Poonam Mahapatra
Bioinformatics Researcher
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BUSCA: an integrative web server to predict subcellular localization of proteins
By BioStar 2117 days agobusca.biocomp.unibo.it - BUSCA (Bologna Unified Subcellular Component Annotator) is a web-server for predicting protein subcellular localization. BUSCA integrates different tools to predict localization-related protein features (DeepSig, TPpred3, PredGPI and ENSEMBLE3.0) as...
Binding Site Prediction in Protein !
Last updated 2406 days ago by Poonam MahapatraThe interaction between proteins and other molecules is fundamental to all biological functions. In this section we include tools that can assist in prediction of interaction sites on protein surface and tools for predicting the structure of the...STRUM: structure-based prediction of protein stability changes upon single-point mutation
By BioStar 2267 days agozhanglab.ccmb.med.umich.edu - STRUM is a method for predicting the fold stability change (ΔΔG) of protein molecules upon single-point nsSNP mutations. STRUM adopts a gradient boosting regression approch to train the Gibbs free-energy changes on a variety of features...-
List of In-silico Binding Site Prediction Tools
Last updated 3948 days ago by Shikha LogwaniFollowing are the list of In-silico Binding Site Prediction in Proteins tools CASTp : http://sts.bioengr.uic.edu/castp/ Computed Atlas of Surface Topography of proteins (CASTp) provides an online resource for locating, delineating and... -
Tools for Protein-Protein Docking !
Last updated 2406 days ago by Poonam MahapatraPredicting the structure of protein–protein complexes using docking approaches is a difficult problem whose major challenges include identifying correct solutions, and properly dealing with molecular flexibility and conformational changes.... JPred4: A Protein Secondary Structure Prediction Server
By Poonam Mahapatra 2522 days agowww.compbio.dundee.ac.uk - JPred4 (http://www.compbio.dundee.ac.uk/jpred4) is the latest version of the popular JPred protein secondary structure prediction server which provides predictions by the JNet algorithm, one of the most accurate methods for secondary structure...GeneValidator - Identify problems with predicted genes
By Poonam Mahapatra 3013 days agogithub.com - GeneValidator helps in identifing problems with gene predictions and provide useful information extracted from analysing orthologs in BLAST databases. The results produced can be used by biocurators and researchers who need accurate gene...RNAcon: web-server for the prediction and classification of non-coding RNAs
By Shruti Paniwala 2688 days agocrdd.osdd.net - RNAcon is a web-server for the prediction and classification of non-coding RNAs. It uses SVM-based model for the discrimination between coding and ncRNAs and RandomForest-based prediction model for the classification of ncRNAs into different...PHD SCHOLARSHIP DENMARK
ne PhD position is available at the Bioinformatics Center, Department of Biology, University of Copenhagen, Denmark. The PhD position concerns protein structure prediction, and will be in the Structural Bioinformatics group of Associate professor...Gblocks: eliminates poorly aligned positions and divergent regions of a DNA or protein alignment
By Poonam Mahapatra 2368 days agomolevol.cmima.csic.es - Gblocks eliminates poorly aligned positions and divergent regions of a DNA or protein alignment so that it becomes more suitable for phylogenetic analysis. This server implements the most important features of the Gblocks program to make its...
