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Amino Acids

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Effect of feeding rumen-protected methionine on productive and reproductive performance of dairy cows.

PloS one
The objectives of this study were to evaluate the effects of daily top-dressing (individually feeding on the top of the total mixed ration) with rumen-protected methionine (RPM) from 30 ± 3 until 126 ± 3 Days in milk on productive and reproductive pe...

Utilizing knowledge base of amino acids structural neighborhoods to predict protein-protein interaction sites.

BMC bioinformatics
BACKGROUND: Protein-protein interactions (PPI) play a key role in an investigation of various biochemical processes, and their identification is thus of great importance. Although computational prediction of which amino acids take part in a PPI has b...

Microwave assisted dehydration of broccoli by-products and simultaneous extraction of bioactive compounds.

Food chemistry
Broccoli by-products from frozen-food industry account for 45% of the initial broccoli heads. They consist on stalks, inflorescences, and leaves, blanched and non-blanched, sharing the nutritional value and bioactive compounds of commercial broccoli ...

Glypre: In Silico Prediction of Protein Glycation Sites by Fusing Multiple Features and Support Vector Machine.

Molecules (Basel, Switzerland)
Glycation is a non-enzymatic process occurring inside or outside the host body by attaching a sugar molecule to a protein or lipid molecule. It is an important form of post-translational modification (PTM), which impairs the function and changes the ...

Prediction of protein subcellular localization with oversampling approach and Chou's general PseAAC.

Journal of theoretical biology
Predicting protein subcellular location with support vector machine has been a popular research area recently because of the dramatic explosion of bioinformation. Though substantial achievements have been obtained, few researchers considered the prob...

Machine Learning on Signal-to-Noise Ratios Improves Peptide Array Design in SAMDI Mass Spectrometry.

Analytical chemistry
Emerging peptide array technologies are able to profile molecular activities within cell lysates. However, the structural diversity of peptides leads to inherent differences in peptide signal-to-noise ratios (S/N). These complex effects can lead to p...

Prediction of lysine propionylation sites using biased SVM and incorporating four different sequence features into Chou's PseAAC.

Journal of molecular graphics & modelling
Lysine propionylation is an important and common protein acylation modification in both prokaryotes and eukaryotes. To better understand the molecular mechanism of propionylation, it is important to identify propionylated substrates and their corresp...

FFLUX: Transferability of polarizable machine-learned electrostatics in peptide chains.

Journal of computational chemistry
The fully polarizable, multipolar, and atomistic force field protein FFLUX is being built from machine learning (i.e., kriging) models, each of which predicts an atomic property. Each atom of a given protein geometry needs to be assigned such a krigi...

Toward amino acid typing for proteins in FFLUX.

Journal of computational chemistry
Continuing the development of the FFLUX, a multipolar polarizable force field driven by machine learning, we present a modern approach to atom-typing and building transferable models for predicting atomic properties in proteins. Amino acid atomic cha...

Predicting Protein-Protein Interaction Sites Using Sequence Descriptors and Site Propensity of Neighboring Amino Acids.

International journal of molecular sciences
Information about the interface sites of Protein-Protein Interactions (PPIs) is useful for many biological research works. However, despite the advancement of experimental techniques, the identification of PPI sites still remains as a challenging tas...