Naveen Kumar

Introduction

I am working as Research Associate(Systems Development) in the MetaSystems Research Team(Computational Systems Biology Research Group) at RIKEN Advanced Science Institute ,Yokohama(Japan).

I completed my Bachelor of Science[ Information Technology ] and Master of Computer Applications from Punjab Technical University,Jalandhar(India) and Advance Diploma in Bioinformatics from DOEACC Center, Chandigarh(India). My role within the team is to design and develop application software and administrate web server and database server.

Contact Information

RIKEN Advanced Science Institute
W122, 1-7-22 Suehiro-cho, Tsurumi-ku
Yokohama, Kanagawa 230-0045 Japan
Tel: +81 (0)45 503-9277
Fax: +81 (0)45 503-9176
E-mail: naveen at gsc dot riken dot jp

Bioinformatics Software and Databases

• ConjoinG : Database of Conjoined Genes [1]

• MetaBioME : Comprehensive Metagenomic Biomining Engine [2]

• Malarial Adhesins and Adhesin-like proteins Predictor [3]

• Automated Resource Classifier [4]

• Expression Linked Polymorphism Database [5]

RIKEN Publications

• "Fast and accurate taxonomic assignments of metagenomic sequences using MetaBin." Sharma VK, Kumar N, Prakash T, Taylor TD. PLoS ONE 7(3):e34030. (April 4, 2012) PMID 22496776

• "Complete genome sequences of rat and mouse segmented filamentous bacteria, a potent inducer of Th17 cell differentiation." Prakash T, Oshima K, Morita H, Fukuda S, Imaoka A, Kumar N, Sharma VK, Takahashi M, Saitou N, Taylor TD, Ohno H, Umesaki Y, Hattori M. Cell Host & Microbe 10(3):273-284. (September 15, 2011) PMID 21925114

• "Expression of conjoined genes: another mechanism for gene regulation in eukaryotes." Prakash T, Sharma VK, Adati N, Ozawa R, Kumar N, Nishida Y, Fujikake T, Takeda T, Taylor TD. PLoS ONE 5(10):1-9 e13284. (October 12, 2010) PMID 20967262

• "MetaBioME: a database to explore commercially useful enzymes in metagenomic datasets." Sharma VK, Kumar N, Prakash T, Taylor TD. Nucleic Acids Research 38(Database):D468-D472. (November 11, 2009) PMID 19906710

Pre-RIKEN Publications

• "Genetic landscape of the people of India: a canvas for disease gene exploration." Indian Genome Variation Consortium. Journal of genetics 87(1):3-20. (April, 2008) PMID 18560169

• "MAAP: Malarial adhesins and adhesin-like proteins predictor." Ansari FA, Kumar N, Bala Subramanyam M, Gnanamani M, Ramachandran S.. Proteins 70(3):659-666. (Feb, 2008) PMID 17879344

• "Abundance of Dinucleotide Repeats and Gene Expression are Inversely Correlated: a role for gene function in addition to intron length." Sharma VK, Kumar N, Brahmachari SK, Ramachandran S. Physiological Genomics 31(1):96-103. (September, 2007) PMID 17550993

• "ARC: automated resource classifier for agglomerative functional classification of prokaryotic proteins using annotation texts." Gnanamani M, Kumar N, Ramachandran S.. Journal of Biosciences 32(5):937-945. (August, 2007) PMID 17914236

• "Expoldb: EXpression linked POLymorphism DataBase with inbuilt tools for analysis of expression and simple repeats." Sharma VK, Sharma A, Kumar N, Khandelwal M, Mandapati KK, Horn-Saban S, Strichman-Almashanu L, Lancet D, Brahmachari SK, Ramachandran S. BMC Genomics 7():258-265. (October, 2006) PMID 17038195