Databases of ligand-binding pockets and protein-ligand interactions
Computational and Structural Biotechnology JournalMany research groups and institutions have created a variety of databases curating experimental and predicted data related to protein-ligand binding. The landscape of available databases is dynamic, with new databases emerging and established databases ...
Kristy A. Carpenter, Russ B. Altman
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Genes2Networks: Connecting Lists of Proteins by Using Background Literature-based Mammalian Networks [PDF]
, 2007 In recent years, in-silico literature-based mammalian protein-protein interaction network datasets have been developed. These datasets contain binary interactions extracted manually from legacy experimental biomedical research literature.
Avi Ma'
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Molecular Oncology, EarlyView.This study indicates that Merkel cell carcinoma (MCC) does not originate from Merkel cells, and identifies gene, protein & cellular expression of immune‐linked and neuroendocrine markers in primary and metastatic Merkel cell carcinoma (MCC) tumor samples, linked to Merkel cell polyomavirus (MCPyV) status, with enrichment of B‐cell and other immune cell
Richie Jeremian +10 more
wiley +1 more source
THE APPLICATION OF BIOINFORMATIC METHODS FOR THE ANALYSIS OF PROTEIN TARGETS OF MICROORGANISMS PRODUCING BIOSURFACTANTS [PDF]
Biotechnologia ActaAim. The objective of this study is to identify key protein targets involved in the metabolism, regulation, and transport of biosurfactants. Target selection was based on a comprehensive analysis of biological databases and scientific literature.
Ye.B. Yanvarov +3 more
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Ontology-assisted database integration to support natural language processing and biomedical data-mining [PDF]
, 2004 Successful biomedical data mining and information extraction require a complete picture of biological phenomena such as genes, biological processes, and diseases; as these exist on different levels of granularity.
Ceusters, Werner +4 more
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YAP1::TFE3 mediates endothelial‐to‐mesenchymal plasticity in epithelioid hemangioendothelioma
Molecular Oncology, EarlyView.The YAP1::TFE3 fusion protein drives endothelial‐to‐mesenchymal transition (EndMT) plasticity, resulting in the loss of endothelial characteristics and gain of mesenchymal‐like properties, including resistance to anoikis, increased migratory capacity, and loss of contact growth inhibition in endothelial cells.
Ant Murphy +9 more
wiley +1 more source
EcoCyc: fusing model organism databases with systems biology. [PDF]
, 2012 EcoCyc (http://EcoCyc.org) is a model organism database built on the genome sequence of Escherichia coli K-12 MG1655. Expert manual curation of the functions of individual E.
Bonavides-Martínez, César +23 more
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Emerging role of ARHGAP29 in melanoma cell phenotype switching
Molecular Oncology, EarlyView.This study gives first insights into the role of ARHGAP29 in malignant melanoma. ARHGAP29 was revealed to be connected to tumor cell plasticity, promoting a mesenchymal‐like, invasive phenotype and driving tumor progression. Further, it modulates cell spreading by influencing RhoA/ROCK signaling and affects SMAD2 activity. Rho GTPase‐activating protein
Beatrice Charlotte Tröster +3 more
wiley +1 more source
The Alliance for Cellular Signaling Plasmid Collection: A Flexible Resource for Protein Localization Studies and Signaling Pathway Analysis [PDF]
, 2007 Cellular responses to inputs that vary both temporally and spatially are determined by complex relationships between the components of cell signaling networks.
Bryan, Heather +28 more
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Systems analysis of host-parasite interactions. [PDF]
, 2015 Parasitic diseases caused by protozoan pathogens lead to hundreds of thousands of deaths per year in addition to substantial suffering and socioeconomic decline for millions of people worldwide.
Jamshidi, Neema +3 more
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