Pizarro A - Search Results

1

IVT-seq reveals extreme bias in RNA sequencing.

Lahens NF, Kavakli IH, Zhang R, Hayer K, Black MB, Dueck H, Pizarro A, Kim J, Irizarry R, Thomas RS, Grant GR, Hogenesch JB. Lahens NF, et al. Among authors: pizarro a. Genome Biol. 2014 Jun 30;15(6):R86. doi: 10.1186/gb-2014-15-6-r86. Genome Biol. 2014. PMID: 24981968 Free PMC article.

2

Comparative analysis of RNA-Seq alignment algorithms and the RNA-Seq unified mapper (RUM).

Grant GR, Farkas MH, Pizarro AD, Lahens NF, Schug J, Brunk BP, Stoeckert CJ, Hogenesch JB, Pierce EA. Grant GR, et al. Among authors: pizarro ad. Bioinformatics. 2011 Sep 15;27(18):2518-28. doi: 10.1093/bioinformatics/btr427. Epub 2011 Jul 19. Bioinformatics. 2011. PMID: 21775302 Free PMC article.

3

Benchmark analysis of algorithms for determining and quantifying full-length mRNA splice forms from RNA-seq data.

Hayer KE, Pizarro A, Lahens NF, Hogenesch JB, Grant GR. Hayer KE, et al. Among authors: pizarro a. Bioinformatics. 2015 Dec 15;31(24):3938-45. doi: 10.1093/bioinformatics/btv488. Epub 2015 Sep 3. Bioinformatics. 2015. PMID: 26338770 Free PMC article.

4

CircaDB: a database of mammalian circadian gene expression profiles.

Pizarro A, Hayer K, Lahens NF, Hogenesch JB. Pizarro A, et al. Nucleic Acids Res. 2013 Jan;41(Database issue):D1009-13. doi: 10.1093/nar/gks1161. Epub 2012 Nov 24. Nucleic Acids Res. 2013. PMID: 23180795 Free PMC article.

5

The Gene Wiki: community intelligence applied to human gene annotation.

Huss JW 3rd, Lindenbaum P, Martone M, Roberts D, Pizarro A, Valafar F, Hogenesch JB, Su AI. Huss JW 3rd, et al. Among authors: pizarro a. Nucleic Acids Res. 2010 Jan;38(Database issue):D633-9. doi: 10.1093/nar/gkp760. Epub 2009 Sep 15. Nucleic Acids Res. 2010. PMID: 19755503 Free PMC article.

6

Maintaining data integrity in microarray data management.

Grant GR, Manduchi E, Pizarro A, Stoeckert CJ Jr. Grant GR, et al. Among authors: pizarro a. Biotechnol Bioeng. 2003 Dec 30;84(7):795-800. doi: 10.1002/bit.10847. Biotechnol Bioeng. 2003. PMID: 14708120 Review.

7

RAD and the RAD Study-Annotator: an approach to collection, organization and exchange of all relevant information for high-throughput gene expression studies.

Manduchi E, Grant GR, He H, Liu J, Mailman MD, Pizarro AD, Whetzel PL, Stoeckert CJ Jr. Manduchi E, et al. Among authors: pizarro ad. Bioinformatics. 2004 Mar 1;20(4):452-9. doi: 10.1093/bioinformatics/btg428. Epub 2004 Jan 22. Bioinformatics. 2004. PMID: 14990441

8

htsget: a protocol for securely streaming genomic data.

Kelleher J, Lin M, Albach CH, Birney E, Davies R, Gourtovaia M, Glazer D, Gonzalez CY, Jackson DK, Kemp A, Marshall J, Nowak A, Senf A, Tovar-Corona JM, Vikhorev A, Keane TM; GA4GH Streaming Task Team. Kelleher J, et al. Bioinformatics. 2019 Jan 1;35(1):119-121. doi: 10.1093/bioinformatics/bty492. Bioinformatics. 2019. PMID: 29931085 Free PMC article.

9

An object model and database for functional genomics.

Jones A, Hunt E, Wastling JM, Pizarro A, Stoeckert CJ Jr. Jones A, et al. Among authors: pizarro a. Bioinformatics. 2004 Jul 10;20(10):1583-90. doi: 10.1093/bioinformatics/bth130. Epub 2004 May 14. Bioinformatics. 2004. PMID: 15145818

10

A relational schema for both array-based and SAGE gene expression experiments.

Stoeckert C, Pizarro A, Manduchi E, Gibson M, Brunk B, Crabtree J, Schug J, Shen-Orr S, Overton GC. Stoeckert C, et al. Among authors: pizarro a. Bioinformatics. 2001 Apr;17(4):300-8. doi: 10.1093/bioinformatics/17.4.300. Bioinformatics. 2001. PMID: 11301298

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