Search Results - "Hendrickson, Cynthia"

Abstract 1398: RNA DIRECT: A novel strategy for targeted RNA enrichment of transcripts associated with solid tumors by Patel, Kruti M., Bowman, Sarah K., Davis, Theodore B., Russello, Salvatore, Kraushaar, Daniel C., Emerman, Amy B., Henig, Noa, Hendrickson, Cynthia L.

“…Abstract RNA sequencing (RNA-seq) has become a powerful platform for profiling transcriptomes that enables gene expression analysis and identification of…”
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Abstract 1387: Application of target enrichment combined with unique molecular identifiers to determine allelic frequencies of human cancers by Kraushaar, Daniel C., Bowman, Sarah K., Davis, Theodore B., Emerman, Amy B., Henig, Noa, Patel, Kruti M., Russello, Salvatore, Hendrickson, Cynthia L.

“…Abstract Existing target enrichment and library preparation for next-generation sequencing typically utilize PCR amplification steps that introduce substantial…”
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Sequence and structural variation in a human genome uncovered by short-read, massively parallel ligation sequencing using two-base encoding by McKernan, Kevin Judd, Peckham, Heather E, Costa, Gina L, McLaughlin, Stephen F, Fu, Yutao, Tsung, Eric F, Clouser, Christopher R, Duncan, Cisyla, Ichikawa, Jeffrey K, Lee, Clarence C, Zhang, Zheng, Ranade, Swati S, Dimalanta, Eileen T, Hyland, Fiona C, Sokolsky, Tanya D, Zhang, Lei, Sheridan, Andrew, Fu, Haoning, Hendrickson, Cynthia L, Li, Bin, Kotler, Lev, Stuart, Jeremy R, Malek, Joel A, Manning, Jonathan M, Antipova, Alena A, Perez, Damon S, Moore, Michael P, Hayashibara, Kathleen C, Lyons, Michael R, Beaudoin, Robert E, Coleman, Brittany E, Laptewicz, Michael W, Sannicandro, Adam E, Rhodes, Michael D, Gottimukkala, Rajesh K, Yang, Shan, Bafna, Vineet, Bashir, Ali, MacBride, Andrew, Alkan, Can, Kidd, Jeffrey M, Eichler, Evan E, Reese, Martin G, De La Vega, Francisco M, Blanchard, Alan P

“…We describe the genome sequencing of an anonymous individual of African origin using a novel ligation-based sequencing assay that enables a unique form of…”
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Overview of DNA sequencing strategies by Shendure, Jay A, Porreca, Gregory J, Church, George M, Gardner, Andrew F, Hendrickson, Cynthia L, Kieleczawa, Jan, Slatko, Barton E

“…Efficient and cost-effective DNA sequencing technologies are critical to the progress of molecular biology. This overview of DNA sequencing strategies provides…”
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NEBNext Direct: A Novel, Rapid, Hybridization-Based Approach for the Capture and Library Conversion of Genomic Regions of Interest by Emerman, Amy B, Bowman, Sarah K, Barry, Andrew, Henig, Noa, Patel, Kruti M, Gardner, Andrew F, Hendrickson, Cynthia L

“…Next-generation sequencing (NGS) is a powerful tool for genomic studies, translational research, and clinical diagnostics that enables the detection of single…”
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"First generation" automated DNA sequencing technology by Slatko, Barton E, Kieleczawa, Jan, Ju, Jingyue, Gardner, Andrew F, Hendrickson, Cynthia L, Ausubel, Frederick M

“…Beginning in the 1980s, automation of DNA sequencing has greatly increased throughput, reduced costs, and enabled large projects to be completed more easily…”
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2‘-Deoxycytidines Carrying Amino and Thiol Functionality:  Synthesis and Incorporation by Vent (Exo-) Polymerase by Roychowdhury, Abhijit, Illangkoon, Heshan, Hendrickson, Cynthia L, Benner, Steven A

“…The synthesis of 2‘-deoxycytidine nucleosides bearing amino and thiol groups appended to the 5-position of the nucleobase via a butynyl linker is described…”
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Probing minor groove recognition contacts by DNA polymerases and reverse transcriptases using 3‐deaza‐2′‐deoxyadenosine by Hendrickson, Cynthia L., Devine, Kevin G., Benner, Steven A.

“…Standard nucleobases all present electron density as an unshared pair of electrons to the minor groove of the double helix. Many heterocycles supporting…”
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Coincident In Vitro Analysis of DNA-PK-Dependent and -Independent Nonhomologous End Joining by Hendrickson, Cynthia L., Purkayastha, Shubhadeep, Pastwa, Elzbieta, Neumann, Ronald D., Winters, Thomas A.

“…In mammalian cells, DNA double-strand breaks (DSBs) are primarily repaired by nonhomologous end joining (NHEJ). The current model suggests that the Ku 70/80…”
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Polymorphism discovery in high-throughput resequenced microarray-enriched human genomic loci by Antipova, Alena A, Sokolsky, Tanya D, Clouser, Christopher R, Dimalanta, Eileen T, Hendrickson, Cynthia L, Kosnopo, Cisilya, Lee, Clarence C, Ranade, Swati S, Zhang, Lei, Blanchard, Alan P, McKernan, Kevin J

“…Identifying genetic variants and mutations that underlie human diseases requires development of robust, cost-effective tools for routine resequencing of…”
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Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study by Li, Sheng, Tighe, Scott W, Nicolet, Charles M, Grove, Deborah, Levy, Shawn, Farmerie, William, Viale, Agnes, Wright, Chris, Schweitzer, Peter A, Gao, Yuan, Kim, Dewey, Boland, Joe, Hicks, Belynda, Kim, Ryan, Chhangawala, Sagar, Jafari, Nadereh, Raghavachari, Nalini, Gandara, Jorge, Garcia-Reyero, Natàlia, Hendrickson, Cynthia, Roberson, David, Rosenfeld, Jeffrey A, Smith, Todd, Underwood, Jason G, Wang, May, Zumbo, Paul, Baldwin, Don A, Grills, George S, Mason, Christopher E

“…For intact RNA, gene expression profiles from rRNA-depletion and poly-A enrichment are similar. In addition, rRNA- depletion enables effective analysis of…”
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Abstract 1421: Flexible tools for the development and performance verification of customized target enrichment panels by Hendrickson, Cynthia L., Mauceli, Evan, Barry, Andrew, Patel, Kruti, Huang, Catherine, Adams, Scott, Anekella, Bharathi

“…Abstract Implementation of next generation sequencing for variant identification and discovery presents difficulties both in the selection of genomic loci for…”
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Abstract 1422: NEBNext Direct® Custom Ready myeloid genes for NGS target enrichment by Adams, Scott M., Patel, Kruti M., Emerman, Amy B., Bowman, Sarah K., Elfe, Charles D., Mauceli, Evan, Barry, Andrew, Davis, Theodore, Hendrickson, Cynthia L.

“…Abstract Comprehensive genetic evaluation of patients with blood cancer can be imperative for identifying and classifying myeloid malignancies in a patient…”
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Abstract 3416: Customizable gene panels overcome challenges associated with targeted resequencing by Barry, Andrew John, Patel, Kruti M., Emerman, Amy B., Adams, Scott, Bowman, Sarah, Mauceli, Evan, Stewart, Fiona, Dimalanta, Eileen, Russello, Salvatore, Elfe, Charles, Davis, Theodore, Hendrickson, Cynthia

“…Abstract Efficient utilization of targeted gene panels for clinical research is challenged by the wide variation in gene constituents specific to a given…”
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Abstract 5361: Predesigned gene content for rapid deployment of custom oncology panels by Barry, Andrew J., Emerman, Amy, Bowman, Sarah, Patel, Kruti, Dimalanta, Eileen, Adams, Scott, Henig, Noa, Stewart, Fiona, Hendrickson, Cynthia, Davis, Theodore, Elfe, Charles

“…Abstract Efficient utilization of targeted gene panels for oncology research is challenged by the wide variation in gene constituents specific to a given…”
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Abstract 5362: Targeting BRCA1 and BRCA2 with NEBNext Direct by Adams, Scott M., Patel, Kruti M., Emerman, Amy B., Bowman, Sarah K., Elfe, Charles D., Henig, Noa, Russello, Salvatore, Barry, Andrew, Davis, Theodore, Hendrickson, Cynthia L.

“…Abstract The screening and detection of germline BRCA1 and BRCA2 mutations are critical for the effective management of patients with breast or ovarian cancer…”
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Abstract 495: Somatic copy number variants detection using the NEBNext Direct target enrichment method by Patel, Kruti M., Bowman, Sarah K., Henig, Noa, Emerman, Amy B., Barry, Andrew, Elfe, Charles, Adams, Scott, Russello, Salvatore, Davis, Ted, Hendrickson, Cynthia L.

“…Abstract Variations in copy number are the most common type of DNA structural variations. Many of these alterations are associated with disease or indicate…”
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Targeted genome enrichment for efficient purification of endosymbiont DNA from host DNA by Geniez, Sandrine, Foster, Jeremy M, Kumar, Sanjay, Moumen, Bouziane, LeProust, Emily, Hardy, Owen, Guadalupe, Moraima, Thomas, Stephen J, Boone, Braden, Hendrickson, Cynthia, Bouchon, Didier, Grève, Pierre, Slatko, Barton E

“…Wolbachia endosymbionts are widespread in arthropods and are generally considered reproductive parasites, inducing various phenotypes including cytoplasmic…”
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Multi-platform and cross-methodological reproducibility of transcriptome profiling by RNA-seq in the ABRF Next-Generation Sequencing Study by Li, Sheng, Tighe, Scott W., Nicolet, Charles M., Grove, Deborah, Levy, Shawn, Farmerie, William, Viale, Agnes, Wright, Chris, Schweitzer, Peter A., Gao, Yuan, Kim, Dewey, Boland, Joe, Hicks, Belynda, Kim, Ryan, Chhangawala, Sagar, Jafari, Nadereh, Raghavachari, Nalini, Gandara, Jorge, Garcia-Reyero, Natàlia, Hendrickson, Cynthia, Roberson, David, Rosenfeld, Jeffrey, Smith, Todd, Underwood, Jason G., Wang, May, Zumbo, Paul, Baldwin, Don A., Grills, George S., Mason, Christopher E.

“…High-throughput RNA sequencing (RNA-seq) dramatically expands the potential for novel genomics discoveries, but the wide variety of platforms, protocols and…”
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Erratum: Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study by Li, Sheng, Tighe, Scott W, Nicolet, Charles M, Grove, Deborah, Levy, Shawn, Farmerie, William, Viale, Agnes, Wright, Chris, Schweitzer, Peter A, Gao, Yuan, Kim, Dewey, Boland, Joe, Hicks, Belynda, Kim, Ryan, Chhangawala, Sagar, Jafari, Nadereh, Raghavachari, Nalini, Gandara, Jorge, Garcia-Reyero, Natàlia, Hendrickson, Cynthia, Roberson, David, Rosenfeld, Jeffrey, Smith, Todd, Underwood, Jason G, Wang, May, Zumbo, Paul, Baldwin, Don A, Grills, George S, Mason, Christopher E

“…Nat. Biotechnol. 32, 915–925 (2014); published online 24 August 2014; corrected after print 10 October 2014; 10.1038/nbt.2972 In the version of this article…”
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