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Perspective

Ribosome decision graphs for the representation of eukaryotic RNA translation complexity

Jack A.S. Tierney
Michał Świrski
Håkon Tjeldnes
Jonathan M. Mudge
Joanna Kufel
Nicola Whiffin
Eivind Valen
Pavel V. Baranov

First Published May 7, 2024

Method

Accurate analysis of genuine CRISPR editing events with ampliCan

Kornel Labun
Xiaoge Guo
Alejandro Chavez
George Church
James A. Gagnon
Eivind Valen

First Published March 8, 2019

Method

Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome

Jakob Skou Pedersen
Eivind Valen
Amhed M. Vargas Velazquez
Brian J. Parker
Morten Rasmussen
Stinus Lindgreen Berit Lilje Desmond J. Tobin Theresa K. Kelly Søren Vang Robin Andersson Peter A. Jones Cindi A. Hoover Alexei Tikhonov Egor Prokhortchouk Edward M. Rubin Albin Sandelin
... [+12 authors] ...,
M. Thomas P. Gilbert
Anders Krogh
Eske Willerslev
Ludovic Orlando

First Published December 3, 2013

Resource

Systematic identification of long noncoding RNAs expressed during zebrafish embryogenesis

Andrea Pauli
Eivind Valen
Michael F. Lin
Manuel Garber
Nadine L. Vastenhouw
Joshua Z. Levin Lin Fan
... [+2 authors] ...,
Albin Sandelin
John L. Rinn
Aviv Regev
Alexander F. Schier

First Published November 22, 2011

Research

Dynamics of the epigenetic landscape during erythroid differentiation after GATA1 restoration

Weisheng Wu
Yong Cheng
Cheryl A. Keller
Jason Ernst
Swathi Ashok Kumar
Tejaswini Mishra Christapher Morrissey Christine M. Dorman Kuan-Bei Chen Daniela Drautz Belinda Giardine Yoichiro Shibata Lingyun Song Max Pimkin Gregory E. Crawford Terrence S. Furey Manolis Kellis Webb Miller James Taylor Stephan C. Schuster Yu Zhang
... [+16 authors] ...,
Francesca Chiaromonte
Gerd A. Blobel
Mitchell J. Weiss
Ross C. Hardison

First Published July 27, 2011

Method

Genome-wide identification of conserved regulatory function in diverged sequences

Leila Taher
David M. McGaughey
Samantha Maragh
Ivy Aneas
Seneca L. Bessling
Webb Miller
Marcelo A. Nobrega
Andrew S. McCallion
Ivan Ovcharenko

First Published May 31, 2011

Article

Erythroid GATA1 function revealed by genome-wide analysis of transcription factor occupancy, histone modifications, and mRNA expression

Yong Cheng
Weisheng Wu
Swathi Ashok Kumar
Duonan Yu
Wulan Deng
Tamara Tripic David C. King Kuan-Bei Chen Ying Zhang Daniela Drautz Belinda Giardine Stephan C. Schuster Webb Miller Francesca Chiaromonte
... [+9 authors] ...,
Yu Zhang
Gerd A. Blobel
Mitchell J. Weiss
Ross C. Hardison

First Published November 3, 2009

LETTER

Thylacinus cynocephalus)" > The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus)

Webb Miller
Daniela I. Drautz
Jan E. Janecka
Arthur M. Lesk
Aakrosh Ratan
Lynn P. Tomsho Mike Packard Yeting Zhang Lindsay R. McClellan Ji Qi Fangqing Zhao M. Thomas P. Gilbert Love Dalén Juan Luis Arsuaga Per G.P. Ericson Daniel H. Huson
... [+11 authors] ...,
Kristofer M. Helgen
William J. Murphy
Anders Götherström
Stephan C. Schuster

First Published January 12, 2009

Methods

Genome-wide detection and analysis of hippocampus core promoters using DeepCAGE

Eivind Valen
Giovanni Pascarella
Alistair Chalk
Norihiro Maeda
Miki Kojima
Chika Kawazu Mitsuyoshi Murata Hiromi Nishiyori Dejan Lazarevic Dario Motti Troels Torben Marstrand Man-Hung Eric Tang Xiaobei Zhao Anders Krogh Ole Winther Takahiro Arakawa Jun Kawai Christine Wells Carsten Daub Matthias Harbers
... [+15 authors] ...,
Yoshihide Hayashizaki
Stefano Gustincich
Albin Sandelin
Piero Carninci

First Published December 11, 2008

LETTER

Transcriptional enhancement by GATA1-occupied DNA segments is strongly associated with evolutionary constraint on the binding site motif

Yong Cheng
David C. King
Louis C. Dore
Xinmin Zhang
Yuepin Zhou
Ying Zhang Christine Dorman Demesew Abebe Swathi A. Kumar Francesca Chiaromonte
... [+5 authors] ...,
Webb Miller
Roland D. Green
Mitchell J. Weiss
Ross C. Hardison

First Published September 25, 2008

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