Literature DB >> 28661499

ProHits-viz: a suite of web tools for visualizing interaction proteomics data.

James D R Knight1, Hyungwon Choi2,3, Gagan D Gupta1, Laurence Pelletier1,4, Brian Raught5,6, Alexey I Nesvizhskii7,8, Anne-Claude Gingras1,4.   

Abstract

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Year:  2017        PMID： 28661499      PMCID： PMC5831326          DOI： 10.1038/nmeth.4330

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  5 in total

1.  Cytoscape: a software environment for integrated models of biomolecular interaction networks.

Authors:  Paul Shannon; Andrew Markiel; Owen Ozier; Nitin S Baliga; Jonathan T Wang; Daniel Ramage; Nada Amin; Benno Schwikowski; Trey Ideker
Journal:  Genome Res       Date:  2003-11       Impact factor: 9.043

2.  A web-tool for visualizing quantitative protein-protein interaction data.

Authors:  James D R Knight; Guomin Liu; Jian Ping Zhang; Adrian Pasculescu; Hyungwon Choi; Anne-Claude Gingras
Journal:  Proteomics       Date:  2015-01-19       Impact factor: 3.984

3.  Defining the human deubiquitinating enzyme interaction landscape.

Authors:  Mathew E Sowa; Eric J Bennett; Steven P Gygi; J Wade Harper
Journal:  Cell       Date:  2009-07-16       Impact factor: 41.582

4.  SAINT: probabilistic scoring of affinity purification-mass spectrometry data.

Authors:  Hyungwon Choi; Brett Larsen; Zhen-Yuan Lin; Ashton Breitkreutz; Dattatreya Mellacheruvu; Damian Fermin; Zhaohui S Qin; Mike Tyers; Anne-Claude Gingras; Alexey I Nesvizhskii
Journal:  Nat Methods       Date:  2010-12-05       Impact factor: 28.547

5.  The CRAPome: a contaminant repository for affinity purification-mass spectrometry data.

Authors:  Dattatreya Mellacheruvu; Zachary Wright; Amber L Couzens; Jean-Philippe Lambert; Nicole A St-Denis; Tuo Li; Yana V Miteva; Simon Hauri; Mihaela E Sardiu; Teck Yew Low; Vincentius A Halim; Richard D Bagshaw; Nina C Hubner; Abdallah Al-Hakim; Annie Bouchard; Denis Faubert; Damian Fermin; Wade H Dunham; Marilyn Goudreault; Zhen-Yuan Lin; Beatriz Gonzalez Badillo; Tony Pawson; Daniel Durocher; Benoit Coulombe; Ruedi Aebersold; Giulio Superti-Furga; Jacques Colinge; Albert J R Heck; Hyungwon Choi; Matthias Gstaiger; Shabaz Mohammed; Ileana M Cristea; Keiryn L Bennett; Mike P Washburn; Brian Raught; Rob M Ewing; Anne-Claude Gingras; Alexey I Nesvizhskii
Journal:  Nat Methods       Date:  2013-07-07       Impact factor: 28.547
  5 in total
  49 in total

1.  Piggybacking on Classical Import and Other Non-Classical Mechanisms of Nuclear Import Appear Highly Prevalent within the Human Proteome.

Authors:  Tanner M Tessier; Katelyn M MacNeil; Joe S Mymryk
Journal:  Biology (Basel)       Date:  2020-07-23

2.  Proximity labeling reveals novel interactomes in live Drosophila tissue.

Authors:  Katelynn M Mannix; Rebecca M Starble; Ronit S Kaufman; Lynn Cooley
Journal:  Development       Date:  2019-07-18       Impact factor: 6.868

3.  A Versatile Lentiviral Delivery Toolkit for Proximity-dependent Biotinylation in Diverse Cell Types.

Authors:  Payman Samavarchi-Tehrani; Hala Abdouni; Reuben Samson; Anne-Claude Gingras
Journal:  Mol Cell Proteomics       Date:  2018-07-10       Impact factor: 5.911

4.  The apical annuli of Toxoplasma gondii are composed of coiled-coil and signalling proteins embedded in the inner membrane complex sutures.

Authors:  Klemens Engelberg; Chun-Ti Chen; Tyler Bechtel; Victoria Sánchez Guzmán; Allison A Drozda; Suyog Chavan; Eranthie Weerapana; Marc-Jan Gubbels
Journal:  Cell Microbiol       Date:  2019-09-10       Impact factor: 3.715

5.  APEX2-mediated RAB proximity labeling identifies a role for RAB21 in clathrin-independent cargo sorting.

Authors:  Tomas Del Olmo; Annie Lauzier; Caroline Normandin; Raphaëlle Larcher; Mia Lecours; Dominique Jean; Louis Lessard; Florian Steinberg; François-Michel Boisvert; Steve Jean
Journal:  EMBO Rep       Date:  2019-01-03       Impact factor: 8.807

Review 6.  Methods review: Mass spectrometry analysis of RNAPII complexes.

Authors:  Katlyn Hughes Burriss; Amber L Mosley
Journal:  Methods       Date:  2019-03-19       Impact factor: 3.608

7.  Proteomic Analysis Reveals a Role for RSK in p120-catenin Phosphorylation and Melanoma Cell-Cell Adhesion.

Authors:  Antoine Méant; Beichen Gao; Geneviève Lavoie; Sami Nourreddine; Flora Jung; Léo Aubert; Joseph Tcherkezian; Anne-Claude Gingras; Philippe P Roux
Journal:  Mol Cell Proteomics       Date:  2019-11-02       Impact factor: 5.911

8.  Mapping the proximity interaction network of the Rho-family GTPases reveals signalling pathways and regulatory mechanisms.

Authors:  David R Hipfner; Anne-Claude Gingras; Halil Bagci; Neera Sriskandarajah; Amélie Robert; Jonathan Boulais; Islam E Elkholi; Viviane Tran; Zhen-Yuan Lin; Marie-Pier Thibault; Nadia Dubé; Denis Faubert; Jean-François Côté
Journal:  Nat Cell Biol       Date:  2019-12-23       Impact factor: 28.824

9.  Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains.

Authors:  Jean-Philippe Lambert; Sarah Picaud; Takao Fujisawa; Huayun Hou; Pavel Savitsky; Liis Uusküla-Reimand; Gagan D Gupta; Hala Abdouni; Zhen-Yuan Lin; Monika Tucholska; James D R Knight; Beatriz Gonzalez-Badillo; Nicole St-Denis; Joseph A Newman; Manuel Stucki; Laurence Pelletier; Nuno Bandeira; Michael D Wilson; Panagis Filippakopoulos; Anne-Claude Gingras
Journal:  Mol Cell       Date:  2018-12-13       Impact factor: 17.970

10.  A Novel Mechanism for NF-κB-activation via IκB-aggregation: Implications for Hepatic Mallory-Denk-Body Induced Inflammation.

Authors:  Yi Liu; Michael J Trnka; Shenheng Guan; Doyoung Kwon; Do-Hyung Kim; J-J Chen; Peter A Greer; A L Burlingame; Maria Almira Correia
Journal:  Mol Cell Proteomics       Date:  2020-09-10       Impact factor: 5.911
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