Publications by authors named "Shannan J Ho Sui"

26Publications

PDGF/VEGF signaling from muscles to hepatocyte-like cells protects against obesity.

Elife 2020 Oct 27;9. Epub 2020 Oct 27.

Genetics, Blavatnik Institute, Harvard Medical School, Boston, United States.

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http://dx.doi.org/10.7554/eLife.56969DOI Listing
October 2020

Translocation of Viable Gut Microbiota to Mesenteric Adipose Drives Formation of Creeping Fat in Humans.

Cell 2020 Oct 28;183(3):666-683.e17. Epub 2020 Sep 28.

F. Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA; Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2020.09.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7521382PMC
October 2020

Insulin Receptor Associates with Promoters Genome-wide and Regulates Gene Expression.

Cell 2019 04 4;177(3):722-736.e22. Epub 2019 Apr 4.

Department of Cell Biology, Harvard Medical School, Boston, MA 02115, USA; Program in Neuroscience, Harvard Medical School, Boston, MA 02115, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2019.02.030DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6478446PMC
April 2019

High-throughput detection of RNA processing in bacteria.

BMC Genomics 2018 03 27;19(1):223. Epub 2018 Mar 27.

Department of Molecular Biology and Biochemistry, Simon Fraser University, 8888 University Drive, Burnaby, BC, V5A 1S6, Canada.

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http://dx.doi.org/10.1186/s12864-018-4538-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5870498PMC
March 2018

Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs.

Mol Cell 2016 12;64(6):1088-1101

Massachusetts General Hospital Center for Cancer Research and Department of Medicine, Harvard Medical School, Charlestown, MA 02129, USA. Electronic address:

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http://dx.doi.org/10.1016/j.molcel.2016.11.020DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5180613PMC
December 2016

Integrative Analyses of Human Reprogramming Reveal Dynamic Nature of Induced Pluripotency.

Cell 2015 Jul;162(2):412-424

Department of Stem Cell and Regenerative Biology, Harvard University, Cambridge, MA 02138, USA; Broad Institute, Cambridge, MA 02142, USA; Harvard Stem Cell Institute, Harvard University, Cambridge, MA 02138, USA. Electronic address:

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http://dx.doi.org/10.1016/j.cell.2015.06.016DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4511597PMC
July 2015

CAGExploreR: an R package for the analysis and visualization of promoter dynamics across multiple experiments.

Bioinformatics 2014 04 27;30(8):1183-1184. Epub 2014 Mar 27.

Department of Biostatistics, Harvard School of Public Health, 655 Huntington Avenue, Boston, MA 02115, USA, RIKEN Omics Science Center, Yokohama, Kanagawa 230-0045 Japan, Division of Genomic Technologies, RIKEN Center for Life Science Technologies, Yokohama, Kanagawa 230-0045, Japan and RIKEN Preventive Medicine and Diagnosis Innovation Program, Wako, Saitama 351-0198, Japan.

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http://dx.doi.org/10.1093/bioinformatics/btu125DOI Listing
April 2014

A promoter-level mammalian expression atlas.

Authors:
Alistair R R Forrest Hideya Kawaji Michael Rehli J Kenneth Baillie Michiel J L de Hoon Vanja Haberle Timo Lassmann Ivan V Kulakovskiy Marina Lizio Masayoshi Itoh Robin Andersson Christopher J Mungall Terrence F Meehan Sebastian Schmeier Nicolas Bertin Mette Jørgensen Emmanuel Dimont Erik Arner Christian Schmidl Ulf Schaefer Yulia A Medvedeva Charles Plessy Morana Vitezic Jessica Severin Colin A Semple Yuri Ishizu Robert S Young Margherita Francescatto Intikhab Alam Davide Albanese Gabriel M Altschuler Takahiro Arakawa John A C Archer Peter Arner Magda Babina Sarah Rennie Piotr J Balwierz Anthony G Beckhouse Swati Pradhan-Bhatt Judith A Blake Antje Blumenthal Beatrice Bodega Alessandro Bonetti James Briggs Frank Brombacher A Maxwell Burroughs Andrea Califano Carlo V Cannistraci Daniel Carbajo Yun Chen Marco Chierici Yari Ciani Hans C Clevers Emiliano Dalla Carrie A Davis Michael Detmar Alexander D Diehl Taeko Dohi Finn Drabløs Albert S B Edge Matthias Edinger Karl Ekwall Mitsuhiro Endoh Hideki Enomoto Michela Fagiolini Lynsey Fairbairn Hai Fang Mary C Farach-Carson Geoffrey J Faulkner Alexander V Favorov Malcolm E Fisher Martin C Frith Rie Fujita Shiro Fukuda Cesare Furlanello Masaaki Furino Jun-ichi Furusawa Teunis B Geijtenbeek Andrew P Gibson Thomas Gingeras Daniel Goldowitz Julian Gough Sven Guhl Reto Guler Stefano Gustincich Thomas J Ha Masahide Hamaguchi Mitsuko Hara Matthias Harbers Jayson Harshbarger Akira Hasegawa Yuki Hasegawa Takehiro Hashimoto Meenhard Herlyn Kelly J Hitchens Shannan J Ho Sui Oliver M Hofmann Ilka Hoof Furni Hori Lukasz Huminiecki Kei Iida Tomokatsu Ikawa Boris R Jankovic Hui Jia Anagha Joshi Giuseppe Jurman Bogumil Kaczkowski Chieko Kai Kaoru Kaida Ai Kaiho Kazuhiro Kajiyama Mutsumi Kanamori-Katayama Artem S Kasianov Takeya Kasukawa Shintaro Katayama Sachi Kato Shuji Kawaguchi Hiroshi Kawamoto Yuki I Kawamura Tsugumi Kawashima Judith S Kempfle Tony J Kenna Juha Kere Levon M Khachigian Toshio Kitamura S Peter Klinken Alan J Knox Miki Kojima Soichi Kojima Naoto Kondo Haruhiko Koseki Shigeo Koyasu Sarah Krampitz Atsutaka Kubosaki Andrew T Kwon Jeroen F J Laros Weonju Lee Andreas Lennartsson Kang Li Berit Lilje Leonard Lipovich Alan Mackay-Sim Ri-ichiroh Manabe Jessica C Mar Benoit Marchand Anthony Mathelier Niklas Mejhert Alison Meynert Yosuke Mizuno David A de Lima Morais Hiromasa Morikawa Mitsuru Morimoto Kazuyo Moro Efthymios Motakis Hozumi Motohashi Christine L Mummery Mitsuyoshi Murata Sayaka Nagao-Sato Yutaka Nakachi Fumio Nakahara Toshiyuki Nakamura Yukio Nakamura Kenichi Nakazato Erik van Nimwegen Noriko Ninomiya Hiromi Nishiyori Shohei Noma Shohei Noma Tadasuke Noazaki Soichi Ogishima Naganari Ohkura Hiroko Ohimiya Hiroshi Ohno Mitsuhiro Ohshima Mariko Okada-Hatakeyama Yasushi Okazaki Valerio Orlando Dmitry A Ovchinnikov Arnab Pain Robert Passier Margaret Patrikakis Helena Persson Silvano Piazza James G D Prendergast Owen J L Rackham Jordan A Ramilowski Mamoon Rashid Timothy Ravasi Patrizia Rizzu Marco Roncador Sugata Roy Morten B Rye Eri Saijyo Antti Sajantila Akiko Saka Shimon Sakaguchi Mizuho Sakai Hiroki Sato Suzana Savvi Alka Saxena Claudio Schneider Erik A Schultes Gundula G Schulze-Tanzil Anita Schwegmann Thierry Sengstag Guojun Sheng Hisashi Shimoji Yishai Shimoni Jay W Shin Christophe Simon Daisuke Sugiyama Takaai Sugiyama Masanori Suzuki Naoko Suzuki Rolf K Swoboda Peter A C 't Hoen Michihira Tagami Naoko Takahashi Jun Takai Hiroshi Tanaka Hideki Tatsukawa Zuotian Tatum Mark Thompson Hiroo Toyodo Tetsuro Toyoda Elvind Valen Marc van de Wetering Linda M van den Berg Roberto Verado Dipti Vijayan Ilya E Vorontsov Wyeth W Wasserman Shoko Watanabe Christine A Wells Louise N Winteringham Ernst Wolvetang Emily J Wood Yoko Yamaguchi Masayuki Yamamoto Misako Yoneda Yohei Yonekura Shigehiro Yoshida Susan E Zabierowski Peter G Zhang Xiaobei Zhao Silvia Zucchelli Kim M Summers Harukazu Suzuki Carsten O Daub Jun Kawai Peter Heutink Winston Hide Tom C Freeman Boris Lenhard Vladimir B Bajic Martin S Taylor Vsevolod J Makeev Albin Sandelin David A Hume Piero Carninci Yoshihide Hayashizaki

Nature 2014 Mar;507(7493):462-70

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http://dx.doi.org/10.1038/nature13182DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4529748PMC
March 2014

Pathprinting: An integrative approach to understand the functional basis of disease.

Genome Med 2013 26;5(7):68. Epub 2013 Jul 26.

Department of Biostatistics, Harvard School of Public Health, 655 Huntington Avenue, Boston, MA 02115, USA ; Bioinformatics Core, Harvard School of Public Health, 655 Huntington Avenue, Boston, MA 02115, USA ; Harvard Stem Cell Institute, 1350 Massachusetts Ave, Cambridge, MA 02138.

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http://dx.doi.org/10.1186/gm472DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3971351PMC
May 2014

Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence.

Int J Antimicrob Agents 2012 Sep 20;40(3):246-51. Epub 2012 Jul 20.

Department of Molecular Biology and Biochemistry, Simon Fraser University, 8888 University Drive, Burnaby, BC V5A 1S6, Canada.

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http://dx.doi.org/10.1016/j.ijantimicag.2012.05.009DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5511546PMC
September 2012

The association of virulence factors with genomic islands.

PLoS One 2009 Dec 1;4(12):e8094. Epub 2009 Dec 1.

Department of Molecular Biology, Simon Fraser University, Burnaby, British Columbia, Canada.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0008094PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2779486PMC
December 2009

Genomic regulatory blocks underlie extensive microsynteny conservation in insects.

Genome Res 2007 Dec 7;17(12):1898-908. Epub 2007 Nov 7.

Computational Biology Unit, Bergen Center for Computational Science, University of Bergen, Bergen 5008, Norway.

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http://www.genome.org/cgi/doi/10.1101/gr.6669607
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http://dx.doi.org/10.1101/gr.6669607DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2099597PMC
December 2007

oPOSSUM: integrated tools for analysis of regulatory motif over-representation.

Nucleic Acids Res 2007 Jul 18;35(Web Server issue):W245-52. Epub 2007 Jun 18.

Centre for Molecular Medicine and Therapeutics, Child and Family Research Institute, University of British Columbia, Vancouver BC, Canada.

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http://dx.doi.org/10.1093/nar/gkm427DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1933229PMC
July 2007

oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes.

Nucleic Acids Res 2005 2;33(10):3154-64. Epub 2005 Jun 2.

Centre for Molecular Medicine and Therapeutics, University of British Columbia Vancouver, BC, Canada.

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http://dx.doi.org/10.1093/nar/gki624DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1142402PMC
June 2005

Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation.

Nucleic Acids Res 2005 Jan;33(Database issue):D338-43

Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, B.C., Canada, V5A 1S6.

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http://dx.doi.org/10.1093/nar/gki047DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC540001PMC
January 2005

Structural characterization of genomes by large scale sequence-structure threading: application of reliability analysis in structural genomics.

BMC Bioinformatics 2004 Jul 26;5:101. Epub 2004 Jul 26.

Division of Infectious Diseases, Faculty of Medicine, University of British Columbia, Vancouver, British Columbia, Canada.

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http://dx.doi.org/10.1186/1471-2105-5-101DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC499543PMC
July 2004