Literature DB >> 28813674

An Integrated Systems Biology Approach Identifies TRIM25 as a Key Determinant of Breast Cancer Metastasis.

Logan A Walsh1, Mariano J Alvarez2, Erich Y Sabio1, Marsha Reyngold3, Vladimir Makarov1, Suranjit Mukherjee4, Ken-Wing Lee1, Alexis Desrichard1, Şevin Turcan1, Martin G Dalin1, Vinagolu K Rajasekhar5, Shuibing Chen4, Linda T Vahdat6, Andrea Califano7, Timothy A Chan8.   

Abstract

At the root of most fatal malignancies are aberrantly activated transcriptional networks that drive metastatic dissemination. Although individual metastasis-associated genes have been described, the complex regulatory networks presiding over the initiation and maintenance of metastatic tumors are still poorly understood. There is untapped value in identifying therapeutic targets that broadly govern coordinated transcriptional modules dictating metastatic progression. Here, we reverse engineered and interrogated a breast cancer-specific transcriptional interaction network (interactome) to define transcriptional control structures causally responsible for regulating genetic programs underlying breast cancer metastasis in individual patients. Our analyses confirmed established pro-metastatic transcription factors, and they uncovered TRIM25 as a key regulator of metastasis-related transcriptional programs. Further, in vivo analyses established TRIM25 as a potent regulator of metastatic disease and poor survival outcome. Our findings suggest that identifying and targeting keystone proteins, like TRIM25, can effectively collapse transcriptional hierarchies necessary for metastasis formation, thus representing an innovative cancer intervention strategy.
Copyright © 2017 The Authors. Published by Elsevier Inc. All rights reserved.

Entities:  

Keywords:  ARACNe; EFP; MARINa; TRIM25; VIPER; breast; cancer; metastasis; transcription

Mesh:

Substances:

Year:  2017        PMID: 28813674      PMCID: PMC5985663          DOI: 10.1016/j.celrep.2017.07.052

Source DB:  PubMed          Journal:  Cell Rep            Impact factor:   9.423


  44 in total

1.  Genome-wide analysis of estrogen receptor binding sites.

Authors:  Jason S Carroll; Clifford A Meyer; Jun Song; Wei Li; Timothy R Geistlinger; Jérôme Eeckhoute; Alexander S Brodsky; Erika Krasnickas Keeton; Kirsten C Fertuck; Giles F Hall; Qianben Wang; Stefan Bekiranov; Victor Sementchenko; Edward A Fox; Pamela A Silver; Thomas R Gingeras; X Shirley Liu; Myles Brown
Journal:  Nat Genet       Date:  2006-10-01       Impact factor: 38.330

2.  Identification of estrogen-responsive genes using a genome-wide analysis of promoter elements for transcription factor binding sites.

Authors:  Sitharthan Kamalakaran; Senthil K Radhakrishnan; William T Beck
Journal:  J Biol Chem       Date:  2005-03-24       Impact factor: 5.157

3.  Cross-species regulatory network analysis identifies a synergistic interaction between FOXM1 and CENPF that drives prostate cancer malignancy.

Authors:  Alvaro Aytes; Antonina Mitrofanova; Celine Lefebvre; Mariano J Alvarez; Mireia Castillo-Martin; Tian Zheng; James A Eastham; Anuradha Gopalan; Kenneth J Pienta; Michael M Shen; Andrea Califano; Cory Abate-Shen
Journal:  Cancer Cell       Date:  2014-05-12       Impact factor: 31.743

Review 4.  The Pax-5 gene: a pluripotent regulator of B-cell differentiation and cancer disease.

Authors:  Pierre O'Brien; Pier Morin; Rodney J Ouellette; Gilles A Robichaud
Journal:  Cancer Res       Date:  2011-11-29       Impact factor: 12.701

5.  Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Authors:  Aravind Subramanian; Pablo Tamayo; Vamsi K Mootha; Sayan Mukherjee; Benjamin L Ebert; Michael A Gillette; Amanda Paulovich; Scott L Pomeroy; Todd R Golub; Eric S Lander; Jill P Mesirov
Journal:  Proc Natl Acad Sci U S A       Date:  2005-09-30       Impact factor: 11.205

Review 6.  Molecular networks that regulate cancer metastasis.

Authors:  Daniela Spano; Chantal Heck; Pasqualino De Antonellis; Gerhard Christofori; Massimo Zollo
Journal:  Semin Cancer Biol       Date:  2012-03-30       Impact factor: 15.707

7.  Efp targets 14-3-3 sigma for proteolysis and promotes breast tumour growth.

Authors:  Tomohiko Urano; Tomoyuki Saito; Tohru Tsukui; Masayo Fujita; Takayuki Hosoi; Masami Muramatsu; Yasuyoshi Ouchi; Satoshi Inoue
Journal:  Nature       Date:  2002-06-20       Impact factor: 49.962

8.  RNA-binding E3 ubiquitin ligases: novel players in nucleic acid regulation.

Authors:  Florencia Cano; Diego Miranda-Saavedra; Paul J Lehner
Journal:  Biochem Soc Trans       Date:  2010-12       Impact factor: 5.407

9.  An extended transcriptional network for pluripotency of embryonic stem cells.

Authors:  Jonghwan Kim; Jianlin Chu; Xiaohua Shen; Jianlong Wang; Stuart H Orkin
Journal:  Cell       Date:  2008-03-21       Impact factor: 41.582

10.  Trim25 Is an RNA-Specific Activator of Lin28a/TuT4-Mediated Uridylation.

Authors:  Nila Roy Choudhury; Jakub S Nowak; Juan Zuo; Juri Rappsilber; Steven H Spoel; Gracjan Michlewski
Journal:  Cell Rep       Date:  2014-11-20       Impact factor: 9.423

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  41 in total

1.  Organoid single cell profiling identifies a transcriptional signature of glomerular disease.

Authors:  Jennifer L Harder; Rajasree Menon; Edgar A Otto; Jian Zhou; Sean Eddy; Noel L Wys; Christopher O'Connor; Jinghui Luo; Viji Nair; Cristina Cebrian; Jason R Spence; Markus Bitzer; Olga G Troyanskaya; Jeffrey B Hodgin; Roger C Wiggins; Benjamin S Freedman; Matthias Kretzler
Journal:  JCI Insight       Date:  2019-01-10

Review 2.  Redox Systems Biology: Harnessing the Sentinels of the Cysteine Redoxome.

Authors:  Jason M Held
Journal:  Antioxid Redox Signal       Date:  2019-09-09       Impact factor: 8.401

Review 3.  Systems Biology of Cancer Metastasis.

Authors:  Yasir Suhail; Margo P Cain; Kiran Vanaja; Paul A Kurywchak; Andre Levchenko; Raghu Kalluri
Journal:  Cell Syst       Date:  2019-08-28       Impact factor: 10.304

4.  Cross-Cohort Analysis Identifies a TEAD4-MYCN Positive Feedback Loop as the Core Regulatory Element of High-Risk Neuroblastoma.

Authors:  Presha Rajbhandari; Gonzalo Lopez; Claudia Capdevila; Beatrice Salvatori; Jiyang Yu; Ruth Rodriguez-Barrueco; Daniel Martinez; Mark Yarmarkovich; Nina Weichert-Leahey; Brian J Abraham; Mariano J Alvarez; Archana Iyer; Jo Lynne Harenza; Derek Oldridge; Katleen De Preter; Jan Koster; Shahab Asgharzadeh; Robert C Seeger; Jun S Wei; Javed Khan; Jo Vandesompele; Pieter Mestdagh; Rogier Versteeg; A Thomas Look; Richard A Young; Antonio Iavarone; Anna Lasorella; Jose M Silva; John M Maris; Andrea Califano
Journal:  Cancer Discov       Date:  2018-03-06       Impact factor: 39.397

5.  Racial Differences in the Association Between Luminal Master Regulator Gene Expression Levels and Breast Cancer Survival.

Authors:  Jung S Byun; Sandeep K Singhal; Samson Park; Dae Ik Yi; Tingfen Yan; Ambar Caban; Alana Jones; Partha Mukhopadhyay; Sara M Gil; Stephen M Hewitt; Lisa Newman; Melissa B Davis; Brittany D Jenkins; Jorge L Sepulveda; Adriana De Siervi; Anna María Nápoles; Nasreen A Vohra; Kevin Gardner
Journal:  Clin Cancer Res       Date:  2020-01-07       Impact factor: 12.531

6.  A precision oncology approach to the pharmacological targeting of mechanistic dependencies in neuroendocrine tumors.

Authors:  Mariano J Alvarez; Prem S Subramaniam; Laura H Tang; Adina Grunn; Mahalaxmi Aburi; Gabrielle Rieckhof; Elena V Komissarova; Elizabeth A Hagan; Lisa Bodei; Paul A Clemons; Filemon S Dela Cruz; Deepti Dhall; Daniel Diolaiti; Douglas A Fraker; Afshin Ghavami; Daniel Kaemmerer; Charles Karan; Mark Kidd; Kyoung M Kim; Hee C Kim; Lakshmi P Kunju; Ülo Langel; Zhong Li; Jeeyun Lee; Hai Li; Virginia LiVolsi; Roswitha Pfragner; Allison R Rainey; Ronald B Realubit; Helen Remotti; Jakob Regberg; Robert Roses; Anil Rustgi; Antonia R Sepulveda; Stefano Serra; Chanjuan Shi; Xiaopu Yuan; Massimo Barberis; Roberto Bergamaschi; Arul M Chinnaiyan; Tony Detre; Shereen Ezzat; Andrea Frilling; Merten Hommann; Dirk Jaeger; Michelle K Kim; Beatrice S Knudsen; Andrew L Kung; Emer Leahy; David C Metz; Jeffrey W Milsom; Young S Park; Diane Reidy-Lagunes; Stuart Schreiber; Kay Washington; Bertram Wiedenmann; Irvin Modlin; Andrea Califano
Journal:  Nat Genet       Date:  2018-06-18       Impact factor: 38.330

Review 7.  The roles of E3 ligases in Hepatocellular carcinoma.

Authors:  Zongdong Yu; Hong Li; Jie Zhu; Haibiao Wang; Xiaofeng Jin
Journal:  Am J Cancer Res       Date:  2022-03-15       Impact factor: 6.166

8.  Molecular pathogenesis of breast cancer: impact of miR-99a-5p and miR-99a-3p regulation on oncogenic genes.

Authors:  Yoshiaki Shinden; Tadahiro Hirashima; Nijiro Nohata; Hiroko Toda; Reona Okada; Shunichi Asai; Takako Tanaka; Yuto Hozaka; Takao Ohtsuka; Yuko Kijima; Naohiko Seki
Journal:  J Hum Genet       Date:  2020-11-12       Impact factor: 3.172

9.  TRIM25 regulates oxaliplatin resistance in colorectal cancer by promoting EZH2 stability.

Authors:  Sha Zhou; Jianhong Peng; Liuniu Xiao; Caixia Zhou; Yujing Fang; Qingjian Ou; Jiayi Qin; Mengzhong Liu; Zhizhong Pan; Zhenlin Hou
Journal:  Cell Death Dis       Date:  2021-05-08       Impact factor: 8.469

10.  A systems pharmacology approach based on oncogenic signalling pathways to determine the mechanisms of action of natural products in breast cancer from transcriptome data.

Authors:  Regan Odongo; Asuman Demiroglu-Zergeroglu; Tunahan Çakır
Journal:  BMC Complement Med Ther       Date:  2021-06-30
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