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Items: 14

1.

De novo mutations in the GTP/GDP-binding region of RALA, a RAS-like small GTPase, cause intellectual disability and developmental delay.

Hiatt SM, Neu MB, Ramaker RC, Hardigan AA, Prokop JW, Hancarova M, Prchalova D, Havlovicova M, Prchal J, Stranecky V, Yim DKC, Powis Z, Keren B, Nava C, Mignot C, Rio M, Revah-Politi A, Hemati P, Stong N, Iglesias AD, Suchy SF, Willaert R, Wentzensen IM, Wheeler PG, Brick L, Kozenko M, Hurst ACE, Wheless JW, Lacassie Y, Myers RM, Barsh GS, Sedlacek Z, Cooper GM.

PLoS Genet. 2018 Nov 30;14(11):e1007671. doi: 10.1371/journal.pgen.1007671. eCollection 2018 Nov.

2.

Discovery and Validation of Circulating Biomarkers of Colorectal Adenoma by High-Depth Small RNA Sequencing.

Roberts BS, Hardigan AA, Moore DE, Ramaker RC, Jones AL, Fitz-Gerald MB, Cooper GM, Wilcox CM, Kimberly RP, Myers RM.

Clin Cancer Res. 2018 May 1;24(9):2092-2099. doi: 10.1158/1078-0432.CCR-17-1960. Epub 2018 Feb 28.

3.

A genome-wide interactome of DNA-associated proteins in the human liver.

Ramaker RC, Savic D, Hardigan AA, Newberry K, Cooper GM, Myers RM, Cooper SJ.

Genome Res. 2017 Nov;27(11):1950-1960. doi: 10.1101/gr.222083.117. Epub 2017 Oct 11.

4.

Post-mortem molecular profiling of three psychiatric disorders.

Ramaker RC, Bowling KM, Lasseigne BN, Hagenauer MH, Hardigan AA, Davis NS, Gertz J, Cartagena PM, Walsh DM, Vawter MP, Jones EG, Schatzberg AF, Barchas JD, Watson SJ, Bunney BG, Akil H, Bunney WE, Li JZ, Cooper SJ, Myers RM.

Genome Med. 2017 Jul 28;9(1):72. doi: 10.1186/s13073-017-0458-5.

5.

RNA sequencing-based cell proliferation analysis across 19 cancers identifies a subset of proliferation-informative cancers with a common survival signature.

Ramaker RC, Lasseigne BN, Hardigan AA, Palacio L, Gunther DS, Myers RM, Cooper SJ.

Oncotarget. 2017 Jun 13;8(24):38668-38681. doi: 10.18632/oncotarget.16961.

6.

aRNApipe: a balanced, efficient and distributed pipeline for processing RNA-seq data in high-performance computing environments.

Alonso A, Lasseigne BN, Williams K, Nielsen J, Ramaker RC, Hardigan AA, Johnston B, Roberts BS, Cooper SJ, Marsal S, Myers RM.

Bioinformatics. 2017 Jun 1;33(11):1727-1729. doi: 10.1093/bioinformatics/btx023.

7.

Mutations in EBF3 Disturb Transcriptional Profiles and Cause Intellectual Disability, Ataxia, and Facial Dysmorphism.

Harms FL, Girisha KM, Hardigan AA, Kortüm F, Shukla A, Alawi M, Dalal A, Brady L, Tarnopolsky M, Bird LM, Ceulemans S, Bebin M, Bowling KM, Hiatt SM, Lose EJ, Primiano M, Chung WK, Juusola J, Akdemir ZC, Bainbridge M, Charng WL, Drummond-Borg M, Eldomery MK, El-Hattab AW, Saleh MAM, Bézieau S, Cogné B, Isidor B, Küry S, Lupski JR, Myers RM, Cooper GM, Kutsche K.

Am J Hum Genet. 2017 Jan 5;100(1):117-127. doi: 10.1016/j.ajhg.2016.11.012. Epub 2016 Dec 22.

8.

Decoding transcriptional enhancers: Evolving from annotation to functional interpretation.

Engel KL, Mackiewicz M, Hardigan AA, Myers RM, Savic D.

Semin Cell Dev Biol. 2016 Sep;57:40-50. doi: 10.1016/j.semcdb.2016.05.014. Epub 2016 May 22. Review.

9.

Blocking of targeted microRNAs from next-generation sequencing libraries.

Roberts BS, Hardigan AA, Kirby MK, Fitz-Gerald MB, Wilcox CM, Kimberly RP, Myers RM.

Nucleic Acids Res. 2015 Dec 2;43(21):e145. doi: 10.1093/nar/gkv724. Epub 2015 Jul 23.

10.

Cigarette smoke activates the proto-oncogene c-src to promote airway inflammation and lung tissue destruction.

Geraghty P, Hardigan A, Foronjy RF.

Am J Respir Cell Mol Biol. 2014 Mar;50(3):559-70. doi: 10.1165/rcmb.2013-0258OC.

11.

The glutathione peroxidase 1-protein tyrosine phosphatase 1B-protein phosphatase 2A axis. A key determinant of airway inflammation and alveolar destruction.

Geraghty P, Hardigan AA, Wallace AM, Mirochnitchenko O, Thankachen J, Arellanos L, Thompson V, D'Armiento JM, Foronjy RF.

Am J Respir Cell Mol Biol. 2013 Nov;49(5):721-30. doi: 10.1165/rcmb.2013-0026OC.

12.

Increased matrix metalloproteinase (MMPs) levels do not predict disease severity or progression in emphysema.

D'Armiento JM, Goldklang MP, Hardigan AA, Geraghty P, Roth MD, Connett JE, Wise RA, Sciurba FC, Scharf SM, Thankachen J, Islam M, Ghio AJ, Foronjy RF.

PLoS One. 2013;8(2):e56352. doi: 10.1371/journal.pone.0056352. Epub 2013 Feb 18.

13.

A comparison of the inflammatory and proteolytic effects of dung biomass and cigarette smoke exposure in the lung.

Mehra D, Geraghty PM, Hardigan AA, Foronjy R.

PLoS One. 2012;7(12):e52889. doi: 10.1371/journal.pone.0052889. Epub 2012 Dec 20.

14.

Protein phosphatase 2A regulates innate immune and proteolytic responses to cigarette smoke exposure in the lung.

Wallace AM, Hardigan A, Geraghty P, Salim S, Gaffney A, Thankachen J, Arellanos L, D'Armiento JM, Foronjy RF.

Toxicol Sci. 2012 Apr;126(2):589-99. doi: 10.1093/toxsci/kfr351. Epub 2012 Jan 5.

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