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Literature DB >> 25140061

Network biology in medicine and beyond.

Abstract

Entities: Chemical Disease Gene Species

Keywords: computational biology; gene regulatory networks; models, statistical; protein interaction networks; systems biology

Mesh：

Substances：

Year: 2014 PMID： 25140061 PMCID： PMC4333150 DOI： 10.1161/CIRCGENETICS.113.000123

Source DB: PubMed Journal: Circ Cardiovasc Genet ISSN： 1942-3268

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67 in total

1. JASPAR: an open-access database for eukaryotic transcription factor binding profiles.

Authors: Albin Sandelin; Wynand Alkema; Pär Engström; Wyeth W Wasserman; Boris Lenhard
Journal: Nucleic Acids Res Date: 2004-01-01 Impact factor: 16.971

Review 2. DNA methylation and human disease.

Authors: Keith D Robertson
Journal: Nat Rev Genet Date: 2005-08 Impact factor: 53.242

3. Integration of biological networks and gene expression data using Cytoscape.

Authors: Melissa S Cline; Michael Smoot; Ethan Cerami; Allan Kuchinsky; Nerius Landys; Chris Workman; Rowan Christmas; Iliana Avila-Campilo; Michael Creech; Benjamin Gross; Kristina Hanspers; Ruth Isserlin; Ryan Kelley; Sarah Killcoyne; Samad Lotia; Steven Maere; John Morris; Keiichiro Ono; Vuk Pavlovic; Alexander R Pico; Aditya Vailaya; Peng-Liang Wang; Annette Adler; Bruce R Conklin; Leroy Hood; Martin Kuiper; Chris Sander; Ilya Schmulevich; Benno Schwikowski; Guy J Warner; Trey Ideker; Gary D Bader
Journal: Nat Protoc Date: 2007 Impact factor: 13.491

4. Exploring the roles of noise in the eukaryotic cell cycle.

Authors: Sandip Kar; William T Baumann; Mark R Paul; John J Tyson
Journal: Proc Natl Acad Sci U S A Date: 2009-02-25 Impact factor: 11.205

5. Architecture of the human regulatory network derived from ENCODE data.

Authors: Mark B Gerstein; Anshul Kundaje; Manoj Hariharan; Stephen G Landt; Koon-Kiu Yan; Chao Cheng; Xinmeng Jasmine Mu; Ekta Khurana; Joel Rozowsky; Roger Alexander; Renqiang Min; Pedro Alves; Alexej Abyzov; Nick Addleman; Nitin Bhardwaj; Alan P Boyle; Philip Cayting; Alexandra Charos; David Z Chen; Yong Cheng; Declan Clarke; Catharine Eastman; Ghia Euskirchen; Seth Frietze; Yao Fu; Jason Gertz; Fabian Grubert; Arif Harmanci; Preti Jain; Maya Kasowski; Phil Lacroute; Jing Jane Leng; Jin Lian; Hannah Monahan; Henriette O'Geen; Zhengqing Ouyang; E Christopher Partridge; Dorrelyn Patacsil; Florencia Pauli; Debasish Raha; Lucia Ramirez; Timothy E Reddy; Brian Reed; Minyi Shi; Teri Slifer; Jing Wang; Linfeng Wu; Xinqiong Yang; Kevin Y Yip; Gili Zilberman-Schapira; Serafim Batzoglou; Arend Sidow; Peggy J Farnham; Richard M Myers; Sherman M Weissman; Michael Snyder
Journal: Nature Date: 2012-09-06 Impact factor: 49.962

6. A travel guide to Cytoscape plugins.

Authors: Rintaro Saito; Michael E Smoot; Keiichiro Ono; Johannes Ruscheinski; Peng-Liang Wang; Samad Lotia; Alexander R Pico; Gary D Bader; Trey Ideker
Journal: Nat Methods Date: 2012-11-06 Impact factor: 28.547

7. Sequential application of anticancer drugs enhances cell death by rewiring apoptotic signaling networks.

Authors: Michael J Lee; Albert S Ye; Alexandra K Gardino; Anne Margriet Heijink; Peter K Sorger; Gavin MacBeath; Michael B Yaffe
Journal: Cell Date: 2012-05-11 Impact factor: 41.582

8. Integrating literature-constrained and data-driven inference of signalling networks.

Authors: Federica Eduati; Javier De Las Rivas; Barbara Di Camillo; Gianna Toffolo; Julio Saez-Rodriguez
Journal: Bioinformatics Date: 2012-06-25 Impact factor: 6.937

9. From genomics to chemical genomics: new developments in KEGG.

Authors: Minoru Kanehisa; Susumu Goto; Masahiro Hattori; Kiyoko F Aoki-Kinoshita; Masumi Itoh; Shuichi Kawashima; Toshiaki Katayama; Michihiro Araki; Mika Hirakawa
Journal: Nucleic Acids Res Date: 2006-01-01 Impact factor: 16.971

10. Reactome knowledgebase of human biological pathways and processes.

Authors: Lisa Matthews; Gopal Gopinath; Marc Gillespie; Michael Caudy; David Croft; Bernard de Bono; Phani Garapati; Jill Hemish; Henning Hermjakob; Bijay Jassal; Alex Kanapin; Suzanna Lewis; Shahana Mahajan; Bruce May; Esther Schmidt; Imre Vastrik; Guanming Wu; Ewan Birney; Lincoln Stein; Peter D'Eustachio
Journal: Nucleic Acids Res Date: 2008-11-03 Impact factor: 16.971

18 in total

1. Deciphering the Biochemical Pathway and Pharmacokinetic Study of Amyloid βeta-42 with Superparamagnetic Iron Oxide Nanoparticles (SPIONs) Using Systems Biology Approach.

Authors: Aman Chandra Kaushik; Ajay Kumar; Vivek Dhar Dwivedi; Shiv Bharadwaj; Sanjay Kumar; Kritika Bharti; Pavan Kumar; Ravi Kumar Chaudhary; Sarad Kumar Mishra
Journal: Mol Neurobiol Date: 2017-05-06 Impact factor: 5.590

2. GC-MS metabolic profiling reveals fructose-2,6-bisphosphate regulates branched chain amino acid metabolism in the heart during fasting.

Authors: Albert Batushansky; Satoshi Matsuzaki; Maria F Newhardt; Melinda S West; Timothy M Griffin; Kenneth M Humphries
Journal: Metabolomics Date: 2019-01-28 Impact factor: 4.290

3. An Augmented High-Dimensional Graphical Lasso Method to Incorporate Prior Biological Knowledge for Global Network Learning.

Authors: Yonghua Zhuang; Fuyong Xing; Debashis Ghosh; Farnoush Banaei-Kashani; Russell P Bowler; Katerina Kechris
Journal: Front Genet Date: 2022-01-27 Impact factor: 4.599

4. Circulating N-formylmethionine and metabolic shift in critical illness: a multicohort metabolomics study.

Authors: Martin Ingi Sigurdsson; Hirotada Kobayashi; Karin Amrein; Kiichi Nakahira; Angela J Rogers; Mayra Pinilla-Vera; Rebecca M Baron; Laura E Fredenburgh; Jessica A Lasky-Su; Kenneth B Christopher
Journal: Crit Care Date: 2022-10-19 Impact factor: 19.334

5. A Comprehensive Survey of Immune Cytolytic Activity-Associated Gene Co-Expression Networks across 17 Tumor and Normal Tissue Types.

Authors: Tian Tian; Ji Wan; Yan Han; Haoran Liu; Feng Gao; Youdong Pan; Qi Song; Zhi Wei
Journal: Cancers (Basel) Date: 2018-09-04 Impact factor: 6.639