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Joseph Costello, Ph.D. - Publications

Affiliations: 
Neurological Surgery University of California, San Francisco, San Francisco, CA 
Area:
Restriction Landmark Genomic Scanning (RLGS), CpG islands
Website:
http://neurosurgery.ucsf.edu/index.php/about_us_faculty_costello.html
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83 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Mathur R, Wang Q, Schupp PG, Nikolic A, Hilz S, Hong C, Grishanina NR, Kwok D, Stevers NO, Jin Q, Youngblood MW, Stasiak LA, Hou Y, Wang J, Yamaguchi TN, ... ... Costello JF, et al. Glioblastoma evolution and heterogeneity from a 3D whole-tumor perspective. Cell. 187: 446-463.e16. PMID 38242087 DOI: 10.1016/j.cell.2023.12.013  0.413
2023 Appin CL, Hong C, Suwala AK, Hilz S, Mathur R, Solomon DA, Smirnov IV, Stevers NO, Shai A, Wang A, Berger MS, Chang SM, Phillips JJ, Costello JF. Whole tumor analysis reveals early origin of the TERT promoter mutation and intercellular heterogeneity in TERT expression. Neuro-Oncology. PMID 38141254 DOI: 10.1093/neuonc/noad231  0.448
2023 Hadad S, Gupta R, Oberheim Bush NA, Taylor JW, Villanueva-Meyer JE, Young JS, Wu J, Ravindranathan A, Zhang Y, Warrier G, McCoy L, Shai A, Pekmezci M, Perry A, Bollen AW, ... ... Costello JF, et al. "De novo replication repair deficient glioblastoma, IDH-wildtype" is a distinct glioblastoma subtype in adults that may benefit from immune checkpoint blockade. Acta Neuropathologica. 147: 3. PMID 38079020 DOI: 10.1007/s00401-023-02654-1  0.652
2023 Schupp PG, Shelton SJ, Brody DJ, Eliscu R, Johnson BE, Mazor T, Kelley KW, Potts MB, McDermott MW, Huang EJ, Lim DA, Pieper RO, Berger MS, Costello JF, Phillips JJ, et al. Deconstructing Intratumoral Heterogeneity through Multiomic and Multiscale Analysis of Serial Sections. Biorxiv : the Preprint Server For Biology. PMID 37645893 DOI: 10.1101/2023.06.21.545365  0.464
2023 Williams EA, Ravindranathan A, Gupta R, Stevers NO, Suwala AK, Hong C, Kim S, Yuan JB, Wu J, Barreto J, Lucas CG, Chan E, Pekmezci M, LeBoit PE, Mully T, ... ... Costello JF, et al. Novel SOX10 indel mutations drive schwannomas through impaired transactivation of myelination gene programs. Neuro-Oncology. PMID 37436963 DOI: 10.1093/neuonc/noad121  0.384
2022 Lucas CG, Sloan EA, Gupta R, Wu J, Pratt D, Vasudevan HN, Ravindranathan A, Barreto J, Williams EA, Shai A, Whipple NS, Bruggers CS, Maher O, Nabors B, Rodriguez M, ... ... Costello JF, et al. Multiplatform molecular analyses refine classification of gliomas arising in patients with neurofibromatosis type 1. Acta Neuropathologica. PMID 35945463 DOI: 10.1007/s00401-022-02478-5  0.648
2022 Choudhury A, Magill ST, Eaton CD, Prager BC, Chen WC, Cady MA, Seo K, Lucas CG, Casey-Clyde TJ, Vasudevan HN, Liu SJ, Villanueva-Meyer JE, Lam TC, Pu JK, Li LF, ... ... Costello JF, et al. Meningioma DNA methylation groups identify biological drivers and therapeutic vulnerabilities. Nature Genetics. PMID 35534562 DOI: 10.1038/s41588-022-01061-8  0.719
2022 Mohamed E, Kumar A, Zhang Y, Wang AS, Chen K, Lim Y, Shai A, Taylor JW, Clarke J, Hilz S, Berger MS, Solomon DA, Costello JF, Molinaro AM, Phillips JJ. PI3K/AKT/mTOR signaling pathway activity in IDH-mutant diffuse glioma and clinical implications. Neuro-Oncology. PMID 35287169 DOI: 10.1093/neuonc/noac064  0.335
2021 Yu Y, Villanueva-Meyer J, Grimmer MR, Hilz S, Solomon DA, Choi S, Wahl M, Mazor T, Hong C, Shai A, Phillips JJ, Wainer BH, McDermott M, Haas-Kogan D, Taylor JW, ... ... Costello JF, et al. Temozolomide-induced hypermutation is associated with distant recurrence and reduced survival after high-grade transformation of low-grade IDH-mutant gliomas. Neuro-Oncology. PMID 33823014 DOI: 10.1093/neuonc/noab081  0.412
2020 Magill ST, Vasudevan HN, Seo K, Villanueva-Meyer JE, Choudhury A, John Liu S, Pekmezci M, Findakly S, Hilz S, Lastella S, Demaree B, Braunstein SE, Bush NAO, Aghi MK, Theodosopoulos PV, ... ... Costello JF, et al. Multiplatform genomic profiling and magnetic resonance imaging identify mechanisms underlying intratumor heterogeneity in meningioma. Nature Communications. 11: 4803. PMID 32968068 DOI: 10.1038/s41467-020-18582-7  0.717
2020 Mathur R, Zhang Y, Grimmer MR, Hong C, Zhang M, Bollam S, Petrecca K, Clarke J, Berger MS, Phillips JJ, Oberheim-Bush NA, Molinaro AM, Chang SM, Costello JF. MGMT promoter methylation level in newly diagnosed low-grade glioma is a predictor of hypermutation at recurrence. Neuro-Oncology. PMID 32166314 DOI: 10.1093/Neuonc/Noaa059  0.761
2020 Liu SJ, Magill ST, Vasudevan HN, Hilz S, Villanueva-Meyer JE, Lastella S, Daggubati V, Spatz J, Choudhury A, Orr BA, Demaree B, Seo K, Ferris SP, Abate AR, Oberheim Bush NA, ... ... Costello JF, et al. Multiplatform Molecular Profiling Reveals Epigenomic Intratumor Heterogeneity in Ependymoma. Cell Reports. 30: 1300-1309.e5. PMID 32023450 DOI: 10.1016/J.Celrep.2020.01.018  0.675
2020 Oberheim Bush NA, Yu Y, Villanueva-Meyer J, Grimmer M, Hilz S, Solomon D, Choi S, Mazor T, Hong C, Shai A, Phillips JJ, McDermott M, Haas-Kogan DA, Taylor J, Butowski NA, ... ... Costello J, et al. Temozolomide-induced hypermutation is associated with high-grade transformation, distant recurrence, and reduced survival after transformation in initially low-grade IDH-mutant diffuse gliomas. Journal of Clinical Oncology. 38: 2506-2506. DOI: 10.1200/Jco.2020.38.15_Suppl.2506  0.746
2019 Barthel FP, Johnson KC, Varn FS, Moskalik AD, Tanner G, Kocakavuk E, Anderson KJ, Abiola O, Aldape K, Alfaro KD, Alpar D, Amin SB, Ashley DM, Bandopadhayay P, Barnholtz-Sloan JS, ... ... Costello JF, et al. Longitudinal molecular trajectories of diffuse glioma in adults. Nature. PMID 31748746 DOI: 10.1038/S41586-019-1775-1  0.734
2019 Lee JC, Mazor T, Lao R, Wan E, Diallo AB, Hill NS, Thangaraj N, Wendelsdorf K, Samuel D, Kline CN, Banerjee A, Auguste K, Raffel C, Gupta N, Berger M, ... ... Costello J, et al. Recurrent KBTBD4 small in-frame insertions and absence of DROSHA deletion or DICER1 mutation differentiate pineal parenchymal tumor of intermediate differentiation (PPTID) from pineoblastoma. Acta Neuropathologica. PMID 30877433 DOI: 10.1007/S00401-019-01990-5  0.606
2019 Carrera DA, Hayes J, Müller S, Watchmaker P, Shelton S, Hilf N, Weinschenk T, Schoor O, Kohanbash G, Oldham M, Costello J, Singh H, Okada H. Immunopeptidomics and Peptide Expression Profiles to Develop T-Cell Receptors Against Glioma-Associated Antigens Neurosurgery. 66. DOI: 10.1093/Neuros/Nyz310_639  0.382
2019 Verburg N, Barthel F, Anderson K, Koopman T, Yaqub M, Hoekstra O, Lammertsma A, Barkhof F, Pouwels P, C Reijneveld J, Heijmans J, Rozemuller A, Costello J, Taylor M, Vandertop W, et al. PATH-48. THE DNA METHYLATION LANDSCAPE OF CORE AND PERIPHERAL DIFFUSE GLIOMA REGIONS SHOWS LITTLE SPATIAL SUBTYPE HETEROGENEITY AFTER CONSIDERING TUMOR PURITY Neuro-Oncology. 21: vi154-vi154. DOI: 10.1093/Neuonc/Noz175.644  0.436
2019 Zhang M, Hilz S, Martin M, Hong C, Yu Y, Bollam S, Grimmer M, Looney T, Lowman G, Ganpule G, Phillips J, Shai A, Chang S, Clarke J, Taylor J, ... ... Costello J, et al. IMMU-11. SPATIOTEMPORAL IMMUNOGENOMIC ANALYSIS OF THE T-CELL REPERTOIRE IN IDH-MUTANT LOWER GRADE GLIOMAS Neuro-Oncology. 21: vi121-vi121. DOI: 10.1093/Neuonc/Noz175.505  0.746
2019 Hilz S, Hong C, Jalbert L, Mazor T, Martin M, Kumar A, Shelton S, Wong K, Hayes J, Yu Y, Zhang M, Luks T, Olson M, Lafontaine M, Shai A, ... ... Costello J, et al. GENE-47. A 3D ATLAS TO EVALUATE THE SPATIAL PATTERNING OF GENETIC ALTERATIONS AND TUMOR CELL STATES IN GLIOMA Neuro-Oncology. 21: vi107-vi108. DOI: 10.1093/Neuonc/Noz175.449  0.52
2019 Amen A, Lew R, Ren S, McKinney A, Mancini A, Doudna J, Fellmann C, Costello J. GENE-43. TARGETING GABPb1L INHIBITS IN VIVO GROWTH OF TERT PROMOTER MUTANT GLIOBLASTOMA Neuro-Oncology. 21: vi106-vi107. DOI: 10.1093/Neuonc/Noz175.445  0.4
2019 Mathur R, Zhang Y, Grimmer M, Hong C, Berger M, Molinaro A, Ann Oberheim-Bush N, Chang S, Costello J. GENE-35. MGMT PROMOTER METHYLATION IN NEWLY DIAGNOSED LGG AS A POTENTIAL BIOMARKER FOR TMZ-ASSOCIATED HYPERMUTATION AT RECURRENCE Neuro-Oncology. 21: vi105-vi105. DOI: 10.1093/Neuonc/Noz175.437  0.774
2019 McKinney A, Amen A, Stevers N, Costello J. CSIG-24. GABP LINKS AMPK SIGNALING TO TERT REGULATION IN A TERT PROMOTER MUTATION DEPENDENT MANNER Neuro-Oncology. 21: vi49-vi49. DOI: 10.1093/Neuonc/Noz175.194  0.363
2019 Magill S, Vasudevan H, Seo K, John Liu S, Hilz S, Villanueva-Meyer J, Choudhury A, Demaree B, Lim D, Braunstein S, Ann Oberheim-Bush N, Ullian E, Aghi M, Theodosopoulos P, Sneed P, ... ... Costello J, et al. TMOD-27. A NEURAL CREST CELL SUBPOPULATION UNDERLIES INTRATUMOR HETEROGENEITY IN MENINGIOMA Neuro-Oncology. 21: vi268-vi268. DOI: 10.1093/Neuonc/Noz175.1126  0.732
2019 Liu SJ, Magill S, Vasudevan H, Hilz S, Daggubati V, Villanueva-Meyer J, Choudhury A, Ferris S, Orr B, Bush NAO, Bollen A, McDermott M, Costello J, Raleigh D. EPEN-02. MULTIPLATFORM MOLECULAR PROFILING REVEALS INTRATUMOR HETEROGENEITY IN EPENDYMOMA Neuro-Oncology. 21: ii77-ii78. DOI: 10.1093/Neuonc/Noz036.061  0.662
2018 Xavier-Magalhães A, Gonçalves CS, Fogli A, Lourenço T, Pojo M, Pereira B, Rocha M, Lopes MC, Crespo I, Rebelo O, Tão H, Lima J, Moreira R, Pinto AA, Jones C, ... ... Costello JF, et al. The long non-coding RNA is transcriptionally activated by HOXA9 and is an independent prognostic marker in patients with malignant glioma. Oncotarget. 9: 15740-15756. PMID 29644006 DOI: 10.18632/Oncotarget.24597  0.343
2018 Choi S, Yu Y, Grimmer MR, Wahl M, Chang SM, Costello JF. Temozolomide-associated Hypermutation in Gliomas. Neuro-Oncology. PMID 29452419 DOI: 10.1093/Neuonc/Noy016  0.732
2018 Dutoit V, Migliorini D, Ranzanici G, Marinari E, Widmer V, Lobrinus JA, Momjian S, Costello J, Walker PR, Okada H, Weinschenk T, Herold-Mende C, Dietrich PY. Antigenic expression and spontaneous immune responses support the use of a selected peptide set from the IMA950 glioblastoma vaccine for immunotherapy of grade II and III glioma. Oncoimmunology. 7: e1391972. PMID 29308320 DOI: 10.1080/2162402X.2017.1391972  0.333
2018 Yu Y, Hilz S, Grimmer M, Solomon D, Choi S, Wahl M, Mazor T, Hong C, Shai A, J Phillips J, Villanueva-Meyer J, McDermott M, Haas-Kogan D, Taylor J, Butowski N, ... ... Costello J, et al. PATH-29. CLINICAL SIGNIFICANCE OF TEMOZOLOMIDE-INDUCED SOMATIC HYPERMUTATION IN INITIALLY LOW-GRADE IDH-MUTANT DIFFUSE GLIOMAS Neuro-Oncology. 20: vi164-vi165. DOI: 10.1093/Neuonc/Noy148.685  0.73
2018 Nunez F, Mendez F, Kadiyala P, Alghamri M, Carney S, Ljungman M, Qin T, Sartor M, Venneti S, Lyssiotis C, Costello J, Herting C, Hambardzumyan D, Figueroa M, Lowenstein P, et al. GENE-35. IDH1-R132H INDUCES AN EPIGENETIC REPROGRAMMING IN GLIOMA IMPACTING MEDIAN SURVIVAL, DNA-DAMAGE RESPONSE AND RADIO-SENSITIVITY Neuro-Oncology. 20: vi111-vi111. DOI: 10.1093/Neuonc/Noy148.461  0.328
2018 Magill S, Liu J, Vasudevan H, Hilz S, Ferris S, Ann N, Bush O, Villanueva-Meyer J, Bollen A, Costello J, McDermott M, Raleigh D. GENE-31. MULTIPLATFORM MOLECULAR PROFILING AND QUANTITATIVE IMAGING OF AN ANAPLASTIC EPENDYMOMA REVEALS INTRATUMORAL HETEROGENEITY Neuro-Oncology. 20: vi110-vi110. DOI: 10.1093/Neuonc/Noy148.457  0.664
2018 Verhaak R, Consortium G, Aldape K, Amin S, Ashley D, Barnholtz-Sloan J, Bates A, Beroukhim R, Bock C, Brat D, Claus E, Costello J, de Groot J, Finocchiaro G, French P, et al. DRES-05. MOLECULAR EVOLUTION OF DIFFUSE GLIOMAS AND THE GLIOMA LONGITUDINAL ANALYSIS CONSORTIUM Neuro-Oncology. 20: vi76-vi76. DOI: 10.1093/Neuonc/Noy148.312  0.301
2017 Campbell BB, Light N, Fabrizio D, Zatzman M, Fuligni F, de Borja R, Davidson S, Edwards M, Elvin JA, Hodel KP, Zahurancik WJ, Suo Z, Lipman T, Wimmer K, Kratz CP, ... ... Costello JF, et al. Comprehensive Analysis of Hypermutation in Human Cancer. Cell. PMID 29056344 DOI: 10.1016/J.Cell.2017.09.048  0.728
2017 Wahl M, Chang SM, Phillips JJ, Molinaro AM, Costello JF, Mazor T, Alexandrescu S, Lupo JM, Nelson SJ, Berger M, Prados M, Taylor JW, Butowski N, Clarke JL, Haas-Kogan D. Probing the phosphatidylinositol 3-kinase/mammalian target of rapamycin pathway in gliomas: A phase 2 study of everolimus for recurrent adult low-grade gliomas. Cancer. PMID 28759109 DOI: 10.1002/Cncr.30909  0.336
2017 Kim M, Costello J. DNA methylation: an epigenetic mark of cellular memory. Experimental & Molecular Medicine. 49: e322. PMID 28450738 DOI: 10.1038/Emm.2017.10  0.4
2017 Carrera D, Hayes J, Mueller S, Shelton SJ, Weinschenk T, Song C, Fritsche J, Schoor O, Kuttruff-Coqui S, Hilf N, Kohanbash G, Watchmaker P, Oldham MC, Costello J, Singh H, et al. IMMU-52. SELECTION OF GLIOMA T-CELL THERAPY TARGETS BASED ON THE ANALYSIS OF TUMOR IMMUNOPEPTIDOME AND EXPRESSION PROFILES Neuro-Oncology. 19: vi124-vi124. DOI: 10.1093/Neuonc/Nox168.510  0.347
2017 Mancini A, Xavier-Magalhaes A, Woods W, Nguyen K, Amen A, McKinney A, Hayes J, Song J, Costa B, Perez-Pinera P, Costello J. CSIG-38. REVERSAL OF GLIOBLASTOMA REPLICATIVE IMMORTALITY IN A TERT PROMOTER MUTATION-DEPENDENT MANNER Neuro-Oncology. 19: vi57-vi58. DOI: 10.1093/Neuonc/Nox168.232  0.314
2017 Jones L, Mazor T, Grimmer M, Najac C, Mukherjee J, Chow T, Pieper R, Ronen S, Phillips JJ, Chang S, Costello J. TMOD-23. ESTABLISHMENT AND CHARACTERIZATION OF IDH1-MUTANT HYPERMUTATED GLIOMA CELL LINES Neuro-Oncology. 19: vi259-vi259. DOI: 10.1093/Neuonc/Nox168.1060  0.703
2017 Choi S, Hayes J, Shelton S, Jones L, Mazor T, Fouse S, Oldham M, Costello J. Genetic Characterization of Stromal Cells in High Grade Gliomas International Journal of Radiation Oncology*Biology*Physics. 99: E68. DOI: 10.1016/J.Ijrobp.2017.06.753  0.321
2016 Wahl M, Phillips J, Molinaro A, Lin Y, Perry A, Haas-Kogan DA, Costello J, Dayal M, Butowski N, Clarke J, Prados M, Berger MS, Nelson S, Chang SM. Omission of Radiation Therapy for Low-Grade Gliomas: Molecular and Radiographic Correlates of Treatment Response and Disease Progression on a Phase 2 Clinical Trial of Adjuvant Temozolomide. International Journal of Radiation Oncology, Biology, Physics. 96: S90. PMID 27676047 DOI: 10.1016/J.Ijrobp.2016.06.227  0.428
2016 Wahl M, Phillips JJ, Molinaro AM, Lin Y, Perry A, Haas-Kogan DA, Costello JF, Dayal M, Butowski N, Clarke JL, Prados M, Nelson S, Berger MS, Chang SM. Chemotherapy for adult low-grade gliomas: clinical outcomes by molecular subtype in a phase II study of adjuvant temozolomide. Neuro-Oncology. PMID 27571885 DOI: 10.1093/Neuonc/Now176  0.397
2016 Mazor T, Pankov A, Song J, Costello J. Abstract IA08: An epigenome perspective of human tumor evolution Cancer Research. 76. DOI: 10.1158/1538-7445.Chromepi15-Ia08  0.336
2016 Mazor T, Jalbert L, Pankov A, Hong C, Hayes J, Smirnov I, Marshall R, Perry A, Nelson S, Chang S, Bollen A, Molinaro A, Bengtsson H, Olshen A, Phillips J, ... Costello J, et al. GENT-05. DELETION OR AMPLIFICATION OF MUTANT IDH1 IS ASSOCIATED WITH EXTREME DNA HYPOMETHYLATION AND MALIGNANT PROGRESSION Neuro-Oncology. 18: vi74-vi74. DOI: 10.1093/Neuonc/Now212.311  0.341
2015 Grimmer MR, Costello JF. Cancer: Oncogene brought into the loop. Nature. PMID 26700812 DOI: 10.1038/Nature16330  0.732
2015 Mazor T, Pankov A, Johnson BE, Hong C, Hamilton EG, Bell RJ, Smirnov IV, Reis GF, Phillips JJ, Barnes MJ, Idbaih A, Alentorn A, Kloezeman JJ, Lamfers ML, Bollen AW, ... ... Costello JF, et al. DNA Methylation and Somatic Mutations Converge on the Cell Cycle and Define Similar Evolutionary Histories in Brain Tumors. Cancer Cell. 28: 307-17. PMID 26373278 DOI: 10.1016/J.Ccell.2015.07.012  0.33
2015 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, ... ... Costello JF, et al. Evolution of DNA repair defects during malignant progression of low-grade gliomas after temozolomide treatment. Acta Neuropathologica. 129: 597-607. PMID 25724300 DOI: 10.1007/S00401-015-1403-6  0.501
2015 Kundaje A, Meuleman W, Ernst J, Bilenky M, Yen A, Heravi-Moussavi A, Kheradpour P, Zhang Z, Wang J, Ziller MJ, Amin V, Whitaker JW, Schultz MD, Ward LD, ... ... Costello JF, et al. Integrative analysis of 111 reference human epigenomes. Nature. 518: 317-30. PMID 25693563 DOI: 10.1038/Nature14248  0.539
2015 Elliott G, Hong C, Xing X, Zhou X, Li D, Coarfa C, Bell RJ, Maire CL, Ligon KL, Sigaroudinia M, Gascard P, Tlsty TD, Harris RA, Schalkwyk LC, Bilenky M, ... ... Costello JF, et al. Intermediate DNA methylation is a conserved signature of genome regulation. Nature Communications. 6: 6363. PMID 25691127 DOI: 10.1038/Ncomms7363  0.556
2015 Gascard P, Bilenky M, Sigaroudinia M, Zhao J, Li L, Carles A, Delaney A, Tam A, Kamoh B, Cho S, Griffith M, Chu A, Robertson G, Cheung D, Li I, ... ... Costello JF, et al. Epigenetic and transcriptional determinants of the human breast. Nature Communications. 6: 6351. PMID 25690954 DOI: 10.1038/Ncomms7351  0.519
2015 Kohanbash G, Shrivastav S, Ahn B, Hou Y, Costello J, Okada H. IDH mutation-induced suppression of type-1 anti-glioma immune response Journal For Immunotherapy of Cancer. 3. DOI: 10.1186/2051-1426-3-S2-P271  0.408
2015 Shelton S, Johnson B, Mazor T, Potts M, McDermott M, Huang E, Lim D, Pieper R, Berger M, Phillips J, Costello J, Oldham M. MPTH-29CONNECTING MUTANT GENOTYPES TO ABERRANT TRANSCRIPTIONAL SIGNATURES ACROSS SERIAL SECTIONS OF A HUMAN TUMOR Neuro-Oncology. 17: v144.4-v145. DOI: 10.1093/Neuonc/Nov222.29  0.538
2015 Bell R, Rube HT, Kreig A, Mancini A, Fouse S, Nagarajan R, Choi S, Hong C, He D, Pekmezci M, Wiencke J, Wrensch M, Chang S, Walsh K, Myong S, ... ... Costello J, et al. GENO-07A MECHANISM OF MUTANT TERT PROMOTER ACTIVATION SHARED ACROSS CANCER TYPES Neuro-Oncology. 17: v92.3-v92. DOI: 10.1093/Neuonc/Nov215.07  0.352
2014 Lowdon RF, Zhang B, Bilenky M, Mauro T, Li D, Gascard P, Sigaroudinia M, Farnham PJ, Bastian BC, Tlsty TD, Marra MA, Hirst M, Costello JF, Wang T, Cheng JB. Regulatory network decoded from epigenomes of surface ectoderm-derived cell types. Nature Communications. 5: 5442. PMID 25421844 DOI: 10.1038/Ncomms6442  0.542
2014 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, ... ... Costello JF, et al. Mutational analysis reveals the origin and therapy-driven evolution of recurrent glioma. Science (New York, N.Y.). 343: 189-93. PMID 24336570 DOI: 10.1126/Science.1239947  0.459
2014 Huse JT, Wallace M, Aldape KD, Berger MS, Bettegowda C, Brat DJ, Cahill DP, Cloughesy T, Haas-Kogan DA, Marra M, Miller CR, Nelson SJ, Salama SR, Soffietti R, Wen PY, ... ... Costello JF, et al. Where are we now? And where are we going? A report from the Accelerate Brain Cancer Cure (ABC2) low-grade glioma research workshop. Neuro-Oncology. 16: 173-8. PMID 24305708 DOI: 10.1093/Neuonc/Not229  0.407
2014 Nagarajan R, Barajas R, Mazor T, Phillips J, Ma J, Hong C, Johnson B, Dayal M, Cha S, Nakamura J, Berger M, Chang S, Furnari F, Taylor B, Costello J. GE-42 * INTEGRATED RADIOGRAPHIC AND PHYLOGENETIC CASE STUDY OF A PRIMARY AND CONTRALATERAL RECURRENT GLIOMA Neuro-Oncology. 16: v105-v106. DOI: 10.1093/Neuonc/Nou256.41  0.511
2014 Johnson B, Mazor T, Hong C, Barnes M, Yamamoto S, Ueda H, Tatsuno K, Aihara K, Asthana S, Dayal M, Nelson S, Phillips J, Bollen A, Mukasa A, Saito N, ... ... Costello J, et al. GE-15 * CLONAL EVOLUTION AND INTRATUMORAL HETEROGENEITY OF LOW-GRADE GLIOMA GENOMES Neuro-Oncology. 16: v99-v99. DOI: 10.1093/Neuonc/Nou256.15  0.543
2014 Fouse S, Steino A, Butowski N, Bacha J, Brown D, Costello J. ET-18 * VAL-083 IS A NOVEL N7 ALKYLATING AGENT THAT INHIBITS THE GROWTH OF GLIOMA STEM AND NON-STEM CULTURES, INCLUDING TEMOZOLOMIDE-RESISTANT LINES Neuro-Oncology. 16: v83-v83. DOI: 10.1093/Neuonc/Nou255.18  0.352
2014 Mazor T, Pankov A, Johnson BE, Hong C, Bell RJA, Smirnov IV, Reis GF, Phillips JJ, Barnes M, Bollen AW, Taylor BS, Molinaro AM, Olshen AB, Song JS, Berger MS, ... ... Costello JF, et al. EG-07 * CELL CYCLE SIGNATURE AND TUMOR PHYLOGENY ARE ENCODED IN THE EVOLUTIONARY DYNAMICS OF DNA METHYLATION IN GLIOMA Neuro-Oncology. 16: v76-v76. DOI: 10.1093/Neuonc/Nou254.7  0.378
2014 Costello JF, Mazor T, Pankov A, Johnson BE, Hong C, Bell RJA, Smirnov IV, Reis GF, Phillips JJ, Barnes M, Bollen AW, Taylor BS, Molinaro AM, Olshen AB, Song JS, ... ... Costello JF, et al. CLONAL EVOLUTION OF GLIOMAS IS ENCODED IN THE EVOLUTIONARY DYNAMICS OF DNA METHYLATION Neuro-Oncology. 16: iii51-iii52. DOI: 10.1093/Neuonc/Nou209.38  0.372
2013 Zhang B, Zhou Y, Lin N, Lowdon RF, Hong C, Nagarajan RP, Cheng JB, Li D, Stevens M, Lee HJ, Xing X, Zhou J, Sundaram V, Elliott G, Gu J, ... ... Costello JF, et al. Functional DNA methylation differences between tissues, cell types, and across individuals discovered using the M&M algorithm. Genome Research. 23: 1522-40. PMID 23804400 DOI: 10.1101/Gr.156539.113  0.544
2013 Xie M, Hong C, Zhang B, Lowdon RF, Xing X, Li D, Zhou X, Lee HJ, Maire CL, Ligon KL, Gascard P, Sigaroudinia M, Tlsty TD, Kadlecek T, Weiss A, ... ... Costello JF, et al. DNA hypomethylation within specific transposable element families associates with tissue-specific enhancer landscape. Nature Genetics. 45: 836-41. PMID 23708189 DOI: 10.1038/Ng.2649  0.532
2013 Nagarajan RP, Fouse SD, Bell RJ, Costello JF. Methods for cancer epigenome analysis. Advances in Experimental Medicine and Biology. 754: 313-38. PMID 22956508 DOI: 10.1007/978-1-4419-9967-2_15  0.328
2013 Adachi K, Sasaki H, Nagahisa S, Yoshida K, Hattori N, Nishiyama Y, Kawase T, Hasegawa M, Abe M, Hirose Y, Alentorn A, Marie Y, Poggioli S, Alshehhi H, Boisselier B, ... ... Costello J, ... ... Costello J, ... ... Costello J, ... ... Costello JF, ... ... Costello J, ... ... Costello J, et al. OMICS AND PROGNSTIC MARKERS Neuro-Oncology. 15: iii136-iii155. DOI: 10.1093/Neuonc/Not183  0.371
2012 Nielsen CB, Younesy H, O'Geen H, Xu X, Jackson AR, Milosavljevic A, Wang T, Costello JF, Hirst M, Farnham PJ, Jones SJ. Spark: a navigational paradigm for genomic data exploration. Genome Research. 22: 2262-9. PMID 22960372 DOI: 10.1101/Gr.140665.112  0.492
2011 Zhou X, Maricque B, Xie M, Li D, Sundaram V, Martin EA, Koebbe BC, Nielsen C, Hirst M, Farnham P, Kuhn RM, Zhu J, Smirnov I, Kent WJ, Haussler D, ... ... Costello JF, et al. The Human Epigenome Browser at Washington University. Nature Methods. 8: 989-90. PMID 22127213 DOI: 10.1038/Nmeth.1772  0.445
2011 Blahnik KR, Dou L, Echipare L, Iyengar S, O'Geen H, Sanchez E, Zhao Y, Marra MA, Hirst M, Costello JF, Korf I, Farnham PJ. Characterization of the contradictory chromatin signatures at the 3' exons of zinc finger genes. Plos One. 6: e17121. PMID 21347206 DOI: 10.1371/Journal.Pone.0017121  0.524
2010 Bernstein BE, Stamatoyannopoulos JA, Costello JF, Ren B, Milosavljevic A, Meissner A, Kellis M, Marra MA, Beaudet AL, Ecker JR, Farnham PJ, Hirst M, Lander ES, Mikkelsen TS, Thomson JA. The NIH Roadmap Epigenomics Mapping Consortium. Nature Biotechnology. 28: 1045-8. PMID 20944595 DOI: 10.1038/Nbt1010-1045  0.463
2010 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, ... ... Costello JF, et al. Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications. Nature Biotechnology. 28: 1097-105. PMID 20852635 DOI: 10.1038/Nbt.1682  0.545
2010 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, ... ... Costello JF, et al. Conserved role of intragenic DNA methylation in regulating alternative promoters. Nature. 466: 253-7. PMID 20613842 DOI: 10.1038/Nature09165  0.682
2009 Fouse SD, Costello JF. Epigenetics of neurological cancers. Future Oncology (London, England). 5: 1615-29. PMID 20001799 DOI: 10.2217/Fon.09.132  0.302
2009 Nagarajan RP, Costello JF. Molecular epigenetics and genetics in neuro-oncology. Neurotherapeutics : the Journal of the American Society For Experimental Neurotherapeutics. 6: 436-46. PMID 19560734 DOI: 10.1016/j.nurt.2009.04.002  0.32
2009 Nagarajan RP, Costello JF. Epigenetic mechanisms in glioblastoma multiforme. Seminars in Cancer Biology. 19: 188-97. PMID 19429483 DOI: 10.1016/j.semcancer.2009.02.005  0.302
2009 Jun P, Hong C, Lal A, Wong JM, McDermott MW, Bollen AW, Plass C, Held WA, Smiraglia DJ, Costello JF. Epigenetic silencing of the kinase tumor suppressor WNK2 is tumor-type and tumor-grade specific. Neuro-Oncology. 11: 414-22. PMID 19001526 DOI: 10.1215/15228517-2008-096  0.329
2009 Rinaudo P, Giritharan G, Piane Delle L, Donjacoru A, Hong C, Maunakea A, Costello JF. Effect of the Method of Conception on SHANK3 Expression and Methylation in the Hippocampus of Adult Mice. Biology of Reproduction. 81: 268-268. DOI: 10.1093/biolreprod/81.s1.268  0.631
2008 Silber J, Lim DA, Petritsch C, Persson AI, Maunakea AK, Yu M, Vandenberg SR, Ginzinger DG, James CD, Costello JF, Bergers G, Weiss WA, Alvarez-Buylla A, Hodgson JG. miR-124 and miR-137 inhibit proliferation of glioblastoma multiforme cells and induce differentiation of brain tumor stem cells. Bmc Medicine. 6: 14. PMID 18577219 DOI: 10.1186/1741-7015-6-14  0.666
2008 Raphael BJ, Volik S, Yu P, Wu C, Huang G, Linardopoulou EV, Trask BJ, Waldman F, Costello J, Pienta KJ, Mills GB, Bajsarowicz K, Kobayashi Y, Sridharan S, Paris PL, et al. A sequence-based survey of the complex structural organization of tumor genomes. Genome Biology. 9: R59. PMID 18364049 DOI: 10.1186/Gb-2008-9-3-R59  0.369
2007 Smiraglia DJ, Kazhiyur-Mannar R, Oakes CC, Wu YZ, Liang P, Ansari T, Su J, Rush LJ, Smith LT, Yu L, Liu C, Dai Z, Chen SS, Wang SH, Costello J, et al. Restriction landmark genomic scanning (RLGS) spot identification by second generation virtual RLGS in multiple genomes with multiple enzyme combinations. Bmc Genomics. 8: 446. PMID 18053125 DOI: 10.1186/1471-2164-8-446  0.3
2007 Smith JF, Mahmood S, Song F, Morrow A, Smiraglia D, Zhang X, Rajput A, Higgins MJ, Krumm A, Petrelli NJ, Costello JF, Nagase H, Plass C, Held WA. Identification of DNA methylation in 3' genomic regions that are associated with upregulation of gene expression in colorectal cancer. Epigenetics. 2: 161-72. PMID 17965620 DOI: 10.4161/Epi.2.3.4805  0.306
2007 Hong C, Moorefield KS, Jun P, Aldape KD, Kharbanda S, Phillips HS, Costello JF. Epigenome scans and cancer genome sequencing converge on WNK2, a kinase-independent suppressor of cell growth. Proceedings of the National Academy of Sciences of the United States of America. 104: 10974-9. PMID 17578925 DOI: 10.1073/Pnas.0700683104  0.312
2005 Ching TT, Maunakea AK, Jun P, Hong C, Zardo G, Pinkel D, Albertson DG, Fridlyand J, Mao JH, Shchors K, Weiss WA, Costello JF. Epigenome analyses using BAC microarrays identify evolutionary conservation of tissue-specific methylation of SHANK3. Nature Genetics. 37: 645-51. PMID 15895082 DOI: 10.1038/Ng1563  0.673
2005 Hong C, Maunakea A, Jun P, Bollen AW, Hodgson JG, Goldenberg DD, Weiss WA, Costello JF. Shared epigenetic mechanisms in human and mouse gliomas inactivate expression of the growth suppressor SLC5A8. Cancer Research. 65: 3617-23. PMID 15867356 DOI: 10.1158/0008-5472.Can-05-0048  0.711
2003 Costello JF. DNA methylation in brain development and gliomagenesis Frontiers in Bioscience. 8. PMID 12456310 DOI: 10.2741/1027  0.319
2000 Costello JF, Plass C, Cavenee WK. Aberrant methylation of genes in low-grade astrocytomas. Brain Tumor Pathology. 17: 49-56. PMID 11210171 DOI: 10.1007/Bf02482735  0.308
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