Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress

Autor Benham Craig J, Wang Huiquan
Vydáno 2006-05-01

Susceptibility to Superhelically Driven DNA Duplex Destabilization: A Highly Conserved Property of Yeast Replication Origins

Autor Ak, Prashanth, Benham, Craig J
Vydáno 2005

Promoter prediction and annotation of microbial genomes based on DNA sequence and structural responses to superhelical stress

Autor Wang, Huiquan, Benham, Craig J
Vydáno 2006

Superhelical Destabilization in Regulatory Regions of Stress Response Genes

Autor Wang, Huiquan, Benham, Craig J
Vydáno 2008

Theoretical Analysis of the Stress Induced B-Z Transition in Superhelical DNA

Autor Zhabinskaya, Dina, Benham, Craig J.
Vydáno 2011

Theoretical Analysis of Competing Conformational Transitions in Superhelical DNA

Autor Zhabinskaya, Dina, Benham, Craig J.
Vydáno 2012

Competitive superhelical transitions involving cruciform extrusion

Autor Zhabinskaya, Dina, Benham, Craig J.
Vydáno 2013

Emerging roles for R-loop structures in the management of topological stress

Autor Chedin, Frederic, Benham, Craig J.
Vydáno v J Biol Chem (2020)

Denaturation: An Example of a Catastrophe

Autor Kozak, John J., Benham, Craig J.
Vydáno 1974

Stress-Induced DNA Duplex Destabilization (SIDD) in the E. coli Genome: SIDD Sites Are Closely Associated With Promoters

Autor Wang, Huiquan, Noordewier, Michiel, Benham, Craig J.
Vydáno 2004

SIDDBASE: a database containing the stress-induced DNA duplex destabilization (SIDD) profiles of complete microbial genomes

Autor Wang, Huiquan, Kaloper, Miroslava, Benham, Craig J.
Vydáno 2006

An initiation element in the yeast CUP1 promoter is recognized by RNA polymerase II in the absence of TATA box-binding protein if the DNA is negatively supercoiled

Autor Leblanc, Benoit P., Benham, Craig J., Clark, David J.
Vydáno 2000

The distribution of inverted repeat sequences in the Saccharomyces cerevisiae genome

Autor Strawbridge, Eva M., Benson, Gary, Gelfand, Yevgeniy, Benham, Craig J.
Vydáno 2010

FUBP1 and FUBP2 enforce distinct epigenetic setpoints for MYC expression in primary single murine cells

Autor Zheng, Ying, Dubois, Wendy, Benham, Craig, Batchelor, Eric, Levens, David
Vydáno v Commun Biol (2020)

Superhelical Duplex Destabilization and the Recombination Position Effect

Autor Sershen, Cheryl L., Mell, Joshua C., Madden, Sally M., Benham, Craig J.
Vydáno 2011

Mathematics of DNA structure, function and interactions

Autor Benham, Craig John., Harvey, Stephen., Olson, Wilma K., Sumners, De Witt., Swigon, David.
Vydáno 2009

OriDB: a DNA replication origin database

Autor Nieduszynski, Conrad A., Hiraga, Shin-ichiro, Ak, Prashanth, Benham, Craig J., Donaldson, Anne D.
Vydáno 2007

Interplay between DNA sequence and negative superhelicity drives R-loop structures

Autor Stolz, Robert, Sulthana, Shaheen, Hartono, Stella R., Malig, Maika, Benham, Craig J., Chedin, Frederic
Vydáno v Proc Natl Acad Sci U S A (2019)

The genome-wide distribution of non-B DNA motifs is shaped by operon structure and suggests the transcriptional importance of non-B DNA structures in Escherichia coli

Autor Du, Xiangjun, Wojtowicz, Damian, Bowers, Albert A., Levens, David, Benham, Craig J., Przytycka, Teresa M.
Vydáno 2013

Loss of FBP function arrests cellular proliferation and extinguishes c-myc expression

Autor He, Liusheng, Liu, Juhong, Collins, Irene, Sanford, Suzanne, O'Connell, Brian, Benham, Craig J., Levens, David
Vydáno 2000