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iReckon: Simultaneous isoform discovery and abundance estimation from RNA-seq data

Aziz M. Mezlini
Eric J.M. Smith
Marc Fiume
Orion Buske
Gleb L. Savich
Sohrab Shah
... [+1 authors] ...,
Sam Aparicio
Derek Y. Chiang
Anna Goldenberg
Michael Brudno

First Published November 29, 2012

nFuse: Discovery of complex genomic rearrangements in cancer using high-throughput sequencing

Andrew McPherson
Chunxiao Wu
Alexander W. Wyatt
Sohrab Shah
Colin Collins
S. Cenk Sahinalp

First Published June 28, 2012

Complex selection on 5′ splice sites in intron-rich organisms

Manuel Irimia
Scott William Roy
Daniel E. Neafsey
Josep F. Abril
Jordi Garcia-Fernandez
Eugene V. Koonin

First Published September 10, 2009

Evolution of protein domain promiscuity in eukaryotes

Malay Kumar Basu
Liran Carmel
Igor B. Rogozin
Eugene V. Koonin

First Published January 29, 2008

Three distinct modes of intron dynamics in the evolution of eukaryotes

Liran Carmel
Yuri I. Wolf
Igor B. Rogozin
Eugene V. Koonin

First Published May 10, 2007

Evolutionarily conserved genes preferentially accumulate introns

Liran Carmel
Igor B. Rogozin
Yuri I. Wolf
Eugene V. Koonin

First Published May 10, 2007

Origins and impact of constraints in evolution of gene families

Boris E. Shakhnovich
Eugene V. Koonin

First Published October 19, 2006

Coelomata and Not Ecdysozoa: Evidence From Genome-Wide Phylogenetic Analysis

Yuri I. Wolf
Igor B. Rogozin
Eugene V. Koonin

First Published January 5, 2004

Gene Loss, Protein Sequence Divergence, Gene Dispensability, Expression Level, and Interactivity Are Correlated in Eukaryotic Evolution

Dmitri M. Krylov
Yuri I. Wolf
Igor B. Rogozin
Eugene V. Koonin

First Published October 2, 2003

The Role of Lineage-Specific Gene Family Expansion in the Evolution of Eukaryotes

Olivier Lespinet
Yuri I. Wolf
Eugene V. Koonin
L. Aravind

First Published July 1, 2002

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