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Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair.

Autor: McDaniel JH; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., Patel V; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., Olson ND; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., He HJ; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., He Z; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., Cole KD; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., Schmitt A; Arima Genomics, Inc., 6354 Corte Del Abeto Suite B, Carlsbad, CA 92011, USA., Sikkink K; Arima Genomics, Inc., 6354 Corte Del Abeto Suite B, Carlsbad, CA 92011, USA., Sedlazeck FJ; Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA; Department of Molecular and Human Genetics, Baylor College of Medicine, TX, USA; Department of Computer Science, Rice University, 6100 Main Street, Houston, TX, USA., Doddapaneni H; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Jhangiani SN; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Muzny DM; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Gingras MC; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Mehta H; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Paulin LF; Human Genome Sequencing Center, Baylor College of Medicine, OneBaylor Plaza, Houston, Texas 77030, USA., Hastie AR; Bionano Genomics., Yu HC; Bionano Genomics., Weigman V; BioSkryb Genomics, 2810 Meridian Pkwy, ste110, Durham, NC 27713., Rojas A; BioSkryb Genomics, 2810 Meridian Pkwy, ste110, Durham, NC 27713., Kennedy K; BioSkryb Genomics, 2810 Meridian Pkwy, ste110, Durham, NC 27713., Remington J; BioSkryb Genomics, 2810 Meridian Pkwy, ste110, Durham, NC 27713., Gonzalez I; BioSkryb Genomics, 2810 Meridian Pkwy, ste110, Durham, NC 27713., Sudkamp M; Applications Development Laboratory, Element Biosciences, 10055 Barnes Canyon Rd, San Diego, CA 92121, USA., Wiseman K; Applications Development Laboratory, Element Biosciences, 10055 Barnes Canyon Rd, San Diego, CA 92121, USA., Lajoie BR; Applications Development Laboratory, Element Biosciences, 10055 Barnes Canyon Rd, San Diego, CA 92121, USA., Levy S; Applications Development Laboratory, Element Biosciences, 10055 Barnes Canyon Rd, San Diego, CA 92121, USA., Jain M; Genome Technology Laboratory, Northeastern University, 360 Huntington Ave, Boston, MA 02115, USA., Akeson S; Genome Technology Laboratory, Northeastern University, 360 Huntington Ave, Boston, MA 02115, USA., Narzisi G; New York Genome Center, New York, NY 10013, USA., Steinsnyder Z; New York Genome Center, New York, NY 10013, USA., Reeves C; New York Genome Center, New York, NY 10013, USA., Shelton J; New York Genome Center, New York, NY 10013, USA., Kingan SB; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Lambert C; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Bayabyan P; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Wenger AM; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., McLaughlin IJ; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Adamson A; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Kingsley C; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Wescott M; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Kim Y; PacBio, 1305 O'Brien Drive, Menlo Park, CA 94025, USA., Paten B; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Park J; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Violich I; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Miga KH; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Gardner J; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., McNulty B; UC Santa Cruz Genomics Institute, University of California, Santa Cruz, CA, USA., Rosen G; Ecological and Evolutionary Signal-processing and Informatics (EESI) Lab, College of Engineering, Drexel University, Philadelphia, PA, USA., McCoy R; Department of Biology, Johns Hopkins University, 3400 N. Charles St., Baltimore, MD 21218, USA., Brundu F; Illumina, Inc., DRAGEN, 5200 Illumina Way, San Diego, CA, 92122, USA., Sayyari E; Illumina, Inc., DRAGEN, 5200 Illumina Way, San Diego, CA, 92122, USA., Scheffler K; Illumina, Inc., DRAGEN, 5200 Illumina Way, San Diego, CA, 92122, USA., Truong S; Illumina, Inc., DRAGEN, 5200 Illumina Way, San Diego, CA, 92122, USA., Catreux S; Illumina, Inc., DRAGEN, 5200 Illumina Way, San Diego, CA, 92122, USA., Hannah LC; National Cancer Institute, Division of Cancer Epidemiology and Genetics, Clinical Genetics Branch, National Institutes of Health, 9609 Medical Center Dr, Rockville, MD 20850, USA., Lipson D; Ultima Genomics Inc., 4425 Technology Dr, Fremont, CA 94538, USA., Benjamin H; Ultima Genomics Inc., 4425 Technology Dr, Fremont, CA 94538, USA., Iremadze N; Ultima Genomics Inc., 4425 Technology Dr, Fremont, CA 94538, USA., Soifer I; Ultima Genomics Inc., 4425 Technology Dr, Fremont, CA 94538, USA., Eacker S; Phase Genomics, Inc. Seattle, WA, USA., Wood M; Phase Genomics, Inc. Seattle, WA, USA., Cross E; KromaTiD, 1880 Industrial Circle, Suite A, Longmont, Colorado 80501, USA., Husar G; KromaTiD, 1880 Industrial Circle, Suite A, Longmont, Colorado 80501, USA., Gross S; KromaTiD, 1880 Industrial Circle, Suite A, Longmont, Colorado 80501, USA., Vernich M; KromaTiD, 1880 Industrial Circle, Suite A, Longmont, Colorado 80501, USA., Kolmogorov M; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD 20892, USA., Ahmad T; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD 20892, USA., Keskus A; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD 20892, USA., Bryant A; Cancer Data Science Laboratory, National Cancer Institute, National Institutes of Health, 9000 Rockville Pike, Bethesda, MD 20892, USA., Thibaud-Nissen F; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 45 Center Drive, Bethesda, MD, 20894, USA., Trow J; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 45 Center Drive, Bethesda, MD, 20894, USA., Proszynski J; Weill Cornell Medicine, Physiology and Biophysics and WorldQuant Initiative, 1300 York Avenue, New York, NY 10021, USA., Hirschberg JW; Weill Cornell Medicine, Physiology and Biophysics and WorldQuant Initiative, 1300 York Avenue, New York, NY 10021, USA., Ryon K; Weill Cornell Medicine, Physiology and Biophysics and WorldQuant Initiative, 1300 York Avenue, New York, NY 10021, USA., Mason CE; Weill Cornell Medicine, Physiology and Biophysics and WorldQuant Initiative, 1300 York Avenue, New York, NY 10021, USA., Wagner J; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA., Xiao C; National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 45 Center Drive, Bethesda, MD, 20894, USA., Liss AS; Department of Surgery, Massachusetts General Hospital and Harvard Medical School, Boston MA 02114, USA., Zook JM; Material Measurement Laboratory, National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, MD 20899, USA.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Oct 18. Date of Electronic Publication: 2024 Oct 18.

Probing enzyme-dependent pseudouridylation using direct RNA sequencing to assess neuronal epitranscriptome plasticity.

Autor: Fanari O; Dept. of Bioengineering, Northeastern University, Boston, MA.; These authors contributed equally., Tavakoli S; Dept. of Bioengineering, Northeastern University, Boston, MA.; These authors contributed equally., Akeson S; Dept. of Bioengineering, Northeastern University, Boston, MA., Makhamreh A; Dept. of Bioengineering, Northeastern University, Boston, MA., Nian K; Dept. of Bioengineering, Northeastern University, Boston, MA., McCormick CA; Dept. of Bioengineering, Northeastern University, Boston, MA., Qiu Y; Dept. of Bioengineering, Northeastern University, Boston, MA., Bloch D; Dept. of Bioengineering, Northeastern University, Boston, MA., Jain M; Dept. of Bioengineering, Northeastern University, Boston, MA.; Dept. of Physics, Northeastern University, Boston, MA., Wanunu M; Dept. of Bioengineering, Northeastern University, Boston, MA.; Dept. of Physics, Northeastern University, Boston, MA., Rouhanifard SH; Dept. of Bioengineering, Northeastern University, Boston, MA.; Lead contact.

Publikováno v: BioRxiv : the preprint server for biology [bioRxiv] 2024 Apr 11. Date of Electronic Publication: 2024 Apr 11.