Schäffer AA - Search Results

1

Inferring models of multiscale copy number evolution for single-tumor phylogenetics.

Chowdhury SA, Gertz EM, Wangsa D, Heselmeyer-Haddad K, Ried T, Schäffer AA, Schwartz R. Chowdhury SA, et al. Among authors: schaffer aa. Bioinformatics. 2015 Jun 15;31(12):i258-67. doi: 10.1093/bioinformatics/btv233. Bioinformatics. 2015. PMID: 26072490 Free PMC article.

2

A structure-based method for protein sequence alignment.

Kann MG, Thiessen PA, Panchenko AR, Schäffer AA, Altschul SF, Bryant SH. Kann MG, et al. Among authors: schaffer aa. Bioinformatics. 2005 Apr 15;21(8):1451-6. doi: 10.1093/bioinformatics/bti233. Epub 2004 Dec 21. Bioinformatics. 2005. PMID: 15613392

3

A comprehensive continuous-time model for the appearance of CGH signal due to chromosomal missegregations during mitosis.

Desper R, Difilippantonio MJ, Ried T, Schäffer AA. Desper R, et al. Among authors: schaffer aa. Math Biosci. 2005 Sep;197(1):67-87. doi: 10.1016/j.mbs.2005.05.005. Math Biosci. 2005. PMID: 16043196 Free PMC article.

4

Protein database searches using compositionally adjusted substitution matrices.

Altschul SF, Wootton JC, Gertz EM, Agarwala R, Morgulis A, Schäffer AA, Yu YK. Altschul SF, et al. Among authors: schaffer aa. FEBS J. 2005 Oct;272(20):5101-9. doi: 10.1111/j.1742-4658.2005.04945.x. FEBS J. 2005. PMID: 16218944 Free PMC article. Review.

5

WindowMasker: window-based masker for sequenced genomes.

Morgulis A, Gertz EM, Schäffer AA, Agarwala R. Morgulis A, et al. Among authors: schaffer aa. Bioinformatics. 2006 Jan 15;22(2):134-41. doi: 10.1093/bioinformatics/bti774. Epub 2005 Nov 15. Bioinformatics. 2006. PMID: 16287941

6

A fast and symmetric DUST implementation to mask low-complexity DNA sequences.

Morgulis A, Gertz EM, Schäffer AA, Agarwala R. Morgulis A, et al. Among authors: schaffer aa. J Comput Biol. 2006 Jun;13(5):1028-40. doi: 10.1089/cmb.2006.13.1028. J Comput Biol. 2006. PMID: 16796549

7

Retrieval accuracy, statistical significance and compositional similarity in protein sequence database searches.

Yu YK, Gertz EM, Agarwala R, Schäffer AA, Altschul SF. Yu YK, et al. Among authors: schaffer aa. Nucleic Acids Res. 2006;34(20):5966-73. doi: 10.1093/nar/gkl731. Epub 2006 Oct 26. Nucleic Acids Res. 2006. PMID: 17068079 Free PMC article.

8

Composition-based statistics and translated nucleotide searches: improving the TBLASTN module of BLAST.

Gertz EM, Yu YK, Agarwala R, Schäffer AA, Altschul SF. Gertz EM, et al. Among authors: schaffer aa. BMC Biol. 2006 Dec 7;4:41. doi: 10.1186/1741-7007-4-41. BMC Biol. 2006. PMID: 17156431 Free PMC article.

9

rh_tsp_map 3.0: end-to-end radiation hybrid mapping with improved speed and quality control.

Schäffer AA, Rice ES, Cook W, Agarwala R. Schäffer AA, et al. Bioinformatics. 2007 May 1;23(9):1156-8. doi: 10.1093/bioinformatics/btm077. Epub 2007 Mar 1. Bioinformatics. 2007. PMID: 17332018 Free PMC article.

10

Improved BLAST searches using longer words for protein seeding.

Shiryev SA, Papadopoulos JS, Schäffer AA, Agarwala R. Shiryev SA, et al. Among authors: schaffer aa. Bioinformatics. 2007 Nov 1;23(21):2949-51. doi: 10.1093/bioinformatics/btm479. Epub 2007 Oct 6. Bioinformatics. 2007. PMID: 17921491

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