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Scalable and cost-effective NGS genotyping in the cloud.

Souilmi Y, Lancaster AK, Jung JY, Rizzo E, Hawkins JB, Powles R, Amzazi S, Ghazal H, Tonellato PJ, Wall DP.

BMC Med Genomics. 2015 Oct 15;8(1):64. doi: 10.1186/s12920-015-0134-9.


Identifying contrasting influences and surface water signals for specific groundwater phosphorus vulnerability.

Mellander PE, Jordan P, Shore M, McDonald NT, Wall DP, Shortle G, Daly K.

Sci Total Environ. 2016 Jan 15;541:292-302. doi: 10.1016/j.scitotenv.2015.09.082. Epub 2015 Sep 25.


A transgenic resource for conditional competitive inhibition of conserved Drosophila microRNAs.

Fulga TA, McNeill EM, Binari R, Yelick J, Blanche A, Booker M, Steinkraus BR, Schnall-Levin M, Zhao Y, DeLuca T, Bejarano F, Han Z, Lai EC, Wall DP, Perrimon N, Van Vactor D.

Nat Commun. 2015 Jun 17;6:7279. doi: 10.1038/ncomms8279.


Testing the accuracy of an observation-based classifier for rapid detection of autism risk.

Duda M, Kosmicki JA, Wall DP.

Transl Psychiatry. 2015 Apr 28;5:e556. doi: 10.1038/tp.2015.51. No abstract available.


Searching for a minimal set of behaviors for autism detection through feature selection-based machine learning.

Kosmicki JA, Sochat V, Duda M, Wall DP.

Transl Psychiatry. 2015 Feb 24;5:e514. doi: 10.1038/tp.2015.7.


Testing the accuracy of an observation-based classifier for rapid detection of autism risk.

Duda M, Kosmicki JA, Wall DP.

Transl Psychiatry. 2014 Aug 12;4:e424. doi: 10.1038/tp.2014.65. Erratum in: Transl Psychiatry. 2014;4:e440.


A framework for the interpretation of de novo mutation in human disease.

Samocha KE, Robinson EB, Sanders SJ, Stevens C, Sabo A, McGrath LM, Kosmicki JA, Rehnström K, Mallick S, Kirby A, Wall DP, MacArthur DG, Gabriel SB, DePristo M, Purcell SM, Palotie A, Boerwinkle E, Buxbaum JD, Cook EH Jr, Gibbs RA, Schellenberg GD, Sutcliffe JS, Devlin B, Roeder K, Neale BM, Daly MJ.

Nat Genet. 2014 Sep;46(9):944-50. doi: 10.1038/ng.3050. Epub 2014 Aug 3.


COSMOS: Python library for massively parallel workflows.

Gafni E, Luquette LJ, Lancaster AK, Hawkins JB, Jung JY, Souilmi Y, Wall DP, Tonellato PJ.

Bioinformatics. 2014 Oct 15;30(20):2956-8. doi: 10.1093/bioinformatics/btu385. Epub 2014 Jun 30.


Evaluating the critical source area concept of phosphorus loss from soils to water-bodies in agricultural catchments.

Shore M, Jordan P, Mellander PE, Kelly-Quinn M, Wall DP, Murphy PN, Melland AR.

Sci Total Environ. 2014 Aug 15;490:405-15. doi: 10.1016/j.scitotenv.2014.04.122. Epub 2014 May 24.


The potential of accelerating early detection of autism through content analysis of YouTube videos.

Fusaro VA, Daniels J, Duda M, DeLuca TF, D'Angelo O, Tamburello J, Maniscalco J, Wall DP.

PLoS One. 2014 Apr 16;9(4):e93533. doi: 10.1371/journal.pone.0093533. eCollection 2014.


Genetic Networks of Complex Disorders: from a Novel Search Engine for PubMed Article Database.

Jung JY, Wall DP.

AMIA Jt Summits Transl Sci Proc. 2013 Mar 18;2013:99. eCollection 2013.


A literature search tool for intelligent extraction of disease-associated genes.

Jung JY, DeLuca TF, Nelson TH, Wall DP.

J Am Med Inform Assoc. 2014 May-Jun;21(3):399-405. doi: 10.1136/amiajnl-2012-001563. Epub 2013 Sep 2.


Systems biology as a comparative approach to understand complex gene expression in neurological diseases.

Diaz-Beltran L, Cano C, Wall DP, Esteban FJ.

Behav Sci (Basel). 2013 May 21;3(2):253-72. doi: 10.3390/bs3020253. eCollection 2013 Jun. Review.


Haplotype structure enables prioritization of common markers and candidate genes in autism spectrum disorder.

Vardarajan BN, Eran A, Jung JY, Kunkel LM, Wall DP.

Transl Psychiatry. 2013 May 28;3:e262. doi: 10.1038/tp.2013.38.


Quantification of phosphorus transport from a karstic agricultural watershed to emerging spring water.

Mellander PE, Jordan P, Melland AR, Murphy PN, Wall DP, Mechan S, Meehan R, Kelly C, Shine O, Shortle G.

Environ Sci Technol. 2013 Jun 18;47(12):6111-9. doi: 10.1021/es304909y. Epub 2013 May 28.


Personalized cloud-based bioinformatics services for research and education: use cases and the elasticHPC package.

El-Kalioby M, Abouelhoda M, Krüger J, Giegerich R, Sczyrba A, Wall DP, Tonellato P.

BMC Bioinformatics. 2012;13 Suppl 17:S22. doi: 10.1186/1471-2105-13-S17-S22. Epub 2012 Dec 13.


Autworks: a cross-disease network biology application for Autism and related disorders.

Nelson TH, Jung JY, Deluca TF, Hinebaugh BK, St Gabriel KC, Wall DP.

BMC Med Genomics. 2012 Nov 28;5:56. doi: 10.1186/1755-8794-5-56.


Cross-pollination of research findings, although uncommon, may accelerate discovery of human disease genes.

Duda M, Nelson T, Wall DP.

BMC Med Genet. 2012 Nov 28;13:114. doi: 10.1186/1471-2350-13-114.


Responding to a diagnosis of localized prostate cancer: men's experiences of normal distress during the first 3 postdiagnostic months.

Wall DP, Kristjanson LJ, Fisher C, Boldy D, Kendall GE.

Cancer Nurs. 2013 Nov-Dec;36(6):E44-50. doi: 10.1097/NCC.0b013e3182747bef.


Cloud computing for comparative genomics with windows azure platform.

Kim I, Jung JY, Deluca TF, Nelson TH, Wall DP.

Evol Bioinform Online. 2012;8:527-34. doi: 10.4137/EBO.S9946. Epub 2012 Aug 30.

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