Craig J. Benham

According to our database1, Craig J. Benham authored at least 23 papers between 1995 and 2015.

Collaborative distances:



In proceedings 
PhD thesis 




SIST: stress-induced structural transitions in superhelical DNA.
Bioinform., 2015

Theoretical Analysis of Competing Conformational Transitions in Superhelical DNA.
PLoS Comput. Biol., 2012

Theoretical Analysis of the Stress Induced B-Z Transition in Superhelical DNA.
PLoS Comput. Biol., 2011

Superhelical Destabilization in Regulatory Regions of Stress Response Genes.
PLoS Comput. Biol., 2008

OriDB: a DNA replication origin database.
Nucleic Acids Res., 2007

SIDDBASE: a database containing the stress-induced DNA duplex destabilization (SIDD) profiles of complete microbial genomes.
Nucleic Acids Res., 2006

Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress.
BMC Bioinform., 2006

Susceptibility to Superhelically Driven DNA Duplex Destabilization: A Highly Conserved Property of Yeast Replication Origins.
PLoS Comput. Biol., 2005

Annotation of Promoter Regions in Microbial Genomes Based on DNA Structural and Sequence Properties.
Proceedings of the Systems Biology and Regulatory Genomics, 2005

The Analysis of Stress-Induced Duplex Destabilization in Long Genomic DNA Sequences.
J. Comput. Biol., 2004

Superhelically Destabilized Sites in the E. coli Genome: Implications for Promoter Prediction in Prokaryotes.
Proceedings of the German Conference on Bioinformatics (GCB 2004), Bielefeld, 2004

The Approximate Algorithm for Analysis of the Strand Separation Transition in Super helical DNA Using Nearest Neighbor Energetics.
Proceedings of the 2nd IEEE Computer Society Bioinformatics Conference, 2003

Stress-Induced DNA Duplex Destabilization in Transcriptional Initiation.
Proceedings of the 6th Pacific Symposium on Biocomputing, 2001

In Silico Biology: The emergence of a new biological methodology.
Proceedings of the 5th Hellenic-European Conference on Computer Mathematics and its Applications (HERCMA-01), 2001

Analysis of biomathematically predicted Scaffold / Matrix Attached Regions (S/MARs) by three different approaches.
Proceedings of the Computer science and biology: Proceedings of the German Conference on Bioinformatics, 2001

Biomathematical and in vitro analysis of destabilized regions in the interferon gene cluster.
Proceedings of the Computer science and biology: Proceedings of the German Conference on Bioinformatics, 2001

A formally exact method to numerically analyze local denaturation in superhelical DNA.
Proceedings of the Second Annual International Conference on Research in Computational Molecular Biology, 1998

The topologically driven strand separation transition in DNA - methods of analysis and biological significance.
Proceedings of the Mathematical Support for Molecular Biology, 1998

DNA Strand Separation Prediction: A Parallel Implementation.
Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, 1997

Computation of DNA structural variability - a new predictor of DNA regulatory regions.
Comput. Appl. Biosci., 1996

Sites of Superhelical DNA Duplex Destabilization occour at Specific Regulatory Regions.
Proceedings of the German Conference on Bioinformatics, 1996

Hen's Teeth and Whale's Feet: Generalized Characters and Their Compatibility.
J. Comput. Biol., 1995

Of Chicken Teeth and Mouse Eyes, or Generalized Character Compatibility.
Proceedings of the Combinatorial Pattern Matching, 6th Annual Symposium, 1995