Speed TP - Search Results

1

How data analysis affects power, reproducibility and biological insight of RNA-seq studies in complex datasets.

Peixoto L, Risso D, Poplawski SG, Wimmer ME, Speed TP, Wood MA, Abel T. Peixoto L, et al. Among authors: speed tp. Nucleic Acids Res. 2015 Sep 18;43(16):7664-74. doi: 10.1093/nar/gkv736. Epub 2015 Jul 21. Nucleic Acids Res. 2015. PMID: 26202970 Free PMC article.

2

Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation.

Yang YH, Dudoit S, Luu P, Lin DM, Peng V, Ngai J, Speed TP. Yang YH, et al. Among authors: speed tp. Nucleic Acids Res. 2002 Feb 15;30(4):e15. doi: 10.1093/nar/30.4.e15. Nucleic Acids Res. 2002. PMID: 11842121 Free PMC article.

3

Summaries of Affymetrix GeneChip probe level data.

Irizarry RA, Bolstad BM, Collin F, Cope LM, Hobbs B, Speed TP. Irizarry RA, et al. Among authors: speed tp. Nucleic Acids Res. 2003 Feb 15;31(4):e15. doi: 10.1093/nar/gng015. Nucleic Acids Res. 2003. PMID: 12582260 Free PMC article.

4

Using control genes to correct for unwanted variation in microarray data.

Gagnon-Bartsch JA, Speed TP. Gagnon-Bartsch JA, et al. Among authors: speed tp. Biostatistics. 2012 Jul;13(3):539-52. doi: 10.1093/biostatistics/kxr034. Epub 2011 Nov 17. Biostatistics. 2012. PMID: 22101192 Free PMC article.

5

Summarizing and correcting the GC content bias in high-throughput sequencing.

Benjamini Y, Speed TP. Benjamini Y, et al. Among authors: speed tp. Nucleic Acids Res. 2012 May;40(10):e72. doi: 10.1093/nar/gks001. Epub 2012 Feb 9. Nucleic Acids Res. 2012. PMID: 22323520 Free PMC article.

6

Silencing of odorant receptor genes by G protein βγ signaling ensures the expression of one odorant receptor per olfactory sensory neuron.

Ferreira T, Wilson SR, Choi YG, Risso D, Dudoit S, Speed TP, Ngai J. Ferreira T, et al. Among authors: speed tp. Neuron. 2014 Feb 19;81(4):847-59. doi: 10.1016/j.neuron.2014.01.001. Neuron. 2014. PMID: 24559675 Free PMC article.

7

Normalization of RNA-seq data using factor analysis of control genes or samples.

Risso D, Ngai J, Speed TP, Dudoit S. Risso D, et al. Among authors: speed tp. Nat Biotechnol. 2014 Sep;32(9):896-902. doi: 10.1038/nbt.2931. Epub 2014 Aug 24. Nat Biotechnol. 2014. PMID: 25150836 Free PMC article.

8

Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data.

Maksimovic J, Gagnon-Bartsch JA, Speed TP, Oshlack A. Maksimovic J, et al. Among authors: speed tp. Nucleic Acids Res. 2015 Sep 18;43(16):e106. doi: 10.1093/nar/gkv526. Epub 2015 May 18. Nucleic Acids Res. 2015. PMID: 25990733 Free PMC article.

9

Correcting gene expression data when neither the unwanted variation nor the factor of interest are observed.

Jacob L, Gagnon-Bartsch JA, Speed TP. Jacob L, et al. Among authors: speed tp. Biostatistics. 2016 Jan;17(1):16-28. doi: 10.1093/biostatistics/kxv026. Epub 2015 Aug 17. Biostatistics. 2016. PMID: 26286812 Free PMC article.

10

Contextual fear conditioning induces differential alternative splicing.

Poplawski SG, Peixoto L, Porcari GS, Wimmer ME, McNally AG, Mizuno K, Giese KP, Chatterjee S, Koberstein JN, Risso D, Speed TP, Abel T. Poplawski SG, et al. Among authors: speed tp. Neurobiol Learn Mem. 2016 Oct;134 Pt B(Pt B):221-35. doi: 10.1016/j.nlm.2016.07.018. Epub 2016 Jul 20. Neurobiol Learn Mem. 2016. PMID: 27451143 Free PMC article.

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