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Uncertainty in homology inferences: Assessing and improving genomic sequence alignment

Gerton Lunter
Andrea Rocco
Naila Mimouni
Andreas Heger
Alexandre Caldeira
Jotun Hein

First Published December 11, 2007

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

A framework for collaborative analysis of ENCODE data: Making large-scale analyses biologist-friendly

Daniel Blankenberg
James Taylor
Ian Schenck
Jianbin He
Yi Zhang
Matthew Ghent Narayanan Veeraraghavan Istvan Albert
... [+3 authors] ...,
Webb Miller
Kateryna D. Makova
Ross C. Hardison
Anton Nekrutenko

First Published June 13, 2007

ESPERR: Learning strong and weak signals in genomic sequence alignments to identify functional elements

James Taylor
Svitlana Tyekucheva
David C. King
Ross C. Hardison
Webb Miller
Francesca Chiaromonte

First Published October 19, 2006

Galaxy: A platform for interactive large-scale genome analysis

Belinda Giardine
Cathy Riemer
Ross C. Hardison
Richard Burhans
Laura Elnitski
Prachi Shah Yi Zhang Daniel Blankenberg Istvan Albert
... [+4 authors] ...,
James Taylor
Webb Miller
W. James Kent
Anton Nekrutenko

First Published September 16, 2005

zPicture: Dynamic Alignment and Visualization Tool for Analyzing Conservation Profiles

Ivan Ovcharenko
Gabriela G. Loots
Ross C. Hardison
Webb Miller
Lisa Stubbs

First Published March 1, 2004