Publications by authors named "Arjun Bhutkar"

50Publications

CRISPR-mediated modeling and functional validation of candidate tumor suppressor genes in small cell lung cancer.

Proc Natl Acad Sci U S A 2020 01 23;117(1):513-521. Epub 2019 Dec 23.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139;

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http://dx.doi.org/10.1073/pnas.1821893117DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6955235PMC
January 2020

IL-33 Signaling Alters Regulatory T Cell Diversity in Support of Tumor Development.

Cell Rep 2019 12;29(10):2998-3008.e8

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, 500 Main Street, Cambridge, MA 02139, USA; Department of Biology, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA 02139, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.celrep.2019.10.120DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6990979PMC
December 2019

Nrf2 Activation Promotes Lung Cancer Metastasis by Inhibiting the Degradation of Bach1.

Cell 2019 07 27;178(2):316-329.e18. Epub 2019 Jun 27.

Department of Biochemistry and Molecular Pharmacology, New York University School of Medicine, New York, NY 10016, USA; Perlmutter NYU Cancer Center, New York University School of Medicine, New York, NY 10016, USA; Howard Hughes Medical Institute, New York University School of Medicine, New York, NY 10016, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2019.06.003DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6625921PMC
July 2019

Commensal Microbiota Promote Lung Cancer Development via γδ T Cells.

Cell 2019 02 31;176(5):998-1013.e16. Epub 2019 Jan 31.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02142, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2018.12.040DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6691977PMC
February 2019

Isoform-specific deletion of PKM2 constrains tumor initiation in a mouse model of soft tissue sarcoma.

Cancer Metab 2018 31;6. Epub 2018 May 31.

1David H. Koch Institute for Integrative Cancer Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139 USA.

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https://cancerandmetabolism.biomedcentral.com/articles/10.11
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http://dx.doi.org/10.1186/s40170-018-0179-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5977456PMC
May 2018

In vivo RNAi screening identifies as a target for combination therapy with TKIs in BCP-ALL.

Blood Adv 2018 06;2(11):1229-1242

The Koch Institute for Integrative Cancer Research at MIT, Massachusetts Institute of Technology, Cambridge, MA.

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http://dx.doi.org/10.1182/bloodadvances.2017015610DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5998924PMC
June 2018

GKAP Acts as a Genetic Modulator of NMDAR Signaling to Govern Invasive Tumor Growth.

Cancer Cell 2018 04 29;33(4):736-751.e5. Epub 2018 Mar 29.

Swiss Institute of Cancer Research, School of Life Sciences, Swiss Federal Institute of Technology Lausanne (EPFL), 1015 Lausanne, Switzerland. Electronic address:

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http://dx.doi.org/10.1016/j.ccell.2018.02.011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5896248PMC
April 2018

Adaptive and Reversible Resistance to Kras Inhibition in Pancreatic Cancer Cells.

Cancer Res 2018 02 26;78(4):985-1002. Epub 2017 Dec 26.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts.

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http://dx.doi.org/10.1158/0008-5472.CAN-17-2129DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5837062PMC
February 2018

Survival of pancreatic cancer cells lacking KRAS function.

Nat Commun 2017 10 23;8(1):1090. Epub 2017 Oct 23.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, 02139, USA.

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http://dx.doi.org/10.1038/s41467-017-00942-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5653666PMC
October 2017

DDK Promotes Tumor Chemoresistance and Survival via Multiple Pathways.

Neoplasia 2017 May 25;19(5):439-450. Epub 2017 Apr 25.

Laboratory of Genome Integrity and Tumorigenesis, Van Andel Research Institute (VARI), Grand Rapids, MI 49503. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S14765586163033
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http://dx.doi.org/10.1016/j.neo.2017.03.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5406526PMC
May 2017

Circadian Rhythm Disruption Promotes Lung Tumorigenesis.

Cell Metab 2016 08 28;24(2):324-31. Epub 2016 Jul 28.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cmet.2016.07.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5367626PMC
August 2016

Germline loss of PKM2 promotes metabolic distress and hepatocellular carcinoma.

Genes Dev 2016 05 28;30(9):1020-33. Epub 2016 Apr 28.

David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA.

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http://dx.doi.org/10.1101/gad.278549.116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4863734PMC
May 2016

BMI1 induces an invasive signature in melanoma that promotes metastasis and chemoresistance.

Genes Dev 2016 Jan 17;30(1):18-33. Epub 2015 Dec 17.

David H. Koch Institute for Integrative Cancer Research, Cambridge, Massachusetts 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1101/gad.267757.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4701976PMC
January 2016

Stromal Expression of miR-143/145 Promotes Neoangiogenesis in Lung Cancer Development.

Cancer Discov 2016 Feb 19;6(2):188-201. Epub 2015 Nov 19.

Koch Institute for Integrative Cancer Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts. Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts.

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http://cancerdiscovery.aacrjournals.org/content/early/2016/0
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http://cancerdiscovery.aacrjournals.org/cgi/doi/10.1158/2159
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http://dx.doi.org/10.1158/2159-8290.CD-15-0854DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4744583PMC
February 2016

Foxa2 and Cdx2 cooperate with Nkx2-1 to inhibit lung adenocarcinoma metastasis.

Genes Dev 2015 Sep;29(17):1850-62

David H. Koch Institute for Integrative Cancer Research, Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://genesdev.cshlp.org/lookup/doi/10.1101/gad.267393.115
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http://dx.doi.org/10.1101/gad.267393.115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4573857PMC
September 2015

Detained introns are a novel, widespread class of post-transcriptionally spliced introns.

Genes Dev 2015 Jan;29(1):63-80

The David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA

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http://genesdev.cshlp.org/lookup/doi/10.1101/gad.247361.114
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http://dx.doi.org/10.1101/gad.247361.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4281565PMC
January 2015

Rapid modelling of cooperating genetic events in cancer through somatic genome editing.

Nature 2014 Dec 22;516(7531):428-31. Epub 2014 Oct 22.

1] David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA [2] Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02142, USA [3] Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1038/nature13906DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4292871PMC
December 2014

KRAS and YAP1 converge to regulate EMT and tumor survival.

Cell 2014 Jul 19;158(1):171-84. Epub 2014 Jun 19.

Department of Medical Oncology, Dana Farber Cancer Institute, Boston, MA 02115, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.06.004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4110062PMC
July 2014

Global microRNA depletion suppresses tumor angiogenesis.

Genes Dev 2014 May 1;28(10):1054-67. Epub 2014 May 1.

Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA;

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http://dx.doi.org/10.1101/gad.239681.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4035535PMC
May 2014

p53 constrains progression to anaplastic thyroid carcinoma in a Braf-mutant mouse model of papillary thyroid cancer.

Proc Natl Acad Sci U S A 2014 Apr 7;111(16):E1600-9. Epub 2014 Apr 7.

Koch Institute for Integrative Cancer Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142.

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http://dx.doi.org/10.1073/pnas.1404357111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4000830PMC
April 2014

Genetic and clonal dissection of murine small cell lung carcinoma progression by genome sequencing.

Cell 2014 Mar;156(6):1298-1311

Koch Institute for Integrative Cancer Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02142, USA; Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02142, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2014.02.031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4040459PMC
March 2014

In vivo structure-function analysis of human Dicer reveals directional processing of precursor miRNAs.

RNA 2012 Jun 30;18(6):1116-22. Epub 2012 Apr 30.

David H. Koch Institute for Integrative Cancer Research, Cambridge, Massachusetts 02139, USA.

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http://dx.doi.org/10.1261/rna.032680.112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3358635PMC
June 2012

Poly(ADP-ribose) regulates stress responses and microRNA activity in the cytoplasm.

Mol Cell 2011 May;42(4):489-99

Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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http://dx.doi.org/10.1016/j.molcel.2011.04.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3898460PMC
May 2011

Genome-wide identification of Ago2 binding sites from mouse embryonic stem cells with and without mature microRNAs.

Nat Struct Mol Biol 2011 Feb 23;18(2):237-44. Epub 2011 Jan 23.

The Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.

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http://dx.doi.org/10.1038/nsmb.1991DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3078052PMC
February 2011

Chromosomal rearrangement inferred from comparisons of 12 Drosophila genomes.

Genetics 2008 Jul 13;179(3):1657-80. Epub 2008 Jul 13.

Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA.

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http://dx.doi.org/10.1534/genetics.107.086108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2475759PMC
July 2008

Inferring genome-scale rearrangement phylogeny and ancestral gene order: a Drosophila case study.

Genome Biol 2007 ;8(11):R236

BioMolecular Engineering Research Center, Boston University, Cummington St, Boston, MA 02215, USA.

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http://dx.doi.org/10.1186/gb-2007-8-11-r236DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2258185PMC
August 2008

Evolution of genes and genomes on the Drosophila phylogeny.

Authors:
Andrew G Clark Michael B Eisen Douglas R Smith Casey M Bergman Brian Oliver Therese A Markow Thomas C Kaufman Manolis Kellis William Gelbart Venky N Iyer Daniel A Pollard Timothy B Sackton Amanda M Larracuente Nadia D Singh Jose P Abad Dawn N Abt Boris Adryan Montserrat Aguade Hiroshi Akashi Wyatt W Anderson Charles F Aquadro David H Ardell Roman Arguello Carlo G Artieri Daniel A Barbash Daniel Barker Paolo Barsanti Phil Batterham Serafim Batzoglou Dave Begun Arjun Bhutkar Enrico Blanco Stephanie A Bosak Robert K Bradley Adrianne D Brand Michael R Brent Angela N Brooks Randall H Brown Roger K Butlin Corrado Caggese Brian R Calvi A Bernardo de Carvalho Anat Caspi Sergio Castrezana Susan E Celniker Jean L Chang Charles Chapple Sourav Chatterji Asif Chinwalla Alberto Civetta Sandra W Clifton Josep M Comeron James C Costello Jerry A Coyne Jennifer Daub Robert G David Arthur L Delcher Kim Delehaunty Chuong B Do Heather Ebling Kevin Edwards Thomas Eickbush Jay D Evans Alan Filipski Sven Findeiss Eva Freyhult Lucinda Fulton Robert Fulton Ana C L Garcia Anastasia Gardiner David A Garfield Barry E Garvin Greg Gibson Don Gilbert Sante Gnerre Jennifer Godfrey Robert Good Valer Gotea Brenton Gravely Anthony J Greenberg Sam Griffiths-Jones Samuel Gross Roderic Guigo Erik A Gustafson Wilfried Haerty Matthew W Hahn Daniel L Halligan Aaron L Halpern Gillian M Halter Mira V Han Andreas Heger LaDeana Hillier Angie S Hinrichs Ian Holmes Roger A Hoskins Melissa J Hubisz Dan Hultmark Melanie A Huntley David B Jaffe Santosh Jagadeeshan William R Jeck Justin Johnson Corbin D Jones William C Jordan Gary H Karpen Eiko Kataoka Peter D Keightley Pouya Kheradpour Ewen F Kirkness Leonardo B Koerich Karsten Kristiansen Dave Kudrna Rob J Kulathinal Sudhir Kumar Roberta Kwok Eric Lander Charles H Langley Richard Lapoint Brian P Lazzaro So-Jeong Lee Lisa Levesque Ruiqiang Li Chiao-Feng Lin Michael F Lin Kerstin Lindblad-Toh Ana Llopart Manyuan Long Lloyd Low Elena Lozovsky Jian Lu Meizhong Luo Carlos A Machado Wojciech Makalowski Mar Marzo Muneo Matsuda Luciano Matzkin Bryant McAllister Carolyn S McBride Brendan McKernan Kevin McKernan Maria Mendez-Lago Patrick Minx Michael U Mollenhauer Kristi Montooth Stephen M Mount Xu Mu Eugene Myers Barbara Negre Stuart Newfeld Rasmus Nielsen Mohamed A F Noor Patrick O'Grady Lior Pachter Montserrat Papaceit Matthew J Parisi Michael Parisi Leopold Parts Jakob S Pedersen Graziano Pesole Adam M Phillippy Chris P Ponting Mihai Pop Damiano Porcelli Jeffrey R Powell Sonja Prohaska Kim Pruitt Marta Puig Hadi Quesneville Kristipati Ravi Ram David Rand Matthew D Rasmussen Laura K Reed Robert Reenan Amy Reily Karin A Remington Tania T Rieger Michael G Ritchie Charles Robin Yu-Hui Rogers Claudia Rohde Julio Rozas Marc J Rubenfield Alfredo Ruiz Susan Russo Steven L Salzberg Alejandro Sanchez-Gracia David J Saranga Hajime Sato Stephen W Schaeffer Michael C Schatz Todd Schlenke Russell Schwartz Carmen Segarra Rama S Singh Laura Sirot Marina Sirota Nicholas B Sisneros Chris D Smith Temple F Smith John Spieth Deborah E Stage Alexander Stark Wolfgang Stephan Robert L Strausberg Sebastian Strempel David Sturgill Granger Sutton Granger G Sutton Wei Tao Sarah Teichmann Yoshiko N Tobari Yoshihiko Tomimura Jason M Tsolas Vera L S Valente Eli Venter J Craig Venter Saverio Vicario Filipe G Vieira Albert J Vilella Alfredo Villasante Brian Walenz Jun Wang Marvin Wasserman Thomas Watts Derek Wilson Richard K Wilson Rod A Wing Mariana F Wolfner Alex Wong Gane Ka-Shu Wong Chung-I Wu Gabriel Wu Daisuke Yamamoto Hsiao-Pei Yang Shiaw-Pyng Yang James A Yorke Kiyohito Yoshida Evgeny Zdobnov Peili Zhang Yu Zhang Aleksey V Zimin Jennifer Baldwin Amr Abdouelleil Jamal Abdulkadir Adal Abebe Brikti Abera Justin Abreu St Christophe Acer Lynne Aftuck Allen Alexander Peter An Erica Anderson Scott Anderson Harindra Arachi Marc Azer Pasang Bachantsang Andrew Barry Tashi Bayul Aaron Berlin Daniel Bessette Toby Bloom Jason Blye Leonid Boguslavskiy Claude Bonnet Boris Boukhgalter Imane Bourzgui Adam Brown Patrick Cahill Sheridon Channer Yama Cheshatsang Lisa Chuda Mieke Citroen Alville Collymore Patrick Cooke Maura Costello Katie D'Aco Riza Daza Georgius De Haan Stuart DeGray Christina DeMaso Norbu Dhargay Kimberly Dooley Erin Dooley Missole Doricent Passang Dorje Kunsang Dorjee Alan Dupes Richard Elong Jill Falk Abderrahim Farina Susan Faro Diallo Ferguson Sheila Fisher Chelsea D Foley Alicia Franke Dennis Friedrich Loryn Gadbois Gary Gearin Christina R Gearin Georgia Giannoukos Tina Goode Joseph Graham Edward Grandbois Sharleen Grewal Kunsang Gyaltsen Nabil Hafez Birhane Hagos Jennifer Hall Charlotte Henson Andrew Hollinger Tracey Honan Monika D Huard Leanne Hughes Brian Hurhula M Erii Husby Asha Kamat Ben Kanga Seva Kashin Dmitry Khazanovich Peter Kisner Krista Lance Marcia Lara William Lee Niall Lennon Frances Letendre Rosie LeVine Alex Lipovsky Xiaohong Liu Jinlei Liu Shangtao Liu Tashi Lokyitsang Yeshi Lokyitsang Rakela Lubonja Annie Lui Pen MacDonald Vasilia Magnisalis Kebede Maru Charles Matthews William McCusker Susan McDonough Teena Mehta James Meldrim Louis Meneus Oana Mihai Atanas Mihalev Tanya Mihova Rachel Mittelman Valentine Mlenga Anna Montmayeur Leonidas Mulrain Adam Navidi Jerome Naylor Tamrat Negash Thu Nguyen Nga Nguyen Robert Nicol Choe Norbu Nyima Norbu Nathaniel Novod Barry O'Neill Sahal Osman Eva Markiewicz Otero L Oyono Christopher Patti Pema Phunkhang Fritz Pierre Margaret Priest Sujaa Raghuraman Filip Rege Rebecca Reyes Cecil Rise Peter Rogov Keenan Ross Elizabeth Ryan Sampath Settipalli Terry Shea Ngawang Sherpa Lu Shi Diana Shih Todd Sparrow Jessica Spaulding John Stalker Nicole Stange-Thomann Sharon Stavropoulos Catherine Stone Christopher Strader Senait Tesfaye Talene Thomson Yama Thoulutsang Dawa Thoulutsang Kerri Topham Ira Topping Tsamla Tsamla Helen Vassiliev Andy Vo Tsering Wangchuk Tsering Wangdi Michael Weiand Jane Wilkinson Adam Wilson Shailendra Yadav Geneva Young Qing Yu Lisa Zembek Danni Zhong Andrew Zimmer Zac Zwirko David B Jaffe Pablo Alvarez Will Brockman Jonathan Butler CheeWhye Chin Sante Gnerre Manfred Grabherr Michael Kleber Evan Mauceli Iain MacCallum

Nature 2007 Nov;450(7167):203-18

Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA.

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http://dx.doi.org/10.1038/nature06341DOI Listing
November 2007

Genome-scale analysis of positionally relocated genes.

Genome Res 2007 Dec 7;17(12):1880-7. Epub 2007 Nov 7.

Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA.

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http://www.genome.org/cgi/doi/10.1101/gr.7062307
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http://dx.doi.org/10.1101/gr.7062307DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2099595PMC
December 2007

Techniques for multi-genome synteny analysis to overcome assembly limitations.

Genome Inform 2006 ;17(2):152-61

Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA.

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June 2007

Synthetic biology: navigating the challenges ahead.

Authors:
Arjun Bhutkar

J Biolaw Bus 2005 ;8(2):19-29

Bioinformatics program, Boston University, USA.

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April 2006

Constraining ribosomal RNA conformational space.

Nucleic Acids Res 2005 9;33(16):5106-11. Epub 2005 Sep 9.

BioMolecular Engineering Research Center, Boston University, 36 Cummington Street, Boston, MA 02215, USA.

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http://dx.doi.org/10.1093/nar/gki805DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1214544PMC
September 2005