The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions.

Database : the Journal of Biological Databases and Curation
L PerfettoP Porras

Abstract

The current coronavirus disease of 2019 (COVID-19) pandemic, caused by the severe acute respiratory syndrome coronavirus (SARS-CoV)-2, has spurred a wave of research of nearly unprecedented scale. Among the different strategies that are being used to understand the disease and develop effective treatments, the study of physical molecular interactions can provide fine-grained resolution of the mechanisms behind the virus biology and the human organism response. We present a curated dataset of physical molecular interactions focused on proteins from SARS-CoV-2, SARS-CoV-1 and other members of the Coronaviridae family that has been manually extracted by International Molecular Exchange (IMEx) Consortium curators. Currently, the dataset comprises over 4400 binarized interactions extracted from 151 publications. The dataset can be accessed in the standard formats recommended by the Proteomics Standards Initiative (HUPO-PSI) at the IntAct database website (https://www.ebi.ac.uk/intact) and will be continuously updated as research on COVID-19 progresses.

References

Dec 9, 2008·Nature Methods·Kavitha VenkatesanMarc Vidal
Oct 20, 2009·Bioinformatics·Kevin R BrownIgor Jurisica
Nov 19, 2011·Nucleic Acids Research·Luana LicataGianni Cesareni
Mar 29, 2012·Nature Methods·Sandra OrchardHenning Hermjakob
May 15, 2013·Nucleic Acids Research·Noemi del-ToroHenning Hermjakob
Sep 7, 2013·Current Opinion in Structural Biology·Shoshana J WodakShuye Pu
Nov 16, 2013·Nucleic Acids Research·Sandra OrchardHenning Hermjakob
Sep 14, 2014·Nucleic Acids Research·Alberto CalderoneGianni Cesareni
Nov 14, 2014·Nucleic Acids Research·Thibaut GuirimandVincent Navratil
Jan 24, 2015·Science·Mathias UhlénFredrik Pontén
Oct 23, 2018·Bioinformatics·Ashish Jain, Geetu Tuteja
Oct 26, 2018·Nucleic Acids Research·Birgit H M MeldalSandra Orchard
Oct 30, 2018·Nucleic Acids Research·Olivier ClercSylvie Ricard-Blum
Nov 6, 2018·Nucleic Acids Research·UNKNOWN UniProt Consortium
Nov 27, 2018·Nucleic Acids Research·Rose OughtredMike Tyers
Aug 31, 2019·Nature Communications·Soon Gang ChoiYves Jacob

❮ Previous
Next ❯

Citations

Dec 3, 2020·Nature Communications·Pablo PorrasSandra Orchard
Feb 20, 2021·Journal of Proteome Research·Wout BittremieuxNuno Bandeira
Apr 22, 2021·Database : the Journal of Biological Databases and Curation·András HatosSilvio C E Tosatto
May 4, 2021·Computational and Structural Biotechnology Journal·Chung-Ke ChangMing-Hon Hou
Aug 11, 2021·Viruses·Francesco Messina On Behalf Of Covid-Scoping Review Working Group
Nov 12, 2021·Nucleic Acids Research·Noemi Del ToroHenning Hermjakob

❮ Previous
Next ❯

Methods Mentioned

BETA
affinity purification

Software Mentioned

R package
TissueEnrich
ggplot2
R
NAViGaTOR
MIQL
VirHostNet
MINT
- 19 Map
pathDIP

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.