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

Por Benham Craig J, Wang Huiquan
Publicado em 2006-05-01

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

Por Ak, Prashanth, Benham, Craig J
Publicado em 2005

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

Por Wang, Huiquan, Benham, Craig J
Publicado em 2006

Superhelical Destabilization in Regulatory Regions of Stress Response Genes

Por Wang, Huiquan, Benham, Craig J
Publicado em 2008

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

Por Zhabinskaya, Dina, Benham, Craig J.
Publicado em 2011

Theoretical Analysis of Competing Conformational Transitions in Superhelical DNA

Por Zhabinskaya, Dina, Benham, Craig J.
Publicado em 2012

Competitive superhelical transitions involving cruciform extrusion

Por Zhabinskaya, Dina, Benham, Craig J.
Publicado em 2013

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

Por Chedin, Frederic, Benham, Craig J.
Publicado no J Biol Chem (2020)

Denaturation: An Example of a Catastrophe

Por Kozak, John J., Benham, Craig J.
Publicado em 1974

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

Por Wang, Huiquan, Noordewier, Michiel, Benham, Craig J.
Publicado em 2004

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

Por Wang, Huiquan, Kaloper, Miroslava, Benham, Craig J.
Publicado em 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

Por Leblanc, Benoit P., Benham, Craig J., Clark, David J.
Publicado em 2000

The distribution of inverted repeat sequences in the Saccharomyces cerevisiae genome

Por Strawbridge, Eva M., Benson, Gary, Gelfand, Yevgeniy, Benham, Craig J.
Publicado em 2010

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

Por Zheng, Ying, Dubois, Wendy, Benham, Craig, Batchelor, Eric, Levens, David
Publicado no Commun Biol (2020)

Superhelical Duplex Destabilization and the Recombination Position Effect

Por Sershen, Cheryl L., Mell, Joshua C., Madden, Sally M., Benham, Craig J.
Publicado em 2011

Mathematics of DNA structure, function and interactions

Por Benham, Craig John., Harvey, Stephen., Olson, Wilma K., Sumners, De Witt., Swigon, David.
Publicado em 2009

OriDB: a DNA replication origin database

Por Nieduszynski, Conrad A., Hiraga, Shin-ichiro, Ak, Prashanth, Benham, Craig J., Donaldson, Anne D.
Publicado em 2007

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

Por Stolz, Robert, Sulthana, Shaheen, Hartono, Stella R., Malig, Maika, Benham, Craig J., Chedin, Frederic
Publicado no 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

Por Du, Xiangjun, Wojtowicz, Damian, Bowers, Albert A., Levens, David, Benham, Craig J., Przytycka, Teresa M.
Publicado em 2013

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

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