Enhancement of COPD biological networks using a web-based collaboration interface

F1000Research
sbv IMPROVER project team (in alphabetical order)Mariya Zelikman

Abstract

The construction and application of biological network models is an approach that offers a holistic way to understand biological processes involved in disease. Chronic obstructive pulmonary disease (COPD) is a progressive inflammatory disease of the airways for which therapeutic options currently are limited after diagnosis, even in its earliest stage. COPD network models are important tools to better understand the biological components and processes underlying initial disease development. With the increasing amounts of literature that are now available, crowdsourcing approaches offer new forms of collaboration for researchers to review biological findings, which can be applied to the construction and verification of complex biological networks. We report the construction of 50 biological network models relevant to lung biology and early COPD using an integrative systems biology and collaborative crowd-verification approach. By combining traditional literature curation with a data-driven approach that predicts molecular activities from transcriptomics data, we constructed an initial COPD network model set based on a previously published non-diseased lung-relevant model set. The crowd was given the opportunity to enhance and re...Continue Reading

References

Jan 1, 1989·Archives of Environmental Contamination and Toxicology·J W Winchester
Nov 11, 1998·Nature Medicine·A D Lopez, C C Murray
Nov 11, 1999·American Journal of Respiratory and Critical Care Medicine·S D Shapiro
Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
Feb 5, 2000·The Journal of Immunology : Official Journal of the American Association of Immunologists·C GodsonH R Brady
Dec 14, 2002·Immunity·Bernd ElserMin Li-Weber
Oct 3, 2003·Lancet·P M A Calverley, Paul Walker
Feb 26, 2004·Cell·Maria Carla MottaLeonard Guarente
Mar 17, 2004·Molecular Cell·Haim Y CohenDavid A Sinclair
Apr 19, 2005·Nature Immunology·Meredith SaffordJonathan D Powell
Aug 2, 2005·Environmental Research·Aydanur EkiciSelma Demir
Nov 15, 2005·The Journal of Clinical Investigation·Bing MaJack A Elias
Sep 14, 2006·Pharmacological Reviews·Nan ChiangCharles Brink
Mar 7, 2007·The Journal of Immunology : Official Journal of the American Association of Immunologists·Makoto AritaCharles N Serhan
Jun 15, 2007·Nature·Jan M SchwabCharles N Serhan
Jul 17, 2007·American Journal of Respiratory Cell and Molecular Biology·Sandra HodgePaul N Reynolds
Oct 4, 2008·The Journal of Immunology : Official Journal of the American Association of Immunologists·Claudia GemelliSergio Ferrari
Mar 7, 2009·American Journal of Respiratory and Critical Care Medicine·Tiffany R RichensR William Vandivier
Jun 6, 2009·The New England Journal of Medicine·Manuel G CosioAlvar Agusti
Jul 29, 2009·The Journal of Immunology : Official Journal of the American Association of Immunologists·Renat ShaykhievRonald G Crystal
Sep 8, 2010·Cellular and Molecular Life Sciences : CMLS·Renat ShaykhievRonald G Crystal
Mar 25, 2011·Respiration; International Review of Thoracic Diseases·Ian M AdcockPeter J Barnes
Aug 23, 2011·International Journal of Chronic Obstructive Pulmonary Disease·Bernard M FischerJudith A Voynow
Sep 9, 2011·Science Signaling·Robert J PrillGustavo Stolovitzky
Sep 10, 2011·Nature Biotechnology·Pablo MeyerGustavo Stolovitzky
Sep 13, 2011·Lancet·Guy G BrusselleKen R Bracke
Sep 24, 2011·Thorax·Michael E EzzieS Patrick Nana-Sinkam
Dec 14, 2011·Drug Discovery Today·Julia HoengManuel C Peitsch
May 2, 2012·The Journal of Clinical Investigation·Hongwei YaoIrfan Rahman
Jan 1, 2011·Frontiers in Immunology·Darlynn KornsDonna L Bratton
Jan 1, 2011·Frontiers in Immunology·Susanne HeroldJuergen Lohmeyer
Feb 5, 2013·International Journal of Chronic Obstructive Pulmonary Disease·Yoshiko KanekoNobuyuki Hizawa

❮ Previous
Next ❯

Citations

Jul 13, 2016·Database : the Journal of Biological Databases and Curation·Fabio RinaldiJuliane Fluck
Jul 28, 2016·Regulatory Toxicology and Pharmacology : RTP·Maurice R SmithManuel C Peitsch
Aug 10, 2016·Database : the Journal of Biological Databases and Curation·Lynette HirschmanKevin Bretonnel Cohen
Aug 25, 2016·Database : the Journal of Biological Databases and Curation·Juliane FluckManuel Peitsch
Apr 1, 2017·Chemical Research in Toxicology·Thomas HartungShana J Sturla
May 17, 2018·Journal of Medical Internet Research·Perrine CréquitPhilippe Ravaud
Jul 19, 2016·Gene Regulation and Systems Biology·UNKNOWN sbv IMPROVER project team and challenge best performersYang Xiang
Jun 18, 2017·Clinical Medicine Insights. Circulatory, Respiratory and Pulmonary Medicine·Marja TalikkaJulia Hoeng

❮ Previous
Next ❯

Methods Mentioned

BETA
X-ray

Software Mentioned

Synergy
Selventa
BioNet
COPD
Biological Expression Language ( BEL
BEL
IMPROVER
ComBat
Biological Expression Language ( BEL )

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

European Journal of Immunology
Burkhard LudewigGennady Bocharov
Bioinformatics and Biology Insights
Sam AnsariMarja Talikka
Artificial Intelligence in Medicine
Yonghong Peng, Xuegong Zhang
© 2021 Meta ULC. All rights reserved