Results 21 to 30 of about 9,193,993 (329)

Protein complex prediction in large protein–protein interaction network

Informatics in Medicine Unlocked, 2022
Due to high computational complexity, the detection of protein complexes in large protein–protein interaction (PPI) networks remains a challenging problem.
Md. Shahidul Islam, Md. Rafiqul Islam, A.B.M. Shawkat Ali   +2 more
doaj   +1 more source

STRING v10: protein–protein interaction networks, integrated over the tree of life

Nucleic Acids Res., 2014
The many functional partnerships and interactions that occur between proteins are at the core of cellular processing and their systematic characterization helps to provide context in molecular systems biology.
Damian Szklarczyk, Andrea Franceschini, S. Wyder, K. Forslund, Davide Heller, J. Huerta-Cepas, M. Simonovic, Alexander C. J. Roth, Alberto Santos, K. Tsafou, Michael Kuhn, P. Bork, L. Jensen, C. V. Mering   +13 more
semanticscholar   +1 more source

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

Nucleic Acids Res., 2012
Complete knowledge of all direct and indirect interactions between proteins in a given cell would represent an important milestone towards a comprehensive description of cellular mechanisms and functions. Although this goal is still elusive, considerable
Andrea Franceschini, Damian Szklarczyk, Sune Pletscher-Frankild, Michael Kuhn, M. Simonovic, Alexander C. J. Roth, Jianyi Lin, Pablo Minguez, P. Bork, C. V. Mering, L. Jensen   +10 more
semanticscholar   +1 more source

A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing

bioRxiv, 2020
An outbreak of the novel coronavirus SARS-CoV-2, the causative agent of COVID-19 respiratory disease, has infected over 290,000 people since the end of 2019, killed over 12,000, and caused worldwide social and economic disruption1,2.
D. Gordon, Gwendolyn M. Jang, Mehdi Bouhaddou, Jiewei Xu, K. Obernier, Matthew J. O’Meara, Jeffrey Z. Guo, D. Swaney, Tia A. Tummino, Ruth Hüttenhain, Robyn M. Kaake, Alicia L. Richards, B. Tutuncuoglu, Helene Foussard, J. Batra, Kelsey M. Haas, Mayank Modak, Minkyu Kim, Paige Haas, Benjamin J. Polacco, Hannes Braberg, Jacqueline M. Fabius, Manon Eckhardt, Margaret Soucheray, M. J. Bennett, Merve Cakir, Michael J. McGregor, Qiongyu Li, Zun Zar Chi Naing, Yuan Zhou, S. Peng, I. T. Kirby, James E. Melnyk, John S. Chorba, Kevin Lou, Shizhong A. Dai, W. Shen, Ying Shi, Ziyang Zhang, Inigo Barrio-Hernandez, Danish Memon, Claudia Hernandez-Armenta, Christopher J. P. Mathy, Tina Perica, K. B. Pilla, Sai J. Ganesan, Daniel J. Saltzberg, Rakesh Ramachandran, Xi Liu, S. Rosenthal, Lorenzo Calviello, S. Venkataramanan, José M Liboy-Lugo, Yizhu Lin, S. Wankowicz, M. Bohn, P. P. Sharp, R. Trenker, Janet M. Young, D. A. Cavero, J. Hiatt, Theodore L. Roth, Ujjwal Rathore, Advait Subramanian, Julia Noack, Mathieu Hubert, F. Roesch, T. Vallet, Björn Meyer, K. White, Lisa Miorin, O. Rosenberg, K. Verba, D. Agard, M. Ott, M. Emerman, D. Ruggero, A. García-Sastre, N. Jura, M. von Zastrow, J. Taunton, A. Ashworth, O. Schwartz, M. Vignuzzi, C. d’Enfert, Shaeri Mukherjee, Matt Jacobson, Harmit S. Malik, D. Fujimori, T. Ideker, C. Craik, S. Floor, J. Fraser, J. Gross, A. Sali, T. Kortemme, P. Beltrão, K. Shokat, B. Shoichet, N. Krogan   +99 more
semanticscholar   +1 more source

SLIDER: Mining correlated motifs in protein-protein interaction networks [PDF]

, 2009
—Correlated motif mining (CMM) is the problem to find overrepresented pairs of patterns, called motif pairs, in interacting protein sequences. Algorithmic solutions for CMM thereby provide a computational method for predicting binding sites for protein ...
Boyen, P., Dijk, A.D.J., van, Ham, R.C.H.J., van, Neven, F.   +3 more
core   +2 more sources

Bio::Homology::InterologWalk - A Perl module to build putative protein-protein interaction networks through interolog mapping

BMC Bioinformatics, 2011
BackgroundProtein-protein interaction (PPI) data are widely used to generate network models that aim to describe the relationships between proteins in biological systems.
Giuseppe Gallone, T. I. Simpson, J. D. Armstrong, Andrew P Jarman   +3 more
semanticscholar   +1 more source

Construction and analysis of the protein-protein interaction network of visual system in Drosophila [PDF]

Network Biology, 2023
Insects are one of the most widely distributed animals on earth, and their visual systems have strong adaptability, deeply affecting their survival, reproduction, diet, and environmental adaptation.
JiaNing Sun, WenJun Zhang
doaj  

Adenovirus type 5 E4 Orf3 protein targets promyelocytic leukaemia (PML) protein nuclear domains for disruption via a sequence in PML isoform II that is predicted as a protein interaction site by bioinformatic analysis [PDF]

, 2009
Human adenovirus type 5 infection causes the disruption of structures in the cell nucleus termed promyelocytic leukaemia (PML) protein nuclear domains or ND10, which contain the PML protein as a critical component. This disruption is achieved through the
Araujo, Beech, Bernardi, Bernardi, Borden, Bourhis, Callaghan, Carvalho, Condemine, Condemine, Dalessio, Doucas, E. Emmott, Evans, Everett, Everett, Everett, Fagioli, Fagioli, Hoppe, Ishov, Janderova-Rossmeislova, Jensen, K. N. Leppard, Kalderon, Kelly, Liu, M. S. Cortese, Mohan, Nevels, Peng, Romero, Salomoni, Scaglioni, Shen, Sternsdorf, Stracker, T. Rich   +37 more
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From Nonspecific DNA–Protein Encounter Complexes to the Prediction of DNA–Protein Interactions [PDF]

, 2009
©2009 Gao, Skolnick. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are ...
A Sarai, AV Morozov, BW Matthews, BW Matthews, CG Kalodimos, CH Yan, CO Pabo, E Fraenkel, E Katchalski-Katzir, FK Winkler, H Tjong, I Bonnet, IB Kuznetsov, Ilya Vakser, J Gorman, J Skolnick, J Skolnick, JE Donald, Jeffrey Skolnick, JJ Havranek, JS Lamoureux, JS Lamoureux, M Billeter, M Gao, M van Dijk, MJ Sippl, Mu Gao, N Bhardwaj, NC Horton, NM Luscombe, NP Stanford, O Givaty, P Aloy, P Rotkiewicz, PH von Hippel, R Mendez, R Samudrala, RMA Knegtel, S Ahmad, S Jones, SE Halford, SJ Hubbard, TA Robertson, TW Siggers, W Humphrey, WJ Lane, XJ Lu, Y Zhang, Y Zhang, ZJ Liu   +49 more
core   +4 more sources

STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets

Nucleic Acids Res., 2018
Proteins and their functional interactions form the backbone of the cellular machinery. Their connectivity network needs to be considered for the full understanding of biological phenomena, but the available information on protein–protein associations is
Damian Szklarczyk, Annika L. Gable, D. Lyon, Alexander Junge, S. Wyder, J. Huerta-Cepas, M. Simonovic, N. Doncheva, J. Morris, P. Bork, L. Jensen, C. V. Mering   +11 more
semanticscholar   +1 more source