The Domesticated silkworm, Bombyx mori, an economically important insect has been used as a lepidopteran molecular model next only to Drosophila. Compared to the genomic information in silkworm, the protein-protein interaction data are limited. Therefore experimentally identified PPI maps from five model organisms such as E.coli, C.elegans, D.melanogaster, H. sapiens, S. cerevisiae were used to...

Protein-protein interaction (PPI) plays a key role in cellular communication, Protein-protein interaction connected with each other with hubs and nods involved in signaling pathways. These interactions used to develop network based biomarkers for early diagnosis of cancer. FEN1(Flap endonuclease 1) is a central component in cellular metabolism, over expression and decrease of FEN1 levels may ca...

Background: The molecular mechanism of human African trypanosomiasis remains to be fully understood. It is urgently required identify genes that are associated with trypanosome development and prognosis elucidate the underlying mechanisms. In present study, we aimed potential pathogenic prognostic differentially expressed (DEGs) through bioinformatics analysis genetic profiles from infected pat...

The study of protein-protein interactions (PPIs) and predicting the protein structure plays a critical role in understanding cellular processes designing therapeutic interventions. In this research, we explore application quantum algorithms, specifically Grover’s algorithm, improving accuracy efficiency PPI prediction. By harnessing inherent parallelism search capabilities aim to enhance identi...

The extraction of protein-protein interactions (PPI) from text requires a formal PPI representation. We use the BioInfer and GENIA corpora to study two such representations: a “binary” interaction model consisting of pairs of proteins and a “complex” model where interactions are defined as a network of proteins and their relations. As both of these formats can be seen as graphs, we contrast the...

MOTIVATION Finding protein-protein interaction (PPI) information from literature is challenging but an important issue. However, keyword search in PubMed(®) is often time consuming because it requires a series of actions that refine keywords and browse search results until it reaches a goal. Due to the rapid growth of biomedical literature, it has become more difficult for biologists and curato...

Recent proteome-wide screening efforts have made available genome-wide, high-throughput protein-protein interaction (PPI) maps for several model organisms. This has enabled the systematic analysis of PPI networks, which has become one of the primary challenges for the system biology community. Here we address the problem of predicting the functional classes of proteins (i.e., GO annotations) ba...

Recent proteome-wide screening efforts have made available genome-wide, high-throughput protein-protein interaction (PPI) maps for several model organisms. This has enabled the systematic analysis of PPI networks, which has become one of the primary challenges for the systems biology community. Here, we address the problem of predicting the functional classes of proteins (i.e. GO annotations) b...

OBJECTIVE Current protein-protein interaction (PPI) detection via high-throughput experimental methods, such as yeast-two-hybrid has been reported to be highly erroneous, leading to potentially costly spurious discoveries. This work introduces a novel measure called IRAP, i.e. "interaction reliability by alternative path", for assessing the reliability of protein interactions based on the under...

With ever increasing amount of available data on protein-protein interaction (PPI) networks and research revealing that these networks evolve at a modular level, discovery of conserved patterns in these networks becomes an important problem. Recent algorithms on aligning PPI networks target simplified structures such as conserved pathways to render these problems computationally tractable. Howe...