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Research

Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line

  • Maria Nattestad
  • Sara Goodwin
  • Karen Ng
  • Timour Baslan
  • Fritz J. Sedlazeck
  • Philipp Rescheneder Tyler Garvin Han Fang James Gurtowski Elizabeth Hutton Elizabeth Tseng Chen-Shan Chin Timothy Beck Yogi Sundaravadanam Melissa Kramer Eric Antoniou
  • ... [+11 authors] ...,
  • John D. McPherson
  • James Hicks
  • W. Richard McCombie
  • Michael C. Schatz
  • First Published June 28, 2018
Method

Optimizing sparse sequencing of single cells for highly multiplex copy number profiling

  • Timour Baslan
  • Jude Kendall
  • Brian Ward
  • Hilary Cox
  • Anthony Leotta
  • Linda Rodgers Michael Riggs Sean D'Italia Guoli Sun Mao Yong Kristy Miskimen Hannah Gilmore Michael Saborowski Nevenka Dimitrova
  • ... [+9 authors] ...,
  • Alexander Krasnitz
  • Lyndsay Harris
  • Michael Wigler
  • James Hicks
  • First Published April 9, 2015
Methods

Inferring tumor progression from genomic heterogeneity

  • Nicholas Navin
  • Alexander Krasnitz
  • Linda Rodgers
  • Kerry Cook
  • Jennifer Meth
  • Jude Kendall Michael Riggs Yvonne Eberling Jennifer Troge Vladimir Grubor Dan Levy Pär Lundin
  • ... [+7 authors] ...,
  • Susanne Månér
  • Anders Zetterberg
  • James Hicks
  • Michael Wigler
  • First Published November 10, 2009
LETTER

Massively parallel bisulphite pyrosequencing reveals the molecular complexity of breast cancer-associated cytosine-methylation patterns obtained from tissue and serum DNA

  • Yulia Korshunova
  • Rebecca K. Maloney
  • Nathan Lakey
  • Robert W. Citek
  • Blaire Bacher
  • Arief Budiman Jared M. Ordway
  • ... [+2 authors] ...,
  • W. Richard McCombie
  • Jorge Leon
  • Jeffrey A. Jeddeloh
  • John D. McPherson
  • First Published November 21, 2007
LETTER

Novel patterns of genome rearrangement and their association with survival in breast cancer

  • James Hicks
  • Alexander Krasnitz
  • B. Lakshmi
  • Nicholas E. Navin
  • Michael Riggs
  • Evan Leibu Diane Esposito Joan Alexander Jen Troge Vladimir Grubor Seungtai Yoon Michael Wigler Kenny Ye Anne-Lise Børresen-Dale Bjørn Naume Ellen Schlicting Larry Norton Torsten Hägerström Lambert Skoog
  • ... [+14 authors] ...,
  • Gert Auer
  • Susanne Månér
  • Pär Lundin
  • Anders Zetterberg
  • First Published December 1, 2006
LETTER

Punctuated duplication seeding events during the evolution of human chromosome 2p11

  • Julie E. Horvath
  • Cassandra L. Gulden
  • Rhea U. Vallente
  • Marla Y. Eichler
  • Mario Ventura
  • John D. McPherson Tina A. Graves
  • ... [+2 authors] ...,
  • Richard K. Wilson
  • Stuart Schwartz
  • Mariano Rocchi
  • Evan E. Eichler
  • First Published June 17, 2005
Methods

Histoplasma capsulatum Genome" > Fosmid-Based Physical Mapping of the Histoplasma capsulatum Genome

  • Vincent Magrini
  • Wesley C. Warren
  • John Wallis
  • William E. Goldman
  • Jian Xu
  • Elaine R. Mardis
  • John D. McPherson
  • First Published August 2, 2004
RESOURCE

Integrated and Sequence-Ordered BAC- and YAC-Based Physical Maps for the Rat Genome

  • Martin Krzywinski
  • John Wallis
  • Claudia Gösele
  • Ian Bosdet
  • Readman Chiu
  • Tina Graves Oliver Hummel Dan Layman Carrie Mathewson Natasja Wye Baoli Zhu Derek Albracht Jennifer Asano Sarah Barber Mabel Brown-John Susanna Chan Steve Chand Alison Cloutier Jonathon Davito Chris Fjell Tony Gaige Detlev Ganten Noreen Girn Kurtis Guggenheimer Heinz Himmelbauer Thomas Kreitler Stephen Leach Darlene Lee Hans Lehrach Michael Mayo Kelly Mead Teika Olson Pawan Pandoh Anna-Liisa Prabhu Heesun Shin Simone Tänzer Jason Thompson Miranda Tsai Jason Walker George Yang Mandeep Sekhon LaDeana Hillier Heike Zimdahl Andre Marziali Kazutoyo Osoegawa Shaying Zhao Asim Siddiqui Pieter J. de Jong Wes Warren Elaine Mardis John D. McPherson Richard Wilson
  • ... [+47 authors] ...,
  • Norbert Hübner
  • Steven Jones
  • Marco Marra
  • Jacqueline Schein
  • First Published April 1, 2004
METHODS

Software for Automated Analysis of DNA Fingerprinting Gels

  • Daniel R. Fuhrmann
  • Martin I. Krzywinski
  • Readman Chiu
  • Parvaneh Saeedi
  • Jacqueline E. Schein
  • Ian E. Bosdet Asif Chinwalla LaDeana W. Hillier
  • ... [+3 authors] ...,
  • Robert H. Waterston
  • John D. McPherson
  • Steven J.M. Jones
  • Marco A. Marra
  • First Published May 1, 2003
LETTER

The Syntenic Relationship of the Zebrafish and Human Genomes

  • W. Bradley Barbazuk
  • Ian Korf
  • Candy Kadavi
  • Joshua Heyen
  • Stephanie Tate
  • Edmund Wun
  • Joseph A. Bedell
  • John D. McPherson
  • Stephen L. Johnson
  • First Published September 1, 2000
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