title: Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools.
abstract: The non-B DB, available at http://nonb.abcc.ncifcrf.gov, catalogs predicted non-B DNA-forming sequence motifs, including Z-DNA, G-quadruplex, A-phased repeats, inverted repeats, mirror repeats, direct repeats and their corresponding subsets: cruciforms, triplexes and slipped structures, in several genomes. Version 2.0 of the database revises and re-implements the motif discovery algorithms to better align with accepted definitions and thresholds for motifs, expands the non-B DNA-forming motifs coverage by including short tandem repeats and adds key visualization tools to compare motif locations relative to other genomic annotations. Non-B DB v2.0 extends the ability for comparative genomics by including re-annotation of the five organisms reported in non-B DB v1.0, human, chimpanzee, dog, macaque and mouse, and adds seven additional organisms: orangutan, rat, cow, pig, horse, platypus and Arabidopsis thaliana. Additionally, the non-B DB v2.0 provides an overall improved graphical user interface and faster query performance.
authors.affiliation: Advanced Biomedical Computing Center, Information Systems Program, SAIC-Frederick, Inc., Frederick, MD 21702, USA.
authors.forename: Regina Z
authors.initials: RZ
authors.lastname: Cer
authors.forename: Duncan E
authors.initials: DE
authors.lastname: Donohue
authors.forename: Uma S
authors.initials: US
authors.lastname: Mudunuri
authors.forename: Nuri A
authors.initials: NA
authors.lastname: Temiz
authors.forename: Michael A
authors.initials: MA
authors.lastname: Loss
authors.forename: Nathan J
authors.initials: NJ
authors.lastname: Starner
authors.forename: Goran N
authors.initials: GN
authors.lastname: Halusa
authors.forename: Natalia
authors.initials: N
authors.lastname: Volfovsky
authors.forename: Ming
authors.initials: M
authors.lastname: Yi
authors.forename: Brian T
authors.initials: BT
authors.lastname: Luke
authors.forename: Albino
authors.initials: A
authors.lastname: Bacolla
authors.forename: Jack R
authors.initials: JR
authors.lastname: Collins
authors.forename: Robert M
authors.initials: RM
authors.lastname: Stephens
mesh_terms: D000818:Animals; D003196:Computer Graphics; D004247:DNA / Q000737:chemistry*; D030561:Databases, Nucleic Acid; D004285:Dogs; D006801:Humans; D020407:Internet; D051379:Mice; D058977:Molecular Sequence Annotation; D059372:Nucleotide Motifs; D051381:Rats; D012091:Repetitive Sequences, Nucleic Acid; D012984:Software; D014584:User-Computer Interface
chemical_list: D004247:DNA