Servers developed and maintained by Hungarian bioinformaticians

AmphoraNet

AmphoraNet

Description:
The webserver implementation of the AMPHORA2 workflow for phylogenetic analysis of metagenomic shotgun sequencing data and genomic data
Developer(s):
Csaba Kerepesi, Dániel Bánky and Vince Grolmusz
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
AmphoraVizu

AmphoraVizu

Description:
Chart visualization for the metagenomic and genomic analysis tools AMPHORA2 and AmphoraNet.
Developer(s):
Kerepesi Csaba és Szalkai Balázs
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
ANCHOR

Anchor: Prediction of Protein Binding Regions in Disordered Proteins

Description:
ANCHOR aims to predict binding regions in proteins that are disordered in isolation but can undergo a disorder-to-order transition upon binding to a structured protein partner. The approach is based on the energy estimation method and it uses a single amino acid sequence as an input.
Developer(s):
Zsuzsanna Dosztányi and Bálint Mészáros
Institute(s):
Institute of Enzymology, RCNS, HAS
BiSearch

BiSearch: a primer-design algorithm for DNA sequences

Description:
BiSearch is a primer-design algorithm for DNA sequences. It may be used for both bisulfite converted as well as for original not modified sequences. Users can search various genomes with the designed primers to avoid non-specific PCR products.
Developer(s):
Gábor Tusnády és Tamás Arányi
Institute(s):
Institute of Enzymology, RCNS, HAS
BRCS

Budapest Reference Connectome Server

Description:
Budapest Reference Connectome is a parametrizable consensus brain graph of 477 subjects, computed from MRI datasets of the Human Connectome Project.
Developer(s):
Balázs Szalkai, Csaba Kerepesi, Bálint Varga and Vince Grolmusz
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
Brownian Motion Simu

Brownian Motion Simulator

Description:
Estimating the minimum passage time and docking ratio of nanoparticles to a specified target.
Developer(s):
Dániel Bánky, Árpád Tóth and Vince Grolmusz
Institute(s):
Uratim Kft. & ELTE Eötvös Loránd University, PIT Bioinformatics Group
CCTOP

CCTOP: Constrained Consensus TOPology prediction server

Description:
CCTOP predicts the topology of transmembrane proteins by using the consensus of 10 different methods enchanced with available structural and experimental information of any homologous proteins in the TOPDB database.
Developer(s):
László Dobson, István Reményi and Gábor Tusnády
Institute(s):
Institute of Enzymology, RCNS, HAS
CMWeb

CMWeb: Contact Map WebViewer

Description:
Contact Map WebViewer (or shortly, CMWeb) is an online tool for studying basic properties of residue-residue contact formation and contact clusters.
Developer(s):
Gábor Tusnády and Dániel Kozma
Institute(s):
Institute of Enzymology, RCNS, HAS
DECOMP

DECOMP

Description:
The program automatically decomposes the PDB entries into ligands, ions and co-factors, and repairs the inconsistencies in the PDB files.
Developer(s):
Rafael Ördög, Zoltán Szabadka and Vince Grolmusz
Institute(s):
Uratim Kft. & ELTE PIT Bioinformatics Group
HMMTOP

HMMTOP: Prediction of transmembrane helices and topology of proteins

Description:
HMMTOP predicts topology of transmembrane proteins (i.e. number and positions of transmembrane helices in the amino acid sequences, and the orientation of sequence parts between helices relative to the membrane). It utilizes an unsupervised learning algorithm for the prediction and uses amino acid sequence as input.
Developer(s):
Gábor Tusnády
Institute(s):
Institute of Enzymology, RCNS, HAS
IUPred

IUPred: Prediction of Intrinsically Unstructured Proteins

Description:
Intrinsically unstructured / disordered proteins have no single well-defined tertiary structure in their native, functional state. Our server recognizes such regions from the amino acid sequence based on the estimated pairwise energy content.
Developer(s):
Zsuzsanna Dosztányi
Institute(s):
Institute of Enzymology, RCNS, HAS
MetaHMM

MetaHMM

Description:
The program finds genes in metagenomes, using Hidden Markov Models. MetaHMM takes multiple UniProt protein accession numbers, and searches for similar genes in a metagenome. It works by building a Hidden Markov Model on the aligned sequences.
Developer(s):
Balázs Szalkai
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
Nascent

Nascent

Description:
Nascent is a protein-protein physical interaction network construction tool based on gene names and sequence similarity.
Developer(s):
Dániel Bánky, Rafael Ördög and Vince Grolmusz
Institute(s):
Uratim Kft. & ELTE PIT Bioinformatics Group
PSA

Protein Sequence Analysis

Description:
PSA finds proteins which contain a given amino acid sequence, using a computer-game like intutive interface, which supports easy multiple choice queries.
Developer(s):
Dániel Bánky, Balázs Szalkai and Vince Grolmusz
Institute(s):
Uratim Kft. & ELTE PIT Bioinformatics Group
QuickKEGG

QuickKEGG

Description:
Developer(s):
Gábor Iván and Rafael Ördög and Dániel Bánky
Institute(s):
Uratim Kft. & ELTE PIT Bioinformatics Group
SCARF

SCARF

Description:
SCARF (Simple Combinatorial Association Rule Finder) is an online tool for finding combinatorial association rules in databases.
Developer(s):
Balázs Szalkai
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
SRide

SRide: Identification of Stabilizing Residues in proteins

Description:
SRide identifies residues expected to play key roles in the stabilization of proteins.
Developer(s):
Csaba Magyar
Institute(s):
Institute of Enzymology, RCNS, HAS
SwissAlign

SwissAlign

Description:
SwissAlign is a fast Smith-Waterman protein sequence aligner.
Developer(s):
Gábor Iván and Dániel Bánky and Vince Grolmusz
Institute(s):
ELTE PIT Bioinformatics Group & Uratim Kft.
TMDET

TMDET: Detection of transmembrane regions by using 3D structure of proteins

Description:
TMDET is an online tool for the detection of the transmembrane regions of membrane proteins by using their 3D structure only.
Developer(s):
Gábor Tusnády and Zsuzsanna Dosztányi
Institute(s):
Institute of Enzymology, RCNS, HAS
TMFoldWeb

TMFoldWeb: A web server for recognizing the fold of the membrane segments of transmembrane proteins

Description:
TMFoldWeb is a web server for recognizing the fold of the membrane segments of transmembrane proteins based on statistical potentials and a topology filtering approach.
Developer(s):
Dániel Kozma and Gábor Tusnády
Institute(s):
Institute of Enzymology, RCNS, HAS