I run, co-ordinated and/or participated in the following grants:
WebTetrado is a computational server for identification and classification of tetrads and quadruplexes.
RNArefiner is a computational server for refinement of stereochemical properties of RNA 3D structures.
RNAloops is a database of n-way junctions identified in PDB-deposited RNA 3D structures.
RNA-Puzzles Toolkit is a computational resource of RNA 3D structure benchmark datasets, assessment metrics and structure manipulation tools.
RNAfitme is a webserver to reconstruct full-atomic RNA 3D structure based on sequence and fixed sugar-phopshate backbone, remodel the 3D structure, and reduce steric clashes.
RNAvista is a webserver to assess RNA secondary structure with non-canonical base pairs based on user-provided sequence or secondary structure containing canonical base pairs only.
RNA QUality Assessment tool (RNAQUA) is RESTful web service client developed in Java providing a set of web services designed initially for RNAssess to support quality assessment of RNA 3D structures.
Tool was published in the public repository on GitHub. To play with it please download its binary and a set of proposed use cases included in the archive provided here.
A tool for identification and structural comparison of a local, contacts-based structural motives, called descriptors. The descriptors can be built on unmodified residues of the following biological molecules, namely proteins and RNAs. Both PDB and CIF formats are supported.
RNApolis is a flagship of RNA bioinformatics group carrying out the research in ECBiG. This portal collects the most important information about computational tools dedicated to RNA analysis developed by the group, and allows to enter them directly from one place.
RNAssess is a novel webserver dedicated to visual evaluation of RNA 3D models in the context of known reference structure for a wide range of accuracy levels (from atomic to the whole molecule perspective).
RNApdbee 2.0 is a webserver that allows to annotate secondary structures of knotted and unknotted RNAs. The secondary structure of RNA, encoded in dot-bracket, BPSEQ and CT together with a graphical image, can be derived from its tertiary structure provided in pdb file or from base-pair list provided in BPSEQ or CT.
The RNAComposer system offers a new user-friendly approach to the fully automated prediction of large RNA 3D structures. The method is based on the machine translation principle and operates on the RNA FRABASE database acting as the dictionary relating RNA secondary structure and tertiary structure elements.
The RNAlyzer is a computational method for comparison of RNA 3D models with the reference structure and for discrimination between the correct and incorrect ones.
The SphereGrinder provides the research community with a freely available and easy to use software tool for comprehensive quality inspection conducted between the set of predicted protein models and the reference structure.
Front end theme by Minimalistic Design ported by Netbox AS. razorCMS : flat file CMS (2012)
