Search Results - "Rank, David R"

Highly accurate long-read HiFi sequencing data for five complex genomes by Hon, Ting, Mars, Kristin, Young, Greg, Tsai, Yu-Chih, Karalius, Joseph W., Landolin, Jane M., Maurer, Nicholas, Kudrna, David, Hardigan, Michael A., Steiner, Cynthia C., Knapp, Steven J., Ware, Doreen, Shapiro, Beth, Peluso, Paul, Rank, David R.

“…The PacBio ® HiFi sequencing method yields highly accurate long-read sequencing datasets with read lengths averaging 10–25 kb and accuracies greater than…”
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Long-read, whole-genome shotgun sequence data for five model organisms by Kim, Kristi E, Peluso, Paul, Babayan, Primo, Yeadon, P. Jane, Yu, Charles, Fisher, William W, Chin, Chen-Shan, Rapicavoli, Nicole A, Rank, David R, Li, Joachim, Catcheside, David E. A, Celniker, Susan E, Phillippy, Adam M, Bergman, Casey M, Landolin, Jane M

“…Single molecule, real-time (SMRT) sequencing from Pacific Biosciences is increasingly used in many areas of biological research including de novo genome…”
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Phased diploid genome assembly with single-molecule real-time sequencing by Chin, Chen-Shan, Peluso, Paul, Sedlazeck, Fritz J, Nattestad, Maria, Concepcion, Gregory T, Clum, Alicia, Dunn, Christopher, O'Malley, Ronan, Figueroa-Balderas, Rosa, Morales-Cruz, Abraham, Cramer, Grant R, Delledonne, Massimo, Luo, Chongyuan, Ecker, Joseph R, Cantu, Dario, Rank, David R, Schatz, Michael C

“…The open-source FALCON and FALCON-Unzip software utilize long-read sequencing data to generate contiguous, accurate and phased diploid assemblies, even from…”
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Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome by Wenger, Aaron M., Peluso, Paul, Rowell, William J., Chang, Pi-Chuan, Hall, Richard J., Concepcion, Gregory T., Ebler, Jana, Fungtammasan, Arkarachai, Kolesnikov, Alexey, Olson, Nathan D., Töpfer, Armin, Alonge, Michael, Mahmoud, Medhat, Qian, Yufeng, Chin, Chen-Shan, Phillippy, Adam M., Schatz, Michael C., Myers, Gene, DePristo, Mark A., Ruan, Jue, Marschall, Tobias, Sedlazeck, Fritz J., Zook, Justin M., Li, Heng, Koren, Sergey, Carroll, Andrew, Rank, David R., Hunkapiller, Michael W.

“…The DNA sequencing technologies in use today produce either highly accurate short reads or less-accurate long reads. We report the optimization of circular…”
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Improved maize reference genome with single-molecule technologies by Jiao, Yinping, Peluso, Paul, Shi, Jinghua, Liang, Tiffany, Stitzer, Michelle C., Wang, Bo, Campbell, Michael S., Stein, Joshua C., Wei, Xuehong, Chin, Chen-Shan, Guill, Katherine, Regulski, Michael, Kumari, Sunita, Olson, Andrew, Gent, Jonathan, Schneider, Kevin L., Wolfgruber, Thomas K., May, Michael R., Springer, Nathan M., Antoniou, Eric, McCombie, W. Richard, Presting, Gernot G., McMullen, Michael, Ross-Ibarra, Jeffrey, Dawe, R. Kelly, Hastie, Alex, Rank, David R., Ware, Doreen

“…An improved reference genome for maize, using single-molecule sequencing and high-resolution optical mapping, enables characterization of structural variation…”
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flexible and efficient template format for circular consensus sequencing and SNP detection by Travers, Kevin J, Chin, Chen-Shan, Rank, David R, Eid, John S, Turner, Stephen W

“…A novel template design for single-molecule sequencing is introduced, a structure we refer to as a SMRTbellTM template. This structure consists of a…”
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EDGE: a centralized resource for the comparison, analysis, and distribution of toxicogenomic information by Hayes, Kevin R, Vollrath, Aaron L, Zastrow, Gina M, McMillan, Brian J, Craven, Mark, Jovanovich, Stevan, Rank, David R, Penn, Sharon, Walisser, Jacqueline A, Reddy, Janardan K, Thomas, Russell S, Bradfield, Christopher A

“…Transcriptional profiling via microarrays holds great promise for toxicant classification and hazard prediction. Unfortunately, the use of different microarray…”
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Chromosome-level genome assemblies of 2 hemichordates provide new insights into deuterostome origin and chromosome evolution by Lin, Che-Yi, Marlétaz, Ferdinand, Pérez-Posada, Alberto, Martínez-García, Pedro Manuel, Schloissnig, Siegfried, Peluso, Paul, Conception, Greg T, Bump, Paul, Chen, Yi-Chih, Chou, Cindy, Lin, Ching-Yi, Fan, Tzu-Pei, Tsai, Chang-Tai, Gómez Skarmeta, José Luis, Tena, Juan J, Lowe, Christopher J, Rank, David R, Rokhsar, Daniel S, Yu, Jr-Kai, Su, Yi-Hsien

“…Deuterostomes are a monophyletic group of animals that includes Hemichordata, Echinodermata (together called Ambulacraria), and Chordata. The diversity of…”
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Identification of toxicologically predictive gene sets using cDNA microarrays by Thomas, R S, Rank, D R, Penn, S G, Zastrow, G M, Hayes, K R, Pande, K, Glover, E, Silander, T, Craven, M W, Reddy, J K, Jovanovich, S B, Bradfield, C A

“…We have developed an approach to classify toxicants based upon their influence on profiles of mRNA transcripts. Changes in liver gene expression were examined…”
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Application of Genomics to Toxicology Research by Thomas, Russell S., Rank, David R., Penn, Sharron G., Zastrow, Gina M., Hayes, Kevin R., Hu, Tianhua, Pande, Kalyan, Lewis, Mark, Jovanovich, Stevan B., Bradfield, Christopher A.

“…Traditional models of toxicity have relied on dissecting chemical action into pharmacokinetic and pharmacodynamic processes. However, the integration of…”
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Mining the human genome using microarrays of open reading frames by Rank, David R, Penn, Sharron G, Hanzel, David K, Barker, David L

“…To test the hypothesis that the human genome project will uncover many genes not previously discovered by sequencing of expressed sequence tags (ESTs), we…”
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Sequence variation and phylogenetic history of the mouse Ahr gene by THOMAS, Russell S, PENN, Sharron G, HOLDEN, Kevin, BRADFIELD, Christopher A, RANK, David R

“…The Ahr locus encodes for the aryl hydrocarbon receptor (AHR), which plays an important toxicological and developmental role. Sequence variation in this gene…”
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A conditional density error model for the statistical analysis of microarray data by LOVE, Brad, RANK, David R, PENN, Sharron G, JENKINS, David A, THOMAS, Russell S

“…In many microarray experiments, relatively few intra- and inter-array replicate measurements are made due to significant cost limitations and sample…”
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Sub-microliter DNA sequencing for capillary array electrophoresis by Hadd, Andrew G, Goard, Michael P, Rank, David R, Jovanovich, Stevan B

“…DNA sequencing from sub-microliter samples was demonstrated for capillary array electrophoresis by optimizing the analysis of 500 nl reaction aliquots of…”
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Developing toxicologically predictive gene sets using cDNA microarrays and Bayesian classification by Thomas, Russell S, Rank, David R, Penn, Sharron G, Craven, Mark W, Drinkwater, Norman R, Bradfield, Christopher A

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A conditional density error model for the statisticalanalysis of microarray data by Love, Brad, Rank, David R., Penn, Sharron G., Jenkins, David A., Thomas, Russell S.

“…Motivation: In many microarray experiments, relatively few intra- and inter-array replicate measurements are made due to significant cost limitations and…”
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Analyzing Sequencing Reactions from Bacteriophage M13 by Matrix-assisted Laser Desorption/Ionization Mass Spectrometry by Mouradian, Stéphane, Rank, David R., Smith, Lloyd M.

“…The current demand for improved DNA sequencing methodologies posed by the Human Genome Project has spurred the investigation of alternatives to gel…”
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The relation between plant growth and respiration: A thermodynamic model by Hansen, Lee D., Hopkin, Mark S., Rank, David R., Anekonda, Thimmappa S., Breidenbach, R. William, Criddle, Richard S.

“…A thermodynamic model describing the relation between plant growth and respiration rates is derived from mass- and enthalpy-balance equations. The specific…”
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M13-102: A vector for facilitating construction and improving quality of M13 shotgun libraries by Chen, Danhua, Johnson, Arthur F., Severin, Jessica M., Rank, David R., Smith, Lloyd M., Guilfoyle, Richard A.

“…A modified vector, M13-102, is described which utilizes the previously reported M13-100 direct selection strategy for shotgun cloning [Guilfoyle and Smith,…”
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Time-temperature responses of tomato cells during high- and low-temperature inactivation by Rank, D.R. (University of California, Davis, CA), Breidenbach, R.W, Fontana, A.J, Hansen, L.D, Criddle, R.S

“…Precise time and temperature dependences of the decrease of metabolism of cultured cells of tomato (Lysopersicon esculentum (L.) Mill. L. peruvianum (L.)…”
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