T-RMSD: a web server for automated fine-grained protein structural classification
نویسندگان
چکیده
منابع مشابه
T-RMSD: a web server for automated fine-grained protein structural classification
This article introduces the T-RMSD web server (tree-based on root-mean-square deviation), a service allowing the online computation of structure-based protein classification. It has been developed to address the relation between structural and functional similarity in proteins, and it allows a fine-grained structural clustering of a given protein family or group of structurally related proteins...
متن کاملT-RMSD: a fine-grained, structure-based classification method and its application to the functional characterization of TNF receptors.
This study addresses the relation between structural and functional similarity in proteins. We introduce a novel method named tree based on root mean square deviation (T-RMSD), which uses distance RMSD (dRMSD) variations to build fine-grained structure-based classifications of proteins. The main improvement of the T-RMSD over similar methods, such as Dali, is its capacity to produce the equival...
متن کاملFine-Grained Genre Classification Using Structural Learning Algorithms
Prior use of machine learning in genre classification used a list of labels as classification categories. However, genre classes are often organised into hierarchies, e.g., covering the subgenres of fiction. In this paper we present a method of using the hierarchy of labels to improve the classification accuracy. As a testbed for this approach we use the Brown Corpus as well as a range of other...
متن کاملPSSweb: protein structural statistics web server
With the increasing number of protein structures available, there is a need for tools capable of automating the comparison of ensembles of structures, a common requirement in structural biology and bioinformatics. PSSweb is a web server for protein structural statistics. It takes as input an ensemble of PDB files of protein structures, performs a multiple sequence alignment and computes structu...
متن کاملIs Fine Grained Classification Different?
We performed experiments on two fine-grained classification tasks using a state-of-the-art pipeline (descriptor + dictionary + LLC encoding + max pooling + linear SVM). We found that this standard pipeline out-performed a dictionary-free classification technique (stacked evidence trees) that was specifically designed for fine-grained classification. The success of the method depends on two fact...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2013
ISSN: 1362-4962,0305-1048
DOI: 10.1093/nar/gkt383