Epernicus: Hamed Shateri Najafabadi, M.Sc.

Hamed Shateri Najafabadi, M.Sc.

Position:
Graduate Student - Ph.D.

Institute of Parasitology

McGill Centre for Bioinformatics

McGill University (Montreal, Canada)
Advisor:
Reza Salavati
Degrees:

M.Sc., Biotechnology, University of Tehran (Tehran, Iran)
Past Advisors:
Research:

Communities:

Hamed Shateri Najafabadi's Genealogy

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Hamed Shateri Najafabadi's Publications (20)

Sequence-based functional annotation: what if most of the genes are unique to a genome?
Salavati R, Najafabadi HS

Trends in parasitology. 2010 May;26(5):225-9
Functional genome annotation by combined analysis across microarray studies of Trypanosoma brucei.
Shateri Najafabadi H, Salavati R

PLoS neglected tropical diseases. 2010;4(8)
Universal function-specificity of codon usage.
Najafabadi HS, Goodarzi H, Salavati R

Nucleic acids research. 2009 Nov;37(21):7014-23
Searching for virulence factors in the non-pathogenic parasite to humans Leishmania tarentolae.
Azizi H, Hassani K, Taslimi Y, Najafabadi HS, Papadopoulou B, Rafati S

Parasitology. 2009 Jun;136(7):723-35
Genome-wide computational identification of functional RNA elements in Trypanosoma brucei.
Mao Y, Najafabadi HS, Salavati R

BMC genomics. 2009;10:355
MAD-DPD: designing highly degenerate primers with maximum amplification specificity.
Najafabadi HS, Saberi A, Torabi N, Chamankhah M

BioTechniques. 2008 Apr;44(4):519-20, 522, 524-6
Amino acid and codon usage profiles: adaptive changes in the frequency of amino acids and codons.
Goodarzi H, Torabi N, Najafabadi HS, Archetti M

Gene. 2008 Jan 15;407(1-2):30-41
Designing multiple degenerate primers via consecutive pairwise alignments.
Najafabadi HS, Torabi N, Chamankhah M

BMC bioinformatics. 2008;9:55
Sequence-based prediction of protein-protein interactions by means of codon usage.
Najafabadi HS, Salavati R

Genome biology. 2008;9(5):R87
Solvent accessibility, residue charge and residue volume, the three ingredients of a robust amino acid substitution matrix.
Goodarzi H, Katanforoush A, Torabi N, Najafabadi HS

Journal of theoretical biology. 2007 Apr 21;245(4):715-25
The case for an error minimizing set of coding amino acids.
Torabi N, Goodarzi H, Shateri Najafabadi H

Journal of theoretical biology. 2007 Feb 21;244(4):737-44
Error minimization explains the codon usage of highly expressed genes in Escherichia coli.
Najafabadi HS, Lehmann J, Omidi M

Gene. 2007 Jan 31;387(1-2):150-5
Applying a neural network to predict the thermodynamic parameters for an expanded nearest-neighbor model.
Najafabadi HS, Goodarzi H, Torabi N, Banihosseini SS

Journal of theoretical biology. 2006 Feb 7;238(3):657-65
On the coevolution of genes and genetic code.
Goodarzi H, Shateri Najafabadi H, Torabi N

Gene. 2005 Dec 5;362:133-40
Optimality of codon usage in Escherichia coli due to load minimization.
Najafabadi HS, Goodarzi H, Torabi N

Journal of theoretical biology. 2005 Nov 21;237(2):203-9
The impact of including tRNA content on the optimality of the genetic code.
Goodarzi H, Najafabadi HS, Nejad HA, Torabi N

Bulletin of mathematical biology. 2005 Nov;67(6):1355-68
Designing a neural network for the constraint optimization of the fitness functions devised based on the load minimization of the genetic code.
Goodarzi H, Najafabadi HS, Torabi N

Bio Systems. 2005 Aug;81(2):91-100
On the optimality of the genetic code, with the consideration of coevolution theory by comparison of prominent cost measure matrices.
Goodarzi H, Najafabadi HS, Hassani K, Nejad HA, Torabi N

Journal of theoretical biology. 2005 Aug 7;235(3):318-25
Correspondence regarding Bharanidharan et al., "Correlations between nucleotide frequencies and amino acid composition in 115 bacterial species".
Najafabadi HS, Goodarzi H

Biochemical and biophysical research communications. 2004 Dec 3;325(1):1-2
How reliable re-adjustment is: correspondence regarding A. Fuglsang, "The 'effective number of codons' revisited".
Marashi SA, Najafabadi HS

Biochemical and biophysical research communications. 2004 Nov 5;324(1):1-2

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Hamed Shateri Najafabadi, M.Sc.

Graduate Student - Ph.D.

Hamed Shateri Najafabadi's Genealogy

Hamed Shateri Najafabadi's Publications (20)

Websites