John F. Atkins

According to our database, John F. Atkins authored at least 9 papers between 2000 and 2013.

Collaborative distances:

• Dijkstra number of six.
• Erdős number of five.

2013

rRNA: mRNA pairing alters the length and the symmetry of mRNA-protected fragments in ribosome profiling experiments.

Patrick B. F. O'Connor, Gene-Wei Li, Jonathan S. Weissman, John F. Atkins, Pavel V. Baranov

Bioinform., 2013

2010

Recode-2: new design, new search tools, and many more genes.

Michaël Bekaert, Andrew E. Firth, Yan Zhang, Vadim N. Gladyshev, John F. Atkins, Pavel V. Baranov

Nucleic Acids Res., 2010

2008

Ornithine decarboxylase antizyme finder (OAF): Fast and reliable detection of antizymes with frameshifts in mRNAs.

Michaël Bekaert, Ivaylo P. Ivanov, John F. Atkins, Pavel V. Baranov

BMC Bioinform., 2008

2006

ARFA: a program for annotating bacterial release factor genes, including prediction of programmed ribosomal frameshifting.

Michaël Bekaert, John F. Atkins, Pavel V. Baranov

Bioinform., 2006

2004

Identification of regions in multiple sequence alignments thermodynamically suitable for targeting by consensus oligonucleotides: application to HIV genome.

Olga V. Matveeva, Brian T. Foley, Vladimir A. Nemtsov, Raymond F. Gesteland, Senya Matsufuji, John F. Atkins, Aleksey Y. Ogurtsov, Svetlana A. Shabalina

BMC Bioinform., 2004

2003

RECODE 2003.

Pavel V. Baranov, Olga L. Gurvich, Andrew W. Hammer, Raymond F. Gesteland, John F. Atkins

Nucleic Acids Res., 2003

2002

Computational identification of putative programmed translational frameshift sites.

Atul A. Shah, Michael C. Giddings, Jasmin B. Parvaz, Raymond F. Gesteland, John F. Atkins, Ivaylo P. Ivanov

Bioinform., 2002

2001

RECODE: a database of frameshifting, bypassing and codon redefinition utilized for gene expression.

Pavel V. Baranov, Olga L. Gurvich, Olivier Fayet, Marie Françoise Prère, W. Allen Miller, Raymond F. Gesteland, John F. Atkins, Michael C. Giddings

Nucleic Acids Res., 2001

2000

ODNBase-a web database for antisense oligonucleotide effectiveness studies.

Michael C. Giddings, Olga V. Matveeva, John F. Atkins, Raymond F. Gesteland

Bioinform., 2000