Large‐scale prediction of disulphide bridges using kernel methods, two‐dimensional recursive neural networks, and weighted graph matching

J Cheng, H Saigo, P Baldi - Proteins: Structure, Function, and …, 2006 - Wiley Online Library
The formation of disulphide bridges between cysteines plays an important role in protein
folding, structure, function, and evolution. Here, we develop new methods for predicting …

Large-scale prediction of disulphide bond connectivity

J Cheng, A Vullo, P Baldi - Advances in neural information …, 2004 - proceedings.neurips.cc
The formation of disulphide bridges among cysteines is an important fea-ture of protein
structures. Here we develop new methods for the predic-tion of disulphide bond connectivity …

Disulfide connectivity prediction using recursive neural networks and evolutionary information

A Vullo, P Frasconi - Bioinformatics, 2004 - academic.oup.com
Motivation: We focus on the prediction of disulfide bridges in proteins starting from their
amino acid sequence and from the knowledge of the disulfide bonding state of each …

Disulfide connectivity prediction with 70% accuracy using two‐level models

BJ Chen, CH Tsai, C Chan… - … : Structure, Function, and …, 2006 - Wiley Online Library
Disulfide bridges stabilize protein structures covalently and play an important role in protein
folding. Predicting disulfide connectivity precisely helps towards the solution of protein …

Disulfide connectivity prediction using secondary structure information and diresidue frequencies

F Ferrè, P Clote - Bioinformatics, 2005 - academic.oup.com
Motivation: We describe a stand-alone algorithm to predict disulfide bond partners in a
protein given only the amino acid sequence, using a novel neural network architecture (the …

Improving the accuracy of predicting disulfide connectivity by feature selection

L Zhu, J Yang, JN Song, KC Chou… - Journal of …, 2010 - Wiley Online Library
Disulfide bonds are primary covalent cross‐links formed between two cysteine residues in
the same or different protein polypeptide chains, which play important roles in the folding …

Prediction of disulfide connectivity in proteins

P Fariselli, R Casadio - Bioinformatics, 2001 - academic.oup.com
Motivation: A major problem in protein structure predictionis the correct location of disulfide
bridges in cysteine-rich proteins. In protein-folding prediction, the location of disulfide …

Accurate disulfide-bonding network predictions improve ab initio structure prediction of cysteine-rich proteins

J Yang, BJ He, R Jang, Y Zhang, HB Shen - Bioinformatics, 2015 - academic.oup.com
Motivation: Cysteine-rich proteins cover many important families in nature but there are
currently no methods specifically designed for modeling the structure of these proteins. The …

DiANNA: a web server for disulfide connectivity prediction

F Ferrè, P Clote - Nucleic acids research, 2005 - academic.oup.com
Correctly predicting the disulfide bond topology in a protein is of crucial importance for the
understanding of protein function and can be of great help for tertiary prediction methods …

Predicting disulfide bond connectivity in proteins by correlated mutations analysis

R Rubinstein, A Fiser - Bioinformatics, 2008 - academic.oup.com
Motivation: Prediction of disulfide bond connectivity facilitates structural and functional
annotation of proteins. Previous studies suggest that cysteines of a disulfide bond mutate in …