Literature DB >> 31288129

Mapping the protein-protein and genetic interactions of cancer to guide precision medicine.

Mehdi Bouhaddou1, Manon Eckhardt2, Zun Zar Chi Naing1, Minkyu Kim3, Trey Ideker4, Nevan J Krogan5.   

Abstract

Massive efforts to sequence cancer genomes have compiled an impressive catalogue of cancer mutations, revealing the recurrent exploitation of a handful of 'hallmark cancer pathways'. However, unraveling how sets of mutated proteins in these and other pathways hijack pro-proliferative signaling networks and dictate therapeutic responsiveness remains challenging. Here, we show that cancer driver protein-protein interactions are enriched for additional cancer drivers, highlighting the power of physical interaction maps to explain known, as well as uncover new, disease-promoting pathway interrelationships. We hypothesize that by systematically mapping the protein-protein and genetic interactions in cancer-thereby creating Cancer Cell Maps-we will create resources against which to contextualize a patient's mutations into perturbed pathways/complexes and thereby specify a matching targeted therapeutic cocktail.
Copyright © 2019 Elsevier Ltd. All rights reserved.

Entities:  

Mesh:

Year:  2019        PMID: 31288129      PMCID: PMC6746583          DOI: 10.1016/j.gde.2019.04.005

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   5.578


  63 in total

1.  Multiplexed barcoded CRISPR-Cas9 screening enabled by CombiGEM.

Authors:  Alan S L Wong; Gigi C G Choi; Cheryl H Cui; Gabriela Pregernig; Pamela Milani; Miriam Adam; Samuel D Perli; Samuel W Kazer; Aleth Gaillard; Mario Hermann; Alex K Shalek; Ernest Fraenkel; Timothy K Lu
Journal:  Proc Natl Acad Sci U S A       Date:  2016-02-10       Impact factor: 11.205

Review 2.  Cancer whole-genome sequencing: present and future.

Authors:  H Nakagawa; C P Wardell; M Furuta; H Taniguchi; A Fujimoto
Journal:  Oncogene       Date:  2015-03-30       Impact factor: 9.867

3.  Genetic interaction mapping in mammalian cells using CRISPR interference.

Authors:  Dan Du; Assen Roguev; David E Gordon; Meng Chen; Si-Han Chen; Michael Shales; John Paul Shen; Trey Ideker; Prashant Mali; Lei S Qi; Nevan J Krogan
Journal:  Nat Methods       Date:  2017-05-08       Impact factor: 28.547

Review 4.  Inflammation and cancer: back to Virchow?

Authors:  F Balkwill; A Mantovani
Journal:  Lancet       Date:  2001-02-17       Impact factor: 79.321

5.  Accessory subunits are integral for assembly and function of human mitochondrial complex I.

Authors:  David A Stroud; Elliot E Surgenor; Luke E Formosa; Boris Reljic; Ann E Frazier; Marris G Dibley; Laura D Osellame; Tegan Stait; Traude H Beilharz; David R Thorburn; Agus Salim; Michael T Ryan
Journal:  Nature       Date:  2016-09-14       Impact factor: 49.962

6.  Colorectal cancer risk, chronic illnesses, operations and medications: case control results from the Melbourne Colorectal Cancer Study. 1988.

Authors:  Gabriel A Kune; Susan Kune; Lyndsey F Watson
Journal:  Int J Epidemiol       Date:  2007-10-05       Impact factor: 7.196

7.  Combining a PI3K inhibitor with a PARP inhibitor provides an effective therapy for BRCA1-related breast cancer.

Authors:  Ashish Juvekar; Laura N Burga; Hai Hu; Elaine P Lunsford; Yasir H Ibrahim; Judith Balmañà; Anbazhagan Rajendran; Antonella Papa; Katherine Spencer; Costas A Lyssiotis; Caterina Nardella; Pier Paolo Pandolfi; José Baselga; Ralph Scully; John M Asara; Lewis C Cantley; Gerburg M Wulf
Journal:  Cancer Discov       Date:  2012-08-22       Impact factor: 39.397

8.  A systematic mammalian genetic interaction map reveals pathways underlying ricin susceptibility.

Authors:  Michael C Bassik; Martin Kampmann; Robert Jan Lebbink; Shuyi Wang; Marco Y Hein; Ina Poser; Jimena Weibezahn; Max A Horlbeck; Siyuan Chen; Matthias Mann; Anthony A Hyman; Emily M Leproust; Michael T McManus; Jonathan S Weissman
Journal:  Cell       Date:  2013-02-08       Impact factor: 41.582

9.  Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer.

Authors:  Katherine A Hoadley; Christina Yau; Toshinori Hinoue; Denise M Wolf; Alexander J Lazar; Esther Drill; Ronglai Shen; Alison M Taylor; Andrew D Cherniack; Vésteinn Thorsson; Rehan Akbani; Reanne Bowlby; Christopher K Wong; Maciej Wiznerowicz; Francisco Sanchez-Vega; A Gordon Robertson; Barbara G Schneider; Michael S Lawrence; Houtan Noushmehr; Tathiane M Malta; Joshua M Stuart; Christopher C Benz; Peter W Laird
Journal:  Cell       Date:  2018-04-05       Impact factor: 41.582

10.  SOCS3-mediated regulation of inflammatory cytokines in PTEN and p53 inactivated triple negative breast cancer model.

Authors:  G Kim; M Ouzounova; A A Quraishi; A Davis; N Tawakkol; S G Clouthier; F Malik; A K Paulson; R C D'Angelo; S Korkaya; T L Baker; E S Esen; A Prat; S Liu; C G Kleer; D G Thomas; M S Wicha; H Korkaya
Journal:  Oncogene       Date:  2014-02-17       Impact factor: 9.867

View more
  10 in total

1.  A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity.

Authors:  Danielle L Swaney; Dana J Ramms; Zhiyong Wang; Jisoo Park; Yusuke Goto; Margaret Soucheray; Neil Bhola; Kyumin Kim; Fan Zheng; Yan Zeng; Michael McGregor; Kari A Herrington; Rachel O'Keefe; Nan Jin; Nathan K VanLandingham; Helene Foussard; John Von Dollen; Mehdi Bouhaddou; David Jimenez-Morales; Kirsten Obernier; Jason F Kreisberg; Minkyu Kim; Daniel E Johnson; Natalia Jura; Jennifer R Grandis; J Silvio Gutkind; Trey Ideker; Nevan J Krogan
Journal:  Science       Date:  2021-10-01       Impact factor: 63.714

2.  A protein interaction landscape of breast cancer.

Authors:  Minkyu Kim; Jisoo Park; Mehdi Bouhaddou; Kyumin Kim; Ajda Rojc; Maya Modak; Margaret Soucheray; Michael J McGregor; Patrick O'Leary; Denise Wolf; Erica Stevenson; Tzeh Keong Foo; Dominique Mitchell; Kari A Herrington; Denise P Muñoz; Beril Tutuncuoglu; Kuei-Ho Chen; Fan Zheng; Jason F Kreisberg; Morgan E Diolaiti; John D Gordan; Jean-Philippe Coppé; Danielle L Swaney; Bing Xia; Laura van 't Veer; Alan Ashworth; Trey Ideker; Nevan J Krogan
Journal:  Science       Date:  2021-10-01       Impact factor: 63.714

3.  CancerVar: An artificial intelligence-empowered platform for clinical interpretation of somatic mutations in cancer.

Authors:  Quan Li; Zilin Ren; Kajia Cao; Marilyn M Li; Kai Wang; Yunyun Zhou
Journal:  Sci Adv       Date:  2022-05-06       Impact factor: 14.957

4.  e-MutPath: computational modeling reveals the functional landscape of genetic mutations rewiring interactome networks.

Authors:  Yongsheng Li; Brandon Burgman; Ishaani S Khatri; Sairahul R Pentaparthi; Zhe Su; Daniel J McGrail; Yang Li; Erxi Wu; S Gail Eckhardt; Nidhi Sahni; S Stephen Yi
Journal:  Nucleic Acids Res       Date:  2021-01-11       Impact factor: 16.971

5.  An integrative model of cardiometabolic traits identifies two types of metabolic syndrome.

Authors:  Amit Frishberg; Inge van den Munckhof; Niels P Riksen; Irit Gat-Viks; Rob Ter Horst; Kiki Schraa; Leo Ab Joosten; Joost Hw Rutten; Adrian C Iancu; Ioana M Dregoesc; Bogdan A Tigu; Mihai G Netea
Journal:  Elife       Date:  2021-01-28       Impact factor: 8.140

Review 6.  Disease-specific interactome alterations via epichaperomics: the case for Alzheimer's disease.

Authors:  Stephen D Ginsberg; Thomas A Neubert; Sahil Sharma; Chander S Digwal; Pengrong Yan; Calin Timbus; Tai Wang; Gabriela Chiosis
Journal:  FEBS J       Date:  2021-06-12       Impact factor: 5.622

7.  My personal mutanome: a computational genomic medicine platform for searching network perturbing alleles linking genotype to phenotype.

Authors:  Yadi Zhou; Junfei Zhao; Jiansong Fang; William Martin; Lang Li; Ruth Nussinov; Timothy A Chan; Charis Eng; Feixiong Cheng
Journal:  Genome Biol       Date:  2021-01-29       Impact factor: 13.583

Review 8.  Mass spectrometry-based protein-protein interaction networks for the study of human diseases.

Authors:  Alicia L Richards; Manon Eckhardt; Nevan J Krogan
Journal:  Mol Syst Biol       Date:  2021-01       Impact factor: 11.429

Review 9.  Artificial intelligence, molecular subtyping, biomarkers, and precision oncology.

Authors:  John Paul Shen
Journal:  Emerg Top Life Sci       Date:  2021-12-21

10.  Caveolin-1 and Sox-2 are predictive biomarkers of cetuximab response in head and neck cancer.

Authors:  Mehdi Bouhaddou; Rex H Lee; Hua Li; Neil E Bhola; Rachel A O'Keefe; Mohammad Naser; Tian Ran Zhu; Kelechi Nwachuku; Umamaheswar Duvvuri; Adam B Olshen; Ritu Roy; Aaron Hechmer; Jennifer Bolen; Stephen B Keysar; Antonio Jimeno; Gordon B Mills; Scott Vandenberg; Danielle L Swaney; Daniel E Johnson; Nevan J Krogan; Jennifer R Grandis
Journal:  JCI Insight       Date:  2021-10-22
  10 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.