Publications by authors named "John I Murray"

28Publications

A lineage-resolved molecular atlas of embryogenesis at single-cell resolution.

Science 2019 09 5;365(6459). Epub 2019 Sep 5.

Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA.

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September 2019

SAVER: gene expression recovery for single-cell RNA sequencing.

Nat Methods 2018 07 25;15(7):539-542. Epub 2018 Jun 25.

Department of Statistics, The Wharton School, University of Pennsylvania, Philadelphia, PA, USA.

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July 2018

The Lipocalin LPR-1 Cooperates with LIN-3/EGF Signaling To Maintain Narrow Tube Integrity in .

Genetics 2017 03 30;205(3):1247-1260. Epub 2016 Dec 30.

Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104

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March 2017

Construction of a system for single-cell transgene induction in Caenorhabditis elegans using a pulsed infrared laser.

Methods 2014 Aug 14;68(3):431-6. Epub 2014 May 14.

Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, PA 19104, United States; Department of Physics, Korea University, Anam-dong, Seongbuk-gu, Seoul 136-701, South Korea. Electronic address:

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August 2014

Efficient single-cell transgene induction in Caenorhabditis elegans using a pulsed infrared laser.

G3 (Bethesda) 2013 Oct 3;3(10):1827-32. Epub 2013 Oct 3.

Department of Bioengineering, School of Engineering and Applied Sciences, University of Pennsylvania, Philadelphia, Pennsylvania 19104.

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October 2013

The Nkx5/HMX homeodomain protein MLS-2 is required for proper tube cell shape in the C. elegans excretory system.

Dev Biol 2012 Jun 17;366(2):298-307. Epub 2012 Apr 17.

Department of Genetics, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA.

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June 2012

Mounting Caenorhabditis elegans embryos for live imaging of embryogenesis.

Cold Spring Harb Protoc 2011 Sep 1;2011(9). Epub 2011 Sep 1.

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September 2011

Notch and Ras promote sequential steps of excretory tube development in C. elegans.

Development 2011 Aug 19;138(16):3545-55. Epub 2011 Jul 19.

Department of Genetics, University of Pennsylvania School of Medicine, Philadelphia, PA 19104, USA.

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August 2011

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project.

Authors:
Mark B Gerstein Zhi John Lu Eric L Van Nostrand Chao Cheng Bradley I Arshinoff Tao Liu Kevin Y Yip Rebecca Robilotto Andreas Rechtsteiner Kohta Ikegami Pedro Alves Aurelien Chateigner Marc Perry Mitzi Morris Raymond K Auerbach Xin Feng Jing Leng Anne Vielle Wei Niu Kahn Rhrissorrakrai Ashish Agarwal Roger P Alexander Galt Barber Cathleen M Brdlik Jennifer Brennan Jeremy Jean Brouillet Adrian Carr Ming-Sin Cheung Hiram Clawson Sergio Contrino Luke O Dannenberg Abby F Dernburg Arshad Desai Lindsay Dick Andréa C Dosé Jiang Du Thea Egelhofer Sevinc Ercan Ghia Euskirchen Brent Ewing Elise A Feingold Reto Gassmann Peter J Good Phil Green Francois Gullier Michelle Gutwein Mark S Guyer Lukas Habegger Ting Han Jorja G Henikoff Stefan R Henz Angie Hinrichs Heather Holster Tony Hyman A Leo Iniguez Judith Janette Morten Jensen Masaomi Kato W James Kent Ellen Kephart Vishal Khivansara Ekta Khurana John K Kim Paulina Kolasinska-Zwierz Eric C Lai Isabel Latorre Amber Leahey Suzanna Lewis Paul Lloyd Lucas Lochovsky Rebecca F Lowdon Yaniv Lubling Rachel Lyne Michael MacCoss Sebastian D Mackowiak Marco Mangone Sheldon McKay Desirea Mecenas Gennifer Merrihew David M Miller Andrew Muroyama John I Murray Siew-Loon Ooi Hoang Pham Taryn Phippen Elicia A Preston Nikolaus Rajewsky Gunnar Rätsch Heidi Rosenbaum Joel Rozowsky Kim Rutherford Peter Ruzanov Mihail Sarov Rajkumar Sasidharan Andrea Sboner Paul Scheid Eran Segal Hyunjin Shin Chong Shou Frank J Slack Cindie Slightam Richard Smith William C Spencer E O Stinson Scott Taing Teruaki Takasaki Dionne Vafeados Ksenia Voronina Guilin Wang Nicole L Washington Christina M Whittle Beijing Wu Koon-Kiu Yan Georg Zeller Zheng Zha Mei Zhong Xingliang Zhou Julie Ahringer Susan Strome Kristin C Gunsalus Gos Micklem X Shirley Liu Valerie Reinke Stuart K Kim LaDeana W Hillier Steven Henikoff Fabio Piano Michael Snyder Lincoln Stein Jason D Lieb Robert H Waterston

Science 2010 Dec 22;330(6012):1775-87. Epub 2010 Dec 22.

Program in Computational Biology and Bioinformatics, Yale University, Bass 432, 266 Whitney Avenue, New Haven, CT 06520, USA.

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December 2010

A negative regulatory loop between microRNA and Hox gene controls posterior identities in Caenorhabditis elegans.

PLoS Genet 2010 Sep 2;6(9):e1001089. Epub 2010 Sep 2.

Department of Genome Sciences, University of Washington, Seattle, Washington, United States of America.

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September 2010

New tools for investigating the comparative biology of Caenorhabditis briggsae and C. elegans.

Genetics 2010 Mar 14;184(3):853-63. Epub 2009 Dec 14.

Department of Genome Sciences, University of Washington, Seattle, Washington 98195-5065, USA.

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March 2010