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Results: 1 to 20 of 33

1.

Lessons from miR-143/145: the importance of cell-type localization of miRNAs.

Kent OA, McCall MN, Cornish TC, Halushka MK.

Nucleic Acids Res. 2014;42(12):7528-38. doi: 10.1093/nar/gku461. Epub 2014 May 29. Review.

PMID:
24875473
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

On non-detects in qPCR data.

McCall MN, McMurray HR, Land H, Almudevar A.

Bioinformatics. 2014 Aug 15;30(16):2310-6. doi: 10.1093/bioinformatics/btu239. Epub 2014 Apr 23.

PMID:
24764462
[PubMed - in process]
Free PMC Article
3.

A critical evaluation of microRNA biomarkers in non-neoplastic disease.

Haider BA, Baras AS, McCall MN, Hertel JA, Cornish TC, Halushka MK.

PLoS One. 2014 Feb 26;9(2):e89565. doi: 10.1371/journal.pone.0089565. eCollection 2014.

PMID:
24586876
[PubMed - in process]
Free PMC Article
4.

On the underlying assumptions of threshold Boolean networks as a model for genetic regulatory network behavior.

Tran V, McCall MN, McMurray HR, Almudevar A.

Front Genet. 2013 Dec 11;4:263. doi: 10.3389/fgene.2013.00263. eCollection 2013.

PMID:
24376454
[PubMed]
Free PMC Article
5.

The Gene Expression Barcode 3.0: improved data processing and mining tools.

McCall MN, Jaffee HA, Zelisko SJ, Sinha N, Hooiveld G, Irizarry RA, Zilliox MJ.

Nucleic Acids Res. 2014 Jan;42(Database issue):D938-43. doi: 10.1093/nar/gkt1204. Epub 2013 Nov 22.

PMID:
24271388
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data.

Wu G, Yustein JT, McCall MN, Zilliox M, Irizarry RA, Zeller K, Dang CV, Ji H.

Bioinformatics. 2013 May 1;29(9):1182-9. doi: 10.1093/bioinformatics/btt108. Epub 2013 Mar 1.

PMID:
23457041
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

fRMA ST: frozen robust multiarray analysis for Affymetrix Exon and Gene ST arrays.

McCall MN, Jaffee HA, Irizarry RA.

Bioinformatics. 2012 Dec 1;28(23):3153-4. doi: 10.1093/bioinformatics/bts588. Epub 2012 Oct 7.

PMID:
23044545
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Spectral-domain optical coherence tomography characteristics of intermediate age-related macular degeneration.

Leuschen JN, Schuman SG, Winter KP, McCall MN, Wong WT, Chew EY, Hwang T, Srivastava S, Sarin N, Clemons T, Harrington M, Toth CA.

Ophthalmology. 2013 Jan;120(1):140-50. doi: 10.1016/j.ophtha.2012.07.004. Epub 2012 Sep 8.

PMID:
22968145
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Affymetrix GeneChip microarray preprocessing for multivariate analyses.

McCall MN, Almudevar A.

Brief Bioinform. 2012 Sep;13(5):536-46. doi: 10.1093/bib/bbr072. Epub 2011 Dec 30.

PMID:
22210854
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

MicroRNA profiling of diverse endothelial cell types.

McCall MN, Kent OA, Yu J, Fox-Talbot K, Zaiman AL, Halushka MK.

BMC Med Genomics. 2011 Nov 2;4:78. doi: 10.1186/1755-8794-4-78.

PMID:
22047531
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Thawing Frozen Robust Multi-array Analysis (fRMA).

McCall MN, Irizarry RA.

BMC Bioinformatics. 2011 Sep 16;12:369. doi: 10.1186/1471-2105-12-369.

PMID:
21923903
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Assessing affymetrix GeneChip microarray quality.

McCall MN, Murakami PN, Lukk M, Huber W, Irizarry RA.

BMC Bioinformatics. 2011 May 7;12:137. doi: 10.1186/1471-2105-12-137.

PMID:
21548974
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.

McCall MN, Uppal K, Jaffee HA, Zilliox MJ, Irizarry RA.

Nucleic Acids Res. 2011 Jan;39(Database issue):D1011-5. doi: 10.1093/nar/gkq1259.

PMID:
21177656
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Fitting Boolean networks from steady state perturbation data.

Almudevar A, McCall MN, McMurray H, Land H.

Stat Appl Genet Mol Biol. 2011 Oct 5;10(1). pii: /j/sagmb.2011.10.issue-1/1544-6115.1727/1544-6115.1727.xml. doi: 10.2202/1544-6115.1727.

PMID:
23089817
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models.

Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD Jr, Oberthuer A, Thomas RS, Paules RS, Fielden M, Barlogie B, Chen W, Du P, Fischer M, Furlanello C, Gallas BD, Ge X, Megherbi DB, Symmans WF, Wang MD, Zhang J, Bitter H, Brors B, Bushel PR, Bylesjo M, Chen M, Cheng J, Cheng J, Chou J, Davison TS, Delorenzi M, Deng Y, Devanarayan V, Dix DJ, Dopazo J, Dorff KC, Elloumi F, Fan J, Fan S, Fan X, Fang H, Gonzaludo N, Hess KR, Hong H, Huan J, Irizarry RA, Judson R, Juraeva D, Lababidi S, Lambert CG, Li L, Li Y, Li Z, Lin SM, Liu G, Lobenhofer EK, Luo J, Luo W, McCall MN, Nikolsky Y, Pennello GA, Perkins RG, Philip R, Popovici V, Price ND, Qian F, Scherer A, Shi T, Shi W, Sung J, Thierry-Mieg D, Thierry-Mieg J, Thodima V, Trygg J, Vishnuvajjala L, Wang SJ, Wu J, Wu Y, Xie Q, Yousef WA, Zhang L, Zhang X, Zhong S, Zhou Y, Zhu S, Arasappan D, Bao W, Lucas AB, Berthold F, Brennan RJ, Buness A, Catalano JG, Chang C, Chen R, Cheng Y, Cui J, Czika W, Demichelis F, Deng X, Dosymbekov D, Eils R, Feng Y, Fostel J, Fulmer-Smentek S, Fuscoe JC, Gatto L, Ge W, Goldstein DR, Guo L, Halbert DN, Han J, Harris SC, Hatzis C, Herman D, Huang J, Jensen RV, Jiang R, Johnson CD, Jurman G, Kahlert Y, Khuder SA, Kohl M, Li J, Li L, Li M, Li QZ, Li S, Li Z, Liu J, Liu Y, Liu Z, Meng L, Madera M, Martinez-Murillo F, Medina I, Meehan J, Miclaus K, Moffitt RA, Montaner D, Mukherjee P, Mulligan GJ, Neville P, Nikolskaya T, Ning B, Page GP, Parker J, Parry RM, Peng X, Peterson RL, Phan JH, Quanz B, Ren Y, Riccadonna S, Roter AH, Samuelson FW, Schumacher MM, Shambaugh JD, Shi Q, Shippy R, Si S, Smalter A, Sotiriou C, Soukup M, Staedtler F, Steiner G, Stokes TH, Sun Q, Tan PY, Tang R, Tezak Z, Thorn B, Tsyganova M, Turpaz Y, Vega SC, Visintainer R, von Frese J, Wang C, Wang E, Wang J, Wang W, Westermann F, Willey JC, Woods M, Wu S, Xiao N, Xu J, Xu L, Yang L, Zeng X, Zhang J, Zhang L, Zhang M, Zhao C, Puri RK, Scherf U, Tong W, Wolfinger RD; MAQC Consortium.

Nat Biotechnol. 2010 Aug;28(8):827-38. doi: 10.1038/nbt.1665. Epub 2010 Jul 30.

PMID:
20676074
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Performance evaluation of commercial miRNA expression array platforms.

Sah S, McCall MN, Eveleigh D, Wilson M, Irizarry RA.

BMC Res Notes. 2010 Mar 18;3:80. doi: 10.1186/1756-0500-3-80.

PMID:
20298588
[PubMed]
Free PMC Article
17.

Frozen robust multiarray analysis (fRMA).

McCall MN, Bolstad BM, Irizarry RA.

Biostatistics. 2010 Apr;11(2):242-53. doi: 10.1093/biostatistics/kxp059. Epub 2010 Jan 22.

PMID:
20097884
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Consolidated strategy for the analysis of microarray spike-in data.

McCall MN, Irizarry RA.

Nucleic Acids Res. 2008 Oct;36(17):e108. doi: 10.1093/nar/gkn430. Epub 2008 Aug 1.

PMID:
18676452
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Accelerated cell line development using two-color fluorescence activated cell sorting to select highly expressing antibody-producing clones.

Sleiman RJ, Gray PP, McCall MN, Codamo J, Sunstrom NA.

Biotechnol Bioeng. 2008 Feb 15;99(3):578-87.

PMID:
17680677
[PubMed - indexed for MEDLINE]
20.

Antisense-mediated Inhibition of the plasma membrane calcium-ATPase suppresses proliferation of MCF-7 cells.

Lee WJ, Robinson JA, Holman NA, McCall MN, Roberts-Thomson SJ, Monteith GR.

J Biol Chem. 2005 Jul 22;280(29):27076-84. Epub 2005 May 23.

PMID:
15911623
[PubMed - indexed for MEDLINE]
Free Article

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