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

по Benham Craig J, Wang Huiquan
Опубликовано 2006-05-01

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

по Ak, Prashanth, Benham, Craig J
Опубликовано 2005

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

по Wang, Huiquan, Benham, Craig J
Опубликовано 2006

Superhelical Destabilization in Regulatory Regions of Stress Response Genes

по Wang, Huiquan, Benham, Craig J
Опубликовано 2008

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

по Zhabinskaya, Dina, Benham, Craig J.
Опубликовано 2011

Theoretical Analysis of Competing Conformational Transitions in Superhelical DNA

по Zhabinskaya, Dina, Benham, Craig J.
Опубликовано 2012

Competitive superhelical transitions involving cruciform extrusion

по Zhabinskaya, Dina, Benham, Craig J.
Опубликовано 2013

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

по Chedin, Frederic, Benham, Craig J.
Опубликовано в: J Biol Chem (2020)

Denaturation: An Example of a Catastrophe

по Kozak, John J., Benham, Craig J.
Опубликовано 1974

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

по Wang, Huiquan, Noordewier, Michiel, Benham, Craig J.
Опубликовано 2004

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

по Wang, Huiquan, Kaloper, Miroslava, Benham, Craig J.
Опубликовано 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

по Leblanc, Benoit P., Benham, Craig J., Clark, David J.
Опубликовано 2000

The distribution of inverted repeat sequences in the Saccharomyces cerevisiae genome

по Strawbridge, Eva M., Benson, Gary, Gelfand, Yevgeniy, Benham, Craig J.
Опубликовано 2010

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

по Zheng, Ying, Dubois, Wendy, Benham, Craig, Batchelor, Eric, Levens, David
Опубликовано в: Commun Biol (2020)

Superhelical Duplex Destabilization and the Recombination Position Effect

по Sershen, Cheryl L., Mell, Joshua C., Madden, Sally M., Benham, Craig J.
Опубликовано 2011

Mathematics of DNA structure, function and interactions

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

OriDB: a DNA replication origin database

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

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

по Stolz, Robert, Sulthana, Shaheen, Hartono, Stella R., Malig, Maika, Benham, Craig J., Chedin, Frederic
Опубликовано в: 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

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

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

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