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Items: 16

1.

A flexible R package for nonnegative matrix factorization.

Gaujoux R, Seoighe C.

BMC Bioinformatics. 2010 Jul 2;11:367. doi: 10.1186/1471-2105-11-367.

2.

A subpopulation of CD163-positive macrophages is classically activated in psoriasis.

Fuentes-Duculan J, Suárez-Fariñas M, Zaba LC, Nograles KE, Pierson KC, Mitsui H, Pensabene CA, Kzhyshkowska J, Krueger JG, Lowes MA.

J Invest Dermatol. 2010 Oct;130(10):2412-22. doi: 10.1038/jid.2010.165.

3.

Clinical implications of gene dosage and gene expression patterns in diploid breast carcinoma.

Parris TZ, Danielsson A, Nemes S, Kovács A, Delle U, Fallenius G, Möllerström E, Karlsson P, Helou K.

Clin Cancer Res. 2010 Aug 1;16(15):3860-74. doi: 10.1158/1078-0432.CCR-10-0889.

4.

Revised map of the human progenitor hierarchy shows the origin of macrophages and dendritic cells in early lymphoid development.

Doulatov S, Notta F, Eppert K, Nguyen LT, Ohashi PS, Dick JE.

Nat Immunol. 2010 Jul;11(7):585-93. doi: 10.1038/ni.1889.

PMID:
20543838
5.

Transposable elements have rewired the core regulatory network of human embryonic stem cells.

Kunarso G, Chia NY, Jeyakani J, Hwang C, Lu X, Chan YS, Ng HH, Bourque G.

Nat Genet. 2010 Jul;42(7):631-4. doi: 10.1038/ng.600.

PMID:
20526341
6.

A call to standardize teratoma assays used to define human pluripotent cell lines.

Müller FJ, Goldmann J, Löser P, Loring JF.

Cell Stem Cell. 2010 May 7;6(5):412-4. doi: 10.1016/j.stem.2010.04.009.

7.

A global map of human gene expression.

Lukk M, Kapushesky M, Nikkilä J, Parkinson H, Goncalves A, Huber W, Ukkonen E, Brazma A.

Nat Biotechnol. 2010 Apr;28(4):322-4. doi: 10.1038/nbt0410-322. No abstract available.

8.

The multiple sclerosis whole blood mRNA transcriptome and genetic associations indicate dysregulation of specific T cell pathways in pathogenesis.

Gandhi KS, McKay FC, Cox M, Riveros C, Armstrong N, Heard RN, Vucic S, Williams DW, Stankovich J, Brown M, Danoy P, Stewart GJ, Broadley S, Moscato P, Lechner-Scott J, Scott RJ, Booth DR; ANZgene Multiple Sclerosis Genetics Consortium..

Hum Mol Genet. 2010 Jun 1;19(11):2134-43. doi: 10.1093/hmg/ddq090.

9.

Live cell imaging distinguishes bona fide human iPS cells from partially reprogrammed cells.

Chan EM, Ratanasirintrawoot S, Park IH, Manos PD, Loh YH, Huo H, Miller JD, Hartung O, Rho J, Ince TA, Daley GQ, Schlaeger TM.

Nat Biotechnol. 2009 Nov;27(11):1033-7. doi: 10.1038/nbt.1580.

PMID:
19826408
10.

Broader implications of defining standards for the pluripotency of iPSCs.

Daley GQ, Lensch MW, Jaenisch R, Meissner A, Plath K, Yamanaka S.

Cell Stem Cell. 2009 Mar 6;4(3):200-1; author reply 202. doi: 10.1016/j.stem.2009.02.009. No abstract available.

11.

Regulatory networks define phenotypic classes of human stem cell lines.

Müller FJ, Laurent LC, Kostka D, Ulitsky I, Williams R, Lu C, Park IH, Rao MS, Shamir R, Schwartz PH, Schmidt NO, Loring JF.

Nature. 2008 Sep 18;455(7211):401-5. doi: 10.1038/nature07213.

12.

lumi: a pipeline for processing Illumina microarray.

Du P, Kibbe WA, Lin SM.

Bioinformatics. 2008 Jul 1;24(13):1547-8. doi: 10.1093/bioinformatics/btn224.

13.

Qualification of embryonal carcinoma 2102Ep as a reference for human embryonic stem cell research.

Josephson R, Ording CJ, Liu Y, Shin S, Lakshmipathy U, Toumadje A, Love B, Chesnut JD, Andrews PW, Rao MS, Auerbach JM.

Stem Cells. 2007 Feb;25(2):437-46.

14.
15.

Metagenes and molecular pattern discovery using matrix factorization.

Brunet JP, Tamayo P, Golub TR, Mesirov JP.

Proc Natl Acad Sci U S A. 2004 Mar 23;101(12):4164-9.

16.

Learning the parts of objects by non-negative matrix factorization.

Lee DD, Seung HS.

Nature. 1999 Oct 21;401(6755):788-91.

PMID:
10548103
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