Current Apps

  • BEACON - automated tool for Bacterial gEnome Annotation ComparisON

  • CMsearch - CMsearch is a protein homology detection method that simultaneously explore protein sequence space and protein structure space by cross-modal learning.

  • Dragon PolyA Spotter (DPS) - This is a predictor of poly(A) motifs within human genomic DNA sequences.

  • Dragon Translation initiation site Spotter (DTS) - This application predicts Translation Initiation Sites (TISs) in Arabidopsis genomic sequences provided in fasta format.

  • Histone Modification in Cancer (HMCan) - This  is a set of methods to analayze ChIP-seq data obtained from cancer samples.

  • Hot Spot Prediction - Accurate prediction of hot spot residues through physicochemical characteristics of amino acid sequences

  • miRNAVISA - Explores miRNA families for hypotheses generation

  • Omni-PolyA - A method for accurate recognition of poly(A) signals in human genomic DNA.

  • PhenomeNET Variant Predictor - A phenotype-based tool to annotate and prioritize disease variants in WES and WGS data

  • Predict poly(A) motifs in human DNA sequence - The program is able to predict the 12 main variants of human poly(A) motifs, i.e., AATAAA, ATTAAA, AAAAAG, AAGAAA, TATAAA, AATACA, AGTAAA, ACTAAA, GATAAA, CATAAA, AATATA, and AATAGA.

  • Predict protein-DNA binding affinity - Our method trains a two-round support vector regression model for predicting protein-DNA binding affinity

  • PROSTA-inter - This is a sequence-order independent alignment tool that automatically determines and aligns interaction interfaces between two arbitrary types of complex structures (protein-protein, protein-DNA, and/or protein-RNA).

  • TELS - Transcribed Enhancer Landscape Search 

  • 13CSSForming - forms spin systems using 13C labeled NMR spectra, i.e., CBCACON and CBCANCO
  • AberOWL - a framework for ontology-based access to biological data

  • Dragon Extractor of Methylated Genes in Diseases -

  • DASPfind - predicts new Drug-Target interactions from a network that encodes information about the known Drug-Target interactions, similarities between the drugs and similarities between targets

  • DeepGO - predicts protein functions using protein sequences and protein-protein interaction (PPI) networks

  • DPubChem:  predicts biological activities of chemicals/drugs based on high-throughput screening assays

  • iDTP - enables the large-scale discovery of new targets for small molecules, such as pharmaceutical drugs, co-factors and metabolite

  • Onto2Graph - generates graphs in different formats from ontologies

  • OntoFUNC - supports ontology enrichment analysis with OWL reasoning over arbitrary OWL ontologies

  • ACRE -  absolute concentration robustness exploration in module-based networks

  • Dragon TF-TcoF Classifier - predicts and assigns a functional class of a protein that binds a transcription factor (TF)

  • Drug-Target Interaction tool (DDR) -  predicts drug target interactions using multiple similarities

  • ElVira - an ontology modularization tool

  • Gracob - a graph-based biclustering method that is designed to find maximal constant-column biclusters in any given two-dimensional data matrix, particularly growth phenotype data in which each row represents a gene deletion strain and each column represents a stress condition

  • NMR slice picking and resonance assignment - This toos has two components, one for NMR slice picking and the other one for resonance assignment based on picked sliced

  • PEDAL - discriminative identification of transcriptional responses of promoters and enhancers after stimulus (NAR)

  • PEDI - parameter Estimation by Decomposition and Integration

  • Walking RDF and OWL - feature learning on knowledge graphs and ontologies