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Items: 1 to 20 of 97

1.

Fast wavelet based functional models for transcriptome analysis with tiling arrays.

Clement L, De Beuf K, Thas O, Vuylsteke M, Irizarry RA, Crainiceanu CM.

Stat Appl Genet Mol Biol. 2012 Jan 6;11(1):Article 4. doi: 10.2202/1544-6115.1726.

2.

Wavelet-based detection of transcriptional activity on a novel Staphylococcus aureus tiling microarray.

Segura V, Toledo-Arana A, Uzqueda M, Lasa I, Muñoz-Barrutia A.

BMC Bioinformatics. 2012 Sep 5;13:222. doi: 10.1186/1471-2105-13-222.

3.

Support vector machines-based identification of alternative splicing in Arabidopsis thaliana from whole-genome tiling arrays.

Eichner J, Zeller G, Laubinger S, Rätsch G.

BMC Bioinformatics. 2011 Feb 16;12:55. doi: 10.1186/1471-2105-12-55.

4.

Analysis of tiling array expression studies with flexible designs in Bioconductor (waveTiling).

De Beuf K, Pipelers P, Andriankaja M, Thas O, Inzé D, Crainiceanu C, Clement L.

BMC Bioinformatics. 2012 Sep 14;13:234. doi: 10.1186/1471-2105-13-234.

5.

Transcript profiling in Arabidopsis with genome tiling microarrays.

Coman D, Gruissem W, Hennig L.

Methods Mol Biol. 2013;1067:35-49. doi: 10.1007/978-1-62703-607-8_3.

PMID:
23975784
6.

β-empirical Bayes inference and model diagnosis of microarray data.

Mollah MM, Mollah MN, Kishino H.

BMC Bioinformatics. 2012 Jun 19;13:135. doi: 10.1186/1471-2105-13-135.

7.

Unsupervised classification for tiling arrays: ChIP-chip and transcriptome.

Bérard C, Martin-Magniette ML, Brunaud V, Aubourg S, Robin S.

Stat Appl Genet Mol Biol. 2011 Nov 1;10(1). pii: /j/sagmb.2011.10.issue-1/1544-6115.1692/1544-6115.1692.xml. doi: 10.2202/1544-6115.1692.

PMID:
23089815
8.

At-TAX: a whole genome tiling array resource for developmental expression analysis and transcript identification in Arabidopsis thaliana.

Laubinger S, Zeller G, Henz SR, Sachsenberg T, Widmer CK, Naouar N, Vuylsteke M, Schölkopf B, Rätsch G, Weigel D.

Genome Biol. 2008;9(7):R112. doi: 10.1186/gb-2008-9-7-r112.

9.

Quantitative RNA expression analysis with Affymetrix Tiling 1.0R arrays identifies new E2F target genes.

Naouar N, Vandepoele K, Lammens T, Casneuf T, Zeller G, van Hummelen P, Weigel D, Rätsch G, Inzé D, Kuiper M, De Veylder L, Vuylsteke M.

Plant J. 2009 Jan;57(1):184-94. doi: 10.1111/j.1365-313X.2008.03662.x.

10.

Comparison and calibration of transcriptome data from RNA-Seq and tiling arrays.

Agarwal A, Koppstein D, Rozowsky J, Sboner A, Habegger L, Hillier LW, Sasidharan R, Reinke V, Waterston RH, Gerstein M.

BMC Genomics. 2010 Jun 17;11:383. doi: 10.1186/1471-2164-11-383.

11.

ENCODE tiling array analysis identifies differentially expressed annotated and novel 5' capped RNAs in hepatitis C infected liver.

Folkers ME, Delker DA, Maxwell CI, Nelson CA, Schwartz JJ, Nix DA, Hagedorn CH.

PLoS One. 2011 Feb 16;6(2):e14697. doi: 10.1371/journal.pone.0014697.

12.

AGRONOMICS1: a new resource for Arabidopsis transcriptome profiling.

Rehrauer H, Aquino C, Gruissem W, Henz SR, Hilson P, Laubinger S, Naouar N, Patrignani A, Rombauts S, Shu H, Van de Peer Y, Vuylsteke M, Weigel D, Zeller G, Hennig L.

Plant Physiol. 2010 Feb;152(2):487-99. doi: 10.1104/pp.109.150185.

13.

Stress-induced changes in the Arabidopsis thaliana transcriptome analyzed using whole-genome tiling arrays.

Zeller G, Henz SR, Widmer CK, Sachsenberg T, Rätsch G, Weigel D, Laubinger S.

Plant J. 2009 Jun;58(6):1068-82. doi: 10.1111/j.1365-313X.2009.03835.x. Erratum in: Plant J. 2009 Dec;60(5):929.

14.

Custom design and analysis of high-density oligonucleotide bacterial tiling microarrays.

Thomassen GO, Rowe AD, Lagesen K, Lindvall JM, Rognes T.

PLoS One. 2009 Jun 17;4(6):e5943. doi: 10.1371/journal.pone.0005943.

16.

Identification of transcribed sequences in Arabidopsis thaliana by using high-resolution genome tiling arrays.

Stolc V, Samanta MP, Tongprasit W, Sethi H, Liang S, Nelson DC, Hegeman A, Nelson C, Rancour D, Bednarek S, Ulrich EL, Zhao Q, Wrobel RL, Newman CS, Fox BG, Phillips GN Jr, Markley JL, Sussman MR.

Proc Natl Acad Sci U S A. 2005 Mar 22;102(12):4453-8.

17.

Design of tiling arrays and their application to bacterial transcriptome analysis.

Akama T, Nakamura K, Tanoue A, Suzuki K.

Methods Mol Biol. 2013;1067:23-34. doi: 10.1007/978-1-62703-607-8_2.

PMID:
23975783
18.

TAAPP: Tiling Array Analysis Pipeline for Prokaryotes.

Kumar R, Burgess SC, Lawrence ML, Nanduri B.

Genomics Proteomics Bioinformatics. 2011 Apr;9(1-2):56-62. doi: 10.1016/S1672-0229(11)60008-9.

19.

Applications of DNA tiling arrays to experimental genome annotation and regulatory pathway discovery.

Bertone P, Gerstein M, Snyder M.

Chromosome Res. 2005;13(3):259-74. Review.

PMID:
15868420
20.

Transcript normalization and segmentation of tiling array data.

Zeller G, Henz SR, Laubinger S, Weigel D, Rätsch G.

Pac Symp Biocomput. 2008:527-38.

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