ThreaDomEx: a unified platform for predicting continuous and discontinuous protein domains by multiple-threading and segment assembly

DFLpred: High-throughput prediction of disordered flexible linker regions in protein sequences

(2016) Fanchi Meng et al.   BIOINFORMATICS

Structure of the catalytic domain of the colistin resistance enzyme MCR-1

(2016) Vlatko Stojanoski et al.   BMC BIOLOGY

Modeling Protein Excited-state Structures from “Over-length” Chemical Cross-links

(2016) Yue-He Ding et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Computational Inferences of the Functions of Alternative/Noncanonical Splice Isoforms Specific to HER2+/ER–/PR– Breast Cancers, a Chromosome 17 C-HPP Study

(2015) Rajasree Menon et al.   JOURNAL OF PROTEOME RESEARCH

GPCR-I-TASSER: A Hybrid Approach to G Protein-Coupled Receptor Structure Modeling and the Application to the Human Genome

(2015) Jian Zhang et al.   STRUCTURE

Extending Protein Domain Boundary Predictors to Detect Discontinuous Domains

(2015) Zhidong Xue et al.   PLoS One

H-DROP: an SVM based helical domain linker predictor trained with features optimized by combining random forest and stepwise selection

(2014) Teppei Ebina et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

ThreaDom: extracting protein domain boundary information from multiple threading alignments

(2013) Zhidong Xue et al.   BIOINFORMATICS

Interplay of I-TASSER and QUARK for template-based and ab initio protein structure prediction in CASP10

(2013) Yang Zhang   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A comparative assessment and analysis of 20 representative sequence alignment methods for protein structure prediction

(2013) Renxiang Yan et al.   Scientific Reports

DoBo: Protein domain boundary prediction by integrating evolutionary signals and machine learning

(2011) Jesse Eickholt et al.   BMC BIOINFORMATICS

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

DROP: an SVM domain linker predictor trained with optimal features selected by random forest

(2010) Teppei Ebina et al.   BIOINFORMATICS

Loop-length-dependent SVM prediction of domain linkers for high-throughput structural proteomics

(2008) Teppei Ebina et al.   BIOPOLYMERS

Progress and challenges in protein structure prediction

(2008) Yang Zhang   CURRENT OPINION IN STRUCTURAL BIOLOGY

DomNet: Protein Domain Boundary Prediction Using Enhanced General Regression Network and New Profiles

(2008) Paul D. Yoo et al.   IEEE TRANSACTIONS ON NANOBIOSCIENCE

OPUS-Dom: Applying the Folding-Based Method VECFOLD to Determine Protein Domain Boundaries

(2008) Yinghao Wu et al.   JOURNAL OF MOLECULAR BIOLOGY

FIEFDom: a transparent domain boundary recognition system using a fuzzy mean operator

(2008) R. Bondugula et al.   NUCLEIC ACIDS RESEARCH

MUSTER: Improving protein sequence profile-profile alignments by using multiple sources of structure information

(2008) Sitao Wu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS