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Full-Text Articles in Life Sciences
Nucleosome Structure Incorporated Histone Acetylation Site Prediction In Arabidopsis Thaliana, Chen Zhao, Hui Liu, Youping Deng, Tieliu Shu
Nucleosome Structure Incorporated Histone Acetylation Site Prediction In Arabidopsis Thaliana, Chen Zhao, Hui Liu, Youping Deng, Tieliu Shu
Faculty Publications
Background
Acetylation is a crucial post-translational modification for histones, and plays a key role in gene expression regulation. Due to limited data and lack of a clear acetylation consensus sequence, a few researches have focused on prediction of lysine acetylation sites. Several systematic prediction studies have been conducted for human and yeast, but less for Arabidopsis thaliana.
Results
Concerning the insufficient observation on acetylation site, we analyzed contributions of the peptide-alignment-based distance definition and 3D structure factors in acetylation prediction. We found that traditional structure contributes little to acetylation site prediction. Identified acetylation sites of histones in Arabidopsis thaliana …
Global Protein Interactome Exploration Through Mining Genome-Scale Data In Arabidopsis Thaliana, Feng Xu, Guang Li, Chen Zhao, Yuhua Li, Peng Li, Jian Cui, Youping Deng, Tieliu Shi
Global Protein Interactome Exploration Through Mining Genome-Scale Data In Arabidopsis Thaliana, Feng Xu, Guang Li, Chen Zhao, Yuhua Li, Peng Li, Jian Cui, Youping Deng, Tieliu Shi
Faculty Publications
Background
Many essential cellular processes, such as cellular metabolism, transport, cellular metabolism and most regulatory mechanisms, rely on physical interactions between proteins. Genome-wide protein interactome networks of yeast, human and several other animal organisms have already been established, but this kind of network reminds to be established in the field of plant.
Results
We first predicted the protein protein interaction in Arabidopsis thaliana with methods, including ortholog, SSBP, gene fusion, gene neighbor, phylogenetic profile, coexpression, protein domain, and used Naïve Bayesian approach next to integrate the results of these methods and text mining data to build a genome-wide protein interactome …