Literature DB >> 21896642

Systems biology: confronting the complexity of cancer.

Andrew J Gentles1, Daniel Gallahan.   

Abstract

The AACR-NCI Conference "Systems Biology: Confronting the Complexity of Cancer" took place from February 27 to March 2, 2011, in San Diego, CA. Several themes resonated during the meeting, notably (i) the need for better methods to distill insights from large-scale networks, (ii) the importance of integrating multiple data types in constructing more realistic models, (iii) challenges in translating insights about tumorigenic mechanisms into therapeutic interventions, and (iv) the role of the tumor microenvironment, at the physical, cellular, and molecular levels. The meeting highlighted concrete applications of systems biology to cancer, and the value of collaboration between interdisciplinary researchers in attacking formidable problems.

Entities:  

Mesh:

Year:  2011        PMID: 21896642      PMCID: PMC3174325          DOI: 10.1158/0008-5472.CAN-11-1569

Source DB:  PubMed          Journal:  Cancer Res        ISSN: 0008-5472            Impact factor:   12.701


  17 in total

1.  Oncogenically active MYD88 mutations in human lymphoma.

Authors:  Vu N Ngo; Ryan M Young; Roland Schmitz; Sameer Jhavar; Wenming Xiao; Kian-Huat Lim; Holger Kohlhammer; Weihong Xu; Yandan Yang; Hong Zhao; Arthur L Shaffer; Paul Romesser; George Wright; John Powell; Andreas Rosenwald; Hans Konrad Muller-Hermelink; German Ott; Randy D Gascoyne; Joseph M Connors; Lisa M Rimsza; Elias Campo; Elaine S Jaffe; Jan Delabie; Erlend B Smeland; Richard I Fisher; Rita M Braziel; Raymond R Tubbs; J R Cook; Denny D Weisenburger; Wing C Chan; Louis M Staudt
Journal:  Nature       Date:  2010-12-22       Impact factor: 49.962

2.  A mammalian functional-genetic approach to characterizing cancer therapeutics.

Authors:  Hai Jiang; Justin R Pritchard; Richard T Williams; Douglas A Lauffenburger; Michael T Hemann
Journal:  Nat Chem Biol       Date:  2010-12-26       Impact factor: 15.040

3.  Normal and neoplastic nonstem cells can spontaneously convert to a stem-like state.

Authors:  Christine L Chaffer; Ines Brueckmann; Christina Scheel; Alicia J Kaestli; Paul A Wiggins; Leonardo O Rodrigues; Mary Brooks; Ferenc Reinhardt; Ying Su; Kornelia Polyak; Lisa M Arendt; Charlotte Kuperwasser; Brian Bierie; Robert A Weinberg
Journal:  Proc Natl Acad Sci U S A       Date:  2011-04-15       Impact factor: 11.205

Review 4.  Progress in understanding reprogramming to the induced pluripotent state.

Authors:  Kathrin Plath; William E Lowry
Journal:  Nat Rev Genet       Date:  2011-04       Impact factor: 53.242

5.  Rewiring of genetic networks in response to DNA damage.

Authors:  Sourav Bandyopadhyay; Monika Mehta; Dwight Kuo; Min-Kyung Sung; Ryan Chuang; Eric J Jaehnig; Bernd Bodenmiller; Katherine Licon; Wilbert Copeland; Michael Shales; Dorothea Fiedler; Janusz Dutkowski; Aude Guénolé; Haico van Attikum; Kevan M Shokat; Richard D Kolodner; Won-Ki Huh; Ruedi Aebersold; Michael-Christopher Keogh; Nevan J Krogan; Trey Ideker
Journal:  Science       Date:  2010-12-03       Impact factor: 47.728

6.  Cooperative epigenetic modulation by cancer amplicon genes.

Authors:  Lixin Rui; N C Tolga Emre; Michael J Kruhlak; Hye-Jung Chung; Christian Steidl; Graham Slack; George W Wright; Georg Lenz; Vu N Ngo; Arthur L Shaffer; Weihong Xu; Hong Zhao; Yandan Yang; Laurence Lamy; R Eric Davis; Wenming Xiao; John Powell; David Maloney; Craig J Thomas; Peter Möller; Andreas Rosenwald; German Ott; Hans Konrad Muller-Hermelink; Kerry Savage; Joseph M Connors; Lisa M Rimsza; Elias Campo; Elaine S Jaffe; Jan Delabie; Erlend B Smeland; Dennis D Weisenburger; Wing C Chan; Randy D Gascoyne; David Levens; Louis M Staudt
Journal:  Cancer Cell       Date:  2010-12-14       Impact factor: 31.743

7.  Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.

Authors:  Charles J Vaske; Stephen C Benz; J Zachary Sanborn; Dent Earl; Christopher Szeto; Jingchun Zhu; David Haussler; Joshua M Stuart
Journal:  Bioinformatics       Date:  2010-06-15       Impact factor: 6.937

8.  ABC ATPase signature helices in Rad50 link nucleotide state to Mre11 interface for DNA repair.

Authors:  Gareth J Williams; R Scott Williams; Jessica S Williams; Gabriel Moncalian; Andrew S Arvai; Oliver Limbo; Grant Guenther; Soumita SilDas; Michal Hammel; Paul Russell; John A Tainer
Journal:  Nat Struct Mol Biol       Date:  2011-03-27       Impact factor: 15.369

9.  ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context.

Authors:  Adam A Margolin; Ilya Nemenman; Katia Basso; Chris Wiggins; Gustavo Stolovitzky; Riccardo Dalla Favera; Andrea Califano
Journal:  BMC Bioinformatics       Date:  2006-03-20       Impact factor: 3.169

10.  The transcriptional network for mesenchymal transformation of brain tumours.

Authors:  Maria Stella Carro; Wei Keat Lim; Mariano Javier Alvarez; Robert J Bollo; Xudong Zhao; Evan Y Snyder; Erik P Sulman; Sandrine L Anne; Fiona Doetsch; Howard Colman; Anna Lasorella; Ken Aldape; Andrea Califano; Antonio Iavarone
Journal:  Nature       Date:  2009-12-23       Impact factor: 49.962

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  13 in total

Review 1.  Systems biology for molecular life sciences and its impact in biomedicine.

Authors:  Miguel Ángel Medina
Journal:  Cell Mol Life Sci       Date:  2012-08-19       Impact factor: 9.261

2.  The SWI/SNF ATPases Are Required for Triple Negative Breast Cancer Cell Proliferation.

Authors:  Qiong Wu; Pasil Madany; Jacqueline Akech; Jason R Dobson; Stephen Douthwright; Gillian Browne; Jennifer L Colby; Georg E Winter; James E Bradner; Jitesh Pratap; Greenfield Sluder; Rohit Bhargava; Simion I Chiosea; Andre J van Wijnen; Janet L Stein; Gary S Stein; Jane B Lian; Jeffrey A Nickerson; Anthony N Imbalzano
Journal:  J Cell Physiol       Date:  2015-11       Impact factor: 6.384

Review 3.  Redrawing therapeutic boundaries: microbiota and cancer.

Authors:  Jonathan Sholl; Gregory D Sepich-Poore; Rob Knight; Thomas Pradeu
Journal:  Trends Cancer       Date:  2021-11-26

4.  Tackling the clinical complexity of breast cancer.

Authors:  Marco Vincenzo Lenti; Federico Sottotetti; Gino Roberto Corazza
Journal:  Drugs Context       Date:  2022-06-28

5.  The Key Genes of Chronic Pancreatitis which Bridge Chronic Pancreatitis and Pancreatic Cancer Can be Therapeutic Targets.

Authors:  Shuang Li; Rui Li; Heping Wang; Lisha Li; Huiyu Li; Yulin Li
Journal:  Pathol Oncol Res       Date:  2017-04-24       Impact factor: 3.201

6.  Desiderata for Major Eligibility Criteria in Breast Cancer Clinical Trials.

Authors:  Matthew L Paulson; Chunhua Weng
Journal:  AMIA Annu Symp Proc       Date:  2015-11-05

Review 7.  Cancer Systems Biology: a peek into the future of patient care?

Authors:  Henrica M J Werner; Gordon B Mills; Prahlad T Ram
Journal:  Nat Rev Clin Oncol       Date:  2014-02-04       Impact factor: 66.675

8.  Gene regulatory network inference: evaluation and application to ovarian cancer allows the prioritization of drug targets.

Authors:  Piyush B Madhamshettiwar; Stefan R Maetschke; Melissa J Davis; Antonio Reverter; Mark A Ragan
Journal:  Genome Med       Date:  2012-05-01       Impact factor: 11.117

9.  Analysis and prediction of pathways in HeLa cells by integrating biological levels of organization with systems-biology approaches.

Authors:  Juan Carlos Higareda-Almaraz; Ilse A Valtierra-Gutiérrez; Magdalena Hernandez-Ortiz; Sandra Contreras; Erika Hernandez; Sergio Encarnación-Guevara; Sergio Encarnacion
Journal:  PLoS One       Date:  2013-06-10       Impact factor: 3.240

10.  RMaNI: Regulatory Module Network Inference framework.

Authors:  Piyush B Madhamshettiwar; Stefan R Maetschke; Melissa J Davis; Mark A Ragan
Journal:  BMC Bioinformatics       Date:  2013-10-22       Impact factor: 3.169

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