AIMC Topic: Lysine

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DeepHisCoM: deep learning pathway analysis using hierarchical structural component models.

Briefings in bioinformatics Sep 20, 2022
Many statistical methods for pathway analysis have been used to identify pathways associated with the disease along with biological factors such as genes and proteins. However, most pathway analysis methods neglect the complex nonlinear relationship ...
Gonadotropin-Releasing Hormone Tryptophan Isoleucine Carcinoma, Hepatocellular Mitogen-Activated Protein Kinases Lysine Tyrosine Biological Factors Valine Phenylalanine Leucine Humans Deep Learning Liver Neoplasms COVID-19
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Adapt-Kcr: a novel deep learning framework for accurate prediction of lysine crotonylation sites based on learning embedding features and attention architecture.

Briefings in bioinformatics Mar 10, 2022
Protein lysine crotonylation (Kcr) is an important type of posttranslational modification that is associated with a wide range of biological processes. The identification of Kcr sites is critical to better understanding their functional mechanisms. H...
Neural Networks, Computer Databases, Factual Reproducibility of Results Deep Learning Software Algorithms Lysine Computational Biology User-Computer Interface Protein Processing, Post-Translational ROC Curve Phosphorylation
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BERT-Kcr: prediction of lysine crotonylation sites by a transfer learning method with pre-trained BERT models.

Bioinformatics (Oxford, England) Jan 12, 2022
MOTIVATION: As one of the most important post-translational modifications (PTMs), protein lysine crotonylation (Kcr) has attracted wide attention, which involves in important physiological activities, such as cell differentiation and metabolism. Howe...
Natural Language Processing Lysine Language Protein Processing, Post-Translational Machine Learning
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Deep-Kcr: accurate detection of lysine crotonylation sites using deep learning method.

Briefings in bioinformatics Jul 20, 2021
As a newly discovered protein posttranslational modification, histone lysine crotonylation (Kcr) involved in cellular regulation and human diseases. Various proteomics technologies have been developed to detect Kcr sites. However, experimental approa...
Lysine Sequence Analysis, Protein Crotonates Acylation Deep Learning Protein Processing, Post-Translational Databases, Protein Humans
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Deep learning based prediction of reversible HAT/HDAC-specific lysine acetylation.

Briefings in bioinformatics Sep 25, 2020
Protein lysine acetylation regulation is an important molecular mechanism for regulating cellular processes and plays critical physiological and pathological roles in cancers and diseases. Although massive acetylation sites have been identified throu...
Histone Deacetylases Deep Learning Internet Acetylation Lysine Datasets as Topic Humans Neoplasms
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Computational analysis and prediction of lysine malonylation sites by exploiting informative features in an integrative machine-learning framework.

Briefings in bioinformatics Nov 27, 2019
As a newly discovered post-translational modification (PTM), lysine malonylation (Kmal) regulates a myriad of cellular processes from prokaryotes to eukaryotes and has important implications in human diseases. Despite its functional significance, com...
Lysine Machine Learning Animals Humans Malonates Computational Biology
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Large-scale comparative assessment of computational predictors for lysine post-translational modification sites.

Briefings in bioinformatics Nov 27, 2019
Lysine post-translational modifications (PTMs) play a crucial role in regulating diverse functions and biological processes of proteins. However, because of the large volumes of sequencing data generated from genome-sequencing projects, systematic id...
Algorithms Computational Biology Machine Learning Lysine Protein Processing, Post-Translational Feasibility Studies
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LncRNA ontology: inferring lncRNA functions based on chromatin states and expression patterns.

Oncotarget Nov 24, 2015
Accumulating evidences suggest that long non-coding RNAs (lncRNAs) perform important functions. Genome-wide chromatin-states area rich source of information about cellular state, yielding insights beyond what is typically obtained by transcriptome pr...
HeLa Cells Cell Line, Tumor Methylation Gene Regulatory Networks Histones Models, Genetic Promoter Regions, Genetic Gene Ontology Cell Line Hep G2 Cells RNA, Long Noncoding Chromatin RNA, Messenger Lysine Transcription Initiation Site Cells, Cultured Humans K562 Cells Neoplasms Algorithms Gene Expression Profiling
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