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Resource

The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond

  • Simon Bray
  • John Chilton
  • Matthias Bernt
  • Nicola Soranzo
  • Marius van den Beek
  • Bérénice Batut Helena Rasche
  • ... [+2 authors] ...,
  • Martin Čech
  • Peter J.A. Cock
  • Björn Grüning
  • Anton Nekrutenko
  • First Published February 24, 2023
Research

RNA–DNA differences in human mitochondria restore ancestral form of 16S ribosomal RNA

  • Dan Bar-Yaacov
  • Gal Avital
  • Liron Levin
  • Allison L. Richards
  • Naomi Hachen
  • Boris Rebolledo Jaramillo
  • Anton Nekrutenko
  • Raz Zarivach
  • Dan Mishmar
  • First Published August 2, 2013
Method

Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage

  • Lukas Chavez
  • Justyna Jozefczuk
  • Christina Grimm
  • Jörn Dietrich
  • Bernd Timmermann
  • Hans Lehrach
  • Ralf Herwig
  • James Adjaye
  • First Published August 27, 2010
Resource

Windshield splatter analysis with the Galaxy metagenomic pipeline

  • Sergei Kosakovsky Pond
  • Samir Wadhawan
  • Francesca Chiaromonte
  • Guruprasad Ananda
  • Wen-Yu Chung
  • James Taylor
  • Anton Nekrutenko
  • First Published October 9, 2009
Letter

Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention

  • Andrew L. Hufton
  • Susanne Mathia
  • Helene Braun
  • Udo Georgi
  • Hans Lehrach
  • Martin Vingron
  • Albert J. Poustka
  • Georgia Panopoulou
  • First Published August 24, 2009
LETTER

Comparative sequence analysis of primate subtelomeres originating from a chromosome fission event

  • M. Katharine Rudd
  • RaeLynn M. Endicott
  • Cynthia Friedman
  • Megan Walker
  • Janet M. Young
  • Kazutoyo Osoegawa
  • Pieter J. de Jong
  • Eric D. Green
  • Barbara J. Trask
  • First Published October 24, 2008
LETTER

Early vertebrate whole genome duplications were predated by a period of intense genome rearrangement

  • Andrew L. Hufton
  • Detlef Groth
  • Martin Vingron
  • Hans Lehrach
  • Albert J. Poustka
  • Georgia Panopoulou
  • First Published July 14, 2008
LETTER

The amphioxus genome illuminates vertebrate origins and cephalochordate biology

  • Linda Z. Holland
  • Ricard Albalat
  • Kaoru Azumi
  • Èlia Benito-Gutiérrez
  • Matthew J. Blow
  • Marianne Bronner-Fraser Frederic Brunet Thomas Butts Simona Candiani Larry J. Dishaw David E.K. Ferrier Jordi Garcia-Fernàndez Jeremy J. Gibson-Brown Carmela Gissi Adam Godzik Finn Hallböök Dan Hirose Kazuyoshi Hosomichi Tetsuro Ikuta Hidetoshi Inoko Masanori Kasahara Jun Kasamatsu Takeshi Kawashima Ayuko Kimura Masaaki Kobayashi Zbynek Kozmik Kaoru Kubokawa Vincent Laudet Gary W. Litman Alice C. McHardy Daniel Meulemans Masaru Nonaka Robert P. Olinski Zeev Pancer Len A. Pennacchio Mario Pestarino Jonathan P. Rast Isidore Rigoutsos Marc Robinson-Rechavi Graeme Roch Hidetoshi Saiga Yasunori Sasakura Masanobu Satake Yutaka Satou Michael Schubert Nancy Sherwood Takashi Shiina Naohito Takatori Javier Tello Pavel Vopalensky Shuichi Wada Anlong Xu Yuzhen Ye Keita Yoshida Fumiko Yoshizaki Jr-Kai Yu Qing Zhang Christian M. Zmasek Pieter J. de Jong Kazutoyo Osoegawa
  • ... [+55 authors] ...,
  • Nicholas H. Putnam
  • Daniel S. Rokhsar
  • Noriyuki Satoh
  • Peter W.H. Holland
  • First Published June 18, 2008
RESOURCE

28-Way vertebrate alignment and conservation track in the UCSC Genome Browser

  • Webb Miller
  • Kate Rosenbloom
  • Ross C. Hardison
  • Minmei Hou
  • James Taylor
  • Brian Raney Richard Burhans David C. King Robert Baertsch Daniel Blankenberg Sergei L. Kosakovsky Pond Anton Nekrutenko Belinda Giardine Robert S. Harris Svitlana Tyekucheva Mark Diekhans Thomas H. Pringle William J. Murphy Arthur Lesk George M. Weinstock Kerstin Lindblad-Toh Richard A. Gibbs
  • ... [+17 authors] ...,
  • Eric S. Lander
  • Adam Siepel
  • David Haussler
  • W. James Kent
  • First Published November 5, 2007
RESOURCE

Islands of euchromatin-like sequence and expressed polymorphic sequences within the short arm of human chromosome 21

  • Robert Lyle
  • Paola Prandini
  • Kazutoyo Osoegawa
  • Boudewijn ten Hallers
  • Sean Humphray
  • Baoli Zhu Eduardo Eyras Robert Castelo Christine P. Bird Sarantos Gagos Carol Scott Antony Cox Samuel Deutsch Catherine Ucla Marc Cruts Sophie Dahoun Xinwei She Frederique Bena Sheng-Yue Wang Christine Van Broeckhoven Evan E. Eichler Roderic Guigo
  • ... [+17 authors] ...,
  • Jane Rogers
  • Pieter J. de Jong
  • Alexandre Reymond
  • Stylianos E. Antonarakis
  • First Published September 25, 2007
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