molinaro AM, Olshen AB, Chang SM, Song JS, Costello JF. Mazor T, et al. Among authors: johnson be. Cancer Cell. 2015 Sep 14;28(3):307-317. doi: 10.1016/j.ccell.2015.07.012. Cancer Cell. 2015. PMID: 26373278 Free PMC article.
Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.
Harris RA, Wang T, Coarfa C, Nagarajan RP, Hong C, Downey SL, Johnson BE, Fouse SD, Delaney A, Zhao Y, Olshen A, Ballinger T, Zhou X, Forsberg KJ, Gu J, Echipare L, O'Geen H, Lister R, Pelizzola M, Xi Y, Epstein CB, Bernstein BE, Hawkins RD, Ren B, Chung WY, Gu H, Bock C, Gnirke A, Zhang MQ, Haussler D, Ecker JR, Li W, Farnham PJ, Waterland RA, Meissner A, Marra MA, Hirst M, Milosavljevic A, Costello JF. Harris RA, et al. Among authors: johnson be. Nat Biotechnol. 2010 Oct;28(10):1097-105. doi: 10.1038/nbt.1682. Epub 2010 Sep 19. Nat Biotechnol. 2010. PMID: 20852635 Free PMC article.
Evolution of DNA repair defects during malignant progression of low-grade gliomas after temozolomide treatment.
van Thuijl HF, Mazor T, Johnson BE, Fouse SD, Aihara K, Hong C, Malmström A, Hallbeck M, Heimans JJ, Kloezeman JJ, Stenmark-Askmalm M, Lamfers ML, Saito N, Aburatani H, Mukasa A, Berger MS, Söderkvist P, Taylor BS, Molinaro AM, Wesseling P, Reijneveld JC, Chang SM, Ylstra B, Costello JF. van Thuijl HF, et al. Among authors: johnson be. Acta Neuropathol. 2015 Apr;129(4):597-607. doi: 10.1007/s00401-015-1403-6. Epub 2015 Feb 28. Acta Neuropathol. 2015. PMID: 25724300 Free PMC article.
Lung adenocarcinomas with mucinous histology: clinical, genomic, and immune microenvironment characterization and outcomes to immunotherapy-based treatments and KRASG12C inhibitors.
Di Federico A, Hong L, Elkrief A, Thummalapalli R, Cooper AJ, Ricciuti B, Digumarthy S, Alessi JV, Gogia P, Pecci F, Makarem M, Gandhi MM, Garbo E, Saini A, De Giglio A, Favorito V, Scalera S, Cipriani L, Marinelli D, Haradon D, Nguyen T, Haradon J, Voligny E, Vaz V, Gelsomino F, Sperandi F, Melotti B, Ladanyi M, Zhang J, Gibbons DL, Heymach JV, Nishino M, Lindsay J, Rodig SJ, Pfaff K, Sholl LM, Wang X, Johnson BE, Jänne PA, Rekhtman N, Maugeri-Saccà M, Heist RS, Ardizzoni A, Awad MM, Arbour KC, Schoenfeld AJ, Vokes NI, Luo J. Di Federico A, et al. Among authors: johnson be. Ann Oncol. 2024 Dec 3:S0923-7534(24)04951-2. doi: 10.1016/j.annonc.2024.11.014. Online ahead of print. Ann Oncol. 2024. PMID: 39637943
Alectinib combined with cobimetinib in ALK-Rearranged lung Cancer: A phase IB study.
Dagogo-Jack I, Cooper AJ, Johnson BE, Gainor JF, Lin JJ, Sequist LV, Piotrowska Z, Digumarthy SR, Mino-Kenudson M, Muzikansky A, Shaw AT. Dagogo-Jack I, et al. Among authors: johnson be. Lung Cancer. 2024 Nov 1;199:108003. doi: 10.1016/j.lungcan.2024.108003. Online ahead of print. Lung Cancer. 2024. PMID: 39615410
Genetic evidence against involvement of TRPC proteins in SOCE, ROCE, and CRAC channel function.
Susperreguy S, Yamashita M, Choi CI, Liao Y, Burch LH, Blankenship TL, Hayes E, Sliwa T, Zhang Y, Grenet D, Walker M, Plummer NW, Abramowitz J, Kinet JP, Formoso K, Johnson BE, Fleig A, Hazlehurst L, Penner R, Freichel M, Flockerzi V, Prakriya M, Birnbaumer L. Susperreguy S, et al. Among authors: johnson be. Proc Natl Acad Sci U S A. 2024 Dec 3;121(49):e2411389121. doi: 10.1073/pnas.2411389121. Epub 2024 Nov 27. Proc Natl Acad Sci U S A. 2024. PMID: 39602257 Free PMC article.
A multi-modal single-cell and spatial expression map of metastatic breast cancer biopsies across clinicopathological features.
Klughammer J, Abravanel DL, Segerstolpe Å, Blosser TR, Goltsev Y, Cui Y, Goodwin DR, Sinha A, Ashenberg O, Slyper M, Vigneau S, Jané-Valbuena J, Alon S, Caraccio C, Chen J, Cohen O, Cullen N, DelloStritto LK, Dionne D, Files J, Frangieh A, Helvie K, Hughes ME, Inga S, Kanodia A, Lako A, MacKichan C, Mages S, Moriel N, Murray E, Napolitano S, Nguyen K, Nitzan M, Ortiz R, Patel M, Pfaff KL, Porter CBM, Rotem A, Strauss S, Strasser R, Thorner AR, Turner M, Wakiro I, Waldman J, Wu J, Gómez Tejeda Zañudo J, Zhang D, Lin NU, Tolaney SM, Winer EP, Boyden ES, Chen F, Nolan GP, Rodig SJ, Zhuang X, Rozenblatt-Rosen O, Johnson BE, Regev A, Wagle N. Klughammer J, et al. Among authors: johnson be. Nat Med. 2024 Nov;30(11):3236-3249. doi: 10.1038/s41591-024-03215-z. Epub 2024 Oct 30. Nat Med. 2024. PMID: 39478111 Free PMC article.
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