Dr. Krishnakumar Kandaswamy

Photo of Dr. Krishnakumar  Kandaswamy

 

 

 

Postdoc
Max-Planck-Institut für Biologie des Alterns
Joseph-Stelzmann-Straße 9b
50931 Köln

Email:
Phone: +49 221 37970-0
Fax: +49 221 37970-800

Publikationen

2013

Krishna Kumar Kandaswamy, Ganesan Pugalenthi, Kai-Uwe Kalies, Enno Hartmann, and Thomas Martinetz,
Ecm{P}red: {P}rediction of extracellular matrix proteins based on random forest with maximum relevance minimum redundancy feature selection, Journal of {T}heoretical {B}iology , vol. 317, pp. 377--383, 2013.
Datei: KaPuKaHaMa13.pdf
Bibtex: BibTeX
@article{KaPuKaHaMa13,
author = {Krishna Kumar Kandaswamy and Ganesan Pugalenthi and Kai-Uwe Kalies and Enno Hartmann and Thomas Martinetz},
title = {Ecm{P}red: {P}rediction of extracellular matrix proteins based on random forest with maximum relevance minimum redundancy feature selection},
journal = {Journal of {T}heoretical {B}iology},
volume = {317},
pages = {377--383},
year = {2013},
url = {http://www.sciencedirect.com/science/article/pii/S0022519312005486},
url = {https://www.inb.uni-luebeck.de/fileadmin/files/publications/inb-publications/pdfs/KaPuKaHaMa13.pdf}
}

2011

Krishna Kumar Kandaswamy, Kuo-Chen Chou, Thomas Martinetz, Steffen Möller, P. N. Suganthan, S. Sridharan, and Ganesan Pugalenthi,
{AFP}-{P}red: {A} random forest approach for predicting antifreeze proteins from sequence-derived properties, Journal of Theoretical Biology , vol. 270, no. 1, pp. 56--62, 2011.
Bibtex: BibTeX
@article{KaChMaMoSuSrGa11,
author = {Krishna Kumar Kandaswamy and Kuo-Chen Chou and Thomas Martinetz and Steffen M{\"o}ller and P. N. Suganthan and S. Sridharan and Ganesan Pugalenthi},
title = {{AFP}-{P}red: {A} random forest approach for predicting antifreeze proteins from sequence-derived properties},
journal = {Journal of Theoretical Biology},
volume = {270},
number = {1},
pages = {56--62},
year = {2011}
}

Krishna Kumar Kandaswamy, Ganesan Pugalenthi, Mehrnaz Khodam Hazrati, Kai-Uwe Kalies, and Thomas Martinetz,
{BLP}rot: {P}rediction of bioluminescent proteins based on {S}upport {V}ector {M}achine and {R}elief feature selection, BMC Bioinformatics , 2011.
Datei: KrGaMeKaTh11.pdf
Bibtex: BibTeX
@article{KrGaMeKaTh11,
author = {Krishna Kumar Kandaswamy and Ganesan Pugalenthi and Mehrnaz Khodam Hazrati and Kai-Uwe Kalies and Thomas Martinetz},
title = {{BLP}rot: {P}rediction of bioluminescent proteins based on {S}upport {V}ector {M}achine and {R}elief feature selection},
journal = {BMC Bioinformatics},
year = {2011},
url = {https://www.inb.uni-luebeck.de/fileadmin/files/publications/inb-publications/pdfs/KrGaMeKaTh11.pdf}
}

Ganesan Pugalenthi, Krishna Kumar Kandaswamy, and Prasanna Kolatkar,
{RSARF}: {P}rediction of residue solvent accessibility from protein sequence using random forest method, Protein \& Peptide Letters , vol. 18, 2011.
Bibtex: BibTeX
@article{GaKrPr11,
author = {Ganesan Pugalenthi and Krishna Kumar Kandaswamy and Prasanna Kolatkar},
title = {{RSARF}: {P}rediction of residue solvent accessibility from protein sequence using random forest method},
journal = {Protein \& Peptide Letters},
note = {(to appear)},
volume = {18},
year = {2011}
}

Khader Shameer, Ganesan Pugalenthi, Krishna Kumar Kandaswamy, and Ramanathan Sowdhamini,
3dswap-pred: {P}rediction of {3D} {D}omain {S}wapping from {P}rotein {S}equence {U}sing {R}andom {F}orest {A}pproach, Protein \& Peptide Letters , vol. 18, 2011.
Bibtex: BibTeX
@article{KhGaKrRa11,
author = {Khader Shameer and Ganesan Pugalenthi and Krishna Kumar Kandaswamy and Ramanathan Sowdhamini},
title = {3dswap-pred: {P}rediction of {3D} {D}omain {S}wapping from {P}rotein {S}equence {U}sing {R}andom {F}orest {A}pproach},
journal = {Protein \& Peptide Letters},
volume = {18},
year = {2011}
}

2010

Ganesan Pugalenthi, Krishna Kumar Kandaswamy, P. N. Suganthan, R.Sowdhamini, Thomas Martinetz, and Prasanna Kolatkar,
{SMpred}: {A} {S}upport {V}ector {M}achine {A}pproach to {I}dentify {S}tructural {M}otifs in {P}rotein {S}tructure {W}ithout {U}sing {E}volutionary {I}nformation, Journal of Biomolecular Structure and Dynamics , vol. 28, no. 3, 2010.
Datei: PuKaSuSoMaKo10.pdf
Bibtex: BibTeX
@article{PuKaSuSoMaKo10,
author = {Ganesan Pugalenthi and Krishna Kumar Kandaswamy and P. N. Suganthan and R.Sowdhamini and Thomas Martinetz and Prasanna Kolatkar},
title = {{SMpred}: {A} {S}upport {V}ector {M}achine {A}pproach to {I}dentify {S}tructural {M}otifs in {P}rotein {S}tructure {W}ithout {U}sing {E}volutionary {I}nformation},
journal = {Journal of Biomolecular Structure and Dynamics},
volume = {28},
number = {3},
year = {2010},
url = {https://www.inb.uni-luebeck.de/fileadmin/files/publications/inb-publications/pdfs/PuKaSuSoMaKo10.pdf}
}

Krishna Kumar Kandaswamy, Ganesan Pugalenthi, Enno Hartmann, Kai-Uwe Kalies, Steffen Möller, P.N. Suganthan, and Thomas Martinetz,
{SPRED}: {A} machine learning approach for the identification of classical and non-classical secretory proteins in mammalian genomes, Biochemical and biophysical research communications , vol. 391, no. 3, pp. 1306--1311, 2010.
Datei: KaPuHaKaMoSuMa09.pdf
Bibtex: BibTeX
@article{KaPuHaKaMoSuMa10,
author = {Krishna Kumar Kandaswamy and Ganesan Pugalenthi and Enno Hartmann and Kai-Uwe Kalies and Steffen M{\"o}ller and P.N. Suganthan and Thomas Martinetz},
title = {{SPRED}: {A} machine learning approach for the identification of classical and non-classical secretory proteins in mammalian genomes},
journal = {Biochemical and biophysical research communications},
volume = {391},
number = {3},
pages = {1306--1311},
year = {2010},
url = {https://www.inb.uni-luebeck.de/fileadmin/files/publications/inb-publications/pdfs/KaPuHaKaMoSuMa09.pdf}
}

Krishna Kumar Kandaswamy, Ganesan Pugalenthi, P.N Suganthan, and Rajeev Gangal,
{SVMCRYS}: An {SVM} approach for the prediction of protein crystallization propensity from protein, Protein Peptide Letters , vol. 26, pp. 423--430, 2010.
Bibtex: BibTeX
@article{KrGaSuRa10,
author = {Krishna Kumar Kandaswamy and Ganesan Pugalenthi and P.N Suganthan and Rajeev Gangal},
title = {{SVMCRYS}: An {SVM} approach for the prediction of protein crystallization propensity from protein},
journal = {Protein Peptide Letters},
volume = {26},
pages = {423--430},
year = {2010}
}

Khader Shameer, Ganesan Pugalenthi, Krishna Kumar Kandaswamy, Ponnuthurai N. Suganthan, Govindaraju Archunan, and Ramanathan Sowdhamini,
Insights in to protein sequence and structure derived features mediating {3D} domain swapping mechanism using {S}upport {V}ector {M}achine based approach, Bioinformatics and Biology Insights , vol. 4, pp. 33--42, 2010.
Bibtex: BibTeX
@article{KhGaKrPoGoRa10,
author = {Khader Shameer and Ganesan Pugalenthi and Krishna Kumar Kandaswamy and Ponnuthurai N. Suganthan and Govindaraju Archunan and Ramanathan Sowdhamini},
title = {Insights in to protein sequence and structure derived features mediating {3D} domain swapping mechanism using {S}upport {V}ector {M}achine based approach},
journal = {Bioinformatics and Biology Insights},
volume = {4},
pages = {33--42},
year = {2010}
}

Krishna Kumar Kandaswamy, Ganesan Pugalenthi, Steffen Möller, Enno Hartmann, Kai-Uwe Kalies, P.N.Suganthan, and Thomas Martinetz,
Prediction of apoptosis protein locations with {G}enetic {A}lgorithms and {S}upport {V}ector {M}achines through a new mode of pseudo amino acid composition, Protein Peptide Letters , vol. 17, pp. 1473--1479, 2010.
Bibtex: BibTeX
@article{KaPuMoHaKaSuMa10,
author = {Krishna Kumar Kandaswamy and Ganesan Pugalenthi and Steffen M{\"o}ller and Enno Hartmann and Kai-Uwe Kalies and P.N.Suganthan and Thomas Martinetz},
title = {Prediction of apoptosis protein locations with {G}enetic {A}lgorithms and {S}upport {V}ector {M}achines through a new mode of pseudo amino acid composition},
journal = {Protein Peptide Letters},
pages = {1473--1479},
volume = {17},
year = {2010}
}

2009

K. Krishna Kumar, Ganesan Pugalenthi, and P.N. Suganthan,
Identification of {DNA} binding proteins from protein sequence information using random forest method, Journal of Biomolecular Structure and Dynamics , vol. 26, pp. 663--895, 2009.
Bibtex: BibTeX
@article{KrGaSu09,
author = {K. Krishna Kumar and Ganesan Pugalenthi and P.N. Suganthan},
title = {Identification of {DNA} binding proteins from protein sequence information using random forest method},
journal = {Journal of Biomolecular Structure and Dynamics},
volume = {26},
pages = {663--895},
year = {2009}
}

2008

Ganesan Pugalenthi, K. Krishna Kumar, P.N. Suganthan, and Rajeev Gangal,
Identification of catalytic residues from protein structure using {S}upport {V}ector {M}achine with sequence and structural features, Biochemical and Biophysical Research Communications , vol. 367, pp. 630--634, 2008.
Bibtex: BibTeX
@article{GaKrSuRa08,
author = {Ganesan Pugalenthi and K. Krishna Kumar and P.N. Suganthan and Rajeev Gangal},
title = {Identification of catalytic residues from protein structure using {S}upport {V}ector {M}achine with sequence and structural features},
journal = {Biochemical and Biophysical Research Communications},
volume = {367},
pages = {630--634},
year = {2008}
}

2007

Rajeev Gangal, and K. Krishna Kumar,
Reduced {A}lphabet {M}otif {M}ethodology for {GPCR} annotation, Journal of Biomolecular Structure and Dynamics , vol. 25, pp. 299--310, 2007.
Bibtex: BibTeX
@article{RaKr07,
 author = {Rajeev Gangal and K. Krishna Kumar},
title = {Reduced {A}lphabet {M}otif {M}ethodology for {GPCR} annotation},
journal = {Journal of Biomolecular Structure and Dynamics},
volume = {25},
pages = {299--310},
year = {2007}
}

Piyushkumar Mundra, Madhan Kumar, K. Krishna Kumar, Valadi K. Jayaraman, and Bhaskar D. Kulkarni,
Using {P}seudo {A}mino {A}cid {C}omposition to {P}redict {P}rotein {S}ub nuclear {L}ocalization: {A}pproached with {PSSM}, Pattern Recognition Letters , vol. 28, no. 4, pp. 1610--1615, 2007.
Bibtex: BibTeX
@article{PiMaKrVaBh07,
author = {Piyushkumar Mundra and Madhan Kumar and K. Krishna Kumar and Valadi K. Jayaraman and Bhaskar D. Kulkarni},
title = {Using {P}seudo {A}mino {A}cid {C}omposition to {P}redict {P}rotein {S}ub nuclear {L}ocalization: {A}pproached with {PSSM}},
journal = {Pattern Recognition Letters},
volume = {28},
number = {4},
pages = {1610--1615},
year = 2007
}