Smith AD - Search Results

1

Predicting the molecular complexity of sequencing libraries.

Daley T, Smith AD. Daley T, et al. Among authors: smith ad. Nat Methods. 2013 Apr;10(4):325-7. doi: 10.1038/nmeth.2375. Epub 2013 Feb 24. Nat Methods. 2013. PMID: 23435259 Free PMC article.

2

Using beta-binomial regression for high-precision differential methylation analysis in multifactor whole-genome bisulfite sequencing experiments.

Dolzhenko E, Smith AD. Dolzhenko E, et al. Among authors: smith ad. BMC Bioinformatics. 2014 Jun 24;15:215. doi: 10.1186/1471-2105-15-215. BMC Bioinformatics. 2014. PMID: 24962134 Free PMC article.

3

Modeling genome coverage in single-cell sequencing.

Daley T, Smith AD. Daley T, et al. Among authors: smith ad. Bioinformatics. 2014 Nov 15;30(22):3159-65. doi: 10.1093/bioinformatics/btu540. Epub 2014 Aug 8. Bioinformatics. 2014. PMID: 25107873 Free PMC article.

4

Sexual selection targets cetacean pelvic bones.

Dines JP, Otárola-Castillo E, Ralph P, Alas J, Daley T, Smith AD, Dean MD. Dines JP, et al. Among authors: smith ad. Evolution. 2014 Nov;68(11):3296-306. doi: 10.1111/evo.12516. Epub 2014 Oct 20. Evolution. 2014. PMID: 25186496 Free PMC article.

5

A model of breast cancer heterogeneity reveals vascular mimicry as a driver of metastasis.

Wagenblast E, Soto M, Gutiérrez-Ángel S, Hartl CA, Gable AL, Maceli AR, Erard N, Williams AM, Kim SY, Dickopf S, Harrell JC, Smith AD, Perou CM, Wilkinson JE, Hannon GJ, Knott SR. Wagenblast E, et al. Among authors: smith ad. Nature. 2015 Apr 16;520(7547):358-62. doi: 10.1038/nature14403. Epub 2015 Apr 8. Nature. 2015. PMID: 25855289 Free PMC article.

6

Applications of species accumulation curves in large-scale biological data analysis.

Deng C, Daley T, Smith AD. Deng C, et al. Among authors: smith ad. Quant Biol. 2015 Sep;3(3):135-144. doi: 10.1007/s40484-015-0049-7. Epub 2015 Oct 17. Quant Biol. 2015. PMID: 27252899 Free PMC article.

7

ROP: dumpster diving in RNA-sequencing to find the source of 1 trillion reads across diverse adult human tissues.

Mangul S, Yang HT, Strauli N, Gruhl F, Porath HT, Hsieh K, Chen L, Daley T, Christenson S, Wesolowska-Andersen A, Spreafico R, Rios C, Eng C, Smith AD, Hernandez RD, Ophoff RA, Santana JR, Levanon EY, Woodruff PG, Burchard E, Seibold MA, Shifman S, Eskin E, Zaitlen N. Mangul S, et al. Among authors: smith ad. Genome Biol. 2018 Feb 15;19(1):36. doi: 10.1186/s13059-018-1403-7. Genome Biol. 2018. PMID: 29548336 Free PMC article.

8

Predicting the Number of Bases to Attain Sufficient Coverage in High-Throughput Sequencing Experiments.

Deng C, Daley T, Calabrese P, Ren J, Smith AD. Deng C, et al. Among authors: smith ad. J Comput Biol. 2020 Jul;27(7):1130-1143. doi: 10.1089/cmb.2019.0264. Epub 2019 Nov 15. J Comput Biol. 2020. PMID: 31725321 Free PMC article.

9

A geometric interpretation for local alignment-free sequence comparison.

Behnam E, Waterman MS, Smith AD. Behnam E, et al. Among authors: smith ad. J Comput Biol. 2013 Jul;20(7):471-85. doi: 10.1089/cmb.2012.0280. J Comput Biol. 2013. PMID: 23829649 Free PMC article.

10

A reference methylome database and analysis pipeline to facilitate integrative and comparative epigenomics.

Song Q, Decato B, Hong EE, Zhou M, Fang F, Qu J, Garvin T, Kessler M, Zhou J, Smith AD. Song Q, et al. Among authors: smith ad. PLoS One. 2013 Dec 6;8(12):e81148. doi: 10.1371/journal.pone.0081148. eCollection 2013. PLoS One. 2013. PMID: 24324667 Free PMC article.

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