Ramanathan Sowdhamini

According to our database1, Ramanathan Sowdhamini authored at least 47 papers between 2002 and 2016.

Collaborative distances:
  • Dijkstra number2 of five.
  • Erdős number3 of four.



In proceedings 
PhD thesis 


On csauthors.net:


PASS2 database for the structure-based sequence alignment of distantly related SCOP domain superfamilies: update to version 5 and added features.
Nucleic Acids Research, 2016

RStrucFam: a web server to associate structure and cognate RNA for RNA-binding proteins from sequence information.
BMC Bioinformatics, 2016

Rapid and enhanced remote homology detection by cascading hidden Markov model searches in sequence space.
Bioinformatics, 2016

Interpreting functional effects of coding variants: challenges in proteome-scale prediction, annotation and assessment.
Briefings in Bioinformatics, 2016

NrichD database: sequence databases enriched with computationally designed protein-like sequences aid in remote homology detection.
Nucleic Acids Research, 2015

DOCKSCORE: a webserver for ranking protein-protein docked poses.
BMC Bioinformatics, 2015

SInCRe - structural interactome computational resource for Mycobacterium tuberculosis.
Database, 2015

Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat.
Database, 2015

LenVarDB: database of length-variant protein domains.
Nucleic Acids Research, 2014

ECMIS: computational approach for the identification of hotspots at protein-protein interfaces.
BMC Bioinformatics, 2014

3PFDB+: improved search protocol and update for the identification of representatives of protein sequence domain families.
Database, 2014

Structural updates of alignment of protein domains and consequences on evolutionary models of domain superfamilies.
BioData Mining, 2013

PASS2 version 4: An update to the database of structure-based sequence alignments of structural domain superfamilies.
Nucleic Acids Research, 2012

Functional repertoire, molecular pathways and diseases associated with 3D domain swapping in the human proteome.
J. Clinical Bioinformatics, 2012

Re-visiting protein-centric two-tier classification of existing DNA-protein complexes.
BMC Bioinformatics, 2012

Search for Protein Sequence Homologues that Display Considerable Domain Length Variations.
IJKDB, 2011

PASS2: A Database of Structure-Based Sequence Alignments of Protein Structural Domain Superfamilies.
IJKDB, 2011

3DSwap: curated knowledgebase of proteins involved in 3D domain swapping.
Database, 2011

Critical assessment of structure-based sequence alignment methods at distant relationships.
Briefings in Bioinformatics, 2011

A Three-Step Validation Following Genome-Wide Data Mining for Myosin Family Members Improves Search Efficiency.
Proceedings of the Data Mining Workshops (ICDMW), 2011

Mining Protein Sequence Databases for Remote Homologues That Can Display Considerable Domain Length Variations.
Proceedings of the Data Mining Workshops (ICDMW), 2011

Poster: HORIBALFRE: Higher Order Residue Interactions Based ALgorithm for Fold REcognition.
Proceedings of the IEEE 1st International Conference on Computational Advances in Bio and Medical Sciences, 2011

HORI: a web server to compute Higher Order Residue Interactions in protein structures.
BMC Bioinformatics, 2010

PeptideMine - A webserver for the design of peptides for protein-peptide binding studies derived from protein-protein interactomes.
BMC Bioinformatics, 2010

A Sequence Data Mining Protocol to Identify Best Representative Sequence for Protein Domain Families.
Proceedings of the ICDMW 2010, 2010

3PFDB - A database of Best Representative PSSM Profiles (BRPs) of Protein Families generated using a novel data mining approach.
BioData Mining, 2009

MegaMotifBase: a database of structural motifs in protein families and superfamilies.
Nucleic Acids Research, 2008

Sequence and Structural Analyses of Interleukin-8-Like Chemokine Superfamily.
In Silico Biology, 2008

PURE: A webserver for the prediction of domains in unassigned regions in proteins.
BMC Bioinformatics, 2008

A machine learning approach for the identification of odorant binding proteins from sequence-derived properties.
BMC Bioinformatics, 2007

SMotif: a server for structural motifs in proteins.
Bioinformatics, 2007

HARMONY: a server for the assessment of protein structures.
Nucleic Acids Research, 2006

iMOTdb - a comprehensive collection of spatially interacting motifs in proteins.
Nucleic Acids Research, 2006

Cascade PSI-BLAST web server: a remote homology search tool for relating protein domains.
Nucleic Acids Research, 2006

Enhanced Structure Prediction of Gene Products Containing Class III Adenylyl Cyclase Domains.
In Silico Biology, 2006

SSToSS - Sequence-Structural Templates of Single-Member Superfamilies.
In Silico Biology, 2006

GenDiS: Genomic Distribution of protein structural domain Superfamilies.
Nucleic Acids Research, 2005

DIAL: a web-based server for the automatic identification of structural domains in proteins.
Nucleic Acids Research, 2005

SCANMOT: searching for similar sequences using a simultaneous scan of multiple sequence motifs.
Nucleic Acids Research, 2005

FASSM: Enhanced Function Association in Whole Genome Analysis Using Sequence and Structural Motifs.
In Silico Biology, 2005

SDBASE: a consortium of native and modelled disulphide bonds in proteins.
Nucleic Acids Research, 2004

iMOT: an interactive package for the selection of spatially interacting motifs.
Nucleic Acids Research, 2004

Improvement of alignment accuracy utilizing sequentially conserved motifs.
BMC Bioinformatics, 2004

PASS2: an automated database of protein alignments organised as structural superfamilies.
BMC Bioinformatics, 2004

DDBASE2.0: updated domain database with improved identification of structural domains.
Bioinformatics, 2003

SUPFAM - a database of potential protein superfamily relationships derived by comparing sequence-based and structure-based families: implications for structural genomics and function annotation in genomes.
Nucleic Acids Research, 2002

PASS2: a semi-automated database of Protein Alignments Organised as Structural Superfamilies.
Nucleic Acids Research, 2002