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Items: 17

1.

Methylomic correlates of autophagy activity in cystic fibrosis.

Caution K, Pan A, Krause K, Badr A, Hamilton K, Vaidya A, Gosu H, Daily K, Estfanous S, Gavrilin MA, Drew ME, Cormet-Boyaka E, Chen X, Frankhouser DE, Bundschuh R, Yan P, Dakhlallah D, Amer AO.

J Cyst Fibros. 2019 Jul;18(4):491-500. doi: 10.1016/j.jcf.2019.01.011. Epub 2019 Feb 6.

2.

FuSpot: a web-based tool for visual evaluation of fusion candidates.

Killian JA, Topiwala TM, Pelletier AR, Frankhouser DE, Yan PS, Bundschuh R.

BMC Genomics. 2018 Feb 13;19(1):139. doi: 10.1186/s12864-018-4486-3.

3.

Complete Transcriptome RNA-Seq.

Miller DF, Yan P, Fang F, Buechlein A, Kroll K, Frankhouser D, Stump C, Stump P, Ford JB, Tang H, Michaels S, Matei D, Huang TH, Chien J, Liu Y, Rusch DB, Nephew KP.

Methods Mol Biol. 2017;1513:141-162.

PMID:
27807835
4.

The dual epigenetic role of PRMT5 in acute myeloid leukemia: gene activation and repression via histone arginine methylation.

Tarighat SS, Santhanam R, Frankhouser D, Radomska HS, Lai H, Anghelina M, Wang H, Huang X, Alinari L, Walker A, Caligiuri MA, Croce CM, Li L, Garzon R, Li C, Baiocchi RA, Marcucci G.

Leukemia. 2016 Apr;30(4):789-99. doi: 10.1038/leu.2015.308. Epub 2015 Nov 5.

PMID:
26536822
5.

Preclinical Investigation of the Novel Histone Deacetylase Inhibitor AR-42 in the Treatment of Cancer-Induced Cachexia.

Tseng YC, Kulp SK, Lai IL, Hsu EC, He WA, Frankhouser DE, Yan PS, Mo X, Bloomston M, Lesinski GB, Marcucci G, Guttridge DC, Bekaii-Saab T, Chen CS.

J Natl Cancer Inst. 2015 Oct 12;107(12):djv274. doi: 10.1093/jnci/djv274. Print 2015 Dec.

6.

Statistical methods for detecting differentially methylated regions based on MethylCap-seq data.

Ayyala DN, Frankhouser DE, Ganbat JO, Marcucci G, Bundschuh R, Yan P, Lin S.

Brief Bioinform. 2016 Nov;17(6):926-937. Epub 2015 Oct 9. Review.

7.

Methylation-dependent loss of RIP3 expression in cancer represses programmed necrosis in response to chemotherapeutics.

Koo GB, Morgan MJ, Lee DG, Kim WJ, Yoon JH, Koo JS, Kim SI, Kim SJ, Son MK, Hong SS, Levy JM, Pollyea DA, Jordan CT, Yan P, Frankhouser D, Nicolet D, Maharry K, Marcucci G, Choi KS, Cho H, Thorburn A, Kim YS.

Cell Res. 2015 Jun;25(6):707-25. doi: 10.1038/cr.2015.56. Epub 2015 May 8.

8.

Quality Control for RNA-Seq (QuaCRS): An Integrated Quality Control Pipeline.

Kroll KW, Mokaram NE, Pelletier AR, Frankhouser DE, Westphal MS, Stump PA, Stump CL, Bundschuh R, Blachly JS, Yan P.

Cancer Inform. 2014 Oct 15;13(Suppl 3):7-14. doi: 10.4137/CIN.S14022. eCollection 2014.

9.

Prognostic and biologic significance of DNMT3B expression in older patients with cytogenetically normal primary acute myeloid leukemia.

Niederwieser C, Kohlschmidt J, Volinia S, Whitman SP, Metzeler KH, Eisfeld AK, Maharry K, Yan P, Frankhouser D, Becker H, Schwind S, Carroll AJ, Nicolet D, Mendler JH, Curfman JP, Wu YZ, Baer MR, Powell BL, Kolitz JE, Moore JO, Carter TH, Bundschuh R, Larson RA, Stone RM, Mrózek K, Marcucci G, Bloomfield CD.

Leukemia. 2015 Mar;29(3):567-75. doi: 10.1038/leu.2014.267. Epub 2014 Sep 10.

10.

PrEMeR-CG: inferring nucleotide level DNA methylation values from MethylCap-seq data.

Frankhouser DE, Murphy M, Blachly JS, Park J, Zoller MW, Ganbat JO, Curfman J, Byrd JC, Lin S, Marcucci G, Yan P, Bundschuh R.

Bioinformatics. 2014 Dec 15;30(24):3567-74. doi: 10.1093/bioinformatics/btu583. Epub 2014 Aug 31.

11.

Epigenetics meets genetics in acute myeloid leukemia: clinical impact of a novel seven-gene score.

Marcucci G, Yan P, Maharry K, Frankhouser D, Nicolet D, Metzeler KH, Kohlschmidt J, Mrózek K, Wu YZ, Bucci D, Curfman JP, Whitman SP, Eisfeld AK, Mendler JH, Schwind S, Becker H, Bär C, Carroll AJ, Baer MR, Wetzler M, Carter TH, Powell BL, Kolitz JE, Byrd JC, Plass C, Garzon R, Caligiuri MA, Stone RM, Volinia S, Bundschuh R, Bloomfield CD.

J Clin Oncol. 2014 Feb 20;32(6):548-56. doi: 10.1200/JCO.2013.50.6337. Epub 2013 Dec 30.

12.

Toward personalized therapy in AML: in vivo benefit of targeting aberrant epigenetics in MLL-PTD-associated AML.

Bernot KM, Siebenaler RF, Whitman SP, Zorko NA, Marcucci GG, Santhanam R, Ahmed EH, Ngangana M, McConnell KK, Nemer JS, Brook DL, Kulp SK, Chen CS, Frankhouser D, Yan P, Bundschuh R, Zhang X, Dorrance AM, Dickerson KE, Jarjoura D, Blum W, Marcucci G, Caligiuri MA.

Leukemia. 2013 Dec;27(12):2379-82. doi: 10.1038/leu.2013.147. Epub 2013 May 10. No abstract available.

13.

Enrichment-based DNA methylation analysis using next-generation sequencing: sample exclusion, estimating changes in global methylation, and the contribution of replicate lanes.

Trimarchi MP, Murphy M, Frankhouser D, Rodriguez BA, Curfman J, Marcucci G, Yan P, Bundschuh R.

BMC Genomics. 2012;13 Suppl 8:S6. doi: 10.1186/1471-2164-13-S8-S6. Epub 2012 Dec 17.

14.

Methods for high-throughput MethylCap-Seq data analysis.

Rodriguez BA, Frankhouser D, Murphy M, Trimarchi M, Tam HH, Curfman J, Huang R, Chan MW, Lai HC, Parikh D, Ball B, Schwind S, Blum W, Marcucci G, Yan P, Bundschuh R.

BMC Genomics. 2012;13 Suppl 6:S14. doi: 10.1186/1471-2164-13-S6-S14. Epub 2012 Oct 26.

15.

Genome-wide methylation profiling in decitabine-treated patients with acute myeloid leukemia.

Yan P, Frankhouser D, Murphy M, Tam HH, Rodriguez B, Curfman J, Trimarchi M, Geyer S, Wu YZ, Whitman SP, Metzeler K, Walker A, Klisovic R, Jacob S, Grever MR, Byrd JC, Bloomfield CD, Garzon R, Blum W, Caligiuri MA, Bundschuh R, Marcucci G.

Blood. 2012 Sep 20;120(12):2466-74. Epub 2012 Jul 11.

16.

Comparison of insertional RNA editing in Myxomycetes.

Chen C, Frankhouser D, Bundschuh R.

PLoS Comput Biol. 2012;8(2):e1002400. doi: 10.1371/journal.pcbi.1002400. Epub 2012 Feb 23.

17.

A Scalable, Flexible Workflow for MethylCap-Seq Data Analysis.

Rodriguez B, Tam HH, Frankhouser D, Trimarchi M, Murphy M, Kuo C, Parikh D, Ball B, Schwind S, Curfman J, Blum W, Marcucci G, Yan P, Bundschuh R.

IEEE Int Workshop Genomic Signal Process Stat. 2011:1-4.

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