{"id":47,"date":"2014-12-31T15:36:45","date_gmt":"2014-12-31T20:36:45","guid":{"rendered":"https:\/\/my.vanderbilt.edu\/davidsamuels\/?page_id=47"},"modified":"2014-12-31T15:36:45","modified_gmt":"2014-12-31T20:36:45","slug":"genomics-methods-publications","status":"publish","type":"page","link":"https:\/\/my.vanderbilt.edu\/davidsamuels\/publications\/genomics-methods-publications\/","title":{"rendered":"Genomics methods publications"},"content":{"rendered":"

David Samuels\u2019 peer-reviewed publications on genomic methods<\/strong><\/h3>\n

Links to full text are in the journal names<\/p>\n

 <\/p>\n

Genome measures used for quality control are dependent on gene function and ancestry<\/strong><\/p>\n

Jing Wang, Leon Raskin, David C. Samuels Yu Shyr, Yan Guo (2015) to appear in Bioinformatics<\/a><\/em><\/strong><\/p>\n

 <\/p>\n

Alternative applications for distinct RNA sequencing strategies<\/strong><\/p>\n

Leng Han, Kasey C. Vickers, David C. Samuels, Yan Guo (2015) to appear in Briefings in Bioinformatics<\/a><\/em><\/strong><\/p>\n

 <\/p>\n

Illumina human exome genotyping array clustering and quality control<\/strong><\/p>\n

Yan Guo, Jing He, Shilin Zhao, Hui Wu, Xue Zhong, Quanhu Sheng, David C. Samuels<\/span>, Yu Shyr, Jirong Long (2014), Nature Protocols<\/a><\/em><\/strong>, 9(11) 2643-2662.<\/p>\n

 <\/p>\n

High-throughput sequencing in mitochondrial DNA research<\/strong><\/p>\n

Fei Ye, David C. Samuels<\/span>, Travis Clark, Yan Guo (2014) Mitochondrion<\/a><\/em><\/strong> 17, 157-163<\/p>\n

 <\/p>\n

Multi-perspective quality control of Illumina exome sequencing data using QC3<\/strong><\/p>\n

Yan Guo, Shilin Zhao, Quanhu Sheng, Fei Ye, Jiang Li, Brian Lehmann, Jennifer Pientenpol, David C. Samuels, Yu Shyr (2014) Genomics 103(5-6) 323-328.<\/p>\n

 <\/p>\n

Comparative Study of Exome Copy Number Variation Estimation Tools Using Array Comparative Genomic Hybridization as Control<\/strong><\/p>\n

Yan Guo, Quagho Sheng, David C. Samuels<\/span>, Brian Lehmann, Joshua Bauer, J.A. Pietenpol, Yu Shyr (2013), BioMed Research International.<\/a><\/em><\/strong><\/p>\n

 <\/p>\n

Three stage quality control strategies for DNA re-sequencing data<\/strong><\/p>\n

Yan Guo, Sheng Quanghu, Fei Ye, Travis Clark, David C. Samuels<\/span> (2013), Briefings in Bioinformatics<\/a><\/em><\/strong>. 15(6) 879-889<\/p>\n

 <\/p>\n

<\/strong><\/p>\n

Finding the Lost Treasures in Exome Sequencing Data<\/strong><\/p>\n

David C. Samuels<\/span>, Leng Han, Jiang Li, Sheng Quanhu, Travis A. Clark, Yu Shyr, Yan Gou (2013), Trends in Genetics<\/a>. <\/em><\/strong>29(10) 593-599<\/p>\n

 <\/p>\n

<\/strong><\/p>\n

Large scale comparisons of gene expression levels by microarrays and RNAseq using TCGA data<\/strong><\/p>\n

Yan Guo, Quanhu Sheng, Jiang Li, Fei Ye, David C. Samuels<\/span>, Yu Shyr (2013) PLoS One<\/a><\/em><\/strong>. 8(8) e71462<\/p>\n

 <\/p>\n

MitoSeek:<\/strong> Extracting mitochondria information and performing high-throughput mitochondria sequencing analysis<\/strong><\/p>\n

Yan Guo, Jiang Li, Chung-I Li, Yu Shyr, David C Samuels<\/span> (2013) Bioinformatics<\/a><\/em><\/strong>, 29 (9) 1210-1211.<\/p>\n

 <\/p>\n

<\/strong><\/p>\n

Evaluation of Allele Freqency Estimation Using Pooled Sequencing Data Simulation<\/strong><\/p>\n

Yan Guo, David C. Samuels<\/span>, Jiang Li, Travis Clark, Chung-I Li, Yu Shyr (2013), The Scientific World Journal<\/a><\/em><\/strong> article ID 895496 (9 pages). PMC3582166<\/p>\n

 <\/p>\n

The effect of strand bias in Illumina short-read sequencing data<\/strong><\/p>\n

Yan Guo, Jiang Li, Chung-I Li, Jirong Long, David C. Samuels<\/span>, Yu Shyr (2012), BMC Genomics<\/a> <\/em><\/strong>13:666. PMC3532123<\/p>\n

 <\/p>\n

 <\/p>\n","protected":false},"excerpt":{"rendered":"

David Samuels\u2019 peer-reviewed publications on genomic methods Links to full text are in the journal names   Genome measures used for quality control are dependent on gene function and ancestry Jing Wang, Leon Raskin, David C. Samuels Yu Shyr, Yan Guo (2015) to appear in Bioinformatics   Alternative applications for distinct RNA sequencing strategies Leng…<\/p>\n","protected":false},"author":3442,"featured_media":0,"parent":6,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"tags":[],"class_list":["post-47","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/pages\/47","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/users\/3442"}],"replies":[{"embeddable":true,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/comments?post=47"}],"version-history":[{"count":2,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/pages\/47\/revisions"}],"predecessor-version":[{"id":52,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/pages\/47\/revisions\/52"}],"up":[{"embeddable":true,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/pages\/6"}],"wp:attachment":[{"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/media?parent=47"}],"wp:term":[{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/my.vanderbilt.edu\/davidsamuels\/wp-json\/wp\/v2\/tags?post=47"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}